MS_CRF_OBSOLETE
CRF (charge-remote fragmentation): A fragmentation of an even-electron ion in which the cleaved bond ...
MS_Laser_Desorption_OBSOLETE
Laser Desorption: The formation of ions through the interaction of a laser with a material or with ga...
MS_spectra_combination
spectra combination: Method used to combine the mass spectra.
MS_ICAT_reagent
ICAT reagent: Isotope coded affinity tag reagent.
UNIMOD_dHex_4_Hex_1_HexNAc_1_Kdn_2_
dHex(4)Hex(1)HexNAc(1)Kdn(2): DHex(4) Hex HexNAc Kdn(2).
MS_top_hat_baseline_reduction
top hat baseline reduction: Top-hat morphological filter based on the basic morphological operations ...
MS_frag__precursor_ion
frag: precursor ion: Fragmentation information, type of product: precursor ion.
UNIMOD_AccQTag
AccQTag: 6-aminoquinolyl-N-hydroxysuccinimidyl carbamate.
MS_LTQ_Orbitrap_Classic
LTQ Orbitrap Classic: Thermo Fisher Scientific LTQ Orbitrap Classic.
UNIMOD_dHex_1_Hex_1_HexA_1_HexNAc_3_
dHex(1)Hex(1)HexA(1)HexNAc(3): DHex Hex HexA HexNAc(3).
UNIMOD_iTRAQ8plex
iTRAQ8plex: Representative mass and accurate mass for 113, 114, 116 & 117.
MS_Bruker_U2_format
Bruker U2 format: Bruker HyStar U2 file format.
UNIMOD_Cys__methylaminoAla
Cys->methylaminoAla: Carbamidomethylated Cys that undergoes beta-elimination and Michael addition of ...
MS_PeptideShaker
PeptideShaker: PeptideShaker is a software for the interpretation of proteomics identification result...
UNIMOD_dHex_1_Hex_2_HexNAc_3_NeuAc_1_
dHex(1)Hex(2)HexNAc(3)NeuAc(1): DHex Hex(2) HexNAc(3) NeuAc.
MS_ACQUITY_UPLC_H_Class_Bio
ACQUITY UPLC H-Class Bio: Waters LC-system ACQUITY UPLC H-Class Bio.
MS_Waters_software
Waters software: Waters software for data acquisition and analysis.
UNIMOD_Cys__Asn
Cys->Asn: Cys->Asn substitution.
UO_degree
degree: A plane angle unit which is equal to 1/360 of a full rotation or 1.7453310^[-2] rad.
UNIMOD_MesitylOxide
MesitylOxide: Acetone chemical artifact.
UNIMOD_dHex_1_Hex_4_HexNAc_4_NeuAc_1_Sulf_1_
dHex(1)Hex(4)HexNAc(4)NeuAc(1)Sulf(1): DHex Hex(4) HexNAc(4) NeuAc Sulf.
MS_UniProtKB_text_sequence_format
UniProtKB text sequence format: Text-based format used by UniProtKB for sequence entries.
MS_pymzML
pymzML: Python module to interface mzML Data.
MS_product_ion_m_z
product ion m/z: The m/z of the product ion.
UNIMOD_Fluorescein_tyramine
Fluorescein-tyramine: Fluorescein-tyramine adduct by peroxidase activity.
UNIMOD_dHex_1_Hex_3_HexNAc_2_Sulf_1_
dHex(1)Hex(3)HexNAc(2)Sulf(1): DHex Hex(3) HexNAc(2) Sulf.
MS_hr_ms_compound_identification_confidence_level
hr-ms compound identification confidence level: Refined High Resolution mass spectrometry confidence ...
MS_Progenesis_peptide_count
Progenesis:peptide count: The data type peptide count produced by Progenesis LC-MS.
UNIMOD_Hex_1_HexA_1_HexNAc_2_
Hex(1)HexA(1)HexNAc(2): Hex HexA HexNAc(2).
MS_even_electron_ion_OBSOLETE
even-electron ion: An ion containing no unpaired electrons in its ground electronic state,...
MS_GenoTools
GenoTools: Bruker GenoTools software.
MS_target_MRM_transition
target MRM transition (target SRM transition): A transition used to target a specific compound that m...
UNIMOD_Thr__Ser
Thr->Ser: Thr->Ser substitution.
MS_ProteoWizard_msaccess
ProteoWizard msaccess: Filters, processes, and displays mass spectrometry data in a variety of ways.
UNIMOD_Pro__Ala
Pro->Ala: Pro->Ala substitution.
UNIMOD_Tyr__Ser
Tyr->Ser: Tyr->Ser substitution.
MS_quantification_file_format
quantification file format: File format containing quantification results.
MS_principal_ion_OBSOLETE
principal ion: Most abundant ion of an isotope cluster, such as the 11B79Br2 81Br+ ion of m/z 250 of ...
MS_ProteomeDiscoverer_Protein_Database_OBSOLETE
ProteomeDiscoverer:Protein Database: Database to use in the search (configured on the Mascot server).
UNIMOD_Hex_6_HexNAc_2_
Hex(6)HexNAc(2): Hex(6) HexNAc(2).
MS______D_______D__
((?<=D))|((?=D)): Regular expression for formic acid.
UO_volt
volt: An electric potential difference unit which is equal to the work per unit charge....
UNIMOD_dHex_3_Hex_3_HexNAc_4_Pent_1_
dHex(3)Hex(3)HexNAc(4)Pent(1): DHex(3) Hex(3) HexNAc(4) Pent.
MS_retention_time_window_attribute
retention time window attribute: An attribute of a window in time about which a peptide might elute f...
MS_impact
impact: Bruker Daltonics' impact: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
UNIMOD_Hex_2_Pent_2_
Hex(2)Pent(2): Hex(2) Pent(2).
UNIMOD_biotinAcrolein298
biotinAcrolein298: Biotin hydrazide labeled acrolein addition +298.
MS_2_iodobenzoate
2-iodobenzoate: Chemical iodobenzoate. Cleaves after W.
UO_siemens
siemens: An electrical conduction unit which is equal to A/V.
MS_selected_reaction_monitoring
selected reaction monitoring: Data acquired from specific product ions corresponding to m/z selected ...
UNIMOD_Val__Xle
Val->Xle: Val->Leu/Ile substitution.
MS_SQID_deltaScore
SQID:deltaScore: The SQID result 'deltaScore'.
MS_pulse_duration
pulse duration: Describes how long the laser beam was emitted from the laser device.
MS_TopMG_fixed_modification
TopMG:fixed modification: Fixed modifications for TopMG searching.
MS_impact_HD
impact HD: Bruker Daltonics' impact HD.
MS_database_UniProtKB
database UniProtKB: The name of the UniProtKB knowledgebase.
MS_mzidLib_CombineSearchEngines
mzidLib:CombineSearchEngines: A tool for combining results analysed in parallel in two or three searc...
UNIMOD_EDT_iodoacetyl_PEO_biotin
EDT-iodoacetyl-PEO-biotin: EDT-iodo-PEO-biotin.
MS_full_spectrum
full spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stag...
UNIMOD_Unknown_210
Unknown:210: Unidentified modification of 210.1616 found in open search.
UNIMOD_FormylMet
FormylMet: Addition of N-formyl met.
MS_fragmentation_ion_type
fragmentation ion type: Type of fragment ion based on where the backbone breaks, such as a y ion or a...
MS_X_Tandem_hyperscore
X!Tandem:hyperscore: The X!Tandem hyperscore.
PEFF_NumberOfEntries
NumberOfEntries: Number of sequence entries in the database.
UNIMOD_Hex_5_HexA_1_
Hex(5)HexA(1): Hex(5) HexA.
UNIMOD_Pent_1_HexNAc_1_
Pent(1)HexNAc(1): Pent HexNAc.
UNIMOD_Biotin_Thermo_21360
Biotin:Thermo-21360: Was Biotin-PEO4-hydrazide.
MS_GC_IsoLink
GC IsoLink: Thermo Scientific GC IsoLink Isotope Ratio MS.
MS_blackbody_infrared_radiative_dissociation
blackbody infrared radiative dissociation: A special case of infrared multiphoton dissociation wherei...
MS_AAIndex_mass_table
AAIndex mass table: The masses used in the mass table are taken from AAIndex.
MS_Conversion_to_mzXML
Conversion to mzXML: Conversion of a file format to Institute of Systems Biology mzXML file format.
UNIMOD_O_Methylphosphate
O-Methylphosphate: O-Methylphosphorylation.
UNIMOD_Met__Hse
Met->Hse: Homoserine.
MS_superelastic_collision_OBSOLETE
superelastic collision: Collision in which the translational energy of the fast-moving collision part...
MS_unified_atomic_mass_unit_OBSOLETE
unified atomic mass unit: A non-SI unit of mass (u) defined as one twelfth of ^12 C in its ground sta...
MS_____M_
(?<=M): Regular expression for CNBr.
MS_ProteinExtractor_PhenyxWeighting
ProteinExtractor:PhenyxWeighting: Influence of Phenyx search engine in the process of merging the sea...
MS_reflectron_state
reflectron state: Status of the reflectron, turned on or off.
MS_protein_ambiguity_group_result_details
protein ambiguity group result details:
MS_Digital_Object_Identifier__DOI_
Digital Object Identifier (DOI): DOI unique identifier of a publication.
UNIMOD_Biotin_Thermo_21325
Biotin:Thermo-21325: Was ChromoBiotin.
MS_tab_delimited_text_format
tab delimited text format: A file format that has two or more columns of tabular data where each colu...
MS_Mascot_IntegratedSpectralLibrarySearch
Mascot:IntegratedSpectralLibrarySearch: Means that Mascot has integrated the search results of databa...
MS_parent_mass_type_average
parent mass type average: Mass type setting for parent mass was average isotopic.
UO_micromolar
micromolar: A unit of molarity which is equal to one millionth of a molar or 10^[-6] M.
MS_impact_angle
impact angle: Describes the angle between the laser beam and the sample target.
UO_milliliter_per_kilogram
milliliter per kilogram: A specific volume unit which is equal to a thousandth of a liter per kilogra...
MS_assay_label_attribute
assay label attribute: Attribute describing an assay label.
UNIMOD_Cys__Val
Cys->Val: Cys->Val substitution.
MS_frag__iTRAQ_4plex_reporter_ion
frag: iTRAQ 4plex reporter ion: Standard reporter ion for iTRAQ 4Plex. The value slot holds the integ...
MS_fast_evaporation_MALDI_sample_preparation
fast evaporation MALDI sample preparation: Fast-evaporation MALDI sample preparation method.
UNIMOD_MM_diphenylpentanone
MM-diphenylpentanone: 3-methyl-5-(methylamino)-1,3-diphenylpentan-1-one.
MS_pressure_array
pressure array: A data array of pressure measurements.
MS_signal_to_noise_array
signal to noise array: A data array of signal-to-noise values.
UO_picomolal
picomolal: A molality unit which is equal to 10^[-12] m.
MS_low_intensity_data_point_removal
low intensity data point removal: The removal of very low intensity data points that are likely to be...
MS_mass_spectrometer_OBSOLETE
mass spectrometer: An instrument that measures the mass-to-charge ratio and relative abundances of io...
std::string fullName
the usual name for the resource (e.g. The PSI-MS Controlled Vocabulary).
MS_CLINPROT_robot
CLINPROT robot: Bruker CLINPROT robot software.
MS_ultraflex_III_TOF_TOF
ultraflex III TOF/TOF: Bruker Daltonics' ultraflex III TOF/TOF: MALDI TOF.
MS_ProteomeDiscoverer_SRF_File_Selector_SRF_File_Path_OBSOLETE
ProteomeDiscoverer:SRF File Selector:SRF File Path: Path and name of the .srf (SEQUEST Result Format)...
UO_cable
cable: A maritime length unit which is equal to 608 feet, 100 fathoms, or 185.3184 metres
MS_LCQ_Deca
LCQ Deca: ThermoFinnigan LCQ Deca.
MS_search_statistics
search statistics: The details of the actual run of the search.
MS_TSQ_Quantum_Access
TSQ Quantum Access: Thermo Scientific TSQ Quantum Access MS.
UNIMOD_VFQQQTGG
VFQQQTGG: SUMOylation by SUMO-2/3 (formic acid cleavage).
MS_DB_composition_only_decoy
DB composition only decoy: Decoy database composition: database contains only decoy entries.
MS_Phenyx_AC_Score
Phenyx:AC Score: The minimal protein score required for a protein database entry to be displayed in t...
MS_peptide_descriptions
peptide descriptions: Descriptions of peptides.
UNIMOD_Hex_5_HexNAc_4_NeuAc_1_Sulf_1_
Hex(5)HexNAc(4)NeuAc(1)Sulf(1): Hex(5) HexNAc(4) NeuAc Sulf.
UO_nano
nano: A prefix in the metric system denoting a factor of 10 to the power of -9.
MS_Micromass_PKL_format
Micromass PKL format: Micromass PKL file format.
UO_kilogram_per_hectare
kilogram per hectare: An area density unit which is equal to the mass of an object in kilograms divid...
MS_adduct_ion_formula
adduct ion formula: Adduct formation formula specified by the given value.
UNIMOD_Glu__Met
Glu->Met: Glu->Met substitution.
UNIMOD_dHex_1_Hex_4_HexNAc_3_
dHex(1)Hex(4)HexNAc(3): DHex Hex(4) HexNAc(3).
UO_formazin_nephelometric_unit
formazin nephelometric unit: 1000 formazin turbidity units (FNU) on the empirical formazin turbidity ...
MS_database_IPI_human
database IPI_human: International Protein Index database for Homo sapiens sequences.
MS_multiple_enzyme_combination_rules_OBSOLETE
multiple enzyme combination rules: OBSOLETE: use attribute independent in mzIdentML instead....
MS_Progenesis_peptide_raw_abundance
Progenesis:peptide raw abundance: The data type raw abundance for peptide produced by Progenesis LC-M...
UNIMOD_Methyl
Methyl: Methylation.
UNIMOD_His__Lys
His->Lys: His->Lys substitution.
MS_ICPL_reagent_6
ICPL reagent 6: The name of the sample labelled with the ICPL reagent 6.
PEFF_DbDate_OBSOLETE
DbDate: Database date (release or file date of the source) according to database provider.
MS_TopPIC_proteoform_level_cutoff_value
TopPIC:proteoform-level cutoff value: Proteoform-level cutoff value for filtering identified proteofo...
UNIMOD_TMPP_Ac
TMPP-Ac: Tris(2,4,6-trimethoxyphenyl)phosphonium acetic acid N-hydroxysuccinimide ester derivative.
MS_SEQUEST_sort_by_RSp
SEQUEST:sort by RSp: Sort order of SEQUEST search results given by the result 'Sp' of 'Rank/Sp' in th...
UNIMOD_Hex_3_HexNAc_6_Sulf_2_
Hex(3)HexNAc(6)Sulf(2): Hex(3) HexNAc(6) Sulf(2).
MS_Panorama_Public_dataset_identifier
Panorama Public dataset identifier: Dataset identifier issued by the Panorama Public repository....
UNIMOD_2_dimethylsuccinyl
2-dimethylsuccinyl: S-(2-dimethylsuccinyl) cysteine.
MS_peptide_phosphoRS_score
peptide:phosphoRS score: phosphoRS score for PTM site location at the peptide-level.
MS_Profound_ClusterRank
Profound:ClusterRank: The Profound cluster rank.
UNIMOD_Hex_1_Pent_3_
Hex(1)Pent(3): Hex Pent(3).
UNIMOD_dHex_2_Hex_3_HexNAc_2_
dHex(2)Hex(3)HexNAc(2): DHex(2) Hex(3) HexNAc(2).
MS_EMR_spectrum
EMR spectrum (electromagnetic radiation spectrum): A plot of the relative intensity of electromagneti...
MS_MALDI_Synapt_G2_S_MS
MALDI Synapt G2-S MS: Waters oa-ToF based MALDI Synapt G2-S MS.
MS_Mascot_use_MudPIT_scoring_OBSOLETE
Mascot:use MudPIT scoring: Determines whether to use MudPIT or normal scoring.
UNIMOD_dHex_1_Hex_4_HexNAc_3_NeuGc_1_
dHex(1)Hex(4)HexNAc(3)NeuGc(1): DHex Hex(4) HexNAc(3) NeuGc —OR— Hex(5) HexNAc(3) NeuAc.
UO_milliliter_per_cubic_meter
milliliter per cubic meter: A volume per unit volume unit which is equal to one millionth of a liter ...
UO_kilovolt
kilovolt: An electric potential difference unit which is equal to one thousand volts or 10^[3] V.
UNIMOD_Glu__pyro_Glu_Methyl_2H_2_13C_1_
Glu->pyro-Glu+Methyl:2H(2)13C(1): Pyro-Glu from E + Methylation Medium.
MS_decoy_peptide
decoy peptide: A putative identified peptide issued from a decoy sequence database.
MS_MaxQuant_MS_MS_count
MaxQuant:MS/MS count: The data type MS2 count produced by MaxQuant.
MS_3100
3100: Waters quadrupole based 3100.
MS_DBImporter
DBImporter: Imports data to an OpenMS database.
MS_ions_series_considered
ions series considered: The ion series that were used during the calculation of the count (e....
UNIMOD_OxArgBiotinRed
OxArgBiotinRed: Oxidized arginine biotinylated with biotin-LC-hydrazide, reduced.
MS_database_source
database source: The organisation, project or laboratory from where the database is obtained (UniProt...
UO_foot_candle
foot candle: An illuminance unit which is equal to the illuminance produced by 1 lumen evenly spread ...
UNIMOD_NA_LNO2
NA-LNO2: Nitroalkylation by Nitro Linoleic Acid.
UO_cubic_meter_per_kilogram
cubic meter per kilogram: A specific volume unit which is equal to one cubic meter volume occupied by...
UNIMOD_dHex_1_Hex_3_HexNAc_5_Sulf_1_
dHex(1)Hex(3)HexNAc(5)Sulf(1): DHex Hex(3) HexNAc(5) Sulf.
MS_includes_supersede_excludes
includes supersede excludes: A priority setting specifying that included targets have priority over t...
UNIMOD_Xlink_BS2G_114_
Xlink:BS2G[114]: Water-quenched monolink of BS2-G crosslinker.
MS_moving_belt
moving belt: Continuous moving surface in the form of a belt which passes through an ion source carry...
MS_SRM
SRM (selected reaction monitoring): Data acquired from specific product ions corresponding to m/z sel...
UNIMOD_NEM_2H_5__H2O
NEM:2H(5)+H2O: D5 N-ethylmaleimide+water on cysteines.
MS_electron_capture_dissociation
electron capture dissociation: A process in which a multiply protonated molecules interacts with a lo...
MS_Mascot_ShowHomologousProteinsWithSubsetOfPeptides
Mascot:ShowHomologousProteinsWithSubsetOfPeptides: If true, show (sequence or spectrum) sub-set and s...
UNIMOD_BADGE
BADGE: Bisphenol A diglycidyl ether derivative.
UNIMOD_BMP_piperidinol
BMP-piperidinol: 1-methyl-3-benzoyl-4-hydroxy-4-phenylpiperidine.
MS_product_ion_intensity
product ion intensity: The intensity of a single product ion.
UNIMOD_dHex_1_Hex_6_HexNAc_3_Sulf_1_
dHex(1)Hex(6)HexNAc(3)Sulf(1): DHex Hex(6) HexNAc(3) Sulf.
MS_TMT_reagent_129N
TMT reagent 129N: The name of the sample labelled with the TMT reagent 129N.
MS_common_search_engine_input_parameter
common search engine input parameter: Search engine input parameter that is shared by more than one s...
MS_decoy_DB_type_reverse
decoy DB type reverse: Decoy type: Amino acids of protein sequences are used in reverse order.
MS_ProteomeDiscoverer_Spectrum_Selector_Lower_RT_Limit
ProteomeDiscoverer:Spectrum Selector:Lower RT Limit: Lower retention-time limit.
MS_decoy_DB_from_IPI_rat_OBSOLETE
decoy DB from IPI_rat: Decoy database from a International Protein Index database for Rattus norvegic...
UNIMOD_Hex_5_HexNAc_4_NeuAc_1_Ac_2_
Hex(5)HexNAc(4)NeuAc(1)Ac(2): Hex(5) HexNAc(4) NeuAc Ac(2).
UNIMOD_Tween80
Tween80: Tween 80 synthetic polymer terminus.
UNIMOD_Hex_4_HexNAc_4_NeuGc_1_Sulf_2_
Hex(4)HexNAc(4)NeuGc(1)Sulf(2): Hex(4) HexNAc(4) NeuGc Sulf(2).
UNIMOD_DiART6plex115
DiART6plex115: Accurate mass for DiART6plex 115.
UNIMOD_DiLeu4plex117
DiLeu4plex117: Accurate mass for DiLeu 117 isobaric tag.
MS_ELEMENT2_OBSOLETE
ELEMENT2: ThermoFinnigan ELEMENT2 MS.
MS_collisionally_activated_dissociation
collisionally activated dissociation (collision-induced dissociation): The dissociation of an ion aft...
UO_absorbed_dose_unit
absorbed dose unit: A unit which is a standard measure of the energy imparted by ionizing radiation t...
UNIMOD_Hex_2_HexNAc_1_
Hex(2)HexNAc(1): Hex(2) HexNAc.
MS_PROTEINEER_dp
PROTEINEER dp: Bruker PROTEINEER dp software.
UNIMOD_dHex_1_Hex_1_
dHex(1)Hex(1): Hex1dHex1.
UNIMOD_Piperidine
Piperidine: Piperidination.
UNIMOD_dHex_1_Hex_2_HexA_1_HexNAc_1_
dHex(1)Hex(2)HexA(1)HexNAc(1): DHex Hex(2) HexA HexNAc.
MS_daly_detector
daly detector: Detector consisting of a conversion dynode, scintillator and photomultiplier....
MS_Byonic__Peptide_AbsLogProb2D
Byonic: Peptide AbsLogProb2D: The absolute value of the log-base10 Byonic two-dimensional posterior e...
MS_frag__x_ion
frag: x ion: Fragmentation information, type of product: x ion.
UNIMOD_Ala__Asn
Ala->Asn: Ala->Asn substitution.
UNIMOD_Myristoyl_Delta_H__4_
Myristoyl+Delta:H(-4): (cis,cis-delta 5, delta 8)-tetradecadienoyl.
MS_protein_value__median_of_peptide_ratios
protein value: median of peptide ratios: Protein quantification value calculated as median of peptide...
MS_LTQ_Velos_ETD
LTQ Velos ETD: Thermo Scientific LTQ Velos MS with ETD.
MS_native_spectrum_identifier_format__combined_spectra
native spectrum identifier format, combined spectra: Describes how the native spectrum identifiers th...
MS_Mascot_C13_counts
Mascot:C13 counts: C13 peaks to use in peak detection.
MS_Paragon_input_parameter
Paragon input parameter: Search engine input parameters specific to Paragon.
MS_param__z_2_ion
param: z+2 ion: Parameter information, type of product: z+2 ion.
MS_IT
IT (ion trap): A device for spatially confining ions using electric and magnetic fields alone or in c...
UNIMOD_Diethylphosphate
Diethylphosphate: O-Diethylphosphorylation.
MS_dimeric_ion_OBSOLETE
dimeric ion: An ion formed by ionization of a dimer or by the association of an ion with its neutral ...
MS_solid_state_laser
solid-state laser: Solid state laser materials are commonly made by doping a crystalline solid host w...
UNIMOD_Xlink_SMCC_321_
Xlink:SMCC[321]: Monolink of SMCC terminated with 3-(dimethylamino)-1-propylamine.
MS_Pro_BLAST
Pro BLAST: Applied Biosystems|MDS SCIEX software for MS-BLAST identification.
UO_liter_per_kilogram
liter per kilogram: A specific volume unit which is equal to one liter volume occupied by one kilogra...
MS_high_intensity_threshold
high intensity threshold: Threshold above which some action is taken.
MS_MD5
MD5: MD5 (Message-Digest algorithm 5) is a cryptographic hash function with a 128-bit hash value used...
UNIMOD_EQAT_2H_5_
EQAT:2H(5): EAPTA d5.
UNIMOD_dHex_1_Hex_1_HexNAc_1_NeuGc_1_
dHex(1)Hex(1)HexNAc(1)NeuGc(1): DHex Hex HexNAc NeuGc —OR— Hex(2) HexNAc NeuAc.
MS_Tranche_file_hash
Tranche file hash: Hash assigned by the Tranche resource to an individual file.
PEFF_DbSource
DbSource: Source of the database file.
UNIMOD_SulfurDioxide
SulfurDioxide: SulfurDioxide.
UNIMOD_TNBS
TNBS: Tri nitro benzene.
UNIMOD_Dethiomethyl
Dethiomethyl: Prompt loss of side chain from oxidised Met.
MS_MassHunter_Quantitative_Analysis
MassHunter Quantitative Analysis: Software for quantitation of Triple Quadrupole and Quadrupole Time-...
MS_Paragon_expression_error_factor
Paragon:expression error factor: The Paragon result 'Expression Error Factor'.
MS_Mascot_input_parameter
Mascot input parameter: Search engine input parameters specific to Mascot.
MS_MALDI_Synapt_G2_MS
MALDI Synapt G2 MS: Waters oa-ToF based MALDI Synapt G2 MS.
MS_number_of_sequences_searched
number of sequences searched: The number of sequences (proteins / nucleotides) from the database sear...
UNIMOD_Dimethyl_2H_6_13C_2_
Dimethyl:2H(6)13C(2): Dimethylation.
UNIMOD_Triiodo
Triiodo: Tri-Iodination.
MS_percent_of_base_peak_times_100
percent of base peak times 100: The magnitude of a peak expressed in terms of the percentage of the m...
MS_6410_Triple_Quad_LC_MS
6410 Triple Quad LC/MS (6410 Triple Quadrupole LC/MS): The 6410 Quadrupole LC/MS system is a Agilent ...
MS_param__b_ion_H3PO4_DEPRECATED
param: b ion-H3PO4 DEPRECATED: Ion b-H3PO4: b ion with lost phosphoric acid.
MS_retention_time_window_width
retention time window width: The full width of a retention time window for a chromatographic peak.
UNIMOD_CAF
CAF: Sulfonation of N-terminus.
UNIMOD_Trp__Asp
Trp->Asp: Trp->Asp substitution.
MS_counts_reporting
counts reporting: FeatureList of spectral counts.
MS_peptide
peptide: A compound of low molecular weight that is composed of two or more amino acids.
MS_spectrum_subsumable_protein
spectrum subsumable protein: A spectrum same-set or spectrum sub-set protein where the matches are di...
MS_Pro_Quant
Pro Quant: Applied Biosystems|MDS SCIEX software for protein ID and quant by iTRAQ.
MS_API_350
API 350: Applied Biosystems/MDS SCIEX API 350 MS.
UO_millimole
millimole: A substance unit equal to a thousandth of a mol or 10^[-3] mol.
UNIMOD_Arg__Ala
Arg->Ala: Arg->Ala substitution.
UNIMOD_Thr__Met
Thr->Met: Thr->Met substitution.
MS_SEQUEST_sort_by_MH_
SEQUEST:sort by MH+: Sort order of SEQUEST search results given by the mass of the protonated ion.
UNIMOD_Met__Thr
Met->Thr: Met->Thr substitution.
UNIMOD_IGBP
IGBP: Light IDBEST tag for quantitation.
MS_ProteomeDiscoverer_Relaxed_Score_Threshold
ProteomeDiscoverer:Relaxed Score Threshold: Specifies the threshold value for relaxed scoring.
MS_TOPP_NoiseFilterSGolay
TOPP NoiseFilterSGolay: Removes noise from profile spectra by using a Savitzky-Golay smoothing.
MS_detector_type
detector type: Type of detector used in the mass spectrometer.
MS_PAnalyzer_ambiguous_group_member
PAnalyzer:ambiguous group member: A protein sharing at least one peptide not matched to either conclu...
PEFF_KW
KW: Entry associated keyword(s).
UNIMOD_2_nitrobenzyl
2-nitrobenzyl: Tyrosine caged with 2-nitrobenzyl (ONB).
UNIMOD_Glycerophospho
Glycerophospho: Glycerophospho.
MS_peptide_start_on_chromosome_OBSOLETE
peptide start on chromosome: The overall start position on the chromosome to which a peptide has been...
MS_binomial_smoothing
binomial smoothing (Gaussian smoothing): Reduces intensity spikes by convolving the data with a one-d...
MS_odd_electron_rule_OBSOLETE
odd-electron rule: Odd-electron ions may dissociate to form either odd or even-electron ions,...
MS_ITRAQAnalyzer
ITRAQAnalyzer: Software for iTRAQ workflow. Extracts and normalizes iTRAQ information from an MS expe...
MS_MS_Numpress_linear_prediction_compression_followed_by_zlib_compression
MS-Numpress linear prediction compression followed by zlib compression: Compression using MS-Numpress...
MS_PyMS
PyMS (pyrolysis mass spectrometry): A mass spectrometry technique in which the sample is heated to th...
MS_DeBunker
DeBunker: DeBunker software.
UNIMOD_Amidine
Amidine: Amidination of lysines or N-terminal amines with methyl acetimidate.
MS_Th_s
Th/s: Unit describing the scan rate of a spectrum in Thomson per second.
MS_SCiLS_Lab_format
SCiLS Lab format: SCiLS Lab file format.
MS_source_sprayer
source sprayer: The source sprayer.
UNIMOD_Xlink_DMP_139_
Xlink:DMP[139]: Ammonia quenched monolink of DMP crosslinker.
MS_TSQ_Quantiva
TSQ Quantiva: Thermo Scientific TSQ Quantiva MS.
MS_TopPIC_input_parameter
TopPIC input parameter: Search engine input parameters specific to TopPIC.
UO_milliliter_per_liter
milliliter per liter: A volume per unit volume unit which is equal to one millionth of a liter of sol...
MS_Mascot_total_ions
Mascot:total ions: The Mascot result 'Total ions'.
UNIMOD_Hex_2_HexA_1_HexNAc_1_Sulf_1_
Hex(2)HexA(1)HexNAc(1)Sulf(1): Hex(2) HexA HexNAc Sulf.
UNIMOD_DiLeu4plex115
DiLeu4plex115: Accurate mass for DiLeu 115 isobaric tag.
MS_infrared_multiphoton_dissociation
infrared multiphoton dissociation: Multiphoton ionization where the reactant ion dissociates as a res...
UNIMOD_Nethylmaleimide
Nethylmaleimide: N-ethylmaleimide on cysteines.
MS_Bruker_Agilent_YEP_format
Bruker/Agilent YEP format: Bruker/Agilent YEP file format.
MS_Mascot_RequireBoldRed
Mascot:RequireBoldRed: Only used in Peptide Summary and Select Summary reports. If true,...
MS_MALDI_SYNAPT_G2_Si
MALDI SYNAPT G2-Si: Waters Corporation MALDI SYNAPT G2-Si orthogonal acceleration time-of-flight mass...
UNIMOD_Xle__Ser
Xle->Ser: Leu/Ile->Ser substitution.
MS_statistical_threshold
statistical threshold: Estimated statistical threshold.
UNIMOD_NBS_13C_6_
NBS:13C(6): Shimadzu NBS-13C.
UO_effective_dose_unit
effective dose unit: A unit which is a standard measure of the estimate of the stochastic effect that...
MS_ProteomeDiscoverer_Mascot_Weight_of_Y_Ions
ProteomeDiscoverer:Mascot:Weight of Y Ions: Determines if to use Y ions for spectrum matching.
MS_jet_separator
jet separator: A device that separates carrier gas from gaseous analyte molecules on the basis of dif...
MS_S_lens_voltage
S-lens voltage: Potential difference setting of the Thermo Scientific S-lens stacked-ring ion guide i...
MS_nth_generation_product_ion_spectrum_OBSOLETE
nth generation product ion spectrum: The mass spectrum recorded from any mass spectrometer in which t...
MS_Synapt_G2_HDMS
Synapt G2 HDMS: Waters oa-ToF based Synapt G2 HDMS.
UNIMOD_His__Arg
His->Arg: His->Arg substitution.
MS_param__y_ion_H3PO4_DEPRECATED
param: y ion-H3PO4 DEPRECATED: Ion y-H3PO4: y ion with lost phosphoric acid.
MS_TOPP_PepNovoAdapter
TOPP PepNovoAdapter: Identifies MS2 spectra using the external program PepNovo.
UNIMOD_Ser__Thr
Ser->Thr: Ser->Thr substitution.
MS_search_engine_specific_peptide_sequence_level_identification_statistic
search engine specific peptide sequence-level identification statistic: Search engine specific distin...
UNIMOD_Hex_1_HexNAc_2_Sulf_1_
Hex(1)HexNAc(2)Sulf(1): Hex HexNAc(2) Sulf.
MS_inclusive_high_intensity_threshold
inclusive high intensity threshold: Threshold at or above which some action is taken.
UNIMOD_Delta_Hg_1_
Delta:Hg(1): Mercury Mercaptan.
MS_cross_link_spectrum_identification_item
cross-link spectrum identification item: Cross-linked spectrum identification item.
UNIMOD_Biotin_phenacyl
Biotin-phenacyl: Alkylation by biotinylated form of phenacyl bromide.
UNIMOD_Met_loss_Acetyl
Met-loss+Acetyl: Removal of initiator methionine from protein N-terminus, then acetylation of the new...
UNIMOD_CHDH
CHDH: Cis-14-hydroxy-10,13-dioxo-7-heptadecenoic ester.
MS_Shimadzu_Biotech_QTOF_nativeID_format
Shimadzu Biotech QTOF nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
MS_Orbitrap_Fusion_ETD
Orbitrap Fusion ETD: Thermo Scientific Orbitrap Fusion with ETD.
MS_focal_plane_collector
focal plane collector: A detector for spatially disperse ion beams in which all ions simultaneously i...
UNIMOD_Iminobiotin
Iminobiotin: Iminobiotinylation.
MS_ALEX
ALEX: Analysis of lipid experiments, a calculator for m/z values of intact lipid molecules (MS1).
MS_ProteomeCentral_dataset_URI
ProteomeCentral dataset URI: URI associated to one PX submission in ProteomeCentral.
MS_non_leading_protein
non-leading protein: Zero to many proteins within each group should be annotated as non-leading to in...
MS_SpectraST_dot
SpectraST:dot: SpectraST dot product of two spectra, measuring spectral similarity.
MS_QSTAR_Pulsar
QSTAR Pulsar: Applied Biosystems|MDS SCIEX QSTAR Pulsar.
MS_small_molecule_attribute
small molecule attribute: Attribute describing a small molecule.
MS_deisotoping
deisotoping: The removal of isotope peaks to represent the fragment ion as one data point and is comm...
MS_No_variable_modifications_searched
No variable modifications searched: No variable modifications are included as a parameter for the sea...
UNIMOD_Gly__Cys
Gly->Cys: Gly->Cys substitution.
UNIMOD_dHex_1_Hex_1_HexNAc_4_
dHex(1)Hex(1)HexNAc(4): DHex Hex HexNAc(4).
UNIMOD_Methylamine
Methylamine: Michael addition with methylamine.
MS_QTRAP_4500
QTRAP 4500: SCIEX QTRAP 4500.
MS_Scaffold__Minimum_Peptide_Probability
Scaffold: Minimum Peptide Probability: Minimum probability a peptide must have to be accepted for pro...
UNIMOD_Gln__Lys
Gln->Lys: Gln->Lys substitution.
MS_BioTools
BioTools: Bruker software for data analysis.
PEFF_Conversion
Conversion: Description of the conversion from original format to this current one.
MS_surface_assisted_laser_desorption_ionization
surface-assisted laser desorption ionization: The formation of gas-phase ions from molecules that are...
MS_MSFit_Mowse_score
MSFit:Mowse score: The MSFit Mowse score.
UNIMOD_dHex_2_Hex_4_HexNAc_4_
dHex(2)Hex(4)HexNAc(4): DHex(2) Hex(4) HexNAc(4) —OR— Hex(4) HexNAc(4) dHex Pent Me.
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_Sulf_1_
Hex(1)HexNAc(1)NeuAc(1)Sulf(1): Hex HexNAc NeuAc Sulf.
MS_frag__z_ion
frag: z ion: Fragmentation information, type of product: z ion.
UNIMOD_Label_15N_1_
Label:15N(1): 15N(1).
MS_1200_series_LC_MSD_SL
1200 series LC/MSD SL: The 1200 Series LC/MSD SL ion trap belongs to the Agilent LC/MSD ion trap fami...
UO_unit_of_molality
unit of molality: A concentration unit which is a standard measure of the number of moles of a given ...
MS_value_between_0_and_1000_inclusive
value between 0 and 1000 inclusive: Value range for scores.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Precursor_Peak
ProteomeDiscoverer:Non-Fragment Filter:Remove Precursor Peak: Determines whether precursor artifact p...
MS_isotopologue_MS_peak
isotopologue MS peak: The described isotopologue mass spectrometric signal. The value slot contains a...
MS_binary_data_type
binary data type: Encoding type of binary data specifying the binary representation and precision,...
MS_direct_inlet
direct inlet: The sample is directly inserted into the ion source, usually on the end of a heatable p...
MS_peptide_start_positions_on_chromosome
peptide start positions on chromosome: A comma separated list of start positions within exons to whic...
UO_kilogram_meter_per_second
kilogram meter per second: A momentum unit which is equal to the momentum of a one kilogram mass obje...
MS_MarkerView_Software
MarkerView Software: Applied Biosystems|MDS SCIEX software for metabolomics and biomarker profiling.
MS_ion_optics_attribute
ion optics attribute: Ion optics involves components that help focus ion streams in mass spectrometry...
UNIMOD_Xlink_BuUrBu_317_
Xlink:BuUrBu[317]: Tris quenched monolink of BuUrBu crosslinker.
UNIMOD_Asn__Gln
Asn->Gln: Asn->Gln substitution.
UNIMOD_Lys_loss
Lys-loss: Loss of C-terminal K from Heavy Chain of MAb.
MS_6538_Q_TOF_LC_MS
6538 Q-TOF LC/MS: The 6538 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
UNIMOD_Label_13C_6_15N_4__Methyl
Label:13C(6)15N(4)+Methyl: Monomethylated Arg13C(6) 15N(4).
UNIMOD_dHex_3_Hex_2_HexNAc_2_Kdn_1_
dHex(3)Hex(2)HexNAc(2)Kdn(1): DHex(3) Hex(2) HexNAc(2) Kdn.
UNIMOD_Biotin
Biotin: Biotinylation.
MS_MyriMatch_mzFidelity
MyriMatch:mzFidelity: The negative natural log probability that predicted peaks match to experimental...
MS_identification_file_format
identification file format: Attribute describing an identification file format.
UNIMOD_Phe__Gln
Phe->Gln: Phe->Gln substitution.
MS_retention_time
retention time: A time interval from the start of chromatography when an analyte exits a chromatograp...
UNIMOD_GEE
GEE: Transamidation of glycine ethyl ester to glutamine.
UNIMOD_dHex_1_Hex_6_HexNAc_2_
dHex(1)Hex(6)HexNAc(2): DHex Hex(6) HexNAc(2).
MS_two_sample_run
two sample run: The raw file contains the run of two samples (e.g. SILAC, metabolic labelling).
MS_m_z_calibration
m/z calibration: Calibration of data point m/z positions.
MS_SEQUEST_expectation_value
SEQUEST:expectation value: The SEQUEST result 'Expectation value'.
MS_time_unit_OBSOLETE
time unit: Time Unit.
MS_MassHunter_BioConfirm
MassHunter BioConfirm: Software for protein characterization.
UNIMOD_NO_SMX_SEMD
NO_SMX_SEMD: Nitroso Sulfamethoxazole Sulphenamide thiol adduct.
MS_heterolytic_cleavage_OBSOLETE
heterolytic cleavage: Fragmentation of a molecule or ion in which both electrons forming the single b...
MS_7000A_Triple_Quadrupole_GC_MS
7000A Triple Quadrupole GC/MS: The 7000A Quadrupole GC/MS system is a Agilent gas chromatography inst...
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge4: FT high confidence XCorr parameter for c...
MS_ProteomeDiscoverer_max_number_neutral_loss
ProteomeDiscoverer:max number neutral loss: Maximum number of same neutral losses.
MS_ProteoSuite
ProteoSuite: ProteoSuite software for the analysis of quantitative proteomics data.
MS_charge_state
charge state: The charge state of the ion, single or multiple and positive or negatively charged.
MS_DiART_reagent_114
DiART reagent 114: The name of the sample labelled with the DiART reagent 114.
MS_SEQUEST_DescriptionLines
SEQUEST:DescriptionLines: Number of full protein descriptions to show for top N peptides.
UO_micromole
micromole: A substance unit equal to a millionth of a mol or 10^[-6] mol.
MS_proteoform_level_identification_statistic
proteoform-level identification statistic: Identification confidence metric for a proteoform.
UNIMOD_Xle__Gly
Xle->Gly: Leu/Ile->Gly substitution.
MS_coated_glass_plate
coated glass plate: Coated glass plate.
MS_cyclotron
cyclotron: A device that uses an oscillating electric field and magnetic field to accelerate charged ...
UO_area_unit
area unit: A unit which is a standard measure of the amount of a 2-dimensional flat surface.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuAc_2_Sulf_1_
dHex(1)Hex(2)HexNAc(2)NeuAc(2)Sulf(1): DHex Hex(2) HexNAc(2) NeuAc(2) Sulf.
UNIMOD_Gln__Pro
Gln->Pro: Gln->Pro substitution.
MS_protein_group_level_local_FDR
protein group-level local FDR: Estimation of the local false discovery rate of protein groups.
MS_TOPP_software_adaptor
TOPP software adaptor: Software adaptor to an external program in the TOPP software.
MS_ion_neutral_species_exchange_reaction_OBSOLETE
ion/neutral species exchange reaction: In this reaction an association reaction is accompanied by the...
MS_multi_collector
multi-collector: A detector system commonly used in inductively coupled plasma mass spectrometers.
UNIMOD_Ammonium
Ammonium: Replacement of proton with ammonium ion.
MS_isotopic_ion_MS_peak
isotopic ion MS peak: A mass spectrometry peak that represents one or more isotopic ions....
MS_prot_FDR_threshold
prot:FDR threshold: False-discovery rate threshold for proteins.
MS_Proteios
Proteios: Database application and analysis platform for proteomics.
UNIMOD_HexNAc_2_NeuAc_1_
HexNAc(2)NeuAc(1): HexNAc(2) NeuAc.
UNIMOD_Phe__Lys
Phe->Lys: Phe->Lys substitution.
UNIMOD_Hex_1_Pent_2_Me_1_
Hex(1)Pent(2)Me(1): Hex:1 Pent:2 Me:1.
MS_number_of_detector_counts
number of detector counts: The number of counted events observed in one or a group of elements of a d...
UNIMOD_Hex_2_HexA_1_NeuAc_1_Pent_1_Sulf_1_
Hex(2)HexA(1)NeuAc(1)Pent(1)Sulf(1): Hex(2) HexA NeuAc Pent Sulf.
UNIMOD_Xlink_EGS_244_
Xlink:EGS[244]: Water quenched monolink of EGS cross-linker.
UNIMOD_dHex_1_Hex_1_HexNAc_2_Kdn_1_
dHex(1)Hex(1)HexNAc(2)Kdn(1): DHex Hex HexNAc(2) Kdn —OR— Hex(2) HexNAc dHex NeuAc.
MS_Mascot_PTM_site_assignment_confidence
Mascot:PTM site assignment confidence: Relative probability that PTM site assignment is correct,...
MS_nth_generation_product_ion_scan_OBSOLETE
nth generation product ion scan: The specific scan functions or processes that record the appropriate...
UNIMOD_Xle__Asp
Xle->Asp: Leu/Ile->Asp substitution.
UNIMOD_GGQ
GGQ: SUMOylation leaving GlyGlyGln.
UNIMOD_Hex_1_HexNAc_1_NeuGc_1_
Hex(1)HexNAc(1)NeuGc(1): Hex HexNAc NeuGc.
MS_structural_formula
structural formula: A chemical formula showing the number of atoms of each element in a molecule,...
UNIMOD_Arg__Asn
Arg->Asn: Arg->Asn substitution.
UNIMOD_GNLLFLACYCIGG
GNLLFLACYCIGG: Ubiquitin D (FAT10) leaving after trypsin digestion Gly-Asn-Leu-Leu-Phe-Leu-Ala-Cys-Ty...
MS_ProteomeDiscoverer_Spectrum_Grouper_Allow_Mass_Analyzer_Mismatch
ProteomeDiscoverer:Spectrum Grouper:Allow Mass Analyzer Mismatch: Determines whether the fragment spe...
MS_DiART_reagent_118
DiART reagent 118: The name of the sample labelled with the DiART reagent 118.
MS_TopMG_proteoform_level_cutoff_type
TopMG:proteoform-level cutoff type: Proteoform-level cutoff type for filtering identified proteoform ...
MS_Shimadzu_MALDI_TOF_instrument_model
Shimadzu MALDI-TOF instrument model: Shimadzu MALDI-TOF instrument model.
UNIMOD_Lys__Thr
Lys->Thr: Lys->Thr substitution.
UNIMOD_Xlink_BS2G_96_
Xlink:BS2G[96]: Intact BS2-G crosslinker.
UNIMOD_LG_Hlactam_K
LG-Hlactam-K: Levuglandinyl - lysine hydroxylactam adduct.
UNIMOD_Retinylidene
Retinylidene: Retinal.
MS_FIB
FIB (fast ion bombardment): The ionization of any species by the interaction of a focused beam of ion...
MS_Percolator_features
Percolator:features: List of Percolator features that were used in processing the peptide matches....
MS_scan_m_z_range__OBSOLETE
scan m/z range?: The limit of m/z over which a mass spectrometer can detect ions.
UNIMOD_dHex_1_Hex_2_HexNAc_4_NeuAc_1_
dHex(1)Hex(2)HexNAc(4)NeuAc(1): DHex Hex(2) HexNAc(4) NeuAc.
MS_Thermo_nativeID_format__combined_spectra
Thermo nativeID format, combined spectra: Thermo comma separated list of spectra that have been combi...
MS_MALDI_LTQ_Orbitrap
MALDI LTQ Orbitrap: Thermo Scientific MALDI LTQ Orbitrap MS.
UNIMOD_Ethoxyformyl
Ethoxyformyl: Ethoxyformylation.
UO_parts_per_hundred
parts per hundred: A dimensionless concentration notation which denotes the amount of a given substan...
MS_matrix_solution
matrix solution: Describes the chemical solution used as matrix.
MS_two_dimensional_gas_chromatography_with_fixed_modulation_time
two-dimensional gas chromatography with fixed modulation time: Two-dimensional gas chromatography whe...
UNIMOD_Asp__Tyr
Asp->Tyr: Asp->Tyr substitution.
UNIMOD_Hex_1_HexNAc_2_NeuAc_2_Sulf_1_
Hex(1)HexNAc(2)NeuAc(2)Sulf(1): Hex HexNAc(2) NeuAc(2) Sulf.
UO_electric_charge
electric charge: A unit which is a standard measure of the quantity of unbalanced electricity in a bo...
MS_modification_specificity_peptide_N_term
modification specificity peptide N-term: As parameter for search engine: apply the modification only ...
MS_MaxQuant_peptide_counts__all_
MaxQuant:peptide counts (all): The data type peptide counts (all) produced by MaxQuant.
MS_Phenyx_Peptides1
Phenyx:Peptides1: First number of phenyx result "#Peptides".
MS_Peer_reviewed_dataset
Peer-reviewed dataset: Dataset has been peer-reviewed somehow.
MS_non_classical_ion_OBSOLETE
non-classical ion: Hyper-coordinated carbonium ion such as the penta-coordinated norbornyl cation....
UNIMOD_NEIAA
NEIAA: N-ethyl iodoacetamide-d0.
UO_microeinstein_per_square_meter_per_second
microeinstein per square meter per second: An irradiance unit which is equal to one microeinstein per...
MS_frag__c_ion___NH3
frag: c ion - NH3: Fragmentation information, type of product: c ion without ammonia.
UO_microcurie_per_milliliter
microcurie per milliliter: A unit of radioactivity concentration which is equal to one micro curie in...
MS_MRM_OBSOLETE
MRM (multiple reaction monitoring): This term is not recommended. See Selected Reaction Monitoring.
UNIMOD_Phe__CamCys
Phe->CamCys: Phe->Cys substitution and carbamidomethylation.
UNIMOD_PyruvicAcidIminyl
PyruvicAcidIminyl: N-pyruvic acid 2-iminyl.
MS_TOPP_SpectraFilterMarkerMower
TOPP SpectraFilterMarkerMower: Applies a filter to peak spectra for marked peaks.
MS_peak_list_scans
peak list scans: A list of scan numbers and or scan ranges associated with a peak list....
MS_frag__precursor_ion___H2O
frag: precursor ion - H2O: Fragmentation information, type of product: precursor ion without water.
UNIMOD_Ala__Xle
Ala->Xle: Ala->Leu/Ile substitution.
MS_small_molecule_confidence_measure
small molecule confidence measure: The confidence score produced by a small molecule analysis softwar...
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuGc_3_
dHex(1)Hex(2)HexNAc(2)NeuGc(3): DHex Hex(2) HexNAc(2) NeuGc(3).
MS_peptide_level_statistical_threshold
peptide-level statistical threshold: Estimated statistical threshold at peptide-level.
UNIMOD_Hex_5_HexNAc_4_NeuAc_1_Ac_1_
Hex(5)HexNAc(4)NeuAc(1)Ac(1): Hex(5) HexNAc(4) NeuAc Ac.
MS_QuantAnalysis
QuantAnalysis: Bruker software for data analysis.
MS_collision_energy_ramp_start
collision energy ramp start: Collision energy at the start of the collision energy ramp.
UNIMOD_Lys__His
Lys->His: Lys->His substitution.
UNIMOD_Xlink_DSS_138_
Xlink:DSS[138]: Intact DSS/BS3 crosslinker.
UO_nanovolt
nanovolt: An electric potential difference unit which is equal to one billionth of a volt or 10^[-12]...
MS_isotope_ratio_mass_spectrometry_OBSOLETE
isotope ratio mass spectrometry: The measurement of the relative quantity of the different isotopes o...
UNIMOD_Xle__Cys
Xle->Cys: Leu/Ile->Cys substitution.
MS_ProteoAnnotator_count_alternative_peptides
ProteoAnnotator:count alternative peptides: The count of the number of peptide sequences mapped to no...
MS_SEQUEST_spscore
SEQUEST:spscore: The SEQUEST result 'SpScore'.
MS_ProteomeDiscoverer_Mascot_X_Static_Modification
ProteomeDiscoverer:Mascot:X Static Modification: Number of attempts to submit the Mascot search.
MS_SEQUEST_sort_by_Sequence
SEQUEST:sort by Sequence: Sort order of SEQUEST search results given by the sequence.
MS_mass_chromatogram
mass chromatogram: A plot of the relative abundance of a beam or other collection of ions as a functi...
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Only_Known_Masses
ProteomeDiscoverer:Non-Fragment Filter:Remove Only Known Masses: Determines whether overtone peaks ar...
MS_Agilent_MassHunter_format
Agilent MassHunter format: A data file format found in an Agilent MassHunter directory which contains...
UNIMOD_Xlink_BMOE
Xlink:BMOE: Intact or monolink BMOE crosslinker.
UNIMOD_Methyl_2H_3__Acetyl_2H_3_
Methyl:2H(3)+Acetyl:2H(3): 3-fold methylated lysine labelled with Acetyl_heavy.
UNIMOD_Diisopropylphosphate
Diisopropylphosphate: O-Diisopropylphosphorylation.
MS_array_detector
array detector: Detector comprising several ion collection elements, arranged in a line or grid where...
MS_ADC
ADC (analog-digital converter): Analog-to-digital converter (abbreviated ADC, A/D or A to D) is an el...
MS_mzidLib
mzidLib: A library of Java routines for manipulating mzIdentML files.
UO_sievert
sievert: A dose equivalent unit which is equal to the absorption of one joule of radiation energy by ...
MS_modification_specificity_rule
modification specificity rule: The specificity rules for the modifications applied by the search engi...
UNIMOD_Glu__Xle
Glu->Xle: Glu->Leu/Ile substitution.
PEFF_Crc64
Crc64: Sequence checksum in crc64.
MS_GCT_Premier
GCT Premier: Waters oa-ToF based GCT Premier.
UNIMOD_Xlink_DMP_140_
Xlink:DMP[140]: Water quenched monolink of DMP crosslinker.
MS_peptide_labeling_state
peptide labeling state: A state description of how a peptide might be isotopically or isobarically la...
UNIMOD_Asp__Lys
Asp->Lys: Asp->Lys substitution.
UO_micromolal
micromolal: A molality unit which is equal to one millionth of a molal or 10^[-6] m.
MS_QSTAR_XL
QSTAR XL: Applied Biosystems|MDS SCIEX QSTAR XL.
MS_SMILES_string
SMILES string: The simplified molecular input line entry specification or SMILES is a specification f...
MS_offset_voltage
offset voltage: The potential difference between two adjacent interface voltages affecting in-source ...
MS_XCMS_maxo
XCMS:maxo: Feature intensity produced by XCMS findPeaks() from maximum peak intensity.
MS_LIFT
LIFT: A Bruker's proprietary technique where molecular ions are initially accelerated at lower energy...
MS_SEQUEST_total_ions
SEQUEST:total ions: The SEQUEST result 'Total Ions'.
MS_multiple_reaction_monitoring_OBSOLETE
multiple reaction monitoring: This term is not recommended. See Selected Reaction Monitoring.
UNIMOD_HexN
HexN: Hexosamine.
UNIMOD_Cytopiloyne
Cytopiloyne: Nucleophilic addtion to cytopiloyne.
MS_TOPP_feature_finder
TOPP feature finder: Feature finder component of the TOPP software.
UO_half_life
half life: A time unit which represents the period over which the activity or concentration of a spec...
MS_ProteomeDiscoverer_Mascot_Decoy_Search_OBSOLETE
ProteomeDiscoverer:Mascot:Decoy Search: Determines whether the Proteome Discoverer application search...
MS_Phenyx_XML_format
Phenyx XML format: Phenyx open XML file format.
MS_molecular_beam_mass_spectrometry_OBSOLETE
molecular beam mass spectrometry: A mass spectrometry technique in which the sample is introduced int...
MS_scan_number_s__OBSOLETE
scan number(s): OBSOLETE: use spectrumID attribute of SpectrumIdentificationResult....
MS_amaZon_Speed_ETD
amaZon Speed ETD: Bruker Daltonics' amaZon Speed ETD: ESI quadrupole ion trap, Nanospray,...
UNIMOD_DiLeu4plex
DiLeu4plex: Accurate mass for DiLeu 116 isobaric tag.
UO_femtomolar
femtomolar: A unit of molarity which is equal to 10^[-15] M.
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge1: Standard medium confidence XCorr para...
UNIMOD_Xle__Thr
Xle->Thr: Leu/Ile->Thr substitution.
MS_PRIDE_Converter2
PRIDE Converter2: Java software designed to convert one of several proteomics identification results ...
MS_raw_data_file
raw data file: Describes the type of file and its content.
MS_flow_rate_array
flow rate array: A data array of flow rate measurements.
MS_TripleTOF_6600
TripleTOF 6600: SCIEX TripleTOF 6600, a quadrupole - quadrupole - time-of-flight mass spectrometer.
MS_Phenyx_Instrument_Type
Phenyx:Instrument Type: The instrument type parameter value in Phenyx.
MS_MapAligner_OBSOLETE
MapAligner: Corrects retention time distortions between maps.
UNIMOD_Val__Asn
Val->Asn: Val->Asn substitution.
MS_faraday_cup
faraday cup: A conducting cup or chamber that intercepts a charged particle beam and is electrically ...
MS_InChIKey
InChIKey: Unique chemical structure identifier for chemical compounds.
UNIMOD_HexNAc_2_Sulf_1_
HexNAc(2)Sulf(1): HexNAc(2) Sulf.
MS_TOPP_SpectraFilterBernNorm
TOPP SpectraFilterBernNorm: Applies a Bern et al normalization to peak spectra.
UNIMOD_BITC
BITC: Benzyl isothiocyanate.
UO_mole_fraction
mole fraction: A concentration unit which denotes the number of moles of solute as a proportion of th...
UNIMOD_Brij35
Brij35: Brij 35 synthetic polymer terminus.
UNIMOD_Hex_7_HexNAc_2_Phos_2_
Hex(7)HexNAc(2)Phos(2): Hex(7) HexNAc(2) Phos(2).
UNIMOD_Nitrosyl
Nitrosyl: S-nitrosylation.
UNIMOD_Lys__Tyr
Lys->Tyr: Lys->Tyr substitution.
UNIMOD_Ala__Glu
Ala->Glu: Ala->Glu substitution.
MS_microchannel_plate_detector
microchannel plate detector: A thin plate that contains a closely spaced array of channels that each ...
MS_Waters_nativeID_format
Waters nativeID format: Native format defined by function=xsd:positiveInteger process=xsd:nonNegative...
PEFF_Conflict
Conflict: Sequence conflict; a UniProtKB term.
UNIMOD_Glu__Asn
Glu->Asn: Glu->Asn substitution.
UNIMOD_Cation_Fe_II_
Cation:Fe[II]: Replacement of 2 protons by iron.
MS_H_Score_threshold
H-Score threshold: Threshold for H-score PTM site location score.
MS_MRMaid
MRMaid: A web-based SRM assay design tool whose transitions are generated by mining the millions of i...
MS_TruTOF
TruTOF: LECO bench-top GC time-of-flight mass spectrometer.
MS_ProteomeDiscoverer_Mascot_Weight_of_V_Ions
ProteomeDiscoverer:Mascot:Weight of V Ions: Determines if to use V ions for spectrum matching.
UNIMOD_dHex_1_Hex_5_HexNAc_4_NeuAc_1_
dHex(1)Hex(5)HexNAc(4)NeuAc(1): DHex Hex(5) HexNAc(4) NeuAc.
MS_quality_estimation_with_implicite_decoy_sequences
quality estimation with implicite decoy sequences: Decoy entries are generated during the search,...
UNIMOD_Xlink_DSS_155_
Xlink:DSS[155]: Ammonium-quenched monolink of DSS/BS3 crosslinker.
UNIMOD_PET
PET: Phosphorylation to pyridyl thiol.
UNIMOD_dHex_2_Hex_2_HexA_1_HexNAc_2_Sulf_1_
dHex(2)Hex(2)HexA(1)HexNAc(2)Sulf(1): DHex(2) Hex(2) HexA HexNAc(2) Sulf.
MS_peak_targeting_suitability_rank
peak targeting suitability rank: Ordinal specifying the rank of a peak in a spectrum in terms of suit...
MS_area_peak_picking
area peak picking: Spectral peak processing conducted on the acquired data to convert profile data to...
MS_experimental_condition__case_
experimental condition 'case': The experimental condition is 'case' in contrast to 'control'.
UNIMOD_Asn__Phe
Asn->Phe: Asn->Phe substitution.
MS_SEQUEST_NormalizeXCorrValues
SEQUEST:NormalizeXCorrValues:
MS_detector_attribute
detector attribute: Detector attribute recognized as a value.
MS_Voyager_DE_PRO
Voyager-DE PRO: Applied Biosystems/MDS SCIEX Voyager-DE PRO MS.
UNIMOD_NBS
NBS: Shimadzu NBS-12C.
MS_field_ionization
field ionization: The removal of electrons from any species by interaction with a high electric field...
UNIMOD_ethylsulfonylethyl
ethylsulfonylethyl: Reaction with ethyl vinyl sulfone.
MS_B
B (magnetic field strength): A property of space that produces a force on a charged particle equal to...
UO_steradian
steradian: A solid angle unit which is equal to the solid angle subtended at the center of a sphere b...
MS_Xevo_G2_Q_Tof
Xevo G2 Q-Tof: Waters oa-ToF based Xevo G2 Q-Tof.
MS_quadratic
quadratic: The mass scan is done in quadratic mode.
UNIMOD_Asn__Val
Asn->Val: Asn->Val substitution.
MS_Platform_ICP
Platform ICP: Waters Platform ICP MS.
MS_micrOTOF_Q_III
micrOTOF-Q III: Bruker Daltonics' micrOTOF-Q III: ESI Q-TOF, Nanospray, APCI, APPI,...
UO_mass_volume_percentage
mass volume percentage: A dimensionless concentration unit which denotes the mass of the substance in...
MS_ProteomeDiscoverer_max_equal_modifications
ProteomeDiscoverer:max equal modifications: Maximum equal modifications per PSM.
UNIMOD_dHex_1_HexNAc_4_
dHex(1)HexNAc(4): DHex HexNAc(4).
MS_MS_Amanda_csv_format
MS Amanda csv format: MS Amanda csv output format.
UNIMOD_Gly__Trp
Gly->Trp: Gly->Trp substitution.
MS_MaxQuant_peptide_counts__unique_
MaxQuant:peptide counts (unique): The data type peptide counts (unique) produced by MaxQuant.
MS_SCIEX_TOF_TOF_nativeID_format
SCIEX TOF/TOF nativeID format: Native format defined by jobRun=xsd:nonNegativeInteger spotLabel=xsd:s...
MS_____DE__
(?=[DE]): Regular expression for Asp-N-ambic.
UNIMOD_Cys__Phe
Cys->Phe: Cys->Phe substitution.
MS_Panorama_Public_dataset_URI
Panorama Public dataset URI: URI that allows the access to one dataset in the Panorama Public reposit...
UNIMOD_Ethanedithiol
Ethanedithiol: EDT.
UNIMOD_HexNAc_2_dHex_1_
HexNAc(2)dHex(1): HexNAc2dHex1.
MS_FindPairs
FindPairs: Software e.g. for SILAC and 14N/15N workflow, part of the PeakQuant suite.
MS_TOPP_MascotAdapterOnline
TOPP MascotAdapterOnline: Identifies MS2 spectra using the online version of the external program Mas...
MS_coefficient_of_variation
coefficient of variation: Variation of a set of signal measurements calculated as the standard deviat...
MS_smoothing
smoothing: A process of reducing spikes of intensity in order to reduce noise while preserving real p...
MS_SymBiot_I
SymBiot I: Applied Biosystems/MDS SCIEX SymBiot I MS.
UNIMOD_Trimethyl_2H_9_
Trimethyl:2H(9): 3-fold methylation with deuterated methyl groups.
UNIMOD_Unknown_216
Unknown:216: Unidentified modification of 216.1002 found in open search.
UO_stone
stone: An imperial mass unit which is equivalent to 6,350.293,18 grams, or 14 pounds.
UNIMOD_Hex_5_Phos_3_
Hex(5)Phos(3): Hex(5) Phos(3).
MS_PEAKS_inChorusPeptideScore
PEAKS:inChorusPeptideScore: The PEAKS inChorus peptide score.
MS_spectrum_identification_statistical_threshold
spectrum identification statistical threshold: Estimated statistical threshold used for spectrum iden...
UNIMOD_dHex_2_Hex_3_HexA_1_HexNAc_3_Sulf_1_
dHex(2)Hex(3)HexA(1)HexNAc(3)Sulf(1): DHex(2) Hex(3) HexA HexNAc(3) Sulf.
MS_direct_liquid_introduction
direct liquid introduction: The delivery of a liquid sample into a mass spectrometer for spray or des...
MS_xiFDR
xiFDR: Target/Decoy based FDR estimation for cross-linking peptide-identifications.
UNIMOD_HN3_mustard
HN3_mustard: Modification by hydroxylated tris-(2-chloroethyl)amine (HN-3).
MS_supplemental_collision_induced_dissociation
supplemental collision-induced dissociation: The dissociation of an ion after supplemental collisiona...
MS_product_ion_attribute
product ion attribute: Fragmentation information like ion types.
UNIMOD_Unknown_234
Unknown:234: Unidentified modification of 234.0742 found in open search.
MS_surface_induced_reaction_OBSOLETE
surface-induced reaction: A process wherein a reactant ion interacts with a surface to produce either...
MS_ProteomeDiscoverer_1__Static_Modification_OBSOLETE
ProteomeDiscoverer:1. Static Modification: ProteomeDiscoverer's 1st static post-translational modific...
MS_additional_description_OBSOLETE
additional description: Terms to describe Additional.
UNIMOD_dHex_2_Hex_2_HexNAc_1_
dHex(2)Hex(2)HexNAc(1): DHex(2) Hex(2) HexNAc.
MS_median
median: Median function.
MS_Progenesis_peptide_normalised_abundance
Progenesis:peptide normalised abundance: The data type normalised abundance for peptides produced by ...
MS_product_ion_intensity_standard_deviation
product ion intensity standard deviation: Standard deviation of product ion intensity in a collection...
UO_nanogram_per_milliliter
nanogram per milliliter: A mass unit density which is equal to mass of an object in nanograms divided...
UNIMOD_Hex_1_HexNAc_1_dHex_1_
Hex(1)HexNAc(1)dHex(1): Hex1HexNAc1dHex1.
MS_Comet
Comet: Comet open-source sequence search engine developed at the University of Washington.
UNIMOD_Hex_3_HexNAc_2_Pent_1_
Hex(3)HexNAc(2)Pent(1): Hex(3) HexNAc(2) Pent.
MS_WIFF_nativeID_format
WIFF nativeID format: Native format defined by sample=xsd:nonNegativeInteger period=xsd:nonNegativeIn...
MS_quistor_OBSOLETE
quistor: An abbreviation of quadrupole ion storage trap. This term is synonymous with Paul Ion Trap....
UO_pixels_per_millimeter
pixels per millimeter: A spatial resolution unit which is a standard measure of the number of pixels ...
MS_e_2_mass_spectrum
e/2 mass spectrum: A mass spectrum obtained using a sector mass spectrometer in which the electric se...
MS_ions_series_considered_in_search
ions series considered in search: The description of the DEPRECATED ion fragment series (including ch...
UO_pixels_per_inch
pixels per inch: A spatial resolution unit which is a standard measure of the resolution of a compute...
MS_Thermo_RAW_format
Thermo RAW format: Thermo Scientific RAW file format.
UNIMOD_Label_15N_2_
Label:15N(2): 15N(2).
UO_katal
katal: A catalytic unit activity which is equal to the activity of a catalyst in moles per second,...
UNIMOD_Xlink_DMP_122_
Xlink:DMP[122]: Intact DMP crosslinker.
MS_param__a_ion_H2O_DEPRECATED
param: a ion-H2O DEPRECATED: Ion a-H2O if a significant and fragment includes STED.
MS_Mascot_matched_ions
Mascot:matched ions: The Mascot result 'Matched ions'.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_z_Ions
ProteomeDiscoverer:SEQUEST:Weight of z Ions: Uses z ions for spectrum matching with this relative fac...
UNIMOD_Hex_3_HexNAc_3_NeuAc_1_
Hex(3)HexNAc(3)NeuAc(1): Hex(3) HexNAc(3) NeuAc —OR— Hex(2) HexNAc(3) dHex NeuGc —OR— Hex(2) HexNAc(4...
MS_sample_attribute
sample attribute: Sample properties that are associated with a value.
UNIMOD_Asp__Xle
Asp->Xle: Asp->Leu/Ile substitution.
MS_Andromeda_result_format
Andromeda result format: Andromeda result file output format.
MS_TOPP_SpectraFilterSqrtMower
TOPP SpectraFilterSqrtMower: Applies a filter to peak spectra after intensity scaling to the square r...
MS_chrom_format
chrom format: The Lipid Data Analyzer native chrom format.
UNIMOD_BEMAD_ST
BEMAD_ST: Beta elimination of modified S or T followed by Michael addition of DTT.
UNIMOD_Pro__Asp
Pro->Asp: Pro->Asp substitution.
UNIMOD_Arg__His
Arg->His: Arg->His substitution.
MS_intensity_of_precursor_ion
intensity of precursor ion: The intensity of the precursor ion.
MS_FFR
FFR (field-free region): A section of a mass spectrometer in which there are no electric or magnetic ...
UNIMOD_Asp__Phe
Asp->Phe: Asp->Phe substitution.
UNIMOD_Cys__Arg
Cys->Arg: Cys->Arg substitution.
UNIMOD_Carboxy
Carboxy: Carboxylation.
MS_SCIEX_TOF_TOF_database
SCIEX TOF/TOF database: Applied Biosystems/MDS Analytical Technologies TOF/TOF instrument database.
MS_mass_table_options
mass table options: Root node for options for the mass table used.
MS_ionizing_collision_OBSOLETE
ionizing collision: The reaction of an ion with a neutral species in which one or more electrons are ...
MS_frag__c_ion
frag: c ion: Fragmentation information, type of product: c ion.
MS_SpectraFilter_OBSOLETE
SpectraFilter: Applies a filter to peak spectra.
MS_metabolic_labeling_14N___15N_quantitation_analysis
metabolic labeling 14N / 15N quantitation analysis: Metabolic labeling workflow (heavy and light vers...
MS_MSQuant_PTM_score
MSQuant:PTM-score: The PTM score from MSQuant software.
MS_X_Tandem_expect
X!Tandem:expect: The X!Tandem expectation value.
MS_m_z_array
m/z array: A data array of m/z values.
UO_milligram_per_kilogram_per_day
milligram per kilogram per day: A dosage unit which is equal to 1 milligram per day of a toxic or pha...
MS_Compound_Discoverer
Compound Discoverer: Metabolomics analysis software from Thermo Fisher Scientific.
MS_MS1_label_based_proteingroup_level_quantitation
MS1 label-based proteingroup level quantitation: MS1 label-based proteingroup level quantitation.
UNIMOD_Pro__Gly
Pro->Gly: Pro->Gly substitution.
UNIMOD_GIST_Quat
GIST-Quat: Quaternary amine labeling reagent light form (N-term & K).
MS_linear_ion_trap
linear ion trap: A two dimensional Paul ion trap in which ions are confined in the axial dimension by...
UNIMOD_maleimide
maleimide: Maleimide.
UO_square_angstrom
square angstrom: An area unit which is equal to an area enclosed by a square with sides each 1 angstr...
MS_OpenXQuest_combined_score
OpenXQuest:combined score: OpenXQuest's combined score for a cross-link spectrum match.
UNIMOD_dHex_1_Hex_3_HexNAc_5_NeuAc_1_
dHex(1)Hex(3)HexNAc(5)NeuAc(1): DHex Hex(3) HexNAc(5) NeuAc.
MS_ProteinExtractor_ProteinSolverPeptideScoreThreshold
ProteinExtractor:ProteinSolverPeptideScoreThreshold: Only peptides with scores higher than that thres...
MS_API_150EX
API 150EX: Applied Biosystems/MDS SCIEX API 150EX MS.
UO_nanogray
nanogray: An absorbed dose unit which is equal to one thousandth of a millionth of a gray or 10^[-9] ...
MS_M_H_ion_1002821
M-H ion: M-H ion from negative ion mode (M in the property ionMass denotes the mass of the neutral mo...
UNIMOD_Cytopiloyne_water
Cytopiloyne+water: Nucleophilic addition to cytopiloyne+H2O.
MS_inclusive_low_intensity_threshold
inclusive low intensity threshold: Threshold at or below which some action is taken.
MS_Bruker_Daltonics_solarix_series
Bruker Daltonics solarix series: Bruker Daltonics' solarix: ESI quadrupole ion trap,...
MS_Phenyx_Default_Parent_Charge
Phenyx:Default Parent Charge: The default parent charge value in Phenyx.
UNIMOD_Pyridylethyl
Pyridylethyl: S-pyridylethylation.
MS_pulsed_q_dissociation
pulsed q dissociation: A process that involves precursor ion activation at high Q,...
MS_TopMG_spectral_cutoff_value
TopMG:spectral cutoff value: Spectrum-level cutoff value for filtering identified proteoform spectrum...
MS_Q_Exactive_Plus
Q Exactive Plus: Thermo Scientific Q Exactive Plus.
MS_regular_expression_for_modification_localization_scoring
).
MS_spark_ionization
spark ionization: The formation of ions from a solid material by an intermittent electrical discharge...
MS_confident_distinct_peptide_sequences
confident distinct peptide sequences: This counts the number of distinct peptide sequences....
MS_counts_per_second
counts per second: The number of counted events observed per second in one or a group of elements of ...
MS_TIC_chromatogram
TIC chromatogram (total ion current chromatogram): Chromatogram obtained by plotting the total ion cu...
UO_poise
poise: A viscosity unit which is equal to one dyne second per square centimeter.
Information about an ontology or CV source and a short 'lookup' tag to refer to.
MS_3200_QTRAP
3200 QTRAP: SCIEX or Applied Biosystems|MDS SCIEX QTRAP 3200.
UNIMOD_EHD_diphenylpentanone
EHD-diphenylpentanone: 2-ethyl-3-hydroxy-1,3-diphenylpentan-1-one.
UNIMOD_Label_2H_3_
Label:2H(3): Trideuteration.
MS_proline_endopeptidase
proline endopeptidase: Enzyme proline endopeptidase (EC 3.4.21.26).
MS_normalized_XIC_area
normalized XIC area: Normalized area of the extracted ion chromatogram (e.g. of a transition in SRM).
UNIMOD_Delta_H_6_C_7_O_4_
Delta:H(6)C(7)O(4): Methylglyoxal-derived tetrahydropyrimidine.
UNIMOD_NEIAA_2H_5_
NEIAA:2H(5): N-ethyl iodoacetamide-d5.
MS_fragment_mass_type_average
fragment mass type average: Mass type setting for fragment mass was average isotopic.
MS_ion_pair_formation_OBSOLETE
ion-pair formation: The reaction of a molecule to form both a positive ion and negative ion fragment ...
std::string URI
the URI for the resource.
MS_Libra
Libra: A program in the TPP that calculates PSM, peptide, and protein-level abundances based on N-cha...
MS_HiRes_ESI
HiRes ESI: IonSpec HiResESI MS.
MS_frag__immonium_ion
frag: immonium ion: Fragmentation information, type of product: immonium ion.
MS_external_offset
external offset: The position in the external data where the array begins.
MS_inlet_attribute
inlet attribute: Inlet properties that are associated with a value.
UNIMOD_Glu__Pro
Glu->Pro: Glu->Pro substitution.
UNIMOD_Glucuronyl
Glucuronyl: Hexuronic acid.
UNIMOD_HCysteinyl
HCysteinyl: S-homocysteinylation.
PEFF_ProteoformDb
ProteoformDb: Proteoform database flag.
MS_penning_ionization
penning ionization: Ionization that occurs through the interaction of two or more neutral gaseous spe...
UO_turbidity_unit
turbidity unit: A unit used to indicate the clarity of water or other solutions or suspensions,...
UNIMOD_Unknown_248
Unknown:248: Unidentified modification of 248.1986 found in open search.
MS_ProteomeDiscoverer_Static_Modification
ProteomeDiscoverer:Static Modification: Static Modification to all occurrences of a named amino acid.
MS_ProteomeDiscoverer_automatic_workload
ProteomeDiscoverer:automatic workload: Flag indicating automatic estimation of the workload level.
UO_radian
radian: A plane angle unit which is equal to the angle subtended at the center of a circle by an arc ...
UNIMOD_Lys__AminoadipicAcid
Lys->AminoadipicAcid: Alpha-amino adipic acid.
MS_area_normalization
area normalization: Normalization of areas below the curves.
MS_Mascot_Parser
Mascot Parser: Mascot Parser was used to analyze the spectra.
UNIMOD_Glu__Cys
Glu->Cys: Glu->Cys substitution.
MS_protein_group_level_global_FDR
protein group-level global FDR: Estimation of the global false discovery rate of protein groups.
MS_Surveyor_PDA
Surveyor PDA: Surveyor PDA.
MS_protein_group_level_quantification_datatype
protein group-level quantification datatype: The data type of the value reported in a QuantLayer for ...
MS_number_of_decoy_sequences
number of decoy sequences: The number of decoy sequences, if the concatenated target-decoy approach i...
MS_TOPP_MzTabExporter
TOPP MzTabExporter: Exports various XML formats to an mzTab file.
UNIMOD_Biotin_PEO_Amine
Biotin-PEO-Amine: Biotin polyethyleneoxide amine.
UNIMOD_Cys__Lys
Cys->Lys: Cys->Lys substitution.
UNIMOD_Hex_9_HexNAc_2_
Hex(9)HexNAc(2): Hex(9) HexNAc(2).
MS_precursor_ion_spectrum
precursor ion spectrum: Spectrum generated by scanning precursor m/z while monitoring a fixed product...
UNIMOD_Met__Phe
Met->Phe: Met->Phe substitution.
MS_excludes_supersede_includes
excludes supersede includes: A priority setting specifying that excluded targets have priority over t...
UO_count_unit
count unit: A dimensionless unit which denotes a simple count of things.
UNIMOD_Hypusine
Hypusine: Hypusine.
MS_PeptideShaker_PSM_confidence
PeptideShaker PSM confidence: The probability based PeptideShaker PSM confidence.
UNIMOD_Val__Trp
Val->Trp: Val->Trp substitution.
MS_MS_Numpress_positive_integer_compression_followed_by_zlib_compression
MS-Numpress positive integer compression followed by zlib compression: Compression using MS-Numpress ...
MS_ProLuCID
ProLuCID: The SEQUEST-like sequence search engine ProLuCID, developed in the Yates Lab at the Scripps...
MS_ProteomeDiscoverer_Spectrum_Grouper_Precursor_Mass_Criterion
ProteomeDiscoverer:Spectrum Grouper:Precursor Mass Criterion: Groups spectra measured within the give...
MS_TopMG
TopMG: A mass graph-based approach for the identification of modified proteoforms using top-down tand...
MS_METLIN
METLIN: Personal Metabolite Database for MassHunter Workstation. Software for identification of human...
MS_MaRiMba
MaRiMba: Software used to predict transitions for selected reaction monitoring experiments based on o...
MS_contact_toll_free_phone_number
contact toll-free phone number: Toll-free phone number of the contact person or organization.
UNIMOD_Phosphopantetheine
Phosphopantetheine: Phosphopantetheine.
MS_AXIMA_QIT
AXIMA-QIT: Shimadzu Biotech AXIMA-QIT MS.
UNIMOD_dHex_1_Hex_2_HexNAc_2_Sulf_1_
dHex(1)Hex(2)HexNAc(2)Sulf(1): DHex Hex(2) HexNAc(2) Sulf.
UNIMOD_SPITC_13C_6_
SPITC:13C(6): 4-sulfophenyl isothiocyanate (Heavy C13).
MS_magnetic_field_strength
magnetic field strength: A property of space that produces a force on a charged particle equal to qv ...
UNIMOD_dHex_2_Hex_2_HexNAc_3_Sulf_1_
dHex(2)Hex(2)HexNAc(3)Sulf(1): DHex(2) Hex(2) HexNAc(3) Sulf.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_v_Ions
ProteomeDiscoverer:SEQUEST:Weight of v Ions: Uses c ions for spectrum matching with this relative fac...
UNIMOD_Lys__Pro
Lys->Pro: Lys->Pro substitution.
MS_peak_picking
peak picking: Spectral peak processing conducted on the acquired data to convert profile data to cent...
UNIMOD_Met__AspSA
Met->AspSA: Methionine oxidation to aspartic semialdehyde.
UNIMOD_dHex_1_Hex_2_HexNAc_2_Pent_1_
dHex(1)Hex(2)HexNAc(2)Pent(1): DHex Hex(2) HexNAc(2) Pent.
MS_SEQUEST_sort_by_P
SEQUEST:sort by P: Sort order of SEQUEST search results given by the probability.
UNIMOD_Val__Lys
Val->Lys: Val->Lys substitution.
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_3_Sulf_1_
dHex(1)Hex(3)HexA(1)HexNAc(3)Sulf(1): DHex Hex(3) HexA HexNAc(3) Sulf.
UNIMOD_Ala__Asp
Ala->Asp: Ala->Asp substitution.
MS_proteogenomics_attribute
proteogenomics attribute: Proteogenomics attribute.
MS_maXis_4G
maXis 4G: Bruker Daltonics' maXis 4G: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_fed_supply_electrospray
fed supply electrospray: The sprayer is continuously fed with sample.
MS_SEQUEST_sort_by_Sf
SEQUEST:sort by Sf: Sort order of SEQUEST search results given by the SEQUEST result 'Sf'.
MS_esquireControl
esquireControl: Bruker software for data acquisition.
MS_box_smoothing
box smoothing (moving average smoothing): Reduces intensity spikes by averaging each point with two o...
MS_QIT
QIT (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three dimensional...
MS_MS_Numpress_short_logged_float_compression_followed_by_zlib_compression
MS-Numpress short logged float compression followed by zlib compression: Compression using MS-Numpres...
UNIMOD_QAT_2H_3_
QAT:2H(3): APTA d3.
MS_selected_precursor_m_z
selected precursor m/z: Mass-to-charge ratio of a precursor ion selected for fragmentation.
MS_ProteoWizard_chainsaw
ProteoWizard chainsaw: Filters and processes protein sequence databases.
UNIMOD_OxArgBiotin
OxArgBiotin: Oxidized arginine biotinylated with biotin-LC-hydrazide.
MS_noise_array
noise array: A data array of noise values.
UO_roentgen
roentgen: An exposure unit which is equal to the amount of radiation required to liberate positive an...
MS_SI_OBSOLETE
SI (suface ionization): The ionization of a neutral species when it interacts with a solid surface wi...
UNIMOD_Ala__Val
Ala->Val: Ala->Val substitution.
MS_false_localization_rate
false localization rate: Estimation of the false localization rate for modification site assignment.
MS_resolution_array
resolution array: A data array of resolution values.
MS_multiphoton_dissociation
multiphoton dissociation (photodissociation): A process wherein the reactant ion is dissociated as a ...
MS_neutral_loss_OBSOLETE
neutral loss: OBSOLETE: replaced by MS:1000336 (neutral loss): Leave this to PSI-MOD.
MS_database_IPI_chicken
database IPI_chicken: International Protein Index database for Gallus gallus sequences.
UO_einstein_per_square_meter_per_second
einstein per square meter per second: An irradiance unit which is equal to one einstein per square me...
MS_ultrafleXtreme
ultrafleXtreme: Bruker Daltonics' ultrafleXtreme: MALDI TOF.
UNIMOD_Label_13C_6_15N_1_
Label:13C(6)15N(1): 13C(6) 15N(1) Silac label.
UNIMOD_Thr__Val
Thr->Val: Thr->Val substitution.
UNIMOD_Cys__His
Cys->His: Cys->His substitution.
UNIMOD_Hex_3_HexNAc_7_
Hex(3)HexNAc(7): Hex(3) HexNAc(7).
UO_cells_per_milliliter
cells per milliliter: A unit of cell concentration which is equal to one cell in a volume of 1 millil...
MS_plasma_desorption
plasma desorption: The ionization of material in a solid sample by bombarding it with ionic or neutra...
UNIMOD_3_deoxyglucosone
3-deoxyglucosone: Condensation product of 3-deoxyglucosone.
MS_SILAC_quantitation_analysis
SILAC quantitation analysis: SILAC workflow (heavy, light, and sometimes medium peak).
MS_spectrum_title_OBSOLETE
spectrum title: OBSOLETE: replaced by MS:1000796 (spectrum title): Holds the spectrum title from diff...
MS_SRM_transition_ID
SRM transition ID: Identifier for an SRM transition in an external document describing additional inf...
MS_MS1_feature_maximum_intensity
MS1 feature maximum intensity: Maximum intensity of MS1 feature.
MS_role_type
role type: Role of a Person or Organization.
UNIMOD_NEM_2H_5_
NEM:2H(5): D5 N-ethylmaleimide on cysteines.
UO_square_meter
square meter: An area unit which is equal to an area enclosed by a square with sides each 1 meter lon...
MS_Pegasus
Pegasus: LECO GC time-of-flight mass spectrometer.
MS_6140_Quadrupole_LC_MS
6140 Quadrupole LC/MS: The 6140 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_mean_of_spectra
mean of spectra: Spectra is combined by calculating the mean of the spectra.
UNIMOD_Phe__Asn
Phe->Asn: Phe->Asn substitution.
UNIMOD_Tyr__Lys
Tyr->Lys: Tyr->Lys substitution.
UNIMOD_dHex_2_Hex_2_HexNAc_6_Sulf_1_
dHex(2)Hex(2)HexNAc(6)Sulf(1): DHex(2) Hex(2) HexNAc(6) Sulf.
UNIMOD_Hex_6_HexNAc_2_Phos_1_
Hex(6)HexNAc(2)Phos(1): Hex(6) HexNAc(2) Phos.
UO_linear_density_unit
linear density unit: A density unit which is a standard measure of the mass exerting an influence on ...
MS_small_molecule_quantification_datatype
small molecule quantification datatype: The value reported in a small molecule quantification.
UNIMOD_Hex_6_HexNAc_3_
Hex(6)HexNAc(3): Hex(6) HexNAc(3).
UNIMOD_Dimethylaminoethyl
Dimethylaminoethyl: Cys alkylation by dimethylaminoethyl halide.
MS_Arg_C
Arg-C: Endoproteinase Arg-C.
UO_femtomole
femtomole: A substance unit equal to 10^[-15] mol.
UNIMOD_Phe__Ala
Phe->Ala: Phe->Ala substitution.
MS_DBExporter
DBExporter: Exports data from an OpenMS database to a file.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Maximum_Neutral_Loss_Mass
ProteomeDiscoverer:Non-Fragment Filter:Maximum Neutral Loss Mass: Maximum allowed mass of a neutral l...
MS_ProteomeDiscoverer_Mascot_Significance_Middle
ProteomeDiscoverer:Mascot:Significance Middle: Calculated relaxed significance when performing a deco...
UNIMOD_Sulfide
Sulfide: Persulfide.
MS_Conversion_to_mzData
Conversion to mzData: Conversion of a file format to Proteomics Standards Initiative mzData file form...
std::multimap< std::string, std::string > propertyValues
UO_mass_unit
mass unit: A unit which is a standard measure of the amount of matter/energy of a physical object.
MS_base_peak
base peak: The peak in a mass spectrum that has the greatest intensity. This term may be applied to t...
UNIMOD_Hex_1_HexNAc_3_NeuAc_1_
Hex(1)HexNAc(3)NeuAc(1): Hex HexNAc(3) NeuAc.
MS_ion_mobility_spectrometry_OBSOLETE
ion mobility spectrometry: The separation of ions according to their velocity through a buffer gas un...
MS_DI
DI (desorption ionization): The formation of ions from a solid or liquid material after the rapid vap...
UNIMOD_Hex_9_HexNAc_1_
Hex(9)HexNAc(1): Hex(9) HexNAc.
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuAc_1_Sulf_1_
dHex(1)Hex(5)HexNAc(3)NeuAc(1)Sulf(1): DHex Hex(5) HexNAc(3) NeuAc Sulf.
MS_Genespring_MS
Genespring MS: Software for quantitation and statistical analysis of TOF and Q-TOF LC/MS data.
MS_sample_concentration
sample concentration: Concentration of sample in picomol/ul, femtomol/ul or attomol/ul solution used.
UNIMOD_Hex_5_HexNAc_1_
Hex(5)HexNAc(1): Hex(5) HexNAc.
MS_biological_replicate
biological replicate: The study variable is 'biological replicate'. This means, the run was generated...
MS_single_peak_list_nativeID_format
single peak list nativeID format: Native format defined by file=xsd:IDREF.
MS_API_100
API 100: Applied Biosystems/MDS SCIEX API 100 MS.
UO_rad
rad: An absorbed dose unit which is equal to 0.01 gray (Gy).
MS_PeptideShaker_protein_group_confidence
PeptideShaker protein group confidence: The probability based PeptideShaker protein group confidence.
UNIMOD_dHex_3_Hex_2_HexA_1_HexNAc_2_Sulf_1_
dHex(3)Hex(2)HexA(1)HexNAc(2)Sulf(1): DHex(3) Hex(2) HexA HexNAc(2) Sulf.
MS_SCIEX_software
SCIEX software: SCIEX or Applied Biosystems software for data acquisition and analysis.
MS_ProteomeDiscoverer_Spectrum_Selector_Use_New_Precursor_Reevaluation
ProteomeDiscoverer:Spectrum Selector:Use New Precursor Reevaluation: Determines if to use precursor r...
UNIMOD_Phe__Gly
Phe->Gly: Phe->Gly substitution.
MS_mass_analyzer
mass analyzer: Terms used to describe the Analyzer.
MS_product_ion_OBSOLETE
product ion: An ion formed as the product of a reaction involving a particular precursor ion....
MS_transition_validation_method
transition validation method: The strategy used to validate that a transition is effective.
MS_6220_Time_of_Flight_LC_MS
6220 Time-of-Flight LC/MS: The 6220 Time-of-Flight LC/MS is a Agilent liquid chromatography instrumen...
UNIMOD_Label_2H_6_15N_1_
Label:2H(6)15N(1): Label:2H(6)15N(1).
UNIMOD_Xlink_DTSSP_192_
Xlink:DTSSP[192]: Water quenched monolink of DSP/DTSSP crosslinker.
UNIMOD_Delta_H_6_C_6_O_1_
Delta:H(6)C(6)O(1): Acrolein addition +94.
MS_MS_Numpress_linear_prediction_compression
MS-Numpress linear prediction compression: Compression using MS-Numpress linear prediction compressio...
MS_constant_neutral_loss_spectrum
constant neutral loss spectrum: A spectrum formed of all product ions that have been produced with a ...
MS_protein_level_local_FDR
protein-level local FDR: Estimation of the local false discovery rate of proteins.
UNIMOD_Methyl_Acetyl_2H_3_
Methyl+Acetyl:2H(3): Mono-methylated lysine labelled with Acetyl_heavy.
UNIMOD_LRGG_methyl
LRGG+methyl: LeumethylArgGlyGly.
UNIMOD_Arg__Thr
Arg->Thr: Arg->Thr substitution.
MS_small_molecule_list_attribute
small molecule list attribute: Attribute describing a small molecule list.
UNIMOD_Hex_5_HexNAc_2_Phos_1_
Hex(5)HexNAc(2)Phos(1): Hex(5) HexNAc(2) Phos.
MS_ProteinExtractor_MascotUseIdentityScore
ProteinExtractor:MascotUseIdentityScore:
MS_hydrazideTMT_quantitation_analysis
hydrazideTMT quantitation analysis: Quantitation analysis using the Thermo Fisher carbonyl-reactive h...
MS_detector_resolution
detector resolution: The resolving power of the detector to detect the smallest difference between tw...
PEFF_VariantComplex
VariantComplex: Simple sequence variation of a single amino acid change. A change to a stop codon is ...
MS_matrix_assisted_laser_desorption_ionization
matrix-assisted laser desorption ionization: The formation of gas-phase ions from molecules that are ...
MS_dye_laser
dye-laser: Dye lasers use an organic dye as the gain medium.
MS_fringing_field
fringing field: The electric or magnetic field that extends from the edge of a sector,...
MS_______E_E_
(?<=[^E]E): Regular expression for glutamyl endopeptidase.
UO_image_resolution_unit
image resolution unit: An information unit which is a standard measure of the detail an image holds.
MS_EM
EM (electron multiplier): A device to amplify the current of a beam or packet of charged particles or...
MS_Acquity_SQD
Acquity SQD: Waters quadrupole based Acquity SQD.
MS_database_sequence_details
database sequence details: Details about a single database sequence.
UNIMOD_GeranylGeranyl
GeranylGeranyl: Geranyl-geranyl.
MS_Paragon__background_correction
Paragon: background correction: The Paragon method setting that controls whether the 'Background Corr...
MS_conversion_software
conversion software: Computer software primarily designed to convert data represented in one format t...
MS_Scaffold_nativeID_format
Scaffold nativeID format: Scaffold native ID format.
MS_iTRAQ_reagent
iTRAQ reagent: Isobaric tag for relative and absolute quantitation (iTRAQ or iTRAQH) reagent.
MS_ECD
ECD (electron capture dissociation): A process in which a multiply protonated molecules interacts wit...
MS_Conversion_to_mzMLb
Conversion to mzMLb: Conversion of a file format to Proteomics Standards Initiative mzMLb file format...
MS_ProteinExtractor_MascotWeighting
ProteinExtractor:MascotWeighting: Influence of Mascot search engine in the process of merging the sea...
MS_CI
CI (chemical ionization): The formation of a new ion by the reaction of a neutral species with an ion...
MS_ProteomeDiscoverer_Source_Files_old_OBSOLETE
ProteomeDiscoverer:Source Files old: Input pepXML files (old).
UNIMOD_Lys__Ser
Lys->Ser: Lys->Ser substitution.
UNIMOD_Hex_1_HexNAc_1_NeuAc_3_
Hex(1)HexNAc(1)NeuAc(3): Hex HexNAc NeuAc(3).
UNIMOD_dHex_1_Hex_5_HexNAc_4_Sulf_1_
dHex(1)Hex(5)HexNAc(4)Sulf(1): DHex Hex(5) HexNAc(4) Sulf.
MS_Bruker_software
Bruker software: Bruker software for data acquisition and analysis.
MS_Mascot_UseUnigeneClustering
Mascot:UseUnigeneClustering: If true, then the search results are against a nucleic acid database and...
MS_6520B_Q_TOF_LC_MS
6520B Q-TOF LC/MS: The 6520B Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instr...
MS_parent_mass_type_mono
parent mass type mono: Mass type setting for parent mass was monoisotopic.
MS_Shimadzu_Biotech_database_entity
Shimadzu Biotech database entity: Shimadzu Biotech format.
UNIMOD_Dipyridyl
Dipyridyl: Cys modified with dipy ligand.
UNIMOD_Met__Arg
Met->Arg: Met->Arg substitution.
MS_maXis
maXis: Bruker Daltonics' maXis: ESI Q-TOF, Nanospray, APCI, APPI.
MS_MALDI_matrix_application
MALDI matrix application: Attributes to describe the technique how the sample is prepared with the ma...
MS_isolation_window_attribute
isolation window attribute: Isolation window parameter.
MS_electron_induced_excitation_in_organics_OBSOLETE
electron-induced excitation in organics: The reaction of an ion with an electron in which the transla...
MS_study_variable_average_function
study variable average function: Function used to calculate the study variable quantification value.
MS_LipiDex
LipiDex: An integrated software package for high-confidence lipid identification.
MS_lab_head
lab head: The scientist responsible for personnel, grants, and instrumentation in a functional labora...
UO_surface_tension_unit
surface tension unit: A unit which is a standard measure of the ability of a liguid to attraction of ...
UNIMOD_Pro__Pyrrolidone
Pro->Pyrrolidone: Pyrrolidone from Proline.
MS_taxonomy__scientific_name
taxonomy: scientific name: This term is used if a scientific name is specified, e....
UNIMOD_Cation_Al_III_
Cation:Al[III]: Replacement of 3 protons by aluminium.
MS_baseline_array
baseline array: A data array of signal baseline values (the signal in the absence of analytes).
UNIMOD_Gln__pyro_Glu
Gln->pyro-Glu: Pyro-glu from Q.
MS_consecutive_reaction_monitoring_OBSOLETE_1000327
consecutive reaction monitoring: A type of MS2 experiments with three or more stages of m/z separatio...
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge4: Standard medium confidence XCorr para...
PEFF_ID
ID: UniProtKB specific Protein identifier ID; a UniProtKB term.
MS_compact
compact: Bruker Daltonics' compact: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_matrix_solution_concentration
matrix solution concentration: Concentration of the chemical solution used as matrix.
MS_Isotopomeric_ion_OBSOLETE
Isotopomeric ion: Isomeric ion having the same numbers of each isotopic atom but differing in their p...
MS_TOPP_SpectraFilterScaler
TOPP SpectraFilterScaler: Applies a filter to peak spectra after intensity scaling according to rank.
MS_LECO_instrument_model
LECO instrument model: LECO instrument model.
UNIMOD_dHex_2_Hex_3_HexNAc_5_
dHex(2)Hex(3)HexNAc(5): DHex(2) Hex(3) HexNAc(5).
UNIMOD_Hex_2_HexNAc_1_Me_1_
Hex(2)HexNAc(1)Me(1): Hex(2) HexNAc Me.
UNIMOD_Arg__GluSA
Arg->GluSA: Arginine oxidation to glutamic semialdehyde.
MS_acquisition_parameter
acquisition parameter: Parameters used in the mass spectrometry acquisition.
MS_MGF_raw_scans_OBSOLETE
MGF raw scans: OBSOLETE: replaced by MS:1000798 (peak list raw scans): This term can hold the raw sca...
MS_Cliquid
Cliquid: SCIEX Cliquid software for data analysis and quantitation.
UNIMOD_Lys__Arg
Lys->Arg: Lys->Arg substitution.
UNIMOD_Label_13C_5_15N_1_
Label:13C(5)15N(1): 13C(5) 15N(1) Silac label.
MS_4000_QTRAP
4000 QTRAP: Applied Biosystems/MDS SCIEX Q 4000 TRAP MS.
MS_No_PTMs_are_included_in_the_dataset
No PTMs are included in the dataset: No post-translational-modifications are been included in the ide...
MS_DiART_reagent_119
DiART reagent 119: The name of the sample labelled with the DiART reagent 119.
MS_ion_series_considered_in_search
ion series considered in search: The description of the ion fragment series (including charges and ne...
MS_ReAdW
ReAdW: A software program for converting Thermo Finnigan RAW file format to mzXML or mzML....
UNIMOD_Dimethyl_2H_4_
Dimethyl:2H(4): DiMethyl-CHD2.
MS_accurate_mass_OBSOLETE
accurate mass: An experimentally determined mass that is can be to determine a unique elemental formu...
UNIMOD_SulfanilicAcid
SulfanilicAcid: Light Sulfanilic Acid (SA) C12.
UNIMOD_dichlorination
dichlorination: Dichlorination.
UNIMOD_Hex_3_HexNAc_5_Sulf_1_
Hex(3)HexNAc(5)Sulf(1): Hex(3) HexNAc(5) Sulf.
MS_numerator_data_type_attribute
numerator data type attribute: Attribute describing the data type of the numerator of a ratio.
MS_ProteomeDiscoverer_3__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:3. Dynamic Modification: ProteomeDiscoverer's 3rd dynamic post-translational modif...
MS_LTQ_Orbitrap_Velos
LTQ Orbitrap Velos: Finnigan LTQ Orbitrap Velos MS.
UNIMOD_Trp__Lys
Trp->Lys: Trp->Lys substitution.
MS_LipidQA
LipidQA: Lipid qualitative/quantitative analysis software for identification and quantitation of comp...
MS_Analyst
Analyst: SCIEX or Applied Biosystems|MDS SCIEX software for data acquisition.
UNIMOD_Cys__Gly
Cys->Gly: Cys->Gly substitution.
MS_MassHunter_Qualitative_Analysis
MassHunter Qualitative Analysis: Software for data analysis of data from 6000 series instruments.
UNIMOD_Hex_1_HexNAc_4_dHex_1_Sulf_1_
Hex(1)HexNAc(4)dHex(1)Sulf(1): Sulf dHex Hex HexNAc(4).
MS_Progenesis_protein_group_normalised_abundance
Progenesis:protein group normalised abundance: The data type normalised abundance for protein groups ...
MS_instrument_additional_description_OBSOLETE
instrument additional description: Additional terms to describe the instrument as outlined in the mas...
UNIMOD_PhosphoHex_2_
PhosphoHex(2): H1O3P1Hex2.
UNIMOD_Arg__Val
Arg->Val: Arg->Val substitution.
MS_peptide_raw_area_OBSOLETE
peptide raw area: Peptide raw area.
MS_No_fixed_modifications_searched
No fixed modifications searched: No fixed modifications are included as a parameter for the search,...
UNIMOD_Cation_Cu_I_
Cation:Cu[I]: Replacement of proton by copper.
MS_retention_time_window_lower_offset
retention time window lower offset: The extent of the retention time window in time units below the t...
MS_1200_series_LC_MSD_VL
1200 series LC/MSD VL: The LC/MSD VL ion trap is part of the family of Agilent ion trap mass spectrom...
MS_collision_gas
collision gas: An inert gas used for collisional excitation. The term target gas is not recommended.
MS_Paragon__sample_type
Paragon: sample type: The Paragon method setting indicating the type of sample at the high level,...
UO_joule
joule: An energy unit which is equal to the energy required when a force of 1 newton moves an object ...
UNIMOD_Pro__Pyrrolidinone
Pro->Pyrrolidinone: Proline oxidation to pyrrolidinone.
UNIMOD_dHex_1_Hex_7_HexNAc_4_
dHex(1)Hex(7)HexNAc(4): Fucosylated biantennary + 2 alphaGal.
MS_MyCompoundID
MyCompoundID: Metabolite identification tool MyCompoundID.
UNIMOD_HydroxymethylOP
HydroxymethylOP: 2-ammonio-6-[4-(hydroxymethyl)-3-oxidopyridinium-1-yl]- hexanoate.
UO_atto
atto: A prefix in the metric system denoting a factor of 10 to the power of -18.
MS_customization
customization: Free text description of a single customization made to the instrument; for several mo...
UNIMOD_BEMAD_C
BEMAD_C: Beta elimination of alkylated Cys followed by Michael addition of DTT.
MS_constant_neutral_mass_gain_spectrum
constant neutral mass gain spectrum (constant neutral gain spectrum): A spectrum formed of all produc...
MS_photomultiplier
photomultiplier: A detector for conversion of the ion/electron signal into photon(s) which are then a...
MS_molecular_formula
molecular formula: A chemical compound formula expressing the number of atoms of each element present...
MS_ProteoWizard_software
ProteoWizard software: ProteoWizard software for data processing and analysis. Primarily developed by...
MS_analyzer
analyzer (mass analyzer): Terms used to describe the Analyzer.
UNIMOD_Chlorination
Chlorination: Chlorination of tyrosine residues.
MS_Shimadzu_instrument_model
Shimadzu instrument model: Shimadzu corporation instrument model.
MS_scan
scan: Function or process of the mass spectrometer where it records a spectrum.
MS_kinetic_method_OBSOLETE
kinetic method: An approach to determination of ion thermodynamic quantities by a bracketing procedur...
MS_ProteinScape_IntensityCoverage
ProteinScape:IntensityCoverage: The intensity coverage of the identified peaks in the spectrum calcul...
MS_Q_Exactive
Q Exactive: Thermo Scientific Q Exactive.
UNIMOD_Label_13C_6_15N_2_
Label:13C(6)15N(2): 13C(6) 15N(2) Silac label.
MS_TOPP_SpectraFilterParentPeakMower
TOPP SpectraFilterParentPeakMower: Filters putative unfragmented precursor ions from tandem spectra.
MS_PSM_level_global_FDR
PSM-level global FDR: Estimation of the global false discovery rate of peptide spectrum matches.
MS_stable_ion_OBSOLETE
stable ion: An ion with internal energy sufficiently low that it does not rearrange or dissociate pri...
MS_group_member_with_undefined_relationship_OR_ortholog_protein
group member with undefined relationship OR ortholog protein: TO ENDETAIL: a really generic relations...
UO_unit_of_normality
unit of normality: A unit of concentration which highlights the chemical nature of salts.
MS_SCIEX_TOF_TOF_T2D_nativeID_format
SCIEX TOF/TOF T2D nativeID format: Native format defined by file=xsd:IDREF.
MS_Shimadzu_Corporation_software
Shimadzu Corporation software: Shimadzu Corporation software.
PEFF_DatabaseDescription
DatabaseDescription: Short Description of the PEFF.
MS_pre_ionization_state_OBSOLETE
pre-ionization state: An electronic state capable of undergoing auto-Ionization.
MS_static_field
static field: An electric or magnetic field that does not change in time.
MS_linked_scan_at_constant_b_e_OBSOLETE
linked scan at constant b/e: A linked scan at constant B/E may be performed on a sector mass spectrom...
UNIMOD_dHex_1_Hex_4_
dHex(1)Hex(4): Hex4dHex1.
MS_intermediate_analysis_format
intermediate analysis format: Type of the source file, the mzIdentML was created from.
MS_ESA
ESA (electrostatic energy analyzer): A device consisting of conducting parallel plates,...
UNIMOD_Gly__Asn
Gly->Asn: Gly->Asn substitution.
MS_tandem_mass_spectrometer_OBSOLETE
tandem mass spectrometer: A mass spectrometer designed for mass spectrometry/mass spectrometry.
UNIMOD_Ala__Ser
Ala->Ser: Ala->Ser substitution.
MS_ACQUITY_UPLC_H_Class
ACQUITY UPLC H-Class: Waters LC-system ACQUITY UPLC H-Class.
UO_normal
normal: A unit of concentration which is one gram equivalent of a solute per liter of solution....
MS_mattauch_herzog_geometry_OBSOLETE
mattauch-herzog geometry: An arrangement for a double-focusing mass spectrometer in which a deflectio...
UNIMOD_Iodoacetanilide
Iodoacetanilide: Iodoacetanilide derivative.
MS_SRM_spectrum
SRM spectrum: Spectrum obtained when data are acquired from specific product ions corresponding to m/...
MS_p_value_OBSOLETE
p-value: Quality estimation by p-value.
UNIMOD_Xlink_DST_114_
Xlink:DST[114]: Intact DST crosslinker.
UNIMOD_Saligenin
Saligenin: O-toluene.
UNIMOD_unimod_root_node
unimod root node: The root node of the unimod modifications ontology.
UNIMOD_GIST_Quat_2H_6_
GIST-Quat:2H(6): Quaternary amine labeling reagent heavy form (+6amu), N-term & K.
MS_UniProtKB_XML_sequence_format
UniProtKB XML sequence format: XML-based format used by UniProtKB for sequence entries.
UNIMOD_Label_13C_6_15N_2__Acetyl
Label:13C(6)15N(2)+Acetyl: Acetyl_13C(6) 15N(2) Silac label.
UNIMOD_Trp__Ala
Trp->Ala: Trp->Ala substitution.
MS_full_scan_OBSOLETE
full scan: Feature of the ion trap mass spectrometer where MS data is acquired over a mass range.
MS_protein_level_PSM_counts
protein level PSM counts: The number of spectra identified for this protein in spectral counting.
UNIMOD_Gly__Ala
Gly->Ala: Gly->Ala substitution.
MS_Andromeda
Andromeda: Andromeda is a peptide search engine.
MS_protein_value__mean_of_peptide_ratios
protein value: mean of peptide ratios: Protein quantification value calculated as mean of peptide rat...
MS_APPI_OBSOLETE
APPI (Atmostpheric Pressure Photoionization): Atmospheric pressure chemical ionization in which the r...
MS_TopMG_thread_number
TopMG:thread number: Number of threads used in TopMG.
MS_SEQUEST_sort_by_Ref
SEQUEST:sort by Ref: Sort order of SEQUEST search results given by the reference.
MS_SEQUEST_consensus_score
SEQUEST:consensus score: The SEQUEST result 'Consensus Score'.
UNIMOD_Hex_7_HexNAc_2_
Hex(7)HexNAc(2): Hex(7) HexNAc(2).
MS_DB_MW_filter
DB MW filter: Filtering applied specifically by protein molecular weight, specified as either a range...
UNIMOD_2_monomethylsuccinyl
2-monomethylsuccinyl: S-(2-monomethylsuccinyl) cysteine.
MS_MPD
MPD (photodissociation): A process wherein the reactant ion is dissociated as a result of absorption ...
UO_unit
unit: A unit of measurement is a standardized quantity of a physical quality.
UNIMOD_Pyro_carbamidomethyl
Pyro-carbamidomethyl: S-carbamoylmethylcysteine cyclization (N-terminus).
UNIMOD_IMEHex_2_NeuAc_1_
IMEHex(2)NeuAc(1): Glycosylation with IME linked Hex(2) NeuAc.
MS_7800_Quadrupole_ICP_MS
7800 Quadrupole ICP-MS: The 7800 Quadrupole ICP-MS system is a Agilent inductively couple plasma inst...
MS_scan_mode_OBSOLETE
scan mode: OBSOLETE.
MS_sample_name
sample name: A reference string relevant to the sample under study.
MS_protein_modifications
protein modifications: Encoding of modifications of the protein sequence from the specified accession...
UNIMOD_Trp__Hydroxykynurenin
Trp->Hydroxykynurenin: Tryptophan oxidation to hydroxykynurenin.
MS_Xevo_G2_Tof
Xevo G2 Tof: Waters oa-ToF based Xevo G2 Tof.
MS_phosphoRS_score
phosphoRS score: phosphoRS score for PTM site location at the PSM-level.
MS_mass_resolving_power
mass resolving power: The observed mass divided by the difference between two masses that can be sepa...
MS_MassHunter_Data_Acquisition
MassHunter Data Acquisition: Software for data acquisition of 6000 series instruments.
UO_parts_per_quadrillion
parts per quadrillion: A dimensionless concentration notation which denotes the amount of a given sub...
UNIMOD_Xlink_DSSO_104_
Xlink:DSSO[104]: Sulfenic acid fragment of DSSO crosslinker.
UNIMOD_Delta_O_4_
Delta:O(4): Tryptophan oxidation to dihydroxy-N-formaylkynurenine.
MS_mass_analyzed_ion_kinetic_energy_spectrometry_OBSOLETE
mass analyzed ion kinetic energy spectrometry: Spectra that are obtained from a sector mass spectrome...
MS_IsoProbe_T
IsoProbe T: Waters IsoProbe T MS.
MS_base_peak_m_z
base peak m/z: M/z value of the signal of highest intensity in the mass spectrum.
UNIMOD_Label_2H_4__GG
Label:2H(4)+GG: Ubiquitination 2H4 lysine.
MS_regular_expressions_for_a_GUID
).
MS_BP
BP (base peak): The peak in a mass spectrum that has the greatest intensity. This term may be applied...
UNIMOD_Delta_H__4_O_2_
Delta:H(-4)O(2): Tryptophan oxidation to beta-unsaturated-2,4-bis-tryptophandione.
UNIMOD_dHex_3_Hex_2_HexNAc_4_
dHex(3)Hex(2)HexNAc(4): DHex(3) Hex(2) HexNAc(4).
MS_Q1_spectrum
Q1 spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stage ...
UNIMOD_HexNAc_2_NeuAc_1_Sulf_1_
HexNAc(2)NeuAc(1)Sulf(1): HexNAc(2) NeuAc Sulf.
MS_MRMaid_peptide_score
MRMaid:peptide score: Score in MRMaid to indicate the expected performance of the peptide in SRM.
UNIMOD_Delta_H_4_C_6_
Delta:H(4)C(6): Acrolein addition +76.
MS_chemical_ionization
chemical ionization: The formation of a new ion by the reaction of a neutral species with an ion....
MS_isobaric_label_quantitation_analysis
isobaric label quantitation analysis: Quantitation analysis using an isobaric labelling workflow.
MS_molecules_per_cell
molecules per cell: The absolute abundance of protein in a cell.
UO_microampere
microampere: An electric current unit current which is equal to one millionth of an ampere or 10^[-6]...
UNIMOD_Hex_2_HexNAc_1_NeuGc_4_
Hex(2)HexNAc(1)NeuGc(4): Hex(2) HexNAc NeuGc(4).
UNIMOD_Octanoyl
Octanoyl: Octanoyl.
UNIMOD_Met__Ala
Met->Ala: Met->Ala substitution.
MS_V8_E
V8-E: Cleavage agent V8-E.
MS_M_LDI_LR
M@LDI LR: Waters oa-ToF based MALDI LR.
UNIMOD_ISD_z_2_ion
ISD_z+2_ion: ISD (z+2)-series.
MS_TDC
TDC (time-digital converter): A device for converting a signal of sporadic pluses into a digital repr...
UNIMOD_Propionamide_2H_3_
Propionamide:2H(3): Acrylamide d3.
MS_DiLeu_reagent_115
DiLeu reagent 115: The name of the sample labelled with the DiLeu reagent 115.
MS_two_dimensional_liquid_chromatography_with_fixed_modulation_time
two-dimensional liquid chromatography with fixed modulation time: Two-dimensional liquid chromatograp...
MS_precursor_activation
precursor activation: Terms to describe the precursor activation.
MS_Mascot_MaxProteinHits
Mascot:MaxProteinHits: The number of protein hits to display in the report. If 'Auto',...
MS_peptide_sequence_level_e_value
peptide sequence-level e-value: Estimation of the e-value for distinct peptides once redundant identi...
MS_Mascot_query_number
Mascot query number: Native format defined by query=xsd:nonNegativeInteger.
MS_decoy_DB_from_IPI_zebrafish_OBSOLETE
decoy DB from IPI_zebrafish: Decoy database from a International Protein Index database for Danio rer...
UO_nanosecond
nanosecond: A time unit which is equal to one thousandth of one millionth of a second or 10^[-9] s.
UNIMOD_Tyr__Trp
Tyr->Trp: Tyr->Trp substitution.
UNIMOD_dHex_2_Hex_5_HexNAc_2_Me_1_
dHex(2)Hex(5)HexNAc(2)Me(1): Me dHex(2) Hex(5) HexNAc(2).
UO_milliunits_per_milliliter
milliunits per milliliter: A unit per milliliter unit which is equal to one thousandth of a unit of a...
MS_label_free_raw_feature_quantitation
label-free raw feature quantitation: Label-free raw feature quantitation.
MS_SCIEX_TOF_TOF_T2D_format
SCIEX TOF/TOF T2D format: Applied Biosystems/MDS Analytical Technologies TOF/TOF instrument export fo...
MS_ProteinScape_PFFSolverExp
ProteinScape:PFFSolverExp: The ProteinSolver exp value stored by ProteinScape.
MS_metastable_ion_OBSOLETE
metastable ion: An ion that is formed with internal energy higher than the threshold for dissociation...
UNIMOD_Hex_3_HexNAc_3_Sulf_1_
Hex(3)HexNAc(3)Sulf(1): Hex(3) HexNAc(3) Sulf.
UO_fluid_ounce
fluid ounce: An imperial volume unit which is equivalent to 28.413,0625 millilitres.
MS_decoy_DB_generation_algorithm
decoy DB generation algorithm: Name of algorithm used for decoy generation.
MS_exact_mass_OBSOLETE
exact mass: The calculated mass of an ion or molecule containing a single isotope of each atom.
UNIMOD_NIPCAM
NIPCAM: N-isopropylcarboxamidomethyl.
UNIMOD_O_Dimethylphosphate
O-Dimethylphosphate: O-Dimethylphosphorylation.
UNIMOD_dHex_3_Hex_4_HexNAc_4_Sulf_1_
dHex(3)Hex(4)HexNAc(4)Sulf(1): DHex(3) Hex(4) HexNAc(4) Sulf.
MS_DiLeu_reagent_116
DiLeu reagent 116: The name of the sample labelled with the DiLeu reagent 116.
MS_Morpheus_summed_Morpheus_score
Morpheus:summed Morpheus score: Summed Morpheus score for protein groups.
MS_wavelength_array
wavelength array: A data array of electromagnetic radiation wavelength values.
UNIMOD_ICPL_2H_4_
ICPL:2H(4): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, medium form.
MS_group_PSMs_by_sequence_with_modifications
group PSMs by sequence with modifications: Group PSMs by distinct peptide sequence with taking modifi...
MS_Anubis
Anubis: Anubis software for selected reaction monitoring data.
MS_leading_protein
leading protein: At least one protein within each group should be annotated as a leading protein to i...
UNIMOD_Myristoyl
Myristoyl: Myristoylation.
UNIMOD_Label_13C_4_15N_2__GG
Label:13C(4)15N(2)+GG: 13C(4) 15N(2) Lysine glygly.
MS_ETD
ETD (electron transfer dissociation): A process to fragment ions in a mass spectrometer by inducing f...
UNIMOD_Hex_4_HexNAc_3_NeuGc_1_
Hex(4)HexNAc(3)NeuGc(1): Hex(4) HexNAc(3) NeuGc.
MS_OMSSA
OMSSA: Open Mass Spectrometry Search Algorithm was used to analyze the spectra.
MS_spControl
spControl: Bruker software for data acquisition.
UO_rood
rood: An area unit which is equivalent to 1 furlong x 1 rod. This is equal to an area of 1,...
UO_picosecond
picosecond: A time unit which is equal to 10^[-12] s.
UNIMOD_Oxidation_NEM
Oxidation+NEM: N-ethylmaleimide on cysteine sulfenic acid.
UNIMOD_Ala__Gln
Ala->Gln: Ala->Gln substitution.
UNIMOD_dHex_1_Hex_4_HexNAc_2_
dHex(1)Hex(4)HexNAc(2): DHex Hex(4) HexNAc(2).
UNIMOD_MeMePhosphorothioate
MeMePhosphorothioate: S-Methyl Methyl phosphorothioate.
UNIMOD_TMAB_2H_9_
TMAB:2H(9): D9-4-trimethyllammoniumbutyryl-.
UNIMOD_Asp__Arg
Asp->Arg: Asp->Arg substitution.
MS_Element_2
Element 2: Thermo Scientific Element 2 HR-ICP-MS.
MS_activation
activation (precursor activation): Terms to describe the precursor activation.
UNIMOD_Ethanolyl
Ethanolyl: Ethanolation.
UO_angle_unit
angle unit: A unit which is a standard measure of the figure or space formed by the junction of two l...
UNIMOD_Pro__Met
Pro->Met: Pro->Met substitution.
UNIMOD_Unknown_177
Unknown:177: Unidentified modification of 176.7462 found in open search.
MS_peptide_D_Score
peptide:D-Score: D-Score for PTM site location at the peptide-level.
MS_Bioworks
Bioworks: Thermo Finnigan software for data analysis of peptides and proteins.
UNIMOD_Biotin_Thermo_33033_H
Biotin:Thermo-33033-H: Sulfo-SBED Label Photoreactive Biotin Crosslinker minus Hydrogen.
UNIMOD_4AcAllylGal
4AcAllylGal: 2,3,4,6-tetra-O-Acetyl-1-allyl-alpha-D-galactopyranoside modification of cysteine.
MS_ion_selection_attribute
ion selection attribute: Ion selection properties that are associated with a value.
UNIMOD_LG_pyrrole
LG-pyrrole: Levuglandinyl-lysine pyrrole adduct.
MS_Exactive_Plus
Exactive Plus: Thermo Scientific Exactive Plus MS.
UO_curie_per_liter
curie per liter: A unit of radioactivity concentration which is equal to one curie in a volume of 1 l...
MS_Shimadzu_Scientific_Instruments_instrument_model
Shimadzu Scientific Instruments instrument model: Shimadzu Scientific Instruments instrument model.
MS_Paragon__quantitation
Paragon: quantitation: The Paragon method setting that controls whether quantitation analysis is cond...
MS_ProteomeDiscoverer_Number_of_Spectra_Processed_At_Once
ProteomeDiscoverer:Number of Spectra Processed At Once: Number of spectra processed at once in a Prot...
MS_API_300
API 300: Applied Biosystems/MDS SCIEX API 300 MS.
MS_ProteinExtractor_MinNumberOfPeptides
ProteinExtractor:MinNumberOfPeptides: The minimum number of proteins to consider.
MS_ProLuCID_xcorr
ProLuCID:xcorr: The ProLuCID result 'XCorr'.
UNIMOD_Hex_2_HexNAc_2_NeuAc_2_
Hex(2)HexNAc(2)NeuAc(2): Hex(2) HexNAc(2) NeuAc(2).
UNIMOD_dHex_1_Hex_7_HexNAc_3_
dHex(1)Hex(7)HexNAc(3): DHex Hex(7) HexNAc(3).
UNIMOD_AEBS
AEBS: Aminoethylbenzenesulfonylation.
MS_experimental_condition__healthy_
experimental condition 'healthy': The experimental condition is 'healthy' in contrast to 'disease'.
MS_ProteomeDiscoverer_Number_of_predicted_correct_proteins
ProteomeDiscoverer:Number of predicted correct proteins: Total number of predicted correct protein id...
MS_____W_
(?<=W): Regular expression for 2-iodobenzoate.
MS_Comet_matched_ions
Comet:matched ions: The Comet result 'Matched Ions'.
MS_Paragon__digestion
Paragon: digestion: The Paragon method setting indicating the actual digestion agent - unlike other s...
UNIMOD_Hex_3_HexNAc_2_NeuAc_1_
Hex(3)HexNAc(2)NeuAc(1): Hex(3) HexNAc(2) NeuAc.
MS_TMT_reagent_130
TMT reagent 130: The name of the sample labelled with the TMT reagent 130.
UNIMOD_Phycoerythrobilin
Phycoerythrobilin: Phycoerythrobilin.
UNIMOD_HPG
HPG: Hydroxyphenylglyoxal arginine.
MS_protein_group_level_combined_FDRScore
protein group-level combined FDRScore: mzidLibrary Combined FDRScore for proteins specifically obtain...
MS_Paragon_unused_protscore
Paragon:unused protscore: The Paragon result 'Unused ProtScore'.
MS_mass_defect_OBSOLETE
mass defect: The difference between the monoisotopic and nominal mass of a molecule or atom.
MS_Phenyx_Scoring_Model
Phenyx:Scoring Model: The selected scoring model in Phenyx.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Neutral_Loss_Peaks
ProteomeDiscoverer:Non-Fragment Filter:Remove Neutral Loss Peaks: Determines whether neutral loss pea...
UNIMOD_Xlink_BS2G_113_
Xlink:BS2G[113]: Ammonium-quenched monolink of BS2-G crosslinker.
MS_scan_start_time
scan start time: The time that an analyzer started a scan, relative to the start of the MS run.
MS_TopPIC_shift_num
TopPIC:shift num: Maximum number of unexpected modifications in a proteoform spectrum match.
MS_DirecTag
DirecTag: Tabb Lab software for generating sequence tags from tandem mass spectra.
MS_Mascot_ProteinScoringMethod
Mascot:ProteinScoringMethod: Mascot protein scoring method; either 'Standard' or 'MudPIT'.
UNIMOD_dHex_2_Hex_4_HexNAc_3_
dHex(2)Hex(4)HexNAc(3): DHex(2) Hex(4) HexNAc(3).
MS_ProteinLynx_Ladder_Score
ProteinLynx:Ladder Score: Waters ProteinLynx Ladder score.
bool empty() const
returns ture iff id, URI, fullName, and version are all empty
UNIMOD_Leu__MetOx
Leu->MetOx: Leu->Met substitution and sulfoxidation.
UNIMOD_DyLight_maleimide
DyLight-maleimide: Thiol-reactive dye for fluorescence labelling of proteins.
MS_PeptideShaker_protein_confidence_type
PeptideShaker protein confidence type: PeptideShaker quality criteria for the confidence of protein i...
MS_MzWiff
MzWiff: A software program for converting Applied Biosystems wiff file format to the mzXML or mzML fo...
UNIMOD_Xle__Met
Xle->Met: Leu/Ile->Met substitution.
MS_SRM_quantitation_analysis
SRM quantitation analysis: Selected Reaction Monitoring workflow (XIC quantitation of precursor / fra...
MS_PEAKS_inChorusProteinScore
PEAKS:inChorusProteinScore: The PEAKS inChorus protein score.
MS_apex_Q
apex Q: Bruker Daltonics' apex Q: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR.
UO_millicurie
millicurie: An activity (of a radionuclide) unit which is equal to one thousandth of a curie or 10^[-...
MS_MS1_label_based_raw_feature_quantitation
MS1 label-based raw feature quantitation: MS1 label-based raw feature quantitation.
UO_micromole_per_kilogram
micromole per kilogram: A specific concentration unit which is equal to 1 micromole of a given substa...
MS_FAIMS_CV
FAIMS CV (FAIMS compensation voltage): The DC potential applied to the asymmetric waveform in FAIMS t...
UNIMOD_Phe__Tyr
Phe->Tyr: Phe->Tyr substitution.
MS_software
software: Software related to the recording or transformation of spectra.
UO_kilogram_per_meter
kilogram per meter: An area density unit which is equal to the mass of an object in kilograms divided...
UNIMOD_Dimethylphosphothione
Dimethylphosphothione: O-dimethylphosphothione.
MS_TSQ_Endura
TSQ Endura: Thermo Scientific TSQ Endura MS.
UO_femtoliter
femtoliter: A volume unit which is equal to 10^[-15] L.
UO_microliter_per_kilogram
microliter per kilogram: A specific volume unit which is equal to one millionth of a liter per kilogr...
UNIMOD_MG_H1
MG-H1: Methylglyoxal-derived hydroimidazolone.
UNIMOD_dHex_2_Hex_3_HexNAc_4_
dHex(2)Hex(3)HexNAc(4): DHex(2) Hex(3) HexNAc(4).
MS_xi
xi: Search engine for cross-linked peptides.
UO_kilowatt_hour
kilowatt-hour: An energy unit which is equal to 1,000 watt-hours.
MS_focus_diameter_x
focus diameter x: Describes the diameter of the laser beam in x direction.
MS_PDA_spectrum_OBSOLETE
PDA spectrum: Spectrum generated from a photodiode array detector (ultraviolet/visible spectrum).
MS_dynamic_mass_spectrometry_OBSOLETE
dynamic mass spectrometry: A mass spectrometer in which m/z separation using one or more electric fie...
MS_ion_optics
ion optics: Device used in the construction of a mass spectrometer to focus, contain or otherwise man...
MS_Scaffold_input_parameter
Scaffold input parameter: Search engine input parameters specific to Scaffold.
MS_2500_QTRAP
2500 QTRAP: SCIEX 2500 QTRAP.
MS_energy_unit_OBSOLETE
energy unit: Energy units are represented in either eV or Joules.
MS_combined_FDRScore_for_proteins
combined FDRScore for proteins: MzidLibrary Combined FDRScore for proteins.
MS_number_of_product_ion_observations
number of product ion observations: The number of times the specific product ion has been observed in...
MS_resonance_enhanced_multiphoton_ionization
resonance enhanced multiphoton ionization: Multiphoton ionization in which the ionization cross secti...
UNIMOD_dHex_1_Hex_4_HexNAc_5_Sulf_1_
dHex(1)Hex(4)HexNAc(5)Sulf(1): DHex Hex(4) HexNAc(5) Sulf.
UNIMOD_Hex_1_Pent_2_
Hex(1)Pent(2): Hex Pent(2).
MS_ProteinScape_Gel
ProteinScape Gel: Source data for this mzIdentML was a ProteinScape Gel.
MS_MS_GF_SpecEValue
MS-GF:SpecEValue: MS-GF spectral E-value.
MS_Vs_cm_2
Vs/cm^2 (volt-second per square centimeter): An electrical mobility unit that equals the speed [cm/s]...
MS_product_ion_scan_OBSOLETE
product ion scan: The specific scan function or process that records product ion spectrum.
MS_Mascot_PreferredTaxonomy
Mascot:PreferredTaxonomy: NCBI TaxID taxonomy ID to prefer when two or more proteins match the same s...
MS_API_4000
API 4000: Applied Biosystems/MDS SCIEX API 4000 MS.
MS_ProteomeDiscoverer_Mascot_Weight_of_B_Ions
ProteomeDiscoverer:Mascot:Weight of B Ions: Determines if to use B ions for spectrum matching.
MS_Xcalibur
Xcalibur: Thermo Finnigan software for data acquisition and analysis.
MS_SEQUEST_PeptideRankSp
SEQUEST:PeptideRankSp: The SEQUEST result 'Sp' of 'Rank/Sp' in out file (peptide)....
UNIMOD_Xlink_DSSO_54_
Xlink:DSSO[54]: Alkene fragment of DSSO crosslinker.
UNIMOD_benzylguanidine
benzylguanidine: Modification of the lysine side chain from NH2 to guanidine with a H removed in favo...
UNIMOD_LG_anhydrolactam
LG-anhydrolactam: Levuglandinyl-lysine anhydrolactam adduct.
UNIMOD_Carbamyl
Carbamyl: Carbamylation.
UNIMOD_dHex_1_Hex_2_HexNAc_3_NeuAc_1_Sulf_1_
dHex(1)Hex(2)HexNAc(3)NeuAc(1)Sulf(1): DHex Hex(2) HexNAc(3) NeuAc Sulf.
UNIMOD_Hex_1_HexA_1_HexNAc_1_
Hex(1)HexA(1)HexNAc(1): Hex HexA HexNAc.
MS_X_Tandem
X!Tandem: X!Tandem was used to analyze the spectra.
UNIMOD_Propyl
Propyl: Propyl.
UNIMOD_Phycocyanobilin
Phycocyanobilin: Phycocyanobilin.
UNIMOD_Succinyl_2H_4_
Succinyl:2H(4): Succinic anhydride labeling reagent, heavy form (+4amu, 4H2), N-term & K.
MS_decoy_DB_from_EST_OBSOLETE
decoy DB from EST: Decoy database from an expressed sequence tag nucleotide sequence database.
UNIMOD_Tyr__Arg
Tyr->Arg: Tyr->Arg substitution.
MS_peak_area_OBSOLETE
peak area: Area of MS1 peak (e.g. SILAC, 15N).
UNIMOD_Ub_VME
Ub-VME: Ubiquitin vinylmethylester.
MS_OmniFlex
OmniFlex: Bruker Daltonics' OmniFlex: MALDI TOF.
UNIMOD_TMAB
TMAB: 4-trimethyllammoniumbutyryl-.
MS_MSn_OBSOLETE
MSn (multiple stage mass spectrometry): Multiple stages of precursor ion m/z selection followed by pr...
UNIMOD_Xlink_B10621
Xlink:B10621: Bis-((N-iodoacetyl)piperazinyl)sulfonerhodamine.
MS_API_2000
API 2000: Applied Biosystems/MDS SCIEX API 2000 MS.
MS_ProteomeDiscoverer_WinCyg_source_files
ProteomeDiscoverer:WinCyg source files: Windows pepXML file names.
UNIMOD_His__Pro
His->Pro: His->Pro substitution.
MS_isolation_window_lower_limit_OBSOLETE
isolation window lower limit: The lowest m/z being isolated in an isolation window.
MS_Thermo_Fisher_Scientific_instrument_model
Thermo Fisher Scientific instrument model: Thermo Fisher Scientific instrument model....
MS_LC_MS_feature_intensity
LC-MS feature intensity: Maximum peak intensity of the LC-MS feature.
MS_SEQUEST_Sum
SEQUEST:Sum:
UNIMOD_BDMAPP
BDMAPP: Mass Defect Tag on lysine e-amino.
MS_MSn_spectrum
MSn spectrum: MSn refers to multi-stage MS2 experiments designed to record product ion spectra where ...
MS_quantile_normalization__proteins
quantile normalization, proteins: Normalization of protein values to approach the same distribution.
MS_modified_peptide_sequence
modified peptide sequence: A sequence of letter symbols denoting the order of amino acids that compos...
MS_database_name
database name: The name of the search database (nr, SwissProt or est_human).
UNIMOD_dHex_1_Hex_3_HexNAc_4_Pent_1_
dHex(1)Hex(3)HexNAc(4)Pent(1): DHex Hex(3) HexNAc(4) Pent.
MS_median_baseline_reduction
median baseline reduction: The spectrum that will be baseline subtracted is divided into a number of ...
MS_FT_ICR
FT_ICR (fourier transform ion cyclotron resonance mass spectrometer): A mass spectrometer based on th...
MS_domain_range
domain range: Domain range of a numerical value.
UNIMOD_PropylNAGthiazoline
PropylNAGthiazoline: Propyl-1,2-dideoxy-2\'-methyl-alpha-D-glucopyranoso-[2,1-d]-Delta2\'-thiazoline.
UO_mole
mole: A substance unit which is equal to the amount of substance of a molecular system which contains...
MS_ProteomeDiscoverer_SN_Threshold
ProteomeDiscoverer:SN Threshold: Signal-to-Noise ratio below which peaks are removed.
UO_nanomole
nanomole: A substance unit equal to one thousandth of one millionth of a mole or 10^[-9] mol.
UO_confluence_percentage
confluence percentage: A dimensionless percent unit which denotes the density of an attached or monol...
MS_ProteinLynx_Log_Likelihood
ProteinLynx:Log Likelihood: ProteinLynx log likelihood score.
MS_SCION_TQ
SCION TQ: Bruker Daltonics' SCION TQ: GC-triple quadrupole.
MS_MzStar
MzStar: A software program for converting Applied Biosystems wiff file format to mzXML format....
UNIMOD_DMPO
DMPO: DMPO spin-trap nitrone adduct.
UO_momentum_unit
momentum unit: A unit which is a standard measure of the quantity of motion measured by the product o...
MS_Discrete_Mass_Spectrum
Discrete Mass Spectrum (centroid spectrum): Processing of profile data to produce spectra that contai...
UO_disintegrations_per_second
disintegrations per second: An activity (of a radionuclide) unit which is equal to the activity of a ...
UNIMOD_Arg__Ser
Arg->Ser: Arg->Ser substitution.
MS_sample_mass
sample mass: Total mass of sample used.
UNIMOD_Ser__Gly
Ser->Gly: Ser->Gly substitution.
UNIMOD_Cyano
Cyano: Cyano.
std::string id
the short label to be used as a reference tag with which to refer to this particular Controlled Vocab...
MS_param__a_ion
param: a ion: Parameter information, type of product: a ion with charge on the N-terminal side.
UNIMOD_Thiophos_S_S_biotin
Thiophos-S-S-biotin: Thiophosphate labeled with biotin-HPDP.
MS_Element_GD
Element GD: Thermo Scientific Element GD Glow Discharge MS.
UNIMOD_Tyr__Cys
Tyr->Cys: Tyr->Cys substitution.
MS_TMT_reagent_127N
TMT reagent 127N: The name of the sample labelled with the TMT reagent 127N.
MS_peptide_modification_details
peptide modification details: The children of this term can be used to describe modifications.
UNIMOD_s_GlcNAc
s-GlcNAc: O3S1HexNAc1.
MS_Progenesis_normalization
Progenesis normalization: Normalization as performed by Progenesis LC-MS.
UNIMOD_Hex_7_Phos_3_
Hex(7)Phos(3): Hex(7) Phos(3).
UNIMOD_dHex_2_Hex_1_HexNAc_4_Sulf_1_
dHex(2)Hex(1)HexNAc(4)Sulf(1): DHex(2) Hex HexNAc(4) Sulf.
MS_PEAKS_Studio
PEAKS Studio: PEAKS Studio software for data analysis.
UNIMOD_mTRAQ_13C_6_15N_2_
mTRAQ:13C(6)15N(2): MTRAQ heavy.
UNIMOD_Biotin_Thermo_33033
Biotin:Thermo-33033: Sulfo-SBED Label Photoreactive Biotin Crosslinker.
MS_CRM_OBSOLETE
CRM (consecutive reaction monitoring): MSn experiment with three or more stages of m/z separation and...
MS_no_nativeID_format
no nativeID format: No nativeID format indicates that the file tagged with this term does not contain...
MS_increasing_m_z_scan
increasing m/z scan: Low to high direction in terms of m/z of the scan for scanning analyzers.
MS_ProteomeDiscoverer_Spectrum_Grouper_Allow_MS_Order_Mismatch
ProteomeDiscoverer:Spectrum Grouper:Allow MS Order Mismatch: Determines whether spectra from differen...
UNIMOD_dHex_1_Hex_4_HexNAc_5_
dHex(1)Hex(4)HexNAc(5): DHex Hex(4) HexNAc(5).
PEFF_TaxName
TaxName: Taxonomy name (latin or common name).
MS_6460_Triple_Quadrupole_LC_MS
6460 Triple Quadrupole LC/MS: The 6460 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_ProteinExtractor_UseSequest
ProteinExtractor:UseSequest: Flag indicating to include SEQUEST scoring for calculation of the Protei...
MS_param__v_ion
param: v ion: Parameter information, type of product: side chain loss v ion.
MS_local_FDR
local FDR: Result of quality estimation: the local FDR at the current position of a sorted list.
MS_TIC
TIC (total ion current): The sum of all the separate ion currents carried by the ions of different m/...
UO_exa
exa: A prefix in the metric system denoting a factor of ten to the power of 18.
UNIMOD_DimethylpyrroleAdduct
DimethylpyrroleAdduct: 2,5-dimethypyrrole.
MS_Bruker_BAF_format
Bruker BAF format: Bruker BAF raw file format.
MS_SEQUEST_SequencePartialFilter
SEQUEST:SequencePartialFilter:
UNIMOD_DEDGFLYMVYASQETFG
DEDGFLYMVYASQETFG: Addition of DEDGFLYMVYASQETFG.
MS_PEAKS_Online
PEAKS Online: PEAKS Online software for high throughput data analysis.
UNIMOD_DiART6plex
DiART6plex: Representative mass and accurate mass for 114.
MS_linked_scan_OBSOLETE
linked scan: A scan in an instrument with two or more m/z analysers or in a sector mass spectrometer ...
UNIMOD_trifluoro
trifluoro: Trifluoroleucine replacement of leucine.
MS_chromatogram
chromatogram: The representation of detector response versus time.
MS_ProteomeDiscoverer_SEQUEST_Maximum_Peptides_Considered
ProteomeDiscoverer:SEQUEST:Maximum Peptides Considered: Maximum number of peptides that are searched ...
MS_32_bit_float
32-bit float: 32-bit precision little-endian floating point conforming to IEEE-754.
MS_spectral_count_feature
spectral count feature: Dummy decribing a spectral count feature.
MS_MS_GF
MS-GF: MS-GF software used to re-score the peptide-spectrum matches.
MS_param__z_ion
param: z ion: Parameter information, type of product: z ion with charge on the C-terminal side.
UNIMOD_Asn__Tyr
Asn->Tyr: Asn->Tyr substitution.
MS_6150_Quadrupole_LC_MS
6150 Quadrupole LC/MS: The 6150 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_quality_estimation_method_details
quality estimation method details: Method for quality estimation (manually or with decoy database).
UNIMOD_Ethanolamine
Ethanolamine: Carboxyl modification with ethanolamine.
MS_target_SRM_transition
target SRM transition: A transition used to target a specific compound that may be in the sample.
MS_ProCon
ProCon: Java software designed to convert one of several proteomics identification results formats in...
MS_n_terminal_flanking_residue
n-terminal flanking residue: The residue preceding the first amino acid in the peptide sequence as it...
PEFF_ModResUnimod
ModResUnimod: Modified residue with Unimod identifier.
MS_Tide
Tide: Tide open-source sequence search program developed at the University of Washington.
UNIMOD_Phe__Trp
Phe->Trp: Phe->Trp substitution.
MS_product_ion_detection_probability
product ion detection probability: Probability of detecting product ion when precursor ion is present...
MS_retention_time_normalization_standard
retention time normalization standard: A standard providing the retention times at which a set of ref...
UO_microcurie
microcurie: An activity (of a radionuclide) unit which is equal to one millionth of a curie or 10^[-6...
MS_Voyager_Biospectrometry_Workstation_System
Voyager Biospectrometry Workstation System: Applied Biosystems MALDI-TOF data acquisition and analysi...
MS_spin_coating_MALDI_sample_preparation
spin coating MALDI sample preparation: Spin coating MALDI sample preparation method.
MS_error_on_peptide_ratio
error on peptide ratio: Error on peptide ratio.
MS_percent_collision_energy_ramp_start
percent collision energy ramp start: Collision energy at the start of the collision energy ramp in pe...
MS_PQD
PQD (pulsed q dissociation): A process that involves precursor ion activation at high Q,...
UNIMOD_Cation_Fe_III_
Cation:Fe[III]: Replacement of 3 protons by iron.
UNIMOD_Tyr__Gln
Tyr->Gln: Tyr->Gln substitution.
MS_ProteomeDiscoverer_5__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:5. Dynamic Modification: ProteomeDiscoverer's 5th dynamic post-translational modif...
MS_GC_Quantum
GC Quantum: GC Quantum.
UNIMOD_dHex_1_Hex_3_HexNAc_3_
dHex(1)Hex(3)HexNAc(3): DHex Hex(3) HexNAc(3).
MS_Thermo_Finnigan_software
Thermo Finnigan software: Thermo Finnigan software for data acquisition and analysis.
MS_Skyline
Skyline: Software used to predict, select, and optimize transitions as well as analyze the results of...
MS_peak_intensity_rank
peak intensity rank: Ordinal specifying the rank in intensity of a peak in a spectrum....
MS_PTM_scoring_algorithm_version
PTM scoring algorithm version: Version of the post-translational modification scoring algorithm.
UO_nanomolal
nanomolal: A molality unit which is equal to one thousandth of one millionth of a molal or 10^[-9] m.
MS_peptide_consensus_attribute
peptide consensus attribute: Attribute describing a peptide consensus.
MS_FlexAnalysis
FlexAnalysis: Bruker software for data analysis.
MS_NBRF_PIR
NBRF PIR: The NBRF PIR was used as format.
UNIMOD_Thr__Xle
Thr->Xle: Thr->Leu/Ile substitution.
UO_fathom
fathom: A maritime length unit which is equal to 6.08 feet, or 1.853184 metres
UO_amount_per_container
amount per container: A concentration unit which is a standard measure of the amount of a substance i...
MS_mean
mean: The arithmetic mean.
MS_dalton_OBSOLETE
dalton: A non-SI unit of mass (symbol Da) that is equal to the unified atomic mass unit: 1....
UO_molecule_count
molecule count: A dimensionless count unit which denotes the number of molecules.
UNIMOD_EGCG2
EGCG2: (-)-dehydroepigallocatechin.
MS_PinPoint
PinPoint: Thermo Scientific PinPoint SRM analysis software.
PEFF_PName
PName: Protein Name, description.
MS_co_author
co-author: One of a set of authors associated with a publication or release.
UNIMOD_dHex_1_Hex_2_HexA_1_HexNAc_2_
dHex(1)Hex(2)HexA(1)HexNAc(2): DHex Hex(2) HexA HexNAc(2).
UNIMOD_HexNAc_2_
HexNAc(2): HexNAc2.
UNIMOD_HexNAc_3_
HexNAc(3): HexNAc(3).
MS_ProteomeDiscoverer_Enzyme_Name_OBSOLETE
ProteomeDiscoverer:Enzyme Name: Specifies the enzyme reagent used for protein digestion.
MS_simple_ratio_of_two_values
simple ratio of two values: Simple ratio of two values (enumerator and denominator).
UNIMOD_Cation_Zn_II_
Cation:Zn[II]: Replacement of 2 protons by zinc.
UNIMOD_PhosphoHex
PhosphoHex: Phosphoglycosyl-D-mannose-1-phosphoryl.
MS_emission_spectrum
emission spectrum: A plot of the relative intensity of electromagnetic radiation emitted by atoms or ...
MS_TOPP_FeatureLinkerLabeled
TOPP FeatureLinkerLabeled: Groups corresponding isotope-labeled features in a feature map.
MS_selected_ion_flow_tube
selected ion flow tube: A device in which m/z selected ions are entrained in an inert carrier gas and...
UO_kilodalton
kilodalton: A mass unit which is equal to one thousand daltons.
UNIMOD_Gly__Asp
Gly->Asp: Gly->Asp substitution.
MS_Hitachi_instrument_model
Hitachi instrument model: Hitachi instrument model.
UNIMOD_Val__Phe
Val->Phe: Val->Phe substitution.
MS_OpenXQuest_intsum
OpenXQuest:intsum: OpenXQuest's sum of matched peak intensity subscore.
MS_Scaffold
Scaffold: Scaffold analysis software.
UO_volume_unit
volume unit: A unit which is a standard measure of the amount of space occupied by any substance,...
UNIMOD_dHex_1_Hex_4_HexNAc_3_Pent_1_
dHex(1)Hex(4)HexNAc(3)Pent(1): DHex Hex(4) HexNAc(3) Pent.
MS_ProteomeDiscoverer_Peptide_Without_Protein_Cut_Off_Score
ProteomeDiscoverer:Peptide Without Protein Cut Off Score: Cut off score for storing peptides that do ...
MS_Result_file_URI
Result file URI: URI of one file labeled as 'Result', associated to one PX submission.
MS_instrument
instrument: Description of the instrument or the mass spectrometer.
UNIMOD_Ala__Arg
Ala->Arg: Ala->Arg substitution.
UNIMOD_Tripalmitate
Tripalmitate: N-acyl diglyceride cysteine.
MS_nanoelectrospray
nanoelectrospray: Electrospray ionization at a flow rate less than ~25 nL/min. Nanoelectrospray is sy...
MS_pwiz
pwiz (ProteoWizard software): ProteoWizard software for data processing and analysis....
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Quantitation_Method
ProteomeDiscoverer:Reporter Ions Quantizer:Quantitation Method: Quantitation method for isobarically ...
MS_FAB
FAB (fast atom bombardment ionization): The ionization of any species by the interaction of a focused...
MS_PSM_level_result_list_statistic
PSM-level result list statistic: Statistic pertaining to the full list of all PSMs.
MS_absolute_quantity
absolute quantity: Absolute quantity in terms of real concentration or molecule copy number in sample...
MS_Spark_Source_Mass_Spectrometry_OBSOLETE
Spark Source Mass Spectrometry: Mass spectrometry using spark ionization.
UNIMOD_Thr__Phe
Thr->Phe: Thr->Phe substitution.
MS_time_delayed_fragmentation_spectrum
time-delayed fragmentation spectrum: MSn spectrum in which the product ions are collected after a tim...
MS_OMSSA_pvalue
OMSSA:pvalue: OMSSA p-value.
MS_SpectrumMill_Score
SpectrumMill:Score: Spectrum mill peptide score.
UO_millimolar
millimolar: A unit of molarity which is equal to one thousandth of a molar or 10^[-3] M.
MS_Trypsin_R
Trypsin/R (Arg-C): Endoproteinase Arg-C.
UO_decibel
decibel: A ratio unit which is an indicator of sound power per unit area.
MS_PAnalyzer
PAnalyzer: PAnalyzer software for getting protein evidence categories.
MS_ProteomeDiscoverer_Spectrum_Selector_Upper_RT_Limit
ProteomeDiscoverer:Spectrum Selector:Upper RT Limit: Upper retention-time limit.
MS_dataset_submitter
dataset submitter: A person who submits a dataset to a repository.
UNIMOD_Trp__Arg
Trp->Arg: Trp->Arg substitution.
MS_decoy_DB_from_IPI_chicken_OBSOLETE
decoy DB from IPI_chicken: Decoy database from a International Protein Index database for Gallus gall...
UNIMOD_2_succinyl
2-succinyl: S-(2-succinyl) cysteine.
MS_protein_group_level_identification_statistic
protein group-level identification statistic: Identification confidence metric for a protein group.
UNIMOD_Tyr__Asn
Tyr->Asn: Tyr->Asn substitution.
MS_ProteinProspector
ProteinProspector: ProteinProspector software for data acquisition and analysis.
UNIMOD_dHex_1_Hex_4_HexNAc_3_NeuAc_1_Sulf_1_
dHex(1)Hex(4)HexNAc(3)NeuAc(1)Sulf(1): DHex Hex(4) HexNAc(3) NeuAc Sulf.
MS_Ascore_software
Ascore software: Ascore software.
UO_quart
quart: An imperial volume unit which is equivalent to 1,136.5225 millilitres, or two pints.
MS_PSM_FDR_threshold
PSM:FDR threshold: False-discovery rate threshold for peptide-spectrum matches.
UNIMOD_OxLysBiotinRed
OxLysBiotinRed: Oxidized lysine biotinylated with biotin-LC-hydrazide, reduced.
MS_MaRiMba_OBSOLETE
MaRiMba: Software used to predict transitions for selected reaction monitoring experiments based on o...
UNIMOD_Hex_1_HexA_1_
Hex(1)HexA(1): Hex HexA.
MS_OpenMS_file_format
OpenMS file format: File format developed by the OpenMS team.
UNIMOD_Hex_1_HexNAc_1_Phos_1_
Hex(1)HexNAc(1)Phos(1): Hex HexNAc Phos.
MS_MSDK
MSDK: Mass Spectrometry Development Kit (MSDK) is a Java library of algorithms for processing of mass...
MS_MapNormalizer
MapNormalizer: Normalizes peak intensities in an MS run.
MS_unmapped_protein
unmapped protein: Within the context of a proteogenomics approach, a protein sequence that has not be...
MS_protein_value__sum_of_peptide_values
protein value: sum of peptide values: Protein quantification value calculated as sum of peptide value...
MS_t_test_p_value
t-test p-value: P-value of t-Test of two groups.
MS_ProteinScape_PFFSolverScore
ProteinScape:PFFSolverScore: The ProteinSolver score stored by ProteinScape.
MS_PTM_localization_single_result_statistic
PTM localization single result statistic: Statistic for a single item derived from a post-translation...
UNIMOD_Hex_1_HexNAc_2_dHex_2_Sulf_1_
Hex(1)HexNAc(2)dHex(2)Sulf(1): Hex HexNAc(2) dHex(2) Sulf.
MS_API_365
API 365: Applied Biosystems/MDS SCIEX API 365 MS.
MS_BIRD
BIRD (blackbody infrared radiative dissociation): A special case of infrared multiphoton dissociation...
MS_QTRAP_6500_
QTRAP 6500+: SCIEX QTRAP 6500+.
MS_AXIMA_CFR_MALDI_TOF
AXIMA CFR MALDI-TOF: Shimadzu Biotech AXIMA CFR MALDI-TOF MS.
UNIMOD_Cys__Pro
Cys->Pro: Cys->Pro substitution.
MS_TOPP_feature_linker
TOPP feature linker: Feature linker component of the TOPP software.
UNIMOD_SulfanilicAcid_13C_6_
SulfanilicAcid:13C(6): Heavy Sulfanilic Acid (SA) C13.
UNIMOD_Delta_H_8_C_6_O_1_
Delta:H(8)C(6)O(1): Reduced acrolein addition +96.
MS_group_representative
group representative: An arbitrary and optional flag applied to exactly one protein per group to indi...
MS_MS1_label_based_peptide_level_quantitation
MS1 label-based peptide level quantitation: MS1 label-based peptide level quantitation.
UO_parts_per_million
parts per million: A dimensionless concentration notation which denotes the amount of a given substan...
MS_Maltcms
Maltcms: Modular Application Toolkit for Chromatography Mass-Spectrometry is an application framework...
MS_time_series__time_point_X
time series, time point X: The experimental design followed a time series design. The time point of t...
UNIMOD_Microcin
Microcin: Microcin E492 siderophore ester from serine.
MS_search_input_details
search input details: Details describing the search input.
MS_Bruker_Daltonics_SCION_series
Bruker Daltonics SCION series: Bruker Daltonics' SCION series.
UNIMOD_Lys__Phe
Lys->Phe: Lys->Phe substitution.
MS_anti_aromatic_ion_OBSOLETE
anti-aromatic ion: A planar cyclic ion with 4n ? electrons and is therefore not aromatic.
MS_SQID_protein_score
SQID:protein score: The SQID result 'protein score'.
MS_param__b_ion
param: b ion: Parameter information, type of product: b ion with charge on the N-terminal side.
MS_gene_name
gene name: Name of the gene from which the protein is translated.
MS_AXIMA_Assurance_Linear_MALDI_TOF
AXIMA Assurance Linear MALDI-TOF: Shimadzu Biotech AXIMA Assurance Linear MALDI-TOF MS.
MS_sample_state
sample state: The chemical phase of a pure sample, or the state of a mixed sample.
MS_mass_scan_OBSOLETE
mass scan: A variation of instrument where a selected mass is scanned.
MS_MaxQuant_Phospho__STY__Probabilities_threshold
MaxQuant:Phospho (STY) Probabilities threshold: Threshold for MaxQuant:Phospho (STY) Probabilities.
MS_adduct_ion
adduct ion: Ion formed by the interaction of an ion with one or more atoms or molecules to form an io...
UNIMOD_MolybdopterinGD
MolybdopterinGD: Molybdenum bis(molybdopterin guanine dinucleotide).
MS_Pegasus_BT
Pegasus BT: LECO bench-top GC time-of-flight mass spectrometer.
MS_laser
laser: Device that emits light (electromagnetic radiation) through a process called stimulated emissi...
MS_jPOST_dataset_identifier
jPOST dataset identifier: Dataset identifier issued by the jPOST repository. A dataset can refer to e...
MS_acquisition_software
acquisition software: Acquisition software.
MS_final_MS_exponent
final MS exponent: Final MS level achieved when performing PFF with the ion trap (e....
MS_ProteomeDiscoverer_Peptide_CTerminus
ProteomeDiscoverer:Peptide CTerminus: Static modification for the C terminal of the peptide used duri...
UNIMOD_CyDye_Cy5
CyDye-Cy5: Cy5 CyDye DIGE Fluor saturation dye.
MS_charge_remote_fragmentation_OBSOLETE
charge-remote fragmentation: A fragmentation of an even-electron ion in which the cleaved bond is not...
MS_peptide_Ascore
peptide:Ascore: A-score for PTM site location at the peptide-level.
MS_decreasing_m_z_scan
decreasing m/z scan: High to low direction in terms of m/z of the scan for scanning analyzers.
MS_quality_estimation_by_manual_validation
quality estimation by manual validation: The quality estimation was done manually.
UNIMOD_Thr__Cys
Thr->Cys: Thr->Cys substitution.
UNIMOD_Lys__Asp
Lys->Asp: Lys->Asp substitution.
MS_Byonic_Peptide_LogProb
Byonic:Peptide LogProb: The log p-value of the PSM. This is the log of the probability that the PSM w...
MS_experimental_condition__control_
experimental condition 'control': The experimental condition is 'control' in contrast to 'case'.
MS_multiple_ion_monitoring_spectrum
multiple ion monitoring spectrum (SIM spectrum): Spectrum obtained with the operation of a mass spect...
UNIMOD_Nitro
Nitro: Oxidation to nitro.
UNIMOD_Hex_4_HexNAc_2_
Hex(4)HexNAc(2): Hex(4) HexNAc(2).
MS_TOPP_OpenSwathRTNormalizer
TOPP OpenSwathRTNormalizer: Generates a transformation file for retention time space into normalized ...
MS_msmsEval_quality
msmsEval quality: This term reports the quality of the spectrum assigned by msmsEval.
UNIMOD_C8_QAT
C8-QAT: [3-(2,5)-Dioxopyrrolidin-1-yloxycarbonyl)-propyl]dimethyloctylammonium.
MS_splash_key
splash key: Spectral Hash key, an unique identifier for spectra.
MS_peptide_exon_nucleotide_sizes
peptide exon nucleotide sizes: A comma separated list of the number of DNA bases within each exon to ...
MS_Profound_Cluster
Profound:Cluster: The Profound cluster score.
MS_Conversion_to_mzML
Conversion to mzML: Conversion of a file format to Proteomics Standards Initiative mzML file format.
MS_alternate_mass
alternate mass: List of masses a non-standard letter code is replaced with.
UO_radian_per_second_per_second
radian per second per second: An angular unit acceleration which is equal to the angular acceleration...
MS_Microsoft_Excel
Microsoft Excel: Microsoft Excel (can be used for spectral counting).
UNIMOD_Hex_6_HexNAc_4_Me_3_
Hex(6)HexNAc(4)Me(3): Hex(6) HexNAc(4) Me(3).
MS_flow_injection_analysis
flow injection analysis: Sample is directly injected or infused into the ionization source.
MS_TOPP_DTAExtractor
TOPP DTAExtractor: Extracts spectra of an MS run file to several files in DTA format.
PEFF_SV
SV: Sequence version.
UNIMOD_dHex_1_Hex_5_HexNAc_3_
dHex(1)Hex(5)HexNAc(3): DHex Hex(5) HexNAc(3).
MS_API
API (atmospheric pressure ionization): Any ionization process in which ions are formed in the gas pha...
UNIMOD_Glu__Gly
Glu->Gly: Glu->Gly substitution.
MS_PROTEINEER_LC
PROTEINEER-LC: Bruker PROTEINEER-LC software.
MS_TopPIC_error_tolerance
TopPIC:error tolerance: Error tolerance for precursor and fragment masses in PPM.
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Clipping_Range_Before
ProteomeDiscoverer:Spectrum Selector:Precursor Clipping Range Before: Precursor clipping range before...
MS_nanoACQUITY_UPLC_System_with_1D_Technology
nanoACQUITY UPLC System with 1D Technology: Waters LC-system nanoACQUITY UPLC System with 1D Technolo...
UNIMOD_dHex_1_Hex_3_HexNAc_6_Sulf_1_
dHex(1)Hex(3)HexNAc(6)Sulf(1): DHex Hex(3) HexNAc(6) Sulf.
UNIMOD_Hex_1_HexNAc_1_NeuGc_5_
Hex(1)HexNAc(1)NeuGc(5): Hex HexNAc NeuGc(5).
MS_nanoACQUITY_UPLC_with_HDX_Technology
nanoACQUITY UPLC with HDX Technology: Waters LC-system nanoACQUITY UPLC with HDX Technology.
UNIMOD_Biotin_Cayman_10141
Biotin:Cayman-10141: Was 15dB-biotin.
MS_API_150EX_Prep
API 150EX Prep: Applied Biosystems/MDS SCIEX API 150EX Prep MS.
UNIMOD_Asp__His
Asp->His: Asp->His substitution.
MS_TOPP_CompNovo
TOPP CompNovo: Performs a peptide/protein identification with the CompNovo engine.
MS_MS2_tag_based_analysis
MS2 tag-based analysis: MS2 tag-based analysis.
UNIMOD_Methylmalonylation
Methylmalonylation: Methylmalonylation on Serine.
MS_PDA
PDA (photodiode array detector): An array detector used to record spectra in the ultraviolet and visi...
UNIMOD_Arg__Lys
Arg->Lys: Arg->Lys substitution.
MS_D_Score
D-Score: D-Score for PTM site location at the PSM-level.
UNIMOD_Hex_6_HexNAc_1_
Hex(6)HexNAc(1): Hex(6) HexNAc.
UNIMOD_MercaptoEthanol
MercaptoEthanol: 2-OH-ethyl thio-Ser.
MS_chemical_compound
chemical compound: A substance formed by chemical union of two or more elements or ingredients in def...
MS_peptide_sharing_details
peptide sharing details: Accessions Containing Sequence - Accessions for each protein containing this...
MS_photoionization
photoionization: The ionization of an atom or molecule by a photon, written M + h?...
MS_tag_search
tag search: A sequence tag search.
MS_ProteinScape_SearchResultId
ProteinScape:SearchResultId: The SearchResultId of this peptide as SearchResult in the ProteinScape d...
MS_synchronous_prefilter_selection
synchronous prefilter selection: Synchronous prefilter selection.
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_1_
dHex(1)Hex(3)HexA(1)HexNAc(1): DHex Hex(3) HexA HexNAc.
MS_total_ion_current
total ion current: The sum of all the separate ion currents carried by the ions of different m/z cont...
MS_SIC_chromatogram
SIC chromatogram (selected ion current chromatogram): Chromatogram created by creating an array of th...
UNIMOD_Pro__Asn
Pro->Asn: Pro->Asn substitution.
MS_precursor_ion_detection_probability
precursor ion detection probability: Probability of detecting precursor when parent protein is presen...
UNIMOD_Gln__Glu
Gln->Glu: Gln->Glu substitution.
MS_p_value__protein_diff_from_1_randomly__OBSOLETE
p-value (protein diff from 1 randomly): P-value (protein diff from 1 randomly).
MS_Bruker_FID_nativeID_format
Bruker FID nativeID format: Native format defined by file=xsd:IDREF.
MS_Bruker_Daltonics_BioTOF_series
Bruker Daltonics BioTOF series: Bruker Daltonics' BioTOF series.
MS_SEQUEST_Full
SEQUEST:Full:
MS_height_peak_picking
height peak picking: Spectral peak processing conducted on the acquired data to convert profile data ...
MS_Byonic__Protein_AbsLogProb
Byonic: Protein AbsLogProb: The absolute value of the log-base10 of the Byonic posterior error probab...
UNIMOD_Methylpyrroline
Methylpyrroline: 4-methyl-delta-1-pyrroline-5-carboxyl.
UNIMOD_Asp__Gln
Asp->Gln: Asp->Gln substitution.
UNIMOD_Glu__Phe
Glu->Phe: Glu->Phe substitution.
MS_ProteomeDiscoverer_ion_settings
ProteomeDiscoverer:ion settings: Specifies the fragment ions and neutral losses that are calculated.
MS_neutral_loss
neutral loss: The loss of an uncharged species during a rearrangement process. The value slot holds t...
MS_MaxQuant_peptide_counts__razor_unique_
MaxQuant:peptide counts (razor+unique): The data type peptide counts (razor+unique) produced by MaxQu...
MS_Channeltron_Detector
Channeltron Detector (channeltron): A horn-shaped (or cone-shaped) continuous dynode particle multipl...
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge1: Standard high confidence XCorr paramete...
MS_spectra_data_details
spectra data details: Child-terms contain information to map the results back to spectra.
MS_AutoSpec_Premier
AutoSpec Premier: Waters AutoSpec Premier magnetic sector instrument.
MS_taxonomy__NCBI_TaxID
taxonomy: NCBI TaxID: This term is used if a NCBI TaxID is specified, e.g. 9606 for Homo sapiens.
MS_time_of_flight_mass_spectrometer_OBSOLETE
time-of-flight mass spectrometer: An instrument that separates ions by m/z in a field-free region aft...
UO_hundredweight
hundredweight: An imperial mass unit which is equivalent to 50.802,345,44 kilograms,...
UNIMOD_Ser__Phe
Ser->Phe: Ser->Phe substitution.
UNIMOD_Cation_K
Cation:K: Replacement of proton by potassium.
UNIMOD_Hex_3_HexNAc_3_
Hex(3)HexNAc(3): Hex(3) HexNAc(3).
UNIMOD_Phe__Xle
Phe->Xle: Phe->Leu/Ile substitution.
UNIMOD_FMN
FMN: O3-(riboflavin phosphoryl).
MS_quantitation_analysis_summary
quantitation analysis summary: The overall workflow of this quantitation report.
MS_attenuation
attenuation: Describes the reduction of the intensity of the laser beam energy.
UO_milli_300000297
milli: A prefix in the metric system denoting a factor of one thousand.
MS_BSI_software
BSI software: Bioinformatics Solutions Inc. Software for data processing and analysis.
MS_Percolator_input_parameter
Percolator input parameter: Search engine input parameters specific to Percolator.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Mass_Window_Offset
ProteomeDiscoverer:Non-Fragment Filter:Mass Window Offset: Specifies the size of the mass-to-charge r...
UO_attomole
attomole: A substance unit equal to 10^[-18] mol.
MS_MALDI_Synapt_MS
MALDI Synapt MS: Waters oa-ToF based MALDI Synapt MS.
MS_Synapt_MS
Synapt MS: Waters oa-ToF based Synapt MS.
MS_TopPIC_N_term_form
TopPIC:N-term form: N-terminal forms of proteins allowed in TopPIC searching.
UO_nanosievert
nanosievert: A dose equivalent unit which is equal to one thousandth of a millionth of a sievert or 1...
MS_theoretical_mass
theoretical mass: The theoretical mass of the molecule (e.g. the peptide sequence and its modificatio...
MS_TopPIC_MIScore
TopPIC:MIScore: Modification identification score.
MS_SSQ_7000
SSQ 7000: ThermoFinnigan SSQ 7000 MS.
MS_spectral_count_peptide_level_quantitation
spectral count peptide level quantitation: Spectral count peptide level quantitation.
MS_DiART_reagent_115
DiART reagent 115: The name of the sample labelled with the DiART reagent 115.
MS_ion_chemical_type_OBSOLETE
ion chemical type: Ion Type.
MS_constant_neutral_mass_loss_OBSOLETE
constant neutral mass loss: A spectrum formed of all product ions that have been produced with a sele...
UNIMOD_Ser__Gln
Ser->Gln: Ser->Gln substitution.
UNIMOD_Gly__Met
Gly->Met: Gly->Met substitution.
MS_Th
Th (m/z): Three-character symbol m/z is used to denote the quantity formed by dividing the mass of an...
UNIMOD_Hex_5_Phos_1_
Hex(5)Phos(1): Hex(5) Phos.
UNIMOD_Pro__Thr
Pro->Thr: Pro->Thr substitution.
UO_degree_Fahrenheit
degree Fahrenheit: A temperature unit which is equal to 5/9ths of a kelvin. Negative 40 degrees Fahre...
UNIMOD_HexNAc_2_NeuGc_1_
HexNAc(2)NeuGc(1): HexNAc(2) NeuGc.
UNIMOD_Glu__His
Glu->His: Glu->His substitution.
MS_Q3_spectrum
Q3 spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stage ...
UO_weber
weber: A magnetic flux unit which is equal to the amount of flux that when linked with a single turn ...
MS_TOPP_XTandemAdapter
TOPP XTandemAdapter: Identifies MS2 spectra using the external program XTandem.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_y_Ions
ProteomeDiscoverer:SEQUEST:Weight of y Ions: Uses y ions for spectrum matching with this relative fac...
MS_selection_window_attribute
selection window attribute: Selection window properties that are associated with a value.
MS_EThcD
EThcD (Electron-Transfer/Higher-Energy Collision Dissociation (EThcD)): A dissociation process combin...
UNIMOD_ethylamino
ethylamino: Ethyl amino.
MS_Paragon__FDR_analysis
Paragon: FDR analysis: The Paragon method setting that controls whether FDR analysis is conducted.
MS_value_greater_than_zero
value greater than zero: Positive value range.
MS_product_interpretation_rank
product interpretation rank: The integer rank given an interpretation of an observed product ion....
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_NeuGc_1_
Hex(1)HexNAc(1)NeuAc(1)NeuGc(1): Hex HexNAc NeuAc NeuGc.
UNIMOD_Glu__Trp
Glu->Trp: Glu->Trp substitution.
MS_native_spectrum_identifier_format
native spectrum identifier format: Describes how the native spectrum identifiers are formated.
MS_impact_II
impact II: Bruker Daltonics' impact II.
UNIMOD_Arg2PG
Arg2PG: Adduct of phenylglyoxal with Arg.
UNIMOD_NEMsulfur
NEMsulfur: N-ethylmaleimideSulfur.
PEFF_CustomTag
CustomTag: A tag (short string) used to categorize a sequence annotation (variant or modification).
UO_unit_per_volume_unit
unit per volume unit: A concentration unit which is a standard measure of the number of units,...
MS_ProteomeDiscoverer_Reference_Database_OBSOLETE
ProteomeDiscoverer:Reference Database: Full path database name.
UNIMOD_Hex_9_
Hex(9): Hex(9).
MS_BioAnalyst
BioAnalyst: Applied Biosystems|MDS SCIEX software for bio-related data exploration.
MS_decoy_DB_type_randomized
decoy DB type randomized: Decoy type: Amino acids of protein sequences are randomized (keeping the or...
MS_PSM_level_statistical_threshold
PSM-level statistical threshold: Estimated statistical threshold at PSM-level.
MS_analysis_attribute
analysis attribute: Attribute of an item in the result of mass spectrometry proteomics data analysis.
MS_ProteomeDiscoverer_Spectrum_Score_Filter_Let_Pass_Above_Scores
ProteomeDiscoverer:Spectrum Score Filter:Let Pass Above Scores: Determines whether spectra with score...
MS_frag__y_ion
frag: y ion: Fragmentation information, type of product: y ion.
UNIMOD_Dehydrated
Dehydrated: Dehydration.
UNIMOD_Xlink_DSSO_279_
Xlink:DSSO[279]: Tris-quenched monolink of DSSO crosslinker.
MS_sample_plate
sample plate: Plate where the sample solution is spotted in a MALDI or similar instrument.
MS_in_source_collision_induced_dissociation
in-source collision-induced dissociation: The dissociation of an ion as a result of collisional excit...
MS_wavelet_transformation_smoothing
wavelet transformation smoothing: The random noise is removed by using the undecimated wavelet transf...
UNIMOD_Delta_H_4_C_2_O__1_S_1_
Delta:H(4)C(2)O(-1)S(1): S-Ethylcystine from Serine.
MS_IDMS_OBSOLETE
IDMS (isotope dilution mass spectrometry): A quantitative mass spectrometry technique in which an iso...
MS_negative_scan
negative scan: Polarity of the scan is negative.
UNIMOD_maleimide5
maleimide5: Maleimide-5-saccharide.
UO_kilo
kilo: A prefix in the metric system denoting a factor of one thousand.
MS_IonSpec_instrument_model
IonSpec instrument model: IonSpec corporation instrument model.
PEFF_DbUniqueId
DbUniqueId: Sequence Database unique identifier.
UNIMOD_dHex_2_Hex_2_HexNAc_4_
dHex(2)Hex(2)HexNAc(4): DHex(2) Hex(2) HexNAc(4).
MS_TOPP_OpenSwath_component
TOPP OpenSwath component: OpenSwath component of the TOPP software.
MS_travelling_wave_ion_mobility_mass_spectrometer_OBSOLETE
travelling wave ion mobility mass spectrometer: An ion mobility mass spectrometry technique based on ...
UNIMOD_CyDye_Cy3
CyDye-Cy3: Cy3 CyDye DIGE Fluor saturation dye.
UNIMOD_His__Asn
His->Asn: His->Asn substitution.
MS_ion_desolvation_OBSOLETE
ion desolvation: The removal of solvent molecules clustered around a gas-phase ion by means of heatin...
MS_M_LDI_L
M@LDI L: Waters oa-ToF based MALDI L.
MS_ProteomeDiscoverer_Spectrum_Exporter_File_name
ProteomeDiscoverer:Spectrum Exporter:File name: Name of the output file that contains the exported da...
MS_mass_selective_instability_OBSOLETE
mass selective instability: A method for selective ejection of ions according to their m/z value in a...
UNIMOD_Trp__Oxolactone
Trp->Oxolactone: Tryptophan oxidation to oxolactone.
MS_regular_expression
regular expression: Regular expression.
UNIMOD_dHex_1_Hex_3_HexNAc_4_Sulf_1_
dHex(1)Hex(3)HexNAc(4)Sulf(1): DHex Hex(3) HexNAc(4) Sulf.
MS_data_filtering
data filtering: Filtering out part of the data.
MS_inductive_detector
inductive detector: Inductive detector.
MS_percent_of_base_peak
percent of base peak: The magnitude of a peak or measurement element expressed in terms of the percen...
MS_PSM_level_combined_FDRScore
PSM-level combined FDRScore: mzidLibrary Combined FDRScore for peptide spectrum matches specifically ...
MS_protein_identification_confidence_metric
protein identification confidence metric: Identification confidence metric for a protein.
UNIMOD_Cresylphosphate
Cresylphosphate: O-toluyl-phosphorylation.
UNIMOD_dHex_1_Hex_3_HexNAc_1_Sulf_1_
dHex(1)Hex(3)HexNAc(1)Sulf(1): DHex Hex(3) HexNAc Sulf.
UNIMOD_methylsulfonylethyl
methylsulfonylethyl: Reaction with methyl vinyl sulfone.
MS_lower_score_better
lower score better: Indicates that a lower score is better.
MS_____R____P_
(?<=R)(?!P): Regular expression for Arg-C.
MS_temperature_array
temperature array: A data array of temperature measurements.
UNIMOD_Met__Hsl
Met->Hsl: Homoserine lactone.
UNIMOD_Hex_6_Phos_1_
Hex(6)Phos(1): Hex(6) Phos.
MS_onium_ion_OBSOLETE
onium ion: A positively charged hypervalent ion of the nonmetallic elements. Examples are the methoni...
MS_accelerating_voltage
accelerating voltage: The electrical potential used to impart kinetic energy to ions in a mass spectr...
UO_base_pair
base pair: A count unit which contains one nucleotide.
MS_proteogenomics_search
proteogenomics search: Proteogenomics search performed.
UNIMOD_Ser__LacticAcid
Ser->LacticAcid: Lactic acid from N-term Ser.
UNIMOD_Unknown_302
Unknown:302: Unidentified modification of 301.9864 found in open search.
MS_protonated_molecule_OBSOLETE
protonated molecule: An ion formed by interaction of a neutral molecule with a proton and represented...
MS_constant_neutral_mass_loss_spectrum
constant neutral mass loss spectrum (constant neutral loss spectrum): A spectrum formed of all produc...
MS_ProteinLynx_Global_Server
ProteinLynx Global Server: Waters software for data analysis.
UNIMOD_Hex_4_HexNAc_4_NeuAc_1_
Hex(4)HexNAc(4)NeuAc(1): Hex(4) HexNAc(4) NeuAc.
MS_two_dimensional_gas_chromatography_with_discrete_modulation_time_steps
two-dimensional gas chromatography with discrete modulation time steps: Two-dimensional gas chromatog...
UNIMOD_dHex_2_Hex_2_HexA_1_HexNAc_1_
dHex(2)Hex(2)HexA(1)HexNAc(1): DHex(2) Hex(2) HexA HexNAc.
MS_UIMF_format
UIMF format: SQLite-based file format created at Pacific Northwest National Lab. It stores an interme...
MS_ICPL_reagent_4
ICPL reagent 4: The name of the sample labelled with the ICPL reagent 4.
MS_cross_link_donor
cross-link donor: The Cross-linking donor, assigned according to the following rules: the export soft...
MS_ProteomeDiscoverer_Scan_Type_OBSOLETE
ProteomeDiscoverer:Scan Type: Scan type for the precursor ion (full, Single Ion Monitoring (SIM),...
MS_autodetachment
autodetachment: The formation of a neutral when a negative ion in a discrete state with an energy gre...
MS_database_IPI_cow
database IPI_cow: International Protein Index database for Bos taurus sequences.
UNIMOD_PhosphoCytidine
PhosphoCytidine: Cytidine monophosphate.
MS_highest_observed_wavelength
highest observed wavelength: Highest wavelength observed in an EMR spectrum.
MS_PSM_level_q_value
PSM-level q-value: Estimation of the q-value for peptide spectrum matches.
UNIMOD_Asn__Pro
Asn->Pro: Asn->Pro substitution.
UNIMOD_Lys__Met
Lys->Met: Lys->Met substitution.
MS_MS1_spectrum
MS1 spectrum: Mass spectrum created by a single-stage MS experiment or the first stage of a multi-sta...
UNIMOD_DiART6plex117
DiART6plex117: Accurate mass for DiART6plex 117.
MS_ProteomeDiscoverer_Spectrum_Selector_Total_Intensity_Threshold
ProteomeDiscoverer:Spectrum Selector:Total Intensity Threshold: Used to filter out tandem mass spectr...
MS_6230A_Time_of_Flight_LC_MS
6230A Time-of-Flight LC/MS: The 6230A Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
UO_coulomb
coulomb: An electrical charge unit which is equal to the amount of charge transferred by a current of...
std::string version
the version of the CV from which the referred-to terms are drawn.
UO_heat_conduction_unit
heat conduction unit: A unit which represents a standard measurement of the spontaneous transfer of t...
UNIMOD_Val__His
Val->His: Val->His substitution.
UNIMOD_Ser__Tyr
Ser->Tyr: Ser->Tyr substitution.
MS_magnetic_deflection
magnetic deflection: The deflection of charged particles in a magnetic field due to a force equal to ...
MS_Morpheus_Morpheus_score
Morpheus:Morpheus score: Morpheus score for PSMs.
MS_SEQUEST_sort_by_Scan
SEQUEST:sort by Scan: Sort order of SEQUEST search results given by the scan number.
MS_chemi_ionization
chemi-ionization: The reaction of a neutral molecule with an internally excited molecule to form an i...
MS_Quattro_micro_GC
Quattro micro GC: Waters (triple) quadrupole based Quattro micro GC.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Polarity_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Polarity Replacements: Specifies the polarity of th...
MS_selected_ion_monitoring
selected ion monitoring: The operation of a mass spectrometer in which the intensities of several spe...
MS_ProteinProphet
ProteinProphet: A program in the TPP that calculates protein-level probabilities based on input PSM o...
MS_modification_specificity_peptide_C_term
modification specificity peptide C-term: As parameter for search engine: apply the modification only ...
MS_no_modification_threshold
no modification threshold: No statistical threshold for accepting or rejecting that a modification po...
MS_transmission
transmission: The ratio of the number of ions leaving a region of a mass spectrometer to the number e...
MS_mass_type_settings
mass type settings: The type of mass difference value to be considered by the search engine (monoisot...
UO_mebibyte
mebibyte: An information unit which is equal to 1024 KiB.
MS_SELDI
SELDI (surface enhanced laser desorption ionization): The formation of ionized species in the gas pha...
UNIMOD_BEMAD_ST_2H_6_
BEMAD_ST:2H(6): Beta elimination of modified S or T followed by Michael addition of labelled DTT.
PEFF_ModRes
ModRes: Modified residue without PSI-MOD identifier.
UO_milligram_per_milliliter
milligram per milliliter: A mass unit density which is equal to mass of an object in milligrams divid...
MS_peptide_level_quantification_datatype
peptide-level quantification datatype: The data type of the value reported in a QuantLayer for a pept...
UO_giga
giga: A prefix in the metric system denoting a factor of ten to the power of 9.
MS_proteoform_level_local_FDR_threshold
proteoform-level local FDR threshold: Threshold for the local false discovery rate of proteoforms.
MS_TOPP_FeatureFinderMetabo
TOPP FeatureFinderMetabo: Detects two-dimensional features in centroided LC-MS data of metabolites.
MS_GPS_Explorer
GPS Explorer: SCIEX or Applied Biosystems software for data acquisition and analysis.
MS_LTQ_FT_Ultra
LTQ FT Ultra: LTQ FT Ultra.
UNIMOD_Hex_2_HexNAc_3_NeuAc_2_
Hex(2)HexNAc(3)NeuAc(2): Hex(2) HexNAc(3) NeuAc(2).
MS_alternating_polarity_mode
alternating polarity mode: Polarities of the scans of a run are alternating, i.e. both positive and n...
MS_selected_reaction_monitoring_spectrum
selected reaction monitoring spectrum (SRM spectrum): Spectrum obtained when data are acquired from s...
UNIMOD_Pro__Trp
Pro->Trp: Pro->Trp substitution.
MS_u_OBSOLETE
u (unified atomic mass unit): A non-SI unit of mass (u) defined as one twelfth of ^12 C in its ground...
MS_positive_scan
positive scan: Polarity of the scan is positive.
MS_distributed_normalized_spectral_abundance_factor
distributed normalized spectral abundance factor: A distributed normalized spectral abundance factor ...
UO_second
second: A time unit which is equal to the duration of 9 192 631 770 periods of the radiation correspo...
MS_two_dimensional_liquid_chromatography_with_discrete_modulation_time_steps
two-dimensional liquid chromatography with discrete modulation time steps: Two-dimensional liquid chr...
MS_retention_time_s__OBSOLETE
retention time(s): Retention time of the spectrum from the source file.
UNIMOD_Met__Asp
Met->Asp: Met->Asp substitution.
MS_LCQ_Deca_XP_Plus
LCQ Deca XP Plus: ThermoFinnigan LCQ Deca XP Plus MS.
MS_IsoPrime
IsoPrime: Waters IsoPrime MS.
UNIMOD_His__Ser
His->Ser: His->Ser substitution.
UNIMOD_Gly__Arg
Gly->Arg: Gly->Arg substitution.
MS_curator_keyword
curator keyword: Keyword assigned by a data curator.
MS_PTMProphet
PTMProphet: A program in the TPP that calculates PTM localization probabilities by re-analyzing the p...
MS_Mascot_MGF_format
Mascot MGF format: Mascot MGF file format.
UNIMOD_Biotin_Thermo_21330
Biotin:Thermo-21330: Biotin_PEG4.
UNIMOD_dHex_2_Hex_3_
dHex(2)Hex(3): DHex(2) Hex(3).
MS_Progenesis_automatic_alignment
Progenesis automatic alignment: Automatic RT alignment of Progenesis software.
MS_unlabeled_sample
unlabeled sample: A sample that has not been labelled or modified. This is often referred to as "ligh...
MS_mzR
mzR: Bioconductor package mzR for reading and writing mass spectrometry data files.
UNIMOD_Cysteinyl
Cysteinyl: Cysteinylation.
UNIMOD_Unknown_250
Unknown:250: Unidentified modification of 249.981 found in open search.
MS_microelectrospray
microelectrospray: Electrospray ionization at a solvent flow rate of 300-800 nL/min where the flow is...
UNIMOD_Asn__Arg
Asn->Arg: Asn->Arg substitution.
MS_multidimensional_chromatography_modulation_description
multidimensional chromatography modulation description: Multidimensional chromatography modulation de...
MS_Glu_C
Glu-C (glutamyl endopeptidase): Enzyme glutamyl endopeptidase (EC 3.4.21.19).
MS_alternate_single_letter_codes
alternate single letter codes: List of standard residue one letter codes which are used to replace a ...
MS_protein_level_quantification_datatype
protein-level quantification datatype: The data type of the value reported in a QuantLayer for a prot...
UNIMOD_Ala__Gly
Ala->Gly: Ala->Gly substitution.
MS_TOPP_MRMMapper
TOPP MRMMapper: MRMMapper maps measured chromatograms (mzML) and the transitions used (TraML).
MS_DeBunker_score_threshold
DeBunker:score threshold: Threshold for DeBunker PTM site location score.
MS_Acquity_TQD
Acquity TQD: Waters quadrupole based Acquity TQD.
MS_Synapt_G2_S_MS
Synapt G2-S MS: Waters oa-ToF based Synapt G2-S MS.
MS_Trypsin_K
Trypsin/K (Lys-C): Endoproteinase Lys-C.
MS_scan_attribute
scan attribute: Scan properties that are associated with a value.
MS_nanospray
nanospray (nanoelectrospray): Electrospray ionization at a flow rate less than ~25 nL/min....
UNIMOD_DiART6plex116_119
DiART6plex116/119: Accurate mass for DiART6plex 116 and 119.
MS_contact_address
contact address: Postal address of the contact person or organization.
UNIMOD_Val__Glu
Val->Glu: Val->Glu substitution.
MS_ASN_1
ASN.1: The sequence database was stored in the Abstract Syntax Notation 1 format.
MS_PIA_workflow_parameter
PIA workflow parameter: A parameter set for a single PIA analysis.
MS_H3PO4_neutral_loss_OBSOLETE
H3PO4 neutral loss: Neutral loss of phosphoric acid.
UNIMOD_Xle__His
Xle->His: Leu/Ile->His substitution.
UNIMOD_Label_2H_10_
Label:2H(10): 2H(10) label.
MS_MIKES_OBSOLETE
MIKES (mass analyzed ion kinetic energy spectrometry): Spectra that are obtained from a sector mass s...
UNIMOD_Delta_H_4_C_3_
Delta:H(4)C(3): Propionaldehyde +40.
MS_Maui
Maui: The Maltcms Graphical User Interface.
MS_fast_ion_bombardment
fast ion bombardment: The ionization of any species by the interaction of a focused beam of ions havi...
UO_colony_forming_unit_per_milliliter
colony forming unit per milliliter: A colony forming unit which a measure of viable bacterial numbers...
UNIMOD_Phytochromobilin
Phytochromobilin: Phytochromobilin.
MS_SEQUEST_ProcessCV
SEQUEST:ProcessCV: SEQUEST View / Process Input Parameters.
MS_product_ion_mobility
product ion mobility: The mobility of an MS2 product ion, as measured by ion mobility mass spectromet...
MS_protein_level_result_list_attribute
protein-level result list attribute: Attribute of an entire protein list.
UNIMOD_Trp__Val
Trp->Val: Trp->Val substitution.
MS_AE_OBSOLETE
AE (appearance energy): The minimum energy that must be imparted to an atom or molecule to produce a ...
MS_merge_of_runs_of_1D_gel_bands
merge of runs of 1D gel bands: Attribute describing, how raw files build a raw file group.
UNIMOD_Label_13C_3_15N_1_
Label:13C(3)15N(1): 13C3 15N1 label for SILAC.
MS_ProteomeDiscoverer_Delta_Score
ProteomeDiscoverer:Delta Score: The Delta Score reported by Proteome Discoverer version 2.
UNIMOD_Acetyl
Acetyl: Acetylation.
MS_PeakPicker_OBSOLETE
PeakPicker: Finds mass spectrometric peaks in profile mass spectra.
MS_multiple_reaction_monitoring_spectrum
multiple reaction monitoring spectrum (SRM spectrum): Spectrum obtained when data are acquired from s...
MS_data_transformation
data transformation: Terms used to describe types of data processing.
MS_peptide_sequence_level_local_FDR
peptide sequence-level local FDR: Estimation of the local false discovery rate for distinct peptides ...
MS_PTM_localization_distinct_peptide_level_statistic
PTM localization distinct peptide-level statistic: Statistic to convey the confidence of the localiza...
MS_TMT_reagent_127C
TMT reagent 127C: The name of the sample labelled with the TMT reagent 127C.
MS_ProteomeDiscoverer_Static_Modification_for_X
ProteomeDiscoverer:Static Modification for X: Static Modification for X.
UO_gigabyte
gigabyte: An information unit which is equal to 1000000000 bytes.
MS_retention_time_alignment
retention time alignment: The correction of the spectrum scan times, as used e.g. in label-free prote...
MS_peptide_sequence_level_result_list_statistic
peptide sequence-level result list statistic: Statistic pertaining to all peptide sequences in the li...
UNIMOD_dHex_1_Hex_3_HexNAc_3_NeuAc_2_
dHex(1)Hex(3)HexNAc(3)NeuAc(2): DHex Hex(3) HexNAc(3) NeuAc(2).
MS_solariX
solariX: Bruker Daltonics' solariX: ESI, MALDI, Qh-FT_ICR.
MS_positive_ion_mode_OBSOLETE
positive ion mode: OBSOLETE.
MS_field_free_region
field-free region: A section of a mass spectrometer in which there are no electric or magnetic fields...
MS_TopPIC_spectral_E_value
TopPIC:spectral E-value: TopPIC spectrum-level E-value.
MS_XCMS_into
XCMS:into: Feature intensity produced by XCMS findPeaks() from integrated peak intensity.
MS_TOPP_noise_filter
TOPP noise filter: Noise filter component of the TOPP software.
UO_light_unit
light unit: A unit which is a standard measure of the intensity of light.
UNIMOD_Biotin_Thermo_88310
Biotin:Thermo-88310: Desthiobiotin modification of lysine.
MS_DiART_reagent_116
DiART reagent 116: The name of the sample labelled with the DiART reagent 116.
UNIMOD_Glu__Gln
Glu->Gln: Glu->Gln substitution.
UO_radiation_unit
radiation unit: A unit which is a standard measure of the amount of radiation emitted by a given radi...
UNIMOD_Molybdopterin
Molybdopterin: Molybdopterin.
MS_spectrum_identification_list_result_details
spectrum identification list result details: Information about the list of PSMs (SpectrumIdentificati...
MS_database_UniProtKB_Swiss_Prot
database UniProtKB/Swiss-Prot: The name of the UniProtKB/Swiss-Prot knowledgebase.
MS_TopMG_max_shift
TopMG:max shift: Maximum value of the mass shift (in Dalton).
MS_data_processing_start_time
data processing start time: The time that a data processing action was started.
MS_TopPIC_use_TopFD_feature
TopPIC:use TopFD feature: Proteoform identification using TopFD feature file.
UO_relative_luminescence_unit
relative luminescence unit: A relative light unit which is a measure of relative luminescence intensi...
MS_spectrum_from_ProteinScape_database_nativeID_format
spectrum from ProteinScape database nativeID format: Native format defined by databasekey=xsd:long.
UNIMOD_Lys__Ala
Lys->Ala: Lys->Ala substitution.
UNIMOD_dHex_2_Hex_3_HexNAc_3_
dHex(2)Hex(3)HexNAc(3): DHex(2) Hex(3) HexNAc(3).
UO_molar_mass_unit
molar mass unit: A unit which is a standard measure of the mass of a homogeneous substance containing...
MS_Andi_CHROM_format
Andi-CHROM format: AIA Analytical Data Interchange file format for chromatography data.
UNIMOD_Hex_3_HexNAc_6_Sulf_1_
Hex(3)HexNAc(6)Sulf(1): Hex(3) HexNAc(6) Sulf.
MS_source_temperature
source temperature: The temperature of the source of a mass spectrometer.
MS_Q_Tof_Premier
Q-Tof Premier: Waters oa-ToF based Q-Tof Premier.
UNIMOD_ESP_2H_10_
ESP:2H(10): ESP-Tag heavy d10.
MS_Paragon_total_protscore
Paragon:total protscore: The Paragon result 'Total ProtScore'.
UNIMOD_Hex_2_HexNAc_2_dHex_1_
Hex(2)HexNAc(2)dHex(1): Hex2HexNAc2dHex1.
UNIMOD_Hex_1_HexNAc_1_Kdn_1_Sulf_1_
Hex(1)HexNAc(1)Kdn(1)Sulf(1): Hex HexNAc Kdn Sulf.
MS_conversion_dynode_photomultiplier
conversion dynode photomultiplier: A detector in which ions strike a conversion dynode to produce ele...
UO_solid_angle_unit
solid angle unit: A unit which is a standard measure of the angle formed by three or more planes inte...
MS_small_molecule_analysis_software
small molecule analysis software: Software for the analysis of small molecules.
MS_TMT_reagent_127
TMT reagent 127: The name of the sample labelled with the TMT reagent 127.
MS_MS_GF_Energy
MS-GF:Energy: MS-GF energy score.
MS_Comet_deltacnstar
Comet:deltacnstar: The Comet result 'DeltaCnStar'.
MS_cleavage_agent_name
cleavage agent name: The name of the cleavage agent.
MS_PIA_XML_format
PIA XML format: A compilation of search engine results in the PIA XML format.
UNIMOD_Carboxymethyl
Carboxymethyl: Iodoacetic acid derivative.
UO_cubic_decimeter
cubic decimeter: A volume unit which is equal to one thousand of a cubic meter or 10^[-3] m^[3],...
UNIMOD_dHex_3_Hex_3_HexNAc_3_
dHex(3)Hex(3)HexNAc(3): DHex(3) Hex(3) HexNAc(3).
UNIMOD_CoenzymeA
CoenzymeA: Cysteine modified Coenzyme A.
MS_param__b_ion_H2O_DEPRECATED
param: b ion-H2O DEPRECATED: Ion b-H2O if b significant and fragment includes STED.
MS_nativeID_format__combined_spectra
nativeID format, combined spectra (native spectrum identifier format, combined spectra): Describes ho...
MS_no_special_processing
no special processing: No special processing performed.
UNIMOD_dHex_3_Hex_3_HexNAc_3_Pent_1_
dHex(3)Hex(3)HexNAc(3)Pent(1): DHex(3) Hex(3) HexNAc(3) Pent.
MS_reporter_ion_normalized_value
reporter ion normalized value: Normalized value of MS2 reporter ion (e.g. iTraq).
UNIMOD_Ethylphosphate
Ethylphosphate: O-Ethylphosphorylation.
MS_desorption_ionization_on_silicon
desorption/ionization on silicon: The formation of ions by laser desorption ionization of a sample de...
UO_hertz
hertz: A frequency unit which is equal to 1 complete cycle of a recurring phenomenon in 1 second.
MS_DTASelect
DTASelect: Analysis software designed to reassemble the SEQUEST peptide identifications and to highli...
MS_Voyager_DE_STR
Voyager-DE STR: Applied Biosystems/MDS SCIEX Voyager-DE STR MS.
MS_spectral_count_protein_level_quantitation
spectral count protein level quantitation: Spectral count protein level quantitation.
MS_Amanda_AmandaScore
Amanda:AmandaScore: The Amanda score of the scoring function for a PSM.
MS_ProteinExtractor_ProteinSolverWeighting
ProteinExtractor:ProteinSolverWeighting: Influence of ProteinSolver search engine in the process of m...
UNIMOD_Gln__Arg
Gln->Arg: Gln->Arg substitution.
UNIMOD_BisANS
BisANS: 4,4\'-dianilino-1,1\'-binaphthyl-5,5\'-disulfonic acid.
MS_Xevo_G2_XS_Tof
Xevo G2 XS Tof: Waters Corporation Xevo G2 XS Tof orthogonal acceleration time-of-flight mass spectro...
MS_Pegasus_4D
Pegasus 4D: LECO nominal mass resolution time-of-flight GCxGC mass spectrometer.
MS_negative_ion_OBSOLETE
negative ion: An atomic or molecular species having a net negative electric charge.
MS_Progenesis_QI_normalised_abundance
Progenesis QI normalised abundance: The normalised abundance produced by Progenesis QI LC-MS.
UNIMOD_Xlink_EGS_226_
Xlink:EGS[226]: Intact EGS cross-linker.
MS_Reprocessed_subset_dataset
Reprocessed subset dataset: A subset of the raw files included in the original dataset (or group of o...
UNIMOD_dHex_1_Hex_4_HexNAc_3_NeuAc_1_
dHex(1)Hex(4)HexNAc(3)NeuAc(1): DHex Hex(4) HexNAc(3) NeuAc —OR— dHex(2) Hex(3) HexNAc(3) NeuGc.
MS_IRMS_OBSOLETE
IRMS (isotope ratio mass spectrometry): The measurement of the relative quantity of the different iso...
MS_TOPP_SpecLibSearcher
TOPP SpecLibSearcher: Identifies peptide MS2 spectra by spectral matching with a searchable spectral ...
MS_Bruker_Daltonics_EVOQ_series
Bruker Daltonics EVOQ series: Bruker Daltonics' EVOQ series.
MS_no_compression
no compression: No Compression.
UNIMOD_NHS_LC_Biotin
NHS-LC-Biotin: NHS-LC-Biotin.
UNIMOD_Phe__Glu
Phe->Glu: Phe->Glu substitution.
MS_SIM_chromatogram
SIM chromatogram (selected ion monitoring chromatogram): Chromatogram created by creating an array of...
MS_protein_attribute
protein attribute: An nonphysical attribute describing a specific protein.
MS_ProteinExtractor_MascotPeptideScoreThreshold
ProteinExtractor:MascotPeptideScoreThreshold: Only peptides with scores higher than that threshold ar...
UO_mass_density_unit
mass density unit: A density unit which is a standard measure of the mass of a substance in a given v...
MS_MALDI_Solutions
MALDI Solutions: Shimadzu Biotech software for data acquisition, processing, and analysis.
UNIMOD_His__Thr
His->Thr: His->Thr substitution.
MS_TSQ_9000
TSQ 9000: Thermo Scientific TSQ 9000 Triple Quadrupole MS.
MS_ProteomeDiscoverer_Highest_Charge_State
ProteomeDiscoverer:Highest Charge State: Maximum charge above which peptides are filtered out.
UNIMOD_dHex_1_Hex_3_HexNAc_4_
dHex(1)Hex(3)HexNAc(4): Fucosylated biantennary (-2 galactose).
MS_ionization_type
ionization type: The method by which gas phase ions are generated from the sample.
UNIMOD_Phe__Asp
Phe->Asp: Phe->Asp substitution.
MS_chromatogram_attribute
chromatogram attribute: Chromatogram properties that are associated with a value.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuGc_1_
dHex(1)Hex(2)HexNAc(2)NeuGc(1): DHex Hex(2) HexNAc(2) NeuGc —OR— Hex(3) HexNAc(2) NeuAc.
MS_frag__z_1_ion
frag: z+1 ion: Fragmentation information, type of product: z+1 ion.
MS_PIA_FDRScore_calculated
PIA:FDRScore calculated: Indicates whether the FDR score was calculated for the input file.
MS_TOPP_IDPosteriorErrorProbability
TOPP IDPosteriorErrorProbability: Estimates posterior error probabilities using a mixture model.
MS_ProteomeDiscoverer_Xtract_Highest_Charge
ProteomeDiscoverer:Xtract:Highest Charge: Highest charge state that is allowed for the deconvolution ...
MS_6310_Ion_Trap_LC_MS
6310 Ion Trap LC/MS: The 6310 Ion Trap LC/MS is a Agilent liquid chromatography instrument combined w...
MS_2000_QTRAP
2000 QTRAP: SCIEX 2000 QTRAP.
MS_ProteomeDiscoverer_Mascot_Weight_of_A_Ions
ProteomeDiscoverer:Mascot:Weight of A Ions: Determines if to use A ions for spectrum matching.
MS_sequence_subsumable_protein
sequence subsumable protein: A sequence same-set or sequence sub-set protein where the matches are di...
MS_pI
pI (isoelectric point): The pH of a solution at which a charged molecule does not migrate in an elect...
MS_Ascore
Ascore: A-score for PTM site location at the PSM-level.
UO_information_unit
information unit: A unit which is a standard measure of the amount of information.
MS_Single_Stage_Mass_Spectrometry
Single-Stage Mass Spectrometry (MS1 spectrum): Mass spectrum created by a single-stage MS experiment ...
MS_TripleTOF_5600
TripleTOF 5600: SCIEX TripleTOF 5600, a quadrupole - quadrupole - time-of-flight mass spectrometer.
MS_dpControl
dpControl: Bruker software for data acquisition.
MS_analyzer_scan_offset
analyzer scan offset: Offset between two analyzers in a constant neutral loss or neutral gain scan....
UO_kilogram_per_liter
kilogram per liter: A mass unit density which is equal to mass of an object in kilograms divided by t...
MS_ProteomeDiscoverer_Xtract_Required_Fitting_Accuracy
ProteomeDiscoverer:Xtract:Required Fitting Accuracy: Accuracy required for a pattern fit to be consid...
MS_Constant_Neutral_Mass_Gain_Scan_OBSOLETE
Constant Neutral Mass Gain Scan (constant neutral gain scan): Spectrum of all precursor ions that und...
UO_micrometer
micrometer: A length unit which is equal to one millionth of a meter or 10^[-6] m.
MS_Xevo_TQ_S
Xevo TQ-S: Waters quadrupole based Xevo TQ-S.
UO_specific_volume_unit
specific volume unit: A unit which is a standard measure of the volume of a given mass of substance (...
MS_resolution_type_OBSOLETE
resolution type: Specify the nature of resolution for the mass analyzer. Resolution is usually either...
MS_emission_chromatogram
emission chromatogram: The measurement of light emitted by the sample as a function of the retention ...
MS_TOPP_IDMapper
TOPP IDMapper: Assigns protein/peptide identifications to feature or consensus features.
MS_isolation_window_upper_limit_OBSOLETE
isolation window upper limit: The highest m/z being isolated in an isolation window.
MS_vacuum_drying_MALDI_sample_preparation
vacuum drying MALDI sample preparation: Vacuum-drying MALDI sample preparation crystallization method...
MS_Mascot_Integra
Mascot Integra: Mascot Integra.
MS_interchannel_delay
interchannel delay: The duration of intervals between scanning, during which the instrument configura...
UNIMOD_FAD
FAD: Flavin adenine dinucleotide.
MS_protein_group_level_result_list_statistic
protein group-level result list statistic: Attrbiute of an entire list of protein groups.
MS_XIC_area
XIC area: Area of the extracted ion chromatogram (e.g. of a transition in SRM).
UNIMOD_Hex_1_HexNAc_3_
Hex(1)HexNAc(3): Hex HexNAc(3).
UNIMOD_Tyr__Phe
Tyr->Phe: Tyr->Phe substitution.
MS_iTRAQ_reagent_113
iTRAQ reagent 113: The name of the sample labelled with the iTRAQ reagent 113.
UNIMOD_dHex_1_Hex_5_HexNAc_3_Sulf_1_
dHex(1)Hex(5)HexNAc(3)Sulf(1): DHex Hex(5) HexNAc(3) Sulf.
MS_MALDI_Solutions_Microbial_Identification
MALDI Solutions Microbial Identification: Shimadzu Biotech software for data acquisition,...
UO_colony_forming_unit
colony forming unit: A dimensionless count unit which a measure of viable bacterial numbers.
MS_spectral_count_proteingroup_level_quantitation
spectral count proteingroup level quantitation: Spectral count proteingroup level quantitation.
UNIMOD_Glu__Lys
Glu->Lys: Glu->Lys substitution.
UNIMOD_VIEVYQEQTGG
VIEVYQEQTGG: SUMOylation by SUMO-1 (formic acid cleavage).
MS_instrument_serial_number
instrument serial number: Serial Number of the instrument.
UO_dyne_per_cm
dyne per cm: A surface tension unit which is equal to one dyne per centimeter.
UNIMOD_Amidino
Amidino: Amidino.
UNIMOD_Val__Ser
Val->Ser: Val->Ser substitution.
MS_fragmentation_score
fragmentation score: The fragmentation confidence score.
MS_inverse_reduced_ion_mobility
inverse reduced ion mobility: Ion mobility measurement for an ion or spectrum of ions as measured in ...
MS_64_bit_float
64-bit float: 64-bit precision little-endian floating point conforming to IEEE-754.
MS_normalized_protein_value
normalized protein value: Normalized protein value.
MS_protein_group_passes_threshold
protein group passes threshold: A Boolean attribute to determine whether the protein group has passed...
UNIMOD_LG_Hlactam_R
LG-Hlactam-R: Levuglandinyl - arginine hydroxylactam adduct.
UNIMOD_dHex_2_Hex_2_HexNAc_2_NeuGc_1_
dHex(2)Hex(2)HexNAc(2)NeuGc(1): DHex(2) Hex(2) HexNAc(2) NeuGc —OR— Hex(3) HexNAc(2) dHex NeuAc —OR— ...
MS_TrypChymo
TrypChymo: Cleavage agent TrypChymo.
MS_quantification_data_processing
quantification data processing: Terms used to describe types of quantification data processing.
MS_second_column_elution_time
second column elution time: The time of elution from the second chromatographic column in the chromat...
MS_4000_QTRAP_OBSOLETE
4000 QTRAP: SCIEX or Applied Biosystems|MDS SCIEX QTRAP 4000.
UNIMOD_Xle__Val
Xle->Val: Leu/Ile->Val substitution.
MS_Proline
Proline: The Proline software suite for mass spectrometry based proteomics.
MS_protein_group_or_subset_relationship
protein group or subset relationship: Protein group or subset relationships.
UO_perch
perch: An area unit which is equal to an area of 25.292,852,64 square meters, or 1 square rod.
UNIMOD_Asn__Lys
Asn->Lys: Asn->Lys substitution.
MS_de_facto_standard
de facto standard: A practice or product that has become a standard not because it has been approved ...
UNIMOD_Homocysteic_acid
Homocysteic_acid: Methionine oxidation to homocysteic acid.
MS_distinct_peptide_level_q_value
distinct peptide-level q-value: Estimation of the q-value for distinct peptides once redundant identi...
MS_Scaffold_Peptide_Probability
Scaffold:Peptide Probability: Scaffold peptide probability score.
UNIMOD_Tyr__Met
Tyr->Met: Tyr->Met substitution.
UNIMOD_EEEDVIEVYQEQTGG
EEEDVIEVYQEQTGG: Sumoylation by SUMO-1 after Cyanogen bromide (CNBr) cleavage.
UNIMOD_dHex_1_Hex_3_
dHex(1)Hex(3): Hex3dHex1.
UNIMOD_Phenylisocyanate
Phenylisocyanate: Phenyl isocyanate.
UNIMOD_dHex_1_Hex_1_HexNAc_3_Sulf_1_
dHex(1)Hex(1)HexNAc(3)Sulf(1): DHex Hex HexNAc(3) Sulf.
MS_decoy_DB_from_IPI_arabidopsis_OBSOLETE
decoy DB from IPI_arabidopsis: Decoy database from a International Protein Index database for Arabido...
MS_database_IPI_mouse
database IPI_mouse: International Protein Index database for Mus musculus sequences.
MS_database_EST
database EST: Expressed sequence tag nucleotide sequence database.
MS_Compass_for_HCT_esquire
Compass for HCT/esquire: Bruker Compass for HCT/esquire software.
MS_LC_MS_feature_volume
LC-MS feature volume: Real (intensity times area) volume of the LC-MS feature.
UNIMOD_Cys__Tyr
Cys->Tyr: Cys->Tyr substitution.
MS_SILAC_light_reagent
SILAC light reagent: The name of the sample labelled with the light SILAC label.
MS_6110_Quadrupole_LC_MS
6110 Quadrupole LC/MS: The 6110 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
UNIMOD_dHex_1_Hex_8_HexNAc_2_
dHex(1)Hex(8)HexNAc(2): DHex Hex(8) HexNAc(2).
UNIMOD_dHex_1_Hex_1_HexNAc_1_NeuAc_1_
dHex(1)Hex(1)HexNAc(1)NeuAc(1): DHex Hex HexNAc NeuAc.
UNIMOD_cysTMT6plex
cysTMT6plex: Cysteine-reactive Sixplex Tandem Mass Tag®.
UNIMOD_Hex_5_HexNAc_4_Sulf_1_
Hex(5)HexNAc(4)Sulf(1): Hex(5) HexNAc(4) Sulf.
MS_search_engine_input_parameter
search engine input parameter: Search engine input parameter.
MS_liquid_secondary_ionization
liquid secondary ionization: The ionization of any species by the interaction of a focused beam of io...
MS_mass_spectrograph_obsolete_OBSOLETE
mass spectrograph obsolete: An instrument that separates a beam of ions according to their mass-to-ch...
MS_ratio_calculation_method
ratio calculation method: Method used to calculate the ratio.
MS_measurement_method
measurement method: An attribute of resolution when recording the detector response in absence of the...
MS_data_processing
data processing (data transformation): Terms used to describe types of data processing.
UNIMOD_Hex_3_HexNAc_3_NeuAc_2_Sulf_1_
Hex(3)HexNAc(3)NeuAc(2)Sulf(1): Hex(3) HexNAc(3) NeuAc(2) Sulf.
UNIMOD_Label_13C_1_2H_3__Oxidation
Label:13C(1)2H(3)+Oxidation: Oxidised methionine 13C(1)2H(3) SILAC label.
UNIMOD_Hex_6_HexNAc_4_
Hex(6)HexNAc(4): Hex(6) HexNAc(4).
UNIMOD_Xle__Trp
Xle->Trp: Leu/Ile->Trp substitution.
MS_SRM_chromatogram
SRM chromatogram (selected reaction monitoring chromatogram): Chromatogram created by creating an arr...
MS_fragment_neutral_loss
fragment neutral loss: This term can describe a neutral loss m/z value that is lost from an ion.
MS_scan_window_upper_limit
scan window upper limit: The lower m/z bound of a mass spectrometer scan window.
MS_PeptideShaker_protein_group_score
PeptideShaker protein group score: The probability based PeptideShaker protein group score.
MS_Search_engine_output_file_URI
Search engine output file URI: URI of one search engine output file associated to one PX submission.
UNIMOD_Hex_4_HexNAc_4_Sulf_2_
Hex(4)HexNAc(4)Sulf(2): Hex(4) HexNAc(4) Sulf(2).
UNIMOD_Benzoyl
Benzoyl: Labeling reagent light form (N-term & K).
MS_sliding_average_smoothing
sliding average smoothing (moving average smoothing): Reduces intensity spikes by averaging each poin...
MS_Compass_OpenAccess
Compass OpenAccess: Bruker compass OpenAccess software.
UO_fraction
fraction: A dimensionless ratio unit which relates the part (the numerator) to the whole (the denomin...
MS_chromosome_strand
chromosome strand: The strand (+ or -) to which the peptide has been mapped.
MS_Scaffold__Minimum_Peptide_Count
Scaffold: Minimum Peptide Count: Minimum number of peptides a protein must have to be accepted.
MS_ATAQS
ATAQS: Software suite used to predict, select, and optimize transitions as well as analyze the result...
UNIMOD_HexNAc_1_dHex_2_
HexNAc(1)dHex(2): HexNAc1dHex2.
MS_PepFinder
PepFinder: Thermo Scientific PepFinder BioPharma analysis software.
UNIMOD_Bodipy
Bodipy: Bodipy modifications onto cysteine.
MS_sample_pre_fractionation
sample pre-fractionation: Sample pre-fractionation performed.
MS_spectrum_identifier_nativeID_format
spectrum identifier nativeID format: Native format defined by spectrum=xsd:nonNegativeInteger.
UNIMOD_Label_15N_3_
Label:15N(3): 15N(3).
UNIMOD_Glu__Val
Glu->Val: Glu->Val substitution.
MS_contact_fax_number
contact fax number: Fax number for the contact person or organization.
UNIMOD_Glu__Ala
Glu->Ala: Glu->Ala substitution.
UNIMOD_Hex_2_HexNAc_1_NeuGc_3_
Hex(2)HexNAc(1)NeuGc(3): Hex(2) HexNAc NeuGc(3).
UNIMOD_dHex_1_Hex_1_HexNAc_3_NeuAc_1_
dHex(1)Hex(1)HexNAc(3)NeuAc(1): DHex Hex HexNAc(3) NeuAc.
UNIMOD_Dicarbamidomethyl
Dicarbamidomethyl: Double Carbamidomethylation.
MS_multichannel_plate
multichannel plate (microchannel plate detector): A thin plate that contains a closely spaced array o...
UNIMOD_Succinyl
Succinyl: Succinic anhydride labeling reagent light form (N-term & K).
MS_residual_gas_analyzer_OBSOLETE
residual gas analyzer: A mass spectrometer used to measure the composition and pressure of gasses in ...
UNIMOD_AHA_SS
AHA-SS: Azidohomoalanine coupled to reductively cleaved tag.
MS_iTRAQ_reagent_121
iTRAQ reagent 121: The name of the sample labelled with the iTRAQ reagent 121.
MS_SILAC_heavy_reagent
SILAC heavy reagent: The name of the sample labelled with the heavy SILAC label.
UNIMOD_Asn__Gly
Asn->Gly: Asn->Gly substitution.
MS_staphylococcal_protease
staphylococcal protease (glutamyl endopeptidase): Enzyme glutamyl endopeptidase (EC 3....
UNIMOD_Propargylamine
Propargylamine: Propargylamine.
MS_TSQ_Altis
TSQ Altis: Thermo Scientific TSQ Altis Triple Quadrupole MS.
UNIMOD_Hex_4_HexNAc_4_Sulf_1_
Hex(4)HexNAc(4)Sulf(1): Hex(4) HexNAc(4) Sulf.
UNIMOD_Met__Tyr
Met->Tyr: Met->Tyr substitution.
UNIMOD_GG
GG: Ubiquitinylation residue.
MS_ion_kinetic_energy_spectrometry_OBSOLETE
ion kinetic energy spectrometry: A method of analysis in which a beam of ions is separated according ...
UNIMOD_Sulfo_NHS_LC_LC_Biotin
Sulfo-NHS-LC-LC-Biotin: Biot_LC_LC.
MS_nanoACQUITY_UPLC
nanoACQUITY UPLC: Waters LC-system nanoACQUITY UPLC.
UNIMOD_HCysThiolactone
HCysThiolactone: N-Homocysteine thiolactone.
UO_yotta
yotta: A prefix in the metric system denoting a factor of ten to the power of 24.
UO_angular_acceleration_unit
angular acceleration unit: A unit which is a standard measure of the rate of change of angular veloci...
UNIMOD_PEO_Iodoacetyl_LC_Biotin
PEO-Iodoacetyl-LC-Biotin: Biotinyl-iodoacetamidyl-3,6-dioxaoctanediamine.
MS_peptide_group_label
peptide group label: An arbitrary string label used to mark a set of peptides that belong together in...
MS_LCQ_Classic
LCQ Classic: ThermoFinnigan LCQ Classic MS.
UNIMOD_Succinyl_13C_4_
Succinyl:13C(4): Succinic anhydride labeling reagent, heavy form (+4amu, 4C13), N-term & K.
MS_Xevo_Q_Tof
Xevo Q-Tof: Waters oa-ToF based Xevo Q-Tof.
MS_LCQ_Fleet
LCQ Fleet: LCQ Fleet.
MS_PASSEL_transition_group_browser_URI
PASSEL transition group browser URI: URI to retrieve transition group data for a PASSEL (PeptideAtlas...
MS_IsoProbe
IsoProbe: Waters IsoProbe MS.
MS_protein_level_identification_attribute
protein-level identification attribute: Protein level information.
MS_adduct_ion_isotope
adduct ion isotope: Isotope of the matrix molecule M of an adduct formation.
MS_SpectrumMill_directories
SpectrumMill directories: Source file for this mzIdentML was in Agilent SpectrumMill directory format...
MS_database_filtering
database filtering: Was there filtering used on the database.
UNIMOD_Dioxidation
Dioxidation: Dihydroxy.
UNIMOD_HexNAc_2_dHex_2_
HexNAc(2)dHex(2): HexNAc2dHex2.
MS_TOPP_MascotAdapter
TOPP MascotAdapter: Identifies MS2 spectra using the external program Mascot.
MS_database_type
database type: Database containing amino acid or nucleic acid sequences.
MS_TopPIC_proteoform_level_cutoff_type
TopPIC:proteoform-level cutoff type: Proteoform-level cutoff type for filtering identified proteoform...
MS_study_variable_variation_function
study variable variation function: Function used to calculate the study variable quantification varia...
UNIMOD_ICAT_C_13C_9_
ICAT-C:13C(9): Applied Biosystems cleavable ICAT(TM) heavy.
MS_product_ion_drift_time_OBSOLETE
product ion drift time: The ion drift time of an MS2 product ion.
UO_drachm
drachm: An imperial mass unit which is equivalent to 1.771,845,195,3125 grams, or 1/256 of 1 pound.
MS_MBMS_OBSOLETE
MBMS (molecular beam mass spectrometry): A mass spectrometry technique in which the sample is introdu...
MS_source_sprayer_model
source sprayer model: The source sprayer model.
UNIMOD_ICAT_G
ICAT-G: Gygi ICAT(TM) d0.
MS_SEQUEST
SEQUEST: The name of the SEQUEST search engine.
UNIMOD_Ala__Pro
Ala->Pro: Ala->Pro substitution.
MS_protein_group_level_FDRScore
protein group-level FDRScore: mzidLibrary FDRScore for protein groups.
MS_ProteomeDiscoverer_Absolute_XCorr_Threshold
ProteomeDiscoverer:Absolute XCorr Threshold: Minimum cross-correlation threshold that determines whet...
MS_Phenyx_Turbo_ErrorTol
Phenyx:Turbo:ErrorTol: The maximal allowed fragment m/z error filter considered in the turbo mode of ...
MS_SEQUEST_out_file_format
SEQUEST out file format: Source file for this mzIdentML was in SEQUEST out file format.
MS_Mascot_Distiller
Mascot Distiller: Mascot Distiller.
MS_charge_induced_fragmentation_OBSOLETE
charge-induced fragmentation: Fragmentation of an odd electron ion in which the cleaved bond is adjac...
MS_MS_MS_OBSOLETE
MS/MS (mass spectrometry/mass spectrometry): The acquisition, study and spectra of the electrically c...
UO_electric_current_unit
electric current unit: A unit which is a standard measure of the flow of electric charge.
MS_ProteomeDiscoverer_3__Static_Modification_OBSOLETE
ProteomeDiscoverer:3. Static Modification: ProteomeDiscoverer's 3rd static post-translational modific...
MS_sample_batch
sample batch: Sample batch lot identifier.
UO_counts_per_minute
counts per minute: An activity (of a radionuclide) unit which is equal to the number of light emissio...
MS_data_file_content
data file content: Describes the data content on the file.
UO_picometer
picometer: A length unit which is equal to 10^[-12] m.
MS_Expect_value
Expect value: Result of quality estimation: Expect value.
UO_time_unit
time unit: A unit which is a standard measure of the dimension in which events occur in sequence.
PEFF_PEFF_CV_term
PEFF CV term: PSI Extended FASTA Format Controlled Vocabulary term.
MS_H_Score
H-Score: H-Score for peptide phosphorylation site location.
MS_DiLeu_reagent
DiLeu reagent: Dimethyl leucine labeling reagent.
MS_report_only_spectra_assigned_to_identified_proteins
report only spectra assigned to identified proteins: Flag indicating to report only the spectra assig...
UNIMOD_Arg__Trp
Arg->Trp: Arg->Trp substitution.
MS_small_molecule_modification_attribute
small molecule modification attribute: Attribute describing a small molecule modification.
MS_ProteomeDiscoverer_Max_Precursor_Mass
ProteomeDiscoverer:Max Precursor Mass: Maximum mass limit of a singly charged precursor ion.
UNIMOD_Label_18O_2_
Label:18O(2): O18 label at both C-terminal oxygens.
MS_precursor_ion_scan_OBSOLETE
precursor ion scan: The specific scan function or process that will record a precursor ion spectrum.
UO_pi
pi: A dimensionless unit which denoted an irrational real number, approximately equal to 3....
MS_distinct_peptide_level_FDRScore
distinct peptide-level FDRScore: MzidLibrary FDRScore for distinct peptides once redundant identifica...
MS_micrOTOF_Q_II
micrOTOF-Q II: Bruker Daltonics' micrOTOF-Q II: ESI Q-TOF, Nanospray, APCI, APPI.
MS_suspension
suspension: State if the sample is in suspension form.
UNIMOD_Hex_7_HexNAc_2_Phos_1_
Hex(7)HexNAc(2)Phos(1): Hex(7) HexNAc(2) Phos.
UNIMOD_AHA_Alkyne
AHA-Alkyne: Azidohomoalanine (AHA) bound to propargylglycine-NH2 (alkyne).
MS_ProteomeDiscoverer_2__Static_Modification_OBSOLETE
ProteomeDiscoverer:2. Static Modification: ProteomeDiscoverer's 2nd static post-translational modific...
MS_ALEX123
ALEX123: Analysis of lipid experiments 123, a calculator with m/z values of intact lipid molecules (M...
MS_programmer
programmer: Programmer role.
UNIMOD_Brij58
Brij58: Brij 58 synthetic polymer terminus.
UO_nanometer
nanometer: A length unit which is equal to one thousandth of one millionth of a meter or 10^[-9] m.
UNIMOD_Cys__ethylaminoAla
Cys->ethylaminoAla: Carbamidomethylated Cys that undergoes beta-elimination and Michael addition of e...
MS_peptide_spectrum_match_scoring_algorithm
peptide spectrum match scoring algorithm: Algorithm used to score the match between a spectrum and a ...
UNIMOD_Asn__His
Asn->His: Asn->His substitution.
MS_SCION_SQ
SCION SQ: Bruker Daltonics' SCION SQ: GC-single quadrupole.
MS_MZmine
MZmine: A framework for differential analysis of mass spectrometry data.
UNIMOD_Asp__Ala
Asp->Ala: Asp->Ala substitution.
MS_MSPathFinder
MSPathFinder: PNNL top-down/bottom-up analysis software for identifying peptides and proteoforms in f...
UNIMOD_Bromobimane
Bromobimane: Monobromobimane derivative.
MS_MS_GF_QValue
MS-GF:QValue: MS-GF Q-value.
MS_combined_pmf___ms_ms_search
combined pmf + ms-ms search: Search that includes data from Peptide Mass Fingerprint (PMF) and MS2 (a...
UNIMOD_Hex_1_HexNAc_2_NeuGc_1_
Hex(1)HexNAc(2)NeuGc(1): Hex HexNAc(2) NeuGc.
UNIMOD_Trp__Gly
Trp->Gly: Trp->Gly substitution.
MS_peptide_H_Score
peptide:H-Score: H-Score for peptide phosphorylation site location at the peptide-level.
UO_kibibyte
kibibyte: An information unit which is equal to 1024 B.
MS_delta_m_z
delta m/z: The difference between a theoretically calculated m/z and the corresponding experimentally...
MS_instrument_vendor
instrument vendor: Instrument vendor role.
MS_Proteome_Discoverer
Proteome Discoverer: Thermo Scientific software for data analysis of peptides and proteins.
MS_protein_group_level_e_value
protein group-level e-value: Estimation of the e-value for protein groups.
UNIMOD_dHex_1_Hex_6_
dHex(1)Hex(6): Hex6dHex1.
UO_power_unit
power unit: A unit which is a standard measure power or the rate of doing work.
MS_marginally_distinguished_protein
marginally distinguished protein: Assigned to a non-leading protein that has some independent evidenc...
MS_SQID
SQID: Software for data analysis of peptides and proteins.
MS_internal_peptide_reference_used
internal peptide reference used: States whether an internal peptide reference is used or not in absol...
MS_SEQUEST_Chromatogram
SEQUEST:Chromatogram:
MS_idXML
idXML: OpenMS intermediate identification format.
UNIMOD_Label_13C_6_15N_4__Dimethyl
Label:13C(6)15N(4)+Dimethyl: Dimethylated Arg13C(6) 15N(4).
MS_Scaffold__Minimum_Protein_Probability
Scaffold: Minimum Protein Probability: Minimum protein probability a protein must have to be accepted...
MS_ProteomeDiscoverer_SEQUEST_Weight_of_a_Ions
ProteomeDiscoverer:SEQUEST:Weight of a Ions: Uses a ions for spectrum matching with this relative fac...
MS_non_identified_ion
non-identified ion: Non-identified ion.
MS_SYNAPT_G2_Si
SYNAPT G2-Si: Waters Corporation SYNAPT G2-Si orthogonal acceleration time-of-flight mass spectromete...
UNIMOD_iTRAQ8plex_13C_6_15N_2_
iTRAQ8plex:13C(6)15N(2): Accurate mass for 115, 118, 119 & 121.
UNIMOD_DYn_2
DYn-2: Sulfenic Acid specific probe.
UNIMOD_Tyr__Ala
Tyr->Ala: Tyr->Ala substitution.
UNIMOD_Gln__Met
Gln->Met: Gln->Met substitution.
MS_MALDI_LTQ_XL
MALDI LTQ XL: Thermo Scientific MALDI LTQ XL MS.
UO_hour
hour: A time unit which is equal to 3600 seconds or 60 minutes.
MS_SEQUEST_sf
SEQUEST:sf: The SEQUEST result 'Sf'.
MS_ion_neutral_complex_OBSOLETE
ion/neutral complex: A particular type of transition state that lies between precursor and product io...
UNIMOD_Hex_2_HexA_1_Pent_1_Sulf_1_
Hex(2)HexA(1)Pent(1)Sulf(1): Hex(2) HexA Pent Sulf.
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge3: FT high confidence XCorr parameter for c...
UNIMOD_Hex_5_HexNAc_4_NeuAc_1_
Hex(5)HexNAc(4)NeuAc(1): Hex(5) HexNAc(4) NeuAc.
MS_Bruker_TDF_nativeID_format
Bruker TDF nativeID format: Native format defined by frame=xsd:nonNegativeInteger scan=xsd:nonNegativ...
MS_Andi_MS_format
Andi-MS format: AIA Analytical Data Interchange file format for mass spectrometry data.
UO_picomole
picomole: A substance unit equal to 10^[-12] mol.
MS_6550A_iFunnel_Q_TOF_LC_MS
6550A iFunnel Q-TOF LC/MS: The 6550A Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatograp...
UNIMOD_Xlink_DST_132_
Xlink:DST[132]: Water quenched monolink of DST crosslinker.
MS_ProteoGrouper_PDH_score
ProteoGrouper:PDH score: A score assigned to a single protein accession (modelled as ProteinDetection...
MS_source_sprayer_manufacturer
source sprayer manufacturer: The source sprayer manufacturer.
MS_radial_ejection_linear_ion_trap
radial ejection linear ion trap: A linear ion trap mass spectrometer where ions are ejected along the...
UO_angular_velocity_unit
angular velocity unit: A unit which is a standard measure of the rate of angular movement about an ax...
MS_quantile_normalization__peptides
quantile normalization, peptides: Normalization of peptide values to approach the same distribution.
UNIMOD_DNCB_hapten
DNCB_hapten: Chemical reaction with 2,4-dinitro-1-chloro benzene (DNCB).
UNIMOD_Phe__Pro
Phe->Pro: Phe->Pro substitution.
MS_APEX_value
APEX value: The APEX value of protein abundance, produced from the APEX software.
UNIMOD_Asn__Cys
Asn->Cys: Asn->Cys substitution.
MS_mzidLib_Omssa2Mzid
mzidLib:Omssa2Mzid: A converter for OMSSA OMX to mzIdentML.
MS_count_of_identified_proteins
count of identified proteins: The number of proteins that have been identified, which must match the ...
MS_taxonomy__common_name
taxonomy: common name: This term is used if a common name is specified, e.g. human....
MS_mathieu_stability_diagram_OBSOLETE
mathieu stability diagram: A graphical representation expressed in terms of reduced coordinates that ...
MS_reference_ion_OBSOLETE
reference ion: A stable ion whose structure is known with certainty. These ions are usually formed by...
UNIMOD_Lys__CamCys
Lys->CamCys: Lys->Cys substitution and carbamidomethylation.
UNIMOD_IMID_2H_4_
IMID:2H(4): IMID d4.
MS_LTQ_Orbitrap_XL_ETD
LTQ Orbitrap XL ETD: Thermo Scientific LTQ Orbitrap XL MS with ETD.
UNIMOD_dHex_2_Hex_3_HexNAc_3_Pent_1_
dHex(2)Hex(3)HexNAc(3)Pent(1): DHex(2) Hex(3) HexNAc(3) Pent.
UNIMOD_Gln__Asn
Gln->Asn: Gln->Asn substitution.
UNIMOD_Lys__Allysine
Lys->Allysine: Lysine oxidation to aminoadipic semialdehyde.
MS_MS_Numpress_positive_integer_compression
MS-Numpress positive integer compression: Compression using MS-Numpress positive integer compression.
MS_microflex_LT
microflex LT: Bruker Daltonics' microflex LT: MALDI TOF.
MS_mass_spectrometer_file_format
mass spectrometer file format: The format of the file being used. This could be a instrument or vendo...
MS_Thermo_Finnigan_instrument_model
Thermo Finnigan instrument model: ThermoFinnigan from Thermo Electron Corporation instrument model.
MS_consensus_scoring
consensus scoring: Consensus multiple search engine approach performed.
MS_SEQUEST_ShowFragmentIons
SEQUEST:ShowFragmentIons: Flag indicating that fragment ions should be shown.
MS_analysis_software
analysis software: Analysis software.
UNIMOD_Hex_3_HexNAc_2_
Hex(3)HexNAc(2): Hex3HexNAc2.
MS_purgatory_OBSOLETE
purgatory: Terms that will likely become obsolete unless there are wails of dissent.
MS_SEQUEST_probability
SEQUEST:probability: The SEQUEST result 'Probability'.
UO_yard
yard: A length unit which is equal to 0.9144 metres, or 3 feet.
UNIMOD_dHex_2_Hex_1_HexNAc_1_Kdn_1_
dHex(2)Hex(1)HexNAc(1)Kdn(1): DHex(2) Hex HexNAc Kdn.
MS_Bruker_Agilent_YEP_nativeID_format
Bruker/Agilent YEP nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_Ac_2_
Hex(1)HexNAc(1)NeuAc(2)Ac(2): Ac(2) Hex HexNAc NeuAc(2).
UNIMOD_Withaferin
Withaferin: Modification of cystein by withaferin.
UNIMOD_Biotin_Thermo_88317
Biotin:Thermo-88317: Desthiobiotin fluorophosphonate.
MS_FAIMS_compensation_voltage
FAIMS compensation voltage: The DC potential applied to the asymmetric waveform in FAIMS that compens...
MS_TopPIC_thread_number
TopPIC:thread number: Number of threads used in TopPIC.
MS_sandwich_MALDI_sample_preparation
sandwich MALDI sample preparation: Sandwich MALDI sample preparation method.
UNIMOD_Hex_3_HexNAc_5_NeuAc_1_
Hex(3)HexNAc(5)NeuAc(1): Hex(3) HexNAc(5) NeuAc(1).
UNIMOD_Xlink_DSS_259_
Xlink:DSS[259]: Tris-quenched monolink of DSS/BS3 crosslinker.
UNIMOD_Gln__Asp
Gln->Asp: Gln->Asp substitution.
MS_single_ion_monitoring_OBSOLETE
single ion monitoring: The operation of a mass spectrometer to monitor a single ion rather than scann...
MS_light_labeled_sample
light labeled sample (unlabeled sample): A sample that has not been labelled or modified....
MS_protein_short_name
protein short name: A short name or symbol of a protein (e.g., HSF 1 or HSF1_HUMAN).
MS_emulsion
emulsion: State if the sample is in emulsion form.
UNIMOD_ADP_Ribosyl
ADP-Ribosyl: ADP Ribose addition.
MS_SEQUEST_summary
SEQUEST summary: Source file for this mzIdentML was a SEQUEST summary page (proteins).
MS_combined_ms_ms___spectral_library_search
combined ms-ms + spectral library search: A combined MS2 (with fragment ions) and spectral library se...
MS______FL__
(?<=[FL]): Regular expression for PepsinA.
UNIMOD_Gly__Ser
Gly->Ser: Gly->Ser substitution.
UNIMOD_Ser__Val
Ser->Val: Ser->Val substitution.
MS_dilution_series__concentration_X
dilution series, concentration X: The experimental design followed a dilution series design....
UNIMOD_EQAT
EQAT: EAPTA d0.
MS_Percolator
Percolator: Percolator.
MS_Mascot_Instrument
Mascot:Instrument: Type of instrument used to acquire the data in the raw file.
MS_kinetic_energy_release_distribution_OBSOLETE
kinetic energy release distribution: Distribution of values of translational kinetic energy release f...
MS_raw_files_group_attribute
raw files group attribute: Attribute describing, how raw files build a raw file group.
MS_Paragon_contrib
Paragon:contrib: The Paragon result 'Contrib'.
MS_PSM_level_global_confidence
PSM-level global confidence: Estimation of the global confidence of peptide spectrum matches.
MS_peptide_shared_in_multiple_proteins
peptide shared in multiple proteins: A peptide matching multiple proteins.
UNIMOD_Hex_3_HexNAc_6_
Hex(3)HexNAc(6): Hex(3) HexNAc(6).
MS_SEQUEST_Fast
SEQUEST:Fast:
UNIMOD_OxProBiotinRed
OxProBiotinRed: Oxidized proline biotinylated with biotin-LC-hydrazide, reduced.
MS_collision_quadrupole
collision quadrupole: A transmission quadrupole to which an oscillating potential is applied so as to...
UNIMOD_Cys__Thr
Cys->Thr: Cys->Thr substitution.
UNIMOD_Cys__PyruvicAcid
Cys->PyruvicAcid: Pyruvic acid from N-term cys.
MS_unstable_ion_OBSOLETE
unstable ion: An ion with sufficient energy to dissociate within the ion source.
UNIMOD_Pro__Xle
Pro->Xle: Pro->Leu/Ile substitution.
MS_6230B_Time_of_Flight_LC_MS
6230B Time-of-Flight LC/MS: The 6230B Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
UO_inch
inch: A length unit which is equal to 0.0254 metres.
MS_ion_molecule_reaction_OBSOLETE
ion/molecule reaction: The reaction of an ion with a neutral molecule. The term ion-molecule reaction...
MS_transmission_quadrupole_mass_spectrometer_OBSOLETE
transmission quadrupole mass spectrometer: A mass spectrometer that consists of four parallel rods wh...
MS_selected_ion_current_chromatogram
selected ion current chromatogram: Chromatogram created by creating an array of the measurements of a...
UNIMOD_Met_loss
Met-loss: Removal of initiator methionine from protein N-terminus.
UNIMOD_Hex_7_HexNAc_3_
Hex(7)HexNAc(3): Hex(7) HexNAc(3).
UNIMOD_ICAT_C
ICAT-C: Applied Biosystems cleavable ICAT(TM) light.
PEFF_File_Header_Section_term
File Header Section term: CV term that may appear in a PEFF File Header Section.
MS_LOWESS_smoothing
LOWESS smoothing: Reduces intensity spikes by applying a modelling method known as locally weighted p...
MS_Triple_Quad_5500
Triple Quad 5500: SCIEX Triple Quad 5500.
UNIMOD_Ala__Lys
Ala->Lys: Ala->Lys substitution.
MS_PIA_used_top_identifications_for_FDR
PIA:used top identifications for FDR: The number of top identifications per spectrum used for the FDR...
UNIMOD_Carbofuran
Carbofuran: 2,3-dihydro-2,2-dimethyl-7-benzofuranol N-methyl carbamate.
UNIMOD_Phosphogluconoylation
Phosphogluconoylation: Phosphogluconoylation.
MS_DB_source_UniProt
DB source UniProt: Database source UniProt.
MS_quantification_datatype
quantification datatype: The data type of the value reported in a QuantLayer.
MS_external_reference_keyword
external reference keyword: Free text attribute that can enrich the information about an entity.
PEFF_NcbiTaxId
NcbiTaxId: NCBI taxonomy identifier.
UNIMOD_dHex_1_Hex_4_HexNAc_4_Pent_1_
dHex(1)Hex(4)HexNAc(4)Pent(1): DHex Hex(4) HexNAc(4) Pent.
MS_isolation_window_target_m_z
isolation window target m/z: The primary or reference m/z about which the isolation window is defined...
MS_Ascore_threshold
Ascore threshold: Threshold for Ascore PTM site location score.
UNIMOD_Pro__HAVA
Pro->HAVA: Proline oxidation to 5-hydroxy-2-aminovaleric acid.
MS_TOPP_PeakPickerWavelet
TOPP PeakPickerWavelet: Finds mass spectrometric peaks with a wavelet algorithm in low-resoluted prof...
UO_pressure_unit
pressure unit: A unit which is a standard measure of the force applied to a given area.
UNIMOD_Delta_H__4_O_3_
Delta:H(-4)O(3): Tryptophan oxidation to hydroxy-bis-tryptophandione.
MS_mzMLb_format
mzMLb format: mzMLb file format, mzML encapsulated within HDF5.
UNIMOD_dHex_1_Hex_3_HexNAc_1_
dHex(1)Hex(3)HexNAc(1): DHex Hex(3) HexNAc.
MS_Compass
Compass: Bruker Compass software.
UNIMOD_Dipyrrolylmethanemethyl
Dipyrrolylmethanemethyl: Dipyrrolylmethanemethyl.
MS_Thermo_Electron_instrument_model
Thermo Electron instrument model: Thermo Electron Corporation instrument model.
MS_mzidLib_Tandem2Mzid
mzidLib:Tandem2Mzid: A converter for Tandem XML to mzIdentML.
MS_Mascot_IncludeErrorTolerantMatches
Mascot:IncludeErrorTolerantMatches: If true, then the search results are error tolerant and peptide m...
MS_TopPIC_max_shift
TopPIC:max shift: Maximum value of the mass shift (in Dalton) of an unexpected modification.
MS_SEQUEST_SelectAdvancedCV
SEQUEST:SelectAdvancedCV: SEQUEST Select Advanced Input Parameters.
UNIMOD_MolybdopterinGD_Delta_S__1_Se_1_
MolybdopterinGD+Delta:S(-1)Se(1): L-selenocysteinyl molybdenum bis(molybdopterin guanine dinucleotide...
MS_Phenyx_Conflict_Resolution
Phenyx:Conflict Resolution: The parameter in Phenyx that specifies if the conflict resolution algorit...
UNIMOD_Hex_5_HexNAc_3_
Hex(5)HexNAc(3): Hex(5) HexNAc(3).
MS_TOPP_FeatureFinderCentroided
TOPP FeatureFinderCentroided: Detects two-dimensional features in centroided LC-MS data.
MS_dwell_time
dwell time: The time spent gathering data across a peak.
MS_time_lag_focusing
time lag focusing: Energy focusing in a time-of-flight mass spectrometer that is accomplished by intr...
UO_relative_light_unit
relative light unit: A derived unit which is a measure of relative light intensity,...
MS_mass_trace_reporting__polygons
mass trace reporting: polygons: The mass trace of the features of this feature list specifies polygon...
UO_pound
pound: An imperial mass unit which is equivalent to 453.592,37 grams.
MS_TopPIC_combined_spectrum_number
TopPIC:combined spectrum number: Number of combined spectra.
MS_Paragon__instrument_setting
Paragon: instrument setting: The Paragon method setting (translating to a large number of lower level...
UNIMOD_Amino
Amino: Tyrosine oxidation to 2-aminotyrosine.
MS_Laser_Ionization_MERGE_OBSOLETE
Laser Ionization MERGE (Laser Desorption): The formation of ions through the interaction of a laser w...
UNIMOD_Methyl_PEO12_Maleimide
Methyl-PEO12-Maleimide: Methyl-PEO12-Maleimide.
UNIMOD_Val__Met
Val->Met: Val->Met substitution.
MS_ultraflex
ultraflex: Bruker Daltonics' ultraflex: MALDI TOF.
UO_electronvolt
electronvolt: A non-SI unit of energy (eV) defined as the energy acquired by a single unbound electro...
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge4: FT medium confidence XCorr parameter f...
MS_LTQ_Orbitrap_XL
LTQ Orbitrap XL: LTQ Orbitrap XL.
MS_collision_energy
collision energy: Energy for an ion experiencing collision with a stationary gas particle resulting i...
UNIMOD_Trp__Glu
Trp->Glu: Trp->Glu substitution.
MS_metabolic_labelling_purity
metabolic labelling purity: Metabolic labelling: Description of labelling purity. Usually the purity ...
MS_DiART_quantitation_analysis
DiART quantitation analysis: Quantification analysis using the amine-reactive deuterium isobaric amin...
UO_viscosity_unit
viscosity unit: A unit which is a standard measure of the internal resistance of fluids to flow.
UNIMOD_Xlink_DSSO_175_
Xlink:DSSO[175]: Ammonia-quenched monolink of DSSO crosslinker.
MS_Mascot_ShowDecoyMatches
Mascot:ShowDecoyMatches: If true, then the search results are against an automatically generated deco...
UNIMOD_Phe__Arg
Phe->Arg: Phe->Arg substitution.
UNIMOD_Amidated
Amidated: Amidation.
MS_protein_group_level_probability
protein group-level probability: Probability that at least one of the members of a group of protein s...
MS_low_energy_collision_induced_dissociation
low-energy collision-induced dissociation: A collision-induced dissociation process wherein the precu...
UNIMOD_Ahx2_Hsl
Ahx2+Hsl: C-terminal homoserine lactone and two aminohexanoic acids.
MS_TOPP_SpectraFilterThresholdMower
TOPP SpectraFilterThresholdMower: Applies a filter of peaks below a given threshold to peak spectra.
MS_TWIMS_OBSOLETE
TWIMS (travelling wave ion mobility mass spectrometer): An ion mobility mass spectrometry technique b...
UNIMOD_Nmethylmaleimide_water
Nmethylmaleimide+water: Nmethylmaleimidehydrolysis.
MS_Mascot_PTM_site_assignment_confidence_threshold
Mascot:PTM site assignment confidence threshold: Threshold for Mascot PTM site assignment confidence.
MS_ProteomeDiscoverer_Mascot_Taxonomy_OBSOLETE
ProteomeDiscoverer:Mascot:Taxonomy: Limits searches to entries from a particular species or group of ...
MS_database_nr
database nr: Non-redundant GenBank sequence database.
MS_TagRecon
TagRecon: Tabb Lab software for reconciling sequence tags to a protein database.
MS_param__b_ion_NH3_DEPRECATED
param: b ion-NH3 DEPRECATED: Ion b-NH3 parameter information, type of product: b ion with lost ammoni...
UNIMOD_Xlink_DSS_156_
Xlink:DSS[156]: Water-quenched monolink of DSS/BS3 crosslinker.
MS_ProteomeDiscoverer_Residue_substitution_list
ProteomeDiscoverer:Residue substitution list: Residues considered equivalent when comparing peptides.
MS_charge_stripping_reaction_OBSOLETE
charge stripping reaction: Reaction of a positive ion with a neutral species in which the positive ch...
UO_gigabasepair
gigabasepair: A unit equal to one billion base pairs.
MS_PA_OBSOLETE
PA (proton affinity): The proton affinity of a species M is defined as the negative of the enthalpy c...
MS_chromatogram_title
chromatogram title: A free-form text title describing a chromatogram.
MS_Agilent_instrument_model
Agilent instrument model: Agilent instrument model.
MS_Phenyx_Turbo_Coverage
Phenyx:Turbo:Coverage: The minimal peptide sequence coverage value, expressed in percent,...
MS_MS1_label_based_analysis
MS1 label-based analysis: MS1 label-based analysis.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_c_Ions
ProteomeDiscoverer:SEQUEST:Weight of c Ions: Uses c ions for spectrum matching with this relative fac...
MS_mean_inverse_reduced_ion_mobility_array
mean inverse reduced ion mobility array: Array of drift times or inverse reduced ion mobilities,...
MS_pulse_counting
pulse counting: Definition to do.
MS_PTM_localization_PSM_level_statistic
PTM localization PSM-level statistic: Statistic to convey the confidence of the localization of an am...
UO_peta
peta: A prefix in the metric system denoting a factor of ten to the power of 15.
MS_database_release_date_OBSOLETE
database release date: OBSOLETE: Use attribute in mzIdentML instead. Release date of the search datab...
MS_spectrum_multiply_subsumable_protein
spectrum multiply subsumable protein: A protein for which the matched spectra are the same,...
UNIMOD_Tyr__Val
Tyr->Val: Tyr->Val substitution.
MS_PRIDE_experiment_URI
PRIDE experiment URI: URI that allows the access to one experiment in the PRIDE database.
MS_ProteomeDiscoverer_SEQUEST_Calculate_Probability_Score
ProteomeDiscoverer:SEQUEST:Calculate Probability Score: Determines whether to calculate a probability...
MS_Paul_Ion_trap
Paul Ion trap (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three d...
MS_second_pass_peptide_identification
second-pass peptide identification: A putative identified peptide found in a second-pass search of pr...
MS_peptide_ion_level_spectral_count
peptide ion-level spectral count: The number of MS2 spectra identified for a molecular ion defined by...
MS_PSM_level_attribute
PSM-level attribute: Attribute of a single peptide-spectrum match.
MS_API_3200
API 3200: SCIEX or Applied Biosystems|MDS SCIEX API 3200 MS.
MS_phosphoRS_score_threshold
phosphoRS score threshold: Threshold for phosphoRS score.
MS_transition_validated_with_an_MS_MS_spectrum_on_specified_instrument
transition validated with an MS/MS spectrum on specified instrument: The transition has been validate...
UO_dose_unit
dose unit: A concentration unit which is a standard measure of the amount of a toxic or pharmaceutica...
UO_meter_per_second
meter per second: A speed/velocity unit which is equal to the speed of an object traveling 1 meter di...
UNIMOD_Gly
Gly: Addition of Glycine.
MS_PSM_level_global_FNR
PSM-level global FNR: Estimation of the global false negative rate of peptide spectrum matches.
UNIMOD_Glu__Thr
Glu->Thr: Glu->Thr substitution.
UO_microvolt
microvolt: An electric potential difference unit which is equal to one millionth of a volt or 10^[-6]...
MS_SEQUEST_CleavesAt
SEQUEST:CleavesAt:
MS_zlib_compression
zlib compression: Zlib.
UNIMOD_Diironsubcluster
Diironsubcluster: Hydrogenase diiron subcluster.
MS_leukocyte_elastase
leukocyte elastase: Enzyme leukocyte elastase (EC 3.4.21.37).
MS_IRMPD
IRMPD (infrared multiphoton dissociation): Multiphoton ionization where the reactant ion dissociates ...
MS_surface_induced_dissociation
surface-induced dissociation: Fragmentation that results from the collision of an ion with a surface.
MS_peptide_level_spectral_count
peptide-level spectral count: The number of MS2 spectra identified for a peptide sequence specified b...
UNIMOD_Hex_4_HexNAc_3_NeuAc_1_
Hex(4)HexNAc(3)NeuAc(1): Hex(4) HexNAc(3) NeuAc —OR— Hex(3) HexNAc(4) Kdn.
MS_None____OBSOLETE
None ??: None.
UNIMOD_Label_13C_6__Acetyl
Label:13C(6)+Acetyl: Acetyl 13C(6) Silac label.
MS_micrOTOF
micrOTOF: Bruker Daltonics' micrOTOF: ESI TOF, APCI, APPI.
MS_CAD
CAD (collision-induced dissociation): The dissociation of an ion after collisional excitation....
MS_search_tolerance_minus_value
search tolerance minus value:
UNIMOD_Pro__Ser
Pro->Ser: Pro->Ser substitution.
UNIMOD_cysTMT
cysTMT: Native cysteine-reactive Tandem Mass Tag®.
UO_radioactivity_concentration
radioactivity concentration: A concentration unit which is a standard measure of the amount of radioa...
UNIMOD_dHex_1_Hex_3_HexNAc_3_Sulf_1_
dHex(1)Hex(3)HexNAc(3)Sulf(1): DHex Hex(3) HexNAc(3) Sulf.
UNIMOD_ICDID
ICDID: Isotope-Coded Dimedone light form.
MS_no_cleavage
no cleavage: No cleavage.
MS_TOPP_FeatureLinkerUnlabeled
TOPP FeatureLinkerUnlabeled: Groups corresponding features from multiple maps.
MS_PeptideProphet
PeptideProphet: A program in the TPP that calculates PSM probabilities for MS2 proteomics data search...
MS_negative_mode_adduct_ion
negative mode adduct ion: Adduct ion with negative ionization.
UNIMOD_Nmethylmaleimide
Nmethylmaleimide: Nmethylmaleimide.
MS_common_software_input_parameter
common software input parameter: Software input parameter that is shared by more than one software.
UNIMOD_CAMthiopropanoyl
CAMthiopropanoyl: 3-(carbamidomethylthio)propanoyl.
MS_MD_Score
MD-Score: MD-Score for PTM site location at the PSM-level.
MS_ProteomeDiscoverer_Dynamic_Modification
ProteomeDiscoverer:Dynamic Modification: Determine dynamic post-translational modifications (PTMs).
MS_Phenyx_MinPepLength
Phenyx:MinPepLength: The minimal number of residues for a peptide to be considered for a valid identi...
UO_cubic_meter
cubic meter: A volume unit which is equal to the volume of a cube with edges one meter in length....
UNIMOD_dHex_4_Hex_2_HexNAc_2_Kdn_1_
dHex(4)Hex(2)HexNAc(2)Kdn(1): DHex(4) Hex(2) HexNAc(2) Kdn.
MS_DTA_format
DTA format: SEQUEST DTA file format.
MS_activation_energy
activation energy: Activation Energy.
UNIMOD_Ser__Asn
Ser->Asn: Ser->Asn substitution.
UNIMOD_EDT_maleimide_PEO_biotin
EDT-maleimide-PEO-biotin: EDT-maleimide-PEO-biotin.
UNIMOD_dHex_1_Hex_4_HexNAc_4_
dHex(1)Hex(4)HexNAc(4): DHex Hex(4) HexNAc(4) —OR— Hex(4) HexNAc(4) Pent Me.
UNIMOD_Hex_3_HexNAc_4_NeuAc_2_
Hex(3)HexNAc(4)NeuAc(2): Hex(3) HexNAc(4) NeuAc(2).
MS_original_nucleic_acid_sequence
original nucleic acid sequence: Specification of the original nucleic acid sequence,...
UNIMOD_Asp__Ser
Asp->Ser: Asp->Ser substitution.
UNIMOD_dHex_2_Hex_2_HexNAc_4_Sulf_2_
dHex(2)Hex(2)HexNAc(4)Sulf(2): Sulf(2) dHex(2) Hex(2) HexNAc(4).
MS_analyzer_type_OBSOLETE
analyzer type: The common name of the particular analyzer stage being described. Synonym of mass anal...
MS_frag__TMT_ETD_reporter_ion
frag: TMT ETD reporter ion: Standard reporter ion for TMT with ETD fragmentation. The value slot hold...
UNIMOD_ICAT_D_2H_8_
ICAT-D:2H(8): Applied Biosystems original ICAT(TM) d8.
MS_SCIEX_API_III_format
SCIEX API III format: PE SCIEX peak list file format.
UNIMOD_dHex_2_Hex_4_HexNAc_5_
dHex(2)Hex(4)HexNAc(5): DHex(2) Hex(4) HexNAc(5).
MS_iTRAQ_reagent_118
iTRAQ reagent 118: The name of the sample labelled with the iTRAQ reagent 118.
UNIMOD_Triiodothyronine
Triiodothyronine: Triiodo.
MS_MS_GF_PEP
MS-GF:PEP: MS-GF posterior error probability.
MS_precursor_neutral_loss
precursor neutral loss: This term can describe a neutral loss m/z value that is lost from an ion.
MS_ProteomeDiscoverer_SEQUEST_Max_Identical_Modifications_Per_Peptide
ProteomeDiscoverer:SEQUEST:Max Identical Modifications Per Peptide: Maximum number of identical modif...
UO_spatial_resolution_unit
spatial resolution unit: An image resolution unit which is a standard measure of the way luminance an...
MS_unimolecular_dissociation_OBSOLETE
unimolecular dissociation: Fragmentation reaction in which the molecularity is treated as one,...
UNIMOD_Hex_1_HexNAc_1_dHex_1_Me_2_
Hex(1)HexNAc(1)dHex(1)Me(2): Hex HexNAc dHex Me(2).
MS_modulation_time
modulation time: The duration of a complete cycle of modulation in a comprehensive two-dimensional se...
UNIMOD_EQIGG
EQIGG: Sumo mutant Smt3-WT tail following trypsin digestion.
MS_Progenesis_LC_MS
Progenesis LC-MS: Software from Nonlinear Dynamics for LC-MS label-free workflow.
UNIMOD_AEC_MAEC
AEC-MAEC: Aminoethylcysteine.
MS_decoy_DB_from_UniProtKB_Swiss_Prot_OBSOLETE
decoy DB from UniProtKB/Swiss-Prot: Decoy database from a Swiss-Prot protein sequence database.
MS_AXIMA_Performance_MALDI_TOF_TOF
AXIMA Performance MALDI-TOF/TOF: Shimadzu Biotech AXIMA Performance MALDI-TOF/TOF MS.
MS_Paragon__channel_to_use_as_denominator_in_ratios
Paragon: channel to use as denominator in ratios: The Paragon method setting that controls which labe...
UNIMOD_Trp__Ser
Trp->Ser: Trp->Ser substitution.
PEFF_CC
CC: Entry associated comment.
MS_ProteomeDiscoverer_Maximum_Peptides_Output
ProteomeDiscoverer:Maximum Peptides Output: Maximum number of peptide matches reported per spectrum.
MS_LTQ_XL_ETD
LTQ XL ETD: Thermo Scientific LTQ XL MS with ETD.
MS_HCTultra
HCTultra: Bruker Daltonics' HCTultra: ESI TOF, Nanospray, APCI, APPI.
UO_radiance_unit
radiance unit: A unit which is a standard measure of the power of electromagnetic radiation through s...
MS_FDRScore_for_proteins
FDRScore for proteins: MzidLibrary FDRScore for proteins specifically obtained for distinct combinati...
MS_DB_PI_filter_minimum
DB PI filter minimum: Minimum value of isoelectric point filter.
MS_microflex
microflex: Bruker Daltonics' microflex: MALDI TOF.
MS_local_retention_time
local retention time: A time interval from the start of chromatography when an analyte exits an unspe...
UO_chroma_sampling_unit
chroma sampling unit: An image resolution unit which is a standard measure of the amount of spatial d...
MS_6120A_Quadrupole_LC_MS
6120A Quadrupole LC/MS: The 6120A Quadrupole LC/MS system is a Agilent liquid chromatography instrume...
MS_Dataset_FTP_location
Dataset FTP location: FTP location of one entire PX data set.
UO_dots_per_inch
dots per inch: A spatial resolution unit which is a standard measure of the printing resolution,...
UNIMOD_Arg__Npo
Arg->Npo: Arginine replacement by Nitropyrimidyl ornithine.
MS_cationized_molecule_OBSOLETE
cationized molecule: An ion formed by the association of a cation with a neutral molecule,...
MS_compound_identification_confidence_level
compound identification confidence level: Confidence level for annotation of identified compounds as ...
UNIMOD_DimethylamineGMBS
DimethylamineGMBS: Modified GMBS X linker.
MS_SQ_Detector_2
SQ Detector 2: Waters quadrupole based SQ Detector 2.
MS_cross_linking_search
cross-linking search: Cross-linking search performed.
MS_value_greater_than_zero_but_less_than_or_equal_to_one
value greater than zero but less than or equal to one: Positive value range less than or equal to 1.
UNIMOD_Hex_3_HexNAc_4_NeuAc_1_
Hex(3)HexNAc(4)NeuAc(1): Hex(3) HexNAc(4) NeuAc —OR— Hex(2) HexNAc(4) dHex NeuGc.
MS_search_result_details_OBSOLETE
search result details: OBSOLETE: Scores and global result characteristics.
UNIMOD_Arg
Arg: Addition of arginine due to transpeptidation.
UO_relative_fluorescence_unit
relative fluorescence unit: A relative light unit which is a measure of relative fluorescence intensi...
UNIMOD_Dimethyl_2H_4_13C_2_
Dimethyl:2H(4)13C(2): DiMethyl-C13HD2.
UO_radian_per_second
radian per second: An angular unit velocity which is equal to about 9.54930 rpm (revolutions per minu...
UO_milligray
milligray: An absorbed dose unit which is equal to one thousandth of a gray or 10^[-3] Gy.
MS_frag__isobaric_label_ion
frag: isobaric label ion: Fragment ion corresponding to an isobaric label artifact.
UNIMOD_Hex_3_HexNAc_2_NeuAc_2_
Hex(3)HexNAc(2)NeuAc(2): Hex(3) HexNAc(2) NeuAc(2).
UNIMOD_His__Trp
His->Trp: His->Trp substitution.
MS_TOPP_IDConflictResolver
TOPP IDConflictResolver: Resolves ambiguous annotations of features with peptide identifications.
MS_TOPP_FalseDiscoveryRate
TOPP FalseDiscoveryRate: Estimates the false discovery rate on peptide and protein level using decoy ...
UNIMOD_OxProBiotin
OxProBiotin: Oxidized Proline biotinylated with biotin-LC-hydrazide.
UO_deci
deci: A prefix in the metric system denoting a factor of one tenth.
MS_product_ion_spectrum
product ion spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments designed to record pro...
UNIMOD_Hex_1_HexNAc_3_NeuGc_1_
Hex(1)HexNAc(3)NeuGc(1): Hex HexNAc(3) NeuGc.
MS_add_others_OBSOLETE
add_others: OBSOLETE.
MS_Bruker_Daltonics_flex_series
Bruker Daltonics flex series: Bruker Daltonics' flex series.
MS_fraction_identifier
fraction identifier: Identier string that describes the sample fraction. This identifier should conta...
MS_Comet_deltacn
Comet:deltacn: The Comet result 'DeltaCn'.
MS_cluster_identifier
cluster identifier: An identifier applied to protein groups to indicate that they are linked by share...
MS_MaxQuant_feature_intensity
MaxQuant:feature intensity: The data type feature intensity produced by MaxQuant.
UNIMOD_Met__Gln
Met->Gln: Met->Gln substitution.
UNIMOD_Trimethyl
Trimethyl: Tri-Methylation.
MS_basepeak_chromatogram
basepeak chromatogram: Chromatogram created by creating an array of the most intense peaks at each ti...
UO_centi
centi: A prefix in the metric system denoting a factor of one hundred.
MS_ProteomeXchange_project_tag
ProteomeXchange project tag: Tag that can be added to a ProteomeXchange dataset, to enable the groupi...
UO_centiMorgan
centiMorgan: A unit used to express distances on a genetic map. In genetic mapping,...
UNIMOD_Lys__Gln
Lys->Gln: Lys->Gln substitution.
MS_ionization_efficiency_OBSOLETE
ionization efficiency: The ratio of the number of ions formed to the number of electrons,...
MS_OMEGA_2001
OMEGA-2001: IonSpec OMEGA-2001 MS.
UNIMOD_Trp__Pro
Trp->Pro: Trp->Pro substitution.
MS_explorer
explorer: IonSpec Explorer MS.
MS_transition_predicted_by_informatic_analysis
transition predicted by informatic analysis: The transition has been predicted by informatics softwar...
MS_HCTultra_ETD_II
HCTultra ETD II: Bruker Daltonics' HCTultra ETD II: ESI Q-TOF, Nanospray, APCI, APPI,...
MS_nitrogen_rule_OBSOLETE
nitrogen rule: An organic molecule containing the elements C, H, O, S, P, or halogen has an odd nomin...
UNIMOD_Delta_H_4_C_5_O_1_
Delta:H(4)C(5)O(1): Methylglyoxal-derived argpyrimidine.
MS_SEQUEST_xcorr
SEQUEST:xcorr: The SEQUEST result 'XCorr'.
UO_count_per_molar
count per molar: A rate unit which is equal to one over one molar.
UNIMOD_Delta_H_1_N__1_18O_1_
Delta:H(1)N(-1)18O(1): Glycosylated asparagine 18O labeling.
MS_mass_spectrum
mass spectrum: A plot of the relative abundance of a beam or other collection of ions as a function o...
UNIMOD_Hex_7_HexNAc_1_
Hex(7)HexNAc(1): Hex(7) HexNAc.
MS_Byonic_DeltaMod_Score
Byonic:DeltaMod Score: The drop in Byonic score from the top-scoring peptide to the next peptide diff...
MS_reservoir
reservoir: A sample inlet method involving a reservoir.
UO_exposure_unit
exposure unit: A unit which is a standard measure of the quantity that expresses the ability of radia...
MS_TOPP_NoiseFilterGaussian
TOPP NoiseFilterGaussian: Removes noise from profile spectra by using a gaussian smoothing.
UO_zepto
zepto: A prefix in the metric system denoting a factor of 10 to the power of -21.
UNIMOD_Xle__Pro
Xle->Pro: Leu/Ile->Pro substitution.
UO_degree_Celsius
degree Celsius: A temperature unit which is equal to one kelvin degree. However, they have their zero...
UNIMOD_Thrbiotinhydrazide
Thrbiotinhydrazide: Oxidized Threonine biotinylated with biotin hydrazide.
UNIMOD_Hex_8_Phos_3_
Hex(8)Phos(3): Hex(8) Phos(3).
UNIMOD_O_Et_N_diMePhospho
O-Et-N-diMePhospho: O-ethyl, N-dimethyl phosphate.
UO_plaque_forming_unit_per_volume
plaque forming unit per volume: A concentration unit which a measure of plague forming units in a giv...
MS_iTRAQ_reagent_116
iTRAQ reagent 116: The name of the sample labelled with the iTRAQ reagent 116.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuGc_2_
dHex(1)Hex(2)HexNAc(2)NeuGc(2): DHex Hex(2) HexNAc(2) NeuGc(2).
MS_Vion_IMS_QTof
Vion IMS QTof: Waters Corporation Vion IMS QTof orthogonal acceleration time-of-flight mass spectrome...
MS_empirical_formula
empirical formula: A chemical formula which expresses the proportions of the elements present in a su...
MS_FAIMS_OBSOLETE
FAIMS (high-field asymmetric waveform ion mobility spectrometry): The separation of ions between two ...
UO_parts_per_trillion
parts per trillion: A dimensionless concentration notation which denotes the amount of a given substa...
MS_source_sprayer_type
source sprayer type: The source sprayer type.
MS_FileConverter
FileConverter: Converts between different MS file formats.
UNIMOD_Hex_2_HexNAc_4_
Hex(2)HexNAc(4): Hex(2) HexNAc(4).
MS_FI
FI (field ionization): The removal of electrons from any species by interaction with a high electric ...
MS_ICPL_reagent
ICPL reagent: Isotope coded protein labeling reagent.
UNIMOD_MTSL
MTSL: Cys modification by (1-oxyl-2,2,5,5-tetramethyl-3-pyrroline-3-methyl)methanesulfonate (MTSL).
MS_clustal_aln
clustal aln: ClustalW ALN (multiple alignment) format.
MS_PepsinA
PepsinA: PepsinA proteinase.
UNIMOD_Delta_S__1_Se_1_
Delta:S(-1)Se(1): Selenium replaces sulfur.
MS_TopPIC_spectral_p_value
TopPIC:spectral p-value: TopPIC spectrum-level p-value.
UNIMOD_dHex_2_Hex_1_HexNAc_2_Kdn_1_
dHex(2)Hex(1)HexNAc(2)Kdn(1): DHex(2) Hex HexNAc(2) Kdn —OR— Hex(2) HexNAc dHex(2) NeuAc.
MS_number_of_peaks_submitted
number of peaks submitted: The number of peaks from the original peaks listed that were submitted to ...
PEFF_SequenceType
SequenceType: Molecular type of the sequences.
MS_Synapt_HDMS
Synapt HDMS: Waters oa-ToF based Synapt HDMS.
UNIMOD_ICAT_H_13C_6_
ICAT-H:13C(6): N-iodoacetyl, p-chlorobenzyl-13C6-glucamine.
MS_SIM
SIM (selected ion monitoring): The operation of a mass spectrometer in which the intensities of sever...
MS_product_background
product background: The background area for the quantified transition.
MS_Trans_Proteomic_Pipeline
Trans-Proteomic Pipeline: A suite of open source tools for the processing of MS2 proteomics data deve...
UNIMOD_GluGluGluGlu
GluGluGluGlu: Tetraglutamyl.
MS_Electronic_Ionization_OBSOLETE
Electronic Ionization: The ionization of an atom or molecule by electrons that are typically accelera...
UNIMOD_dHex_1_Hex_7_HexNAc_2_
dHex(1)Hex(7)HexNAc(2): DHex Hex(7) HexNAc(2).
UO_femto
femto: A prefix in the metric system denoting a factor of 10 to the power of -15.
MS_chromatography_OBSOLETE
chromatography: Chromatographic conditions used to obtain the sample.
UNIMOD_Quinone
Quinone: Quinone.
MS_protein_group_level_result_list_attribute
protein group-level result list attribute: Details describing a protein cluster.
MS_number_of_matched_peaks
number of matched peaks: The number of peaks that were matched as qualified by the ion series conside...
MS_ProteomeDiscoverer_Protein_Relevance_Threshold
ProteomeDiscoverer:Protein Relevance Threshold: Specifies a peptide threshold that determines whether...
MS_frag__internal_yb_ion
frag: internal yb ion: Fragmentation information, type of product: internal yb ion.
MS_sprayed_MALDI_matrix_preparation
sprayed MALDI matrix preparation: Sprayed MALDI matrix preparation.
MS_ProteinLynx_Global_Server_mass_spectrum_XML_format
ProteinLynx Global Server mass spectrum XML format: Peak list file format used by ProteinLynx Global ...
UNIMOD_His__Val
His->Val: His->Val substitution.
MS_ProteomeDiscoverer_Source_file_extension_OBSOLETE
ProteomeDiscoverer:Source file extension: File type (if not pepXML).
MS_MAT900XP
MAT900XP: ThermoFinnigan MAT900XP MS.
MS_APCI
APCI (atmospheric pressure chemical ionization): Chemical ionization that takes place at atmospheric ...
UNIMOD_AFB1_Dialdehyde
AFB1_Dialdehyde: Adduction of aflatoxin B1 Dialdehyde to lysine.
MS_Skyline_mzQuantML_converter
Skyline mzQuantML converter: A software package to convert Skyline report to mzQuantML.
MS_MIM_spectrum
MIM spectrum (SIM spectrum): Spectrum obtained with the operation of a mass spectrometer in which the...
MS_proteoform_level_global_FDR
proteoform-level global FDR: Estimation of the global false discovery rate of proteoforms.
MS_ProteinExtractor_PhenyxPeptideScoreThreshold
ProteinExtractor:PhenyxPeptideScoreThreshold: Only peptides with scores higher than that threshold ar...
MS_ProteinExtractor_SequestWeighting
ProteinExtractor:SequestWeighting: Influence of SEQUEST search engine in the process of merging the s...
MS_consensusXML
consensusXML: OpenMS consensus map format.
UNIMOD_Atto495Maleimide
Atto495Maleimide: High molecular absorption maleimide label for proteins.
MS_no_PSM_threshold
no PSM threshold: Indicating that no PSM threshold was used.
PEFF_GName
GName: Gene name.
UNIMOD_ICPL_13C_6_
ICPL:13C(6): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, heavy form.
MS_Paragon__search_effort
Paragon: search effort: The Paragon method setting that controls the two major modes of search effort...
MS_protein_group_list_attribute
protein group list attribute: Attribute describing a protein group list.
UNIMOD_GPIanchor
GPIanchor: Glycosylphosphatidylinositol.
MS_Bruker_BAF_nativeID_format
Bruker BAF nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
UNIMOD_Farnesyl
Farnesyl: Farnesylation.
MS_Xevo_G2_S_QTof
Xevo G2-S QTof: Waters oa-ToF based Xevo G2-S QTof.
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge1: FT high confidence XCorr parameter for c...
UNIMOD_Hex_2_HexNAc_1_NeuGc_2_
Hex(2)HexNAc(1)NeuGc(2): Hex(2) HexNAc NeuGc(2).
MS_peptide_MD_Score
peptide:MD-Score: MD-Score for PTM site location at the peptide-level.
UNIMOD_Phe__Met
Phe->Met: Phe->Met substitution.
UO_newton
newton: A force unit which is equal to the force required to cause an acceleration of 1m/s2 of a mass...
MS_xi_score
xi:score: The xi result 'Score'.
UNIMOD_Trp__Gln
Trp->Gln: Trp->Gln substitution.
UO_milligram_per_square_meter
milligram per square meter: A dose unit which is equal to 1 milligram of a toxic or pharmaceutical su...
UNIMOD_Methylthio
Methylthio: Beta-methylthiolation.
UO_luminance_unit
luminance unit: A unit which is a standard measure of the luminous intensity impinging on a given are...
UNIMOD_HexNAc_1_dHex_1_
HexNAc(1)dHex(1): HexNAc1dHex1.
MS_peptide_attribute
peptide attribute: A nonphysical attribute that can be used to describe a peptide.
MS_enhanced_multiply_charged_spectrum
enhanced multiply charged spectrum: MS1 spectrum that is enriched in multiply-charged ions compared t...
MS_TopPIC_spectral_cutoff_value
TopPIC:spectral cutoff value: Spectrum-level cutoff value for filtering identified proteoform spectru...
MS_quantification_information
quantification information: Quantification information.
MS_Progenesis_QI
Progenesis QI: Metabolomics analysis software for LC-MS data from Nonlinear Dynamics.
MS_ion_to_photon_detector
ion-to-photon detector: A detector in which ions strike a conversion dynode to produce electrons that...
MS_AP_MALDI
AP MALDI (atmospheric pressure matrix-assisted laser desorption ionization): Matrix-assisted laser de...
UNIMOD_Gly__Xle
Gly->Xle: Gly->Leu/Ile substitution.
MS_microflex_II
microflex II: Bruker Daltonics' microflex II: MALDI TOF.
MS_high_field_asymmetric_waveform_ion_mobility_spectrometry_OBSOLETE
high-field asymmetric waveform ion mobility spectrometry: The separation of ions between two concentr...
MS_SEQUEST_PeptideSp
SEQUEST:PeptideSp: The SEQUEST result 'Sp' in out file (peptide).
MS_SIM_spectrum
SIM spectrum: Spectrum obtained with the operation of a mass spectrometer in which the abundances of ...
UNIMOD_QTGG
QTGG: SUMOylation leaving GlnThrGlyGly.
UNIMOD_Hex_3_HexNAc_1_Pent_1_
Hex(3)HexNAc(1)Pent(1): Hex3HexNAc1Pent1.
MS_p_value
p-value: P-value as result of one of the processing steps described. Specify in the description,...
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Charge_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Charge Replacements: Specifies the charge state of ...
MS_Comet_spscore
Comet:spscore: The Comet result 'SpScore'.
MS_mass_analyzer_attribute
mass analyzer attribute: Analyzer properties that are associated with a value.
MS_electron_transfer_dissociation
electron transfer dissociation: A process to fragment ions in a mass spectrometer by inducing fragmen...
MS_2E_Mass_Spectrum_OBSOLETE
2E Mass Spectrum: A mass spectrum obtained by setting the electric sector field E to twice the value ...
MS_trap_type_collision_induced_dissociation
trap-type collision-induced dissociation: A collision-induced dissociation process that occurs in a t...
UNIMOD_Lys__Gly
Lys->Gly: Lys->Gly substitution.
UNIMOD_Delta_H_4_C_3_O_1_
Delta:H(4)C(3)O(1): Acrolein addition +56.
UNIMOD_Hex_4_HexNAc_4_Me_2_Pent_1_
Hex(4)HexNAc(4)Me(2)Pent(1): Hex(4) HexNAc(4) Me(2) Pent.
MS_Compass_for_micrOTOF
Compass for micrOTOF: Bruker Compass for micrOTOF software.
MS_peptide_sequence_level_p_value
peptide sequence-level p-value: Estimation of the p-value for distinct peptides once redundant identi...
UNIMOD_Hex_2_HexNAc_4_NeuAc_1_
Hex(2)HexNAc(4)NeuAc(1): Hex(2) HexNAc(4) NeuAc.
MS_photodissociation
photodissociation: A process wherein the reactant ion is dissociated as a result of absorption of one...
MS_ProteomeDiscoverer_Mascot_Peptide_CutOff_Score
ProteomeDiscoverer:Mascot:Peptide CutOff Score: Minimum score in the IonScore column that each peptid...
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_Ac_1_
Hex(1)HexNAc(1)NeuAc(1)Ac(1): Ac Hex HexNAc NeuAc.
MS_autoflex_III_TOF_TOF_smartbeam
autoflex III TOF/TOF smartbeam: Bruker Daltonics' autoflex III TOF/TOF smartbeam: MALDI TOF.
UNIMOD_Bromo
Bromo: Bromination.
MS_PROTEINEER
PROTEINEER: Bruker PROTEINEER software.
MS_LCMS_2010EV
LCMS-2010EV: Shimadzu Scientific Instruments LCMS-2010EV MS.
UNIMOD_thioacylPA
thioacylPA: Membrane protein extraction.
MS_distinct_peptide_level_combined_FDRScore
distinct peptide-level combined FDRScore: Combined FDRScore for peptides once redundant identificatio...
UNIMOD_Xlink_DSSO_176_
Xlink:DSSO[176]: Water-quenched monolink of DSSO crosslinker.
MS_selected_reaction_monitoring_chromatogram
selected reaction monitoring chromatogram: Chromatogram created by creating an array of the measureme...
MS_frag__w_ion
frag: w ion: Fragmentation information, type of product: w ion.
MS_peptide_ratio
peptide ratio: Peptide ratio.
MS_UltroTOF_Q
UltroTOF-Q: Bruker Daltonics' UltroTOF-Q: ESI Q-TOF (MALDI optional).
UO_gram_per_milliliter
gram per milliliter: A mass unit density which is equal to mass of an object in grams divided by the ...
MS_TOPP_SpectraFilterWindowMower
TOPP SpectraFilterWindowMower: Applies a filter of the largest peaks in a sliding window over a peak ...
UNIMOD_dHex_1_Hex_2_HexA_1_
dHex(1)Hex(2)HexA(1): DHex Hex(2) HexA.
UO_catalytic_activity_unit
catalytic activity unit: A unit which is a standard measure of the amount of the action of a catalyst...
MS_peptide_sequence_level_global_confidence
peptide sequence-level global confidence: Estimation of the global confidence for distinct peptides o...
MS_ProteoGrouper_PAG_score
ProteoGrouper:PAG score: A score assigned to a protein group (modelled as ProteinAmbiguityGroup in mz...
MS_electron_ionization
electron ionization: The ionization of an atom or molecule by electrons that are typically accelerate...
UNIMOD_dHex_1_Hex_5_HexNAc_4_Me_2_Pent_1_
dHex(1)Hex(5)HexNAc(4)Me(2)Pent(1): DHex Hex(5) HexNAc(4) Me(2) Pent.
UNIMOD_NDA
NDA: Naphthalene-2,3-dicarboxaldehyde.
MS_fluorescence_detector
fluorescence detector: A detector using a fluorescent signal after excitation with light.
MS_Paragon_confidence
Paragon:confidence: The Paragon result 'Confidence'.
MS_OpenXQuest
OpenXQuest: Cross-Linking MS search engine.
MS_MassHunter_Metabolite_ID
MassHunter Metabolite ID: Software for identification of metabolites.
UNIMOD_Label_13C_2_15N_2_
Label:13C(2)15N(2): 13C(2) 15N(2).
MS_PEFF_format
PEFF format: The sequence database was stored in the PEFF (PSI enhanced FastA file) format.
MS_OpenXQuest_xcorr_xlink
OpenXQuest:xcorr xlink: OpenXQuest's cross-correlation of cross-linked ions subscore.
UO_dosage_unit
dosage unit: A concentration unit which is a standard measure of the amount of a toxic or pharmaceuti...
MS_CLINPROT
CLINPROT: Bruker CLINPROT software.
UNIMOD_Label_13C_3_
Label:13C(3): 13C3 label for SILAC.
UNIMOD_Biotin_Thermo_21345
Biotin:Thermo-21345: Was PentylamineBiotin.
MS_TOPP_OMSSAAdapter
TOPP OMSSAAdapter: Identifies MS2 spectra using the external program OMSSA.
MS_ProteomeDiscoverer_Spectrum_Selector_SN_Threshold_FTonly
ProteomeDiscoverer:Spectrum Selector:SN Threshold FTonly: Signal-to-Noise ratio below which peaks are...
MS_massWolf
massWolf: A software for converting Waters raw directory format to mzXML or mzML. MassWolf was origin...
MS_TMT_reagent_131
TMT reagent 131: The name of the sample labelled with the TMT reagent 131.
MS_higher_energy_beam_type_collision_induced_dissociation
higher energy beam-type collision-induced dissociation: A collision-induced dissociation process wher...
MS_postacceleration_detector
postacceleration detector: A detector in which the charged particles are accelerated to a high veloci...
MS_electrospray_supply_type
electrospray supply type: Whether the sprayer is fed or is loaded with sample once.
UNIMOD_HexNAc_5_
HexNAc(5): HexNAc(5).
UNIMOD_PyridoxalPhosphateH2
PyridoxalPhosphateH2: PLP bound to lysine reduced by sodium borohydride (NaBH4) to create amine linka...
UNIMOD_Hex_4_HexNAc_4_NeuGc_1_
Hex(4)HexNAc(4)NeuGc(1): Hex(4) HexNAc(4) NeuGc.
PEFF_Signal
Signal: Sequence range of signal peptide.
MS_API_5000
API 5000: SCIEX or Applied Biosystems|MDS SCIEX API 5000 MS.
MS_EE_OBSOLETE
EE (even-electron ion): An ion containing no unpaired electrons in its ground electronic state,...
MS_Experimental_information_has_been_refined_since_this_experiment_was_originally_made_publicly_available
Experimental information has been refined since this experiment was originally made publicly availabl...
MS_REMPI
REMPI (resonance enhanced multiphoton ionization): Multiphoton ionization in which the ionization cro...
MS_HiRes_MALDI
HiRes MALDI: IonSpec HiResMALDI MS.
MS_particle_beam
particle beam: Method for generating ions from a solution of an analyte.
MS_source_attribute
source attribute: Property of a source device that need a value.
UNIMOD_Trp__Kynurenin
Trp->Kynurenin: Tryptophan oxidation to kynurenin.
MS_CRM_chromatogram_OBSOLETE
CRM chromatogram (consecutive reaction monitoring chromatogram): Chromatogram created by creating an ...
MS_Thermo_Scientific_instrument_model
Thermo Scientific instrument model: Thermo Scientific instrument model.
UNIMOD_dHex_4_Hex_2_HexNAc_3_
dHex(4)Hex(2)HexNAc(3): DHex(4) Hex(2) HexNAc(3).
UNIMOD_Hex_4_HexNAc_5_NeuAc_1_
Hex(4)HexNAc(5)NeuAc(1): Hex(4) HexNAc(5) NeuAc.
UNIMOD_Crotonyl
Crotonyl: Crotonylation.
MS_site_global_FDR
site:global FDR: Estimation of global false discovery rate of peptides with a post-translational modi...
UNIMOD_Asn__Asp
Asn->Asp: Asn->Asp substitution.
MS_ion__OBSOLETE
ion?: An atomic or molecular species having a net positive or negative electric charge.
MS_param__a_ion_NH3_DEPRECATED
param: a ion-NH3 DEPRECATED: Ion a-NH3 parameter information, type of product: a ion with lost ammoni...
MS_electron_affinity_OBSOLETE
electron affinity: The electron affinity of M is the minimum energy required for the process M- ?...
UNIMOD_mTRAQ_13C_3_15N_1_
mTRAQ:13C(3)15N(1): MTRAQ medium.
UNIMOD_dHex_3_Hex_3_HexNAc_1_
dHex(3)Hex(3)HexNAc(1): DHex(3) Hex(3) HexNAc.
UNIMOD_Lys__Trp
Lys->Trp: Lys->Trp substitution.
UNIMOD_dHex_1_Hex_2_HexNAc_1_NeuAc_2_
dHex(1)Hex(2)HexNAc(1)NeuAc(2): DHex Hex(2) HexNAc NeuAc(2).
MS_Associated_raw_file_URI
Associated raw file URI: URI of one raw data file associated to the PRIDE experiment (maybe through a...
UNIMOD_Thr__Glu
Thr->Glu: Thr->Glu substitution.
UNIMOD_dHex_1_Hex_4_HexA_1_HexNAc_3_Sulf_1_
dHex(1)Hex(4)HexA(1)HexNAc(3)Sulf(1): DHex Hex(4) HexA HexNAc(3) Sulf.
UNIMOD_Delta_H_10_C_8_O_1_
Delta:H(10)C(8)O(1): Crotonaldehyde-derived dimethyl-FDP-lysine.
UNIMOD_Ser__Pro
Ser->Pro: Ser->Pro substitution.
UNIMOD_Cation_Ni_II_
Cation:Ni[II]: Replacement of 2 protons by nickel.
UNIMOD_Hex_2_
Hex(2): Lactosylation.
UNIMOD_SUMO3549
SUMO3549: SUMOylation by SUMO-2/3 after tryptic cleavage.
UNIMOD_dHex_2_Hex_2_HexNAc_5_
dHex(2)Hex(2)HexNAc(5): DHex(2) Hex(2) HexNAc(5).
MS_MS_GF_RawScore
MS-GF:RawScore: MS-GF raw score.
MS_proteoform_level_global_FDR_threshold
proteoform-level global FDR threshold: Threshold for the global false discovery rate of proteoforms.
UNIMOD_Asn__Xle
Asn->Xle: Asn->Leu/Ile substitution.
MS_X_Tandem_xml_format
X!Tandem xml format: Source file for this mzIdentML was in X!Tandem xml file format.
UNIMOD_Label_13C_6_15N_4__Methyl_2H_3_13C_1_
Label:13C(6)15N(4)+Methyl:2H(3)13C(1): 2H(3) 13C(1) monomethylated Arg13C(6) 15N(4).
MS_sampled_noise_intensity_array
sampled noise intensity array: A data array of intensity values for the amplitude of noise variation ...
UO_microgray
microgray: An absorbed dose unit which is equal to one millionth of a gray or 10^[-6] Gy.
MS_mass_resolving_power_OBSOLETE
mass resolving power: In a mass spectrum, the observed mass divided by the difference between two mas...
UNIMOD_HNE_Delta_H_2_
HNE+Delta:H(2): Reduced 4-Hydroxynonenal.
MS_product_ion_m_z_error
product ion m/z error: The product ion m/z error.
UNIMOD_a_type_ion
a-type-ion: ISD a-series (C-Term).
MS_EMT
EMT (electron multiplier tube): A device to amplify the current of a beam or packet of charged partic...
MS_ProteomeDiscoverer_Spectrum_Selector_Minimum_Peak_Count
ProteomeDiscoverer:Spectrum Selector:Minimum Peak Count: Minimum number of peaks in a tandem mass spe...
MS_BioTOF
BioTOF: Bruker Daltonics' BioTOF: ESI TOF.
MS_translation_start_codons
translation start codons: The translation start codons used to translate the nucleotides to amino aci...
MS_QTRAP_6500
QTRAP 6500: SCIEX QTRAP 6500.
MS_electric_field_strength
electric field strength: The magnitude of the force per unit charge at a given point in space.
UNIMOD_Arg__Asp
Arg->Asp: Arg->Asp substitution.
MS_enhanced_resolution_scan_OBSOLETE
enhanced resolution scan: Scan with enhanced resolution.
MS_Empower
Empower: Waters Empower software for liquid chromatography and mass spectrometry acquisition.
MS_ion_reaction_OBSOLETE
ion reaction: Chemical transformation involving an ion.
MS_PAnalyzer_conclusive_protein
PAnalyzer:conclusive protein: A protein identified by at least one unique (distinct,...
MS_Progenesis_confidence_score
Progenesis:confidence score: The data type confidence score produced by Progenesis LC-MS.
UNIMOD_Hex_1_HexNAc_1_NeuGc_2_
Hex(1)HexNAc(1)NeuGc(2): Hex HexNAc NeuGc(2).
UNIMOD_Sulfo
Sulfo: O-Sulfonation.
MS_DESI
DESI (desorption electrospray ionization): Combination of electrospray and desorption ionization meth...
UNIMOD_dHex_3_Hex_3_HexNAc_2_
dHex(3)Hex(3)HexNAc(2): DHex(3) Hex(3) HexNAc(2).
UNIMOD_HexNAc_1_Kdn_2_
HexNAc(1)Kdn(2): HexNAc Kdn(2) —OR— Hex(2) HexNAc HexA.
MS_ion_injection_time
ion injection time: The length of time spent filling an ion trapping device.
UNIMOD_dHex_1_Hex_6_HexNAc_3_
dHex(1)Hex(6)HexNAc(3): DHex Hex(6) HexNAc(3).
UO_microsecond
microsecond: A time unit which is equal to one millionth of a second or 10^[-6] s.
MS_PSM_is_used_for_peptide_level_scoring
PSM is used for peptide-level scoring: Flags a PSM that it is used for peptide-level scoring.
UO_cubic_centimeter
cubic centimeter: A volume unit which is equal to one millionth of a cubic meter or 10^[-9] m^[3],...
MS_TIQAM
TIQAM: Software used to predict, select, and optimize transitions for selected reaction monitoring ex...
MS_LCMS_2010A
LCMS-2010A: Shimadzu Scientific Instruments LCMS-2010A MS.
UNIMOD_Thr__Lys
Thr->Lys: Thr->Lys substitution.
MS_ionization_mode_OBSOLETE
ionization mode: Whether positive or negative ions are selected for analysis by the spectrometer.
UNIMOD_HexNAc_1_NeuAc_1_
HexNAc(1)NeuAc(1): HexNAc NeuAc.
MS_TOPP_peak_picker
TOPP peak picker: Peak picker component of the TOPP software.
MS_predicted_retention_time
predicted retention time: A time interval from the start of chromatography when an analyte exits a ch...
MS_frag__a_ion___H2O
frag: a ion - H2O: Fragmentation information, type of product: a ion without water.
MS_inlet_temperature
inlet temperature: The temperature of the inlet of a mass spectrometer.
UNIMOD_FMNH
FMNH: Flavin mononucleotide.
MS_decoy_SRM_transition
decoy SRM transition: A transition not expected to be present in the sample and used to calculate sta...
UNIMOD_Hex_5_
Hex(5): Hex(5).
MS_Varian_instrument_model
Varian instrument model: Varian instrument model.
MS_QSTAR
QSTAR: Applied Biosystems/MDS SCIEX QSTAR MS.
UNIMOD_Hydroxymethyl
Hydroxymethyl: Hydroxymethyl.
MS_TopMG_proteoform_level_cutoff_value
TopMG:proteoform-level cutoff value: Proteoform-level cutoff value for filtering identified proteofor...
MS_param__y_ion_NH3_DEPRECATED
param: y ion-NH3 DEPRECATED: Ion y-NH3 parameter information, type of product: y ion with lost ammoni...
MS_TOF_Total_Path_Length
TOF Total Path Length: The length of the field free drift space in a time of flight mass spectrometer...
UNIMOD_Hex_3_HexNAc_3_NeuGc_1_
Hex(3)HexNAc(3)NeuGc(1): Hex(3) HexNAc(3) NeuGc.
MS_param__d_ion
param: d ion: Parameter information, type of product: side chain loss d ion.
UNIMOD_Hex_2_Pent_2_Me_1_
Hex(2)Pent(2)Me(1): Hex(2) Pent(2) Me.
MS_ion_energy_loss_spectrum_OBSOLETE
ion energy loss spectrum: A plot of the relative abundance of a beam or other collection of ions as a...
MS_confidence_score
confidence score: Result of quality estimation: confidence score.
MS_LipidBlast
LipidBlast: LC-MS-based lipidomics and automated identification of lipids using the LipidBlast in-sil...
UNIMOD_Label_2H_3__Oxidation
Label:2H(3)+Oxidation: Oxidised 2H(3) labelled Methionine.
MS_feature_attribute
feature attribute: Attribute describing a feature.
MS_ANOVA_test
ANOVA-test: Perform an ANOVA-test (more than two groups). Specify in string value,...
MS_ProteomeDiscoverer_Target_FDR_Strict
ProteomeDiscoverer:Target FDR Strict: Specifies the strict target false discovery rate (FDR,...
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Clipping_Range_After
ProteomeDiscoverer:Spectrum Selector:Precursor Clipping Range After: Precursor clipping range after.
UNIMOD_SUMO2135
SUMO2135: SUMOylation by SUMO-1 after tryptic cleavage.
MS_SEQUEST_TIC
SEQUEST:TIC: SEQUEST total ion current.
MS_EIEIO_OBSOLETE
EIEIO (electron-induced excitation in organics): The reaction of an ion with an electron in which the...
MS_SpectraST_discriminant_score_F
SpectraST:discriminant score F: SpectraST spectrum score.
MS_Discoverer_MSF_format
Discoverer MSF format: Source file for this mzIdentML was in Thermo Scientific Discoverer MSF format.
MS_selected_ion_detection_OBSOLETE
selected ion detection: Please see Single Ion Monitoring.
MS_6545_Q_TOF_LC_MS
6545 Q-TOF LC/MS: The 6545 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
MS_peptide_exon_count
peptide exon count: The number of exons to which the peptide has been mapped.
MS_modification_motif
modification motif: The regular expression describing the sequence motif for a modification.
MS_Asp_N
Asp-N: Endoproteinase Asp-N.
MS_PSM_level_e_value
PSM-level e-value: Estimation of the e-value for peptide spectrum matches.
UNIMOD_AHA_Alkyne_KDDDD
AHA-Alkyne-KDDDD: Azidohomoalanine (AHA) bound to DDDDK-propargylglycine-NH2 (alkyne).
UNIMOD_Hex_2_HexNAc_3_NeuGc_2_
Hex(2)HexNAc(3)NeuGc(2): Hex(2) HexNAc(3) NeuGc(2).
MS_SNAP
SNAP (sophisticated numerical annotation procedure): It searches for known patterns in the measured s...
UNIMOD_Hex_6_HexNAc_3_Phos_1_
Hex(6)HexNAc(3)Phos(1): Hex(6) HexNAc(3) Phos.
MS_MaxQuant
MaxQuant: MaxQuant is a quantitative proteomics software package designed for analyzing large mass sp...
MS_decoy_DB_from_nr_OBSOLETE
decoy DB from nr: Decoy database from a non-redundant GenBank sequence database.
MS_TOPP_spectra_filter
TOPP spectra filter: Spectra filter component of the TOPP software.
UNIMOD_Hex_4_HexNAc_4_NeuAc_1_Sulf_2_
Hex(4)HexNAc(4)NeuAc(1)Sulf(2): Hex(4) HexNAc(4) NeuAc Sulf(2).
UNIMOD_Gln__Tyr
Gln->Tyr: Gln->Tyr substitution.
MS_Phenyx_MinPepzscore
Phenyx:MinPepzscore: The minimal peptide z-score for a peptide to be considered for a valid identific...
MS_DFS
DFS: Thermo Scientific DFS HR GC-MS.
MS_proportional_OBSOLETE
proportional: When resolution is proportional with respect to m/z.
MS_frag__internal_ya_ion
frag: internal ya ion: Fragmentation information, type of product: internal ya ion.
PEFF_Processed
Processed: Processed Molecule.
MS_mzIdentML_format
mzIdentML format: The mzIdentML format for peptide and protein identification data from the PSI....
MS_Agilent_software
Agilent software: Agilent software for data acquisition and analysis.
UNIMOD_Xlink_DTSSP_88_
Xlink:DTSSP[88]: Cleaved and reduced DSP/DTSSP crosslinker.
UNIMOD_dHex_2_Hex_5_HexNAc_4_
dHex(2)Hex(5)HexNAc(4): DHex(2) Hex(5) HexNAc(4).
MS_6330_Ion_Trap_LC_MS
6330 Ion Trap LC/MS: The 6330 Ion Trap LC/MS is a Agilent liquid chromatography instrument combined w...
UNIMOD_dHex_2_Hex_3_HexNAc_3_Pent_2_
dHex(2)Hex(3)HexNAc(3)Pent(2): DHex(2) Hex(3) HexNAc(3) Pent(2).
UO_fold_dilution
fold dilution: A unit that is the ratio of concentration of two solutions of interest,...
MS_TopMG_spectral_cutoff_type
TopMG:spectral cutoff type: Spectrum-level cutoff type for filtering identified proteoform spectrum m...
MS_software_vendor
software vendor: Software vendor role.
MS_Supported_dataset_by_repository
Supported dataset by repository: The PX dataset is supported by and is available through the submissi...
MS_q
q (collision quadrupole): A transmission quadrupole to which an oscillating potential is applied so a...
UNIMOD_dHex_2_Hex_2_HexNAc_2_Sulf_1_
dHex(2)Hex(2)HexNAc(2)Sulf(1): DHex(2) Hex(2) HexNAc(2) Sulf.
UO_plaque_forming_unit
plaque forming unit: A dimensionless count unit which a measure of plague forming units in a given vo...
UNIMOD_His__Cys
His->Cys: His->Cys substitution.
MS_HCTultra_PTM
HCTultra PTM: Bruker Daltonics' HCTultra PTM: ESI TOF, Nanospray, APCI, APPI, PTR.
MS_apex_ultra
apex ultra: Bruker Daltonics' apex ultra: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR.
UNIMOD_TMPP_Ac_13C_9_
TMPP-Ac:13C(9): Heavy tris(2,4,6-trimethoxyphenyl)phosphonium acetic acid N-hydroxysuccinimide ester ...
MS_ISQ
ISQ: Thermo Scientific ISQ single quadrupole MS with the ExtractraBrite source.
MS_linear_OBSOLETE
linear: The mass scan is done in linear mode.
MS_CNBr
CNBr: Cyanogen bromide.
UNIMOD_MurNAc
MurNAc: N-Acetylmuramic acid.
MS_aminoxyTMT_quantitation_analysis
aminoxyTMT quantitation analysis: Quantitation analysis using the Thermo Fisher carbonyl-reactive ami...
UNIMOD_NP40
NP40: NP-40 synthetic polymer terminus.
MS_count_of_identified_clusters
count of identified clusters: The number of protein clusters that have been identified,...
MS_Conversion_to_dta
Conversion to dta: Conversion to dta format.
UO_watt_per_meter_kelvin
watt per meter kelvin: An heat conduction unit which is equal to one watt divided by meter kelvin.
MS_NIST_MSPepSearch
NIST MSPepSearch: Search tool of the NIST (National Institute of Standards and Technology) for spectr...
MS_TopPIC_min_shift
TopPIC:min shift: Minimum value of the mass shift (in Dalton) of an unexpected modification.
MS_adduct_ion_mass
adduct ion mass: Mass of an adduct formation specified by the given value.
MS_mass_table_source
mass table source: Children of this term specify the source of the mass table used.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge4: Standard high confidence XCorr paramete...
MS_MaxQuant_PTM_Delta_Score_threshold
MaxQuant:PTM Delta Score threshold: Threshold for MaxQuant:PTM Delta Score.
UO_yocto
yocto: A prefix in the metric system denoting a factor of 10 to the power of -24.
UNIMOD_glucosone
glucosone: Condensation product of glucosone.
UNIMOD_maleimide3
maleimide3: Maleimide-3-saccharide.
MS_ion_attribute_OBSOLETE
ion attribute: Ion properties that are associated with a value.
MS_constant_neutral_gain_scan_OBSOLETE
constant neutral gain scan: Spectrum of all precursor ions that undergo a selected m/z increment.
MS_modification_rescoring_false_localization_rate
modification rescoring:false localization rate: Mod position score: false localization rate.
MS_quick_and_dirty_MALDI_sample_preparation
quick and dirty MALDI sample preparation: Quick & dirty (Q&D) sample preparation separating matrix ha...
UO_volt_second_per_square_centimeter
volt-second per square centimeter: An electrical mobility unit which is equal to one volt second per ...
MS_Bruker_Agilent_YEP_nativeID_format__combined_spectra
Bruker/Agilent YEP nativeID format, combined spectra: Bruker/Agilent comma separated list of spectra ...
MS_6320_Ion_Trap_LC_MS
6320 Ion Trap LC/MS: The 6320 Ion Trap LC/MS is a Agilent liquid chromatography instrument combined w...
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge3: FT medium confidence XCorr parameter f...
PEFF_XRef
XRef: Cross-reference to an external resource.
UNIMOD_Arg__Phe
Arg->Phe: Arg->Phe substitution.
MS_PIA_protein_inference_used_score
PIA:protein inference used score: The used base score for the protein inference using PIA.
UNIMOD_Gly__Tyr
Gly->Tyr: Gly->Tyr substitution.
UO_parts_per_thousand
parts per thousand: A dimensionless concentration notation which denotes the amount of a given substa...
MS_micrOTOFcontrol
micrOTOFcontrol: Bruker software for data acquisition.
UNIMOD_Label_2H_9_13C_6_15N_2_
Label:2H(9)13C(6)15N(2): 13C(6) 15N(2) (D)9 SILAC label.
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge2: Standard medium confidence XCorr para...
UO_milligram_per_liter
milligram per liter: A mass unit density which is equal to mass of an object in milligrams divided by...
UO_substance_unit
substance unit: A unit which is a standardised quantity of an element or compound with uniform compos...
PEFF_Transit
Transit: Sequence range of transit peptide.
MS_ASAPRatio
ASAPRatio: A program in the TPP that calculates PSM, peptide, and protein-level abundances based on 2...
MS_ProteomeDiscoverer_Mascot_Weight_of_D_Ions
ProteomeDiscoverer:Mascot:Weight of D Ions: Determines if to use D ions for spectrum matching.
MS_ProteomeDiscoverer_Peptide_Without_Protein_XCorr_Threshold
ProteomeDiscoverer:Peptide Without Protein XCorr Threshold: XCorr threshold for storing peptides that...
MS_file_format_conversion
file format conversion: Conversion of one file format to another.
UNIMOD_Xlink_DFDNB
Xlink:DFDNB: Intact DFDNB crosslinker.
UO_meter
meter: A length unit which is equal to the length of the path traveled by light in vacuum during a ti...
MS_spectrum_identification_result_details
spectrum identification result details: This subsection describes terms which can describe details of...
MS_6130_Quadrupole_LC_MS
6130 Quadrupole LC/MS: The 6130 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
UNIMOD_Xlink_DTBP_87_
Xlink:DTBP[87]: Cleaved and reduced DTBP crosslinker.
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge2: FT high confidence XCorr parameter for c...
MS_Chymotrypsin
Chymotrypsin: Enzyme chymotrypsin.
MS_SRM_feature_level_quantitation
SRM feature level quantitation: Selected Reaction Monitoring feature level quantitation.
MS_four_sample_run
four sample run: The raw file contains the run of four samples (e.g. 4-plex iTraq).
UNIMOD_Ub_amide
Ub-amide: Ub amide probe addition.
UNIMOD_His__Asp
His->Asp: His->Asp substitution.
MS_OMEGA
OMEGA: IonSpec OMEGA MS.
MS_TODOscoring_model_OBSOLETE
TODOscoring model: OBSOLETE: There is Phenyx:ScoringModel for Phenyx! Scoring model (more detailed gr...
UNIMOD_Met__Ser
Met->Ser: Met->Ser substitution.
MS_protein_group_level_statistical_threshold
protein group-level statistical threshold: Estimated statistical threshold at protein group-level.
MS_beam_type_collision_induced_dissociation
beam-type collision-induced dissociation: A collision-induced dissociation process that occurs in a b...
MS_PIA
PIA: PIA - Protein Inference Algorithms, a toolbox for protein inference and identification analysis.
UNIMOD_Hex_1_Pent_1_
Hex(1)Pent(1): Hex Pent.
UNIMOD_ICPL_13C_6_2H_4_
ICPL:13C(6)2H(4): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, +10 Da form.
MS_identification_parameter
identification parameter: Identification parameter for the search engine run.
UNIMOD_Ser__Met
Ser->Met: Ser->Met substitution.
MS_PTM_localization_confidence_metric
PTM localization confidence metric: Localization confidence metric for a post translational modificat...
UNIMOD_Hex_2_HexNAc_3_NeuAc_1_Sulf_1_
Hex(2)HexNAc(3)NeuAc(1)Sulf(1): Hex(2) HexNAc(3) NeuAc Sulf.
UNIMOD_Hex_3_HexNAc_1_
Hex(3)HexNAc(1): Hex(3) HexNAc.
MS_protein_ratio
protein ratio: Protein ratio.
UNIMOD_Propionyl
Propionyl: Propionate labeling reagent light form (N-term & K).
MS_Dionex_instrument_model
Dionex instrument model: Dionex instrument model.
MS_Trapper
Trapper: A software program for converting Agilent MassHunter format to mzXML or mzML....
MS_Finnigan_MAT_instrument_model
Finnigan MAT instrument model: Finnigan MAT instrument model.
UO_grain
grain: An imperial mass unit which is equivalent to 64.798,91 milligrams.
MS_collisional_excitation_OBSOLETE
collisional excitation: The reaction of an ion with a neutral species in which the translational ener...
MS_CF_FAB
CF-FAB (continuous flow fast atom bombardment): Fast atom bombardment ionization in which the analyte...
MS_DiART_reagent
DiART reagent: Deuterium isobaric amine reactive tag labeling reagent.
UNIMOD_HexNAc_1_NeuGc_2_
HexNAc(1)NeuGc(2): HexNAc NeuGc(2).
MS_esquire_4000
esquire 4000: Bruker Daltonics' esquire 4000: linear ion trap, ESI, MALDI, Nanospray,...
MS_quattro_micro
quattro micro: Waters (triple) quadrupole based micro.
UNIMOD_dHex_2_Hex_1_HexNAc_3_
dHex(2)Hex(1)HexNAc(3): DHex(2) Hex HexNAc(3).
MS_TOPP_SpectraMerger
TOPP SpectraMerger: Merges spectra from an LC/MS map, either by precursor or by RT blocks.
UNIMOD_Hex_2_HexNAc_1_Pent_1_HexA_1_
Hex(2)HexNAc(1)Pent(1)HexA(1): Hex(2) HexNAc Pent HexA.
UNIMOD_sulfo_amino
sulfo+amino: Aminotyrosine with sulfation.
MS_QSTAR_Elite
QSTAR Elite: SCIEX or Applied Biosystems|MDS SCIEX QSTAR Elite.
PEFF_AltAC
AltAC: Alternative Accession Code.
MS_ProteomeDiscoverer_Mass_Analyzer_OBSOLETE
ProteomeDiscoverer:Mass Analyzer: Type of mass spectrometer used (ITMS, FTMS, TOFMS,...
MS_custom_unreleased_software_tool
custom unreleased software tool: A software tool that has not yet been released. The value should des...
MS_charge_permutation_reaction_OBSOLETE
charge permutation reaction: The reaction of an ion with a neutral species with a resulting change in...
MS_light_labeled_peptide
light labeled peptide (unlabeled peptide): A peptide that has not been labelled with heavier-than-usu...
MS_ProteomeDiscoverer_Spectrum_Grouper_Max_RT_Difference_OBSOLETE
ProteomeDiscoverer:Spectrum Grouper:Max RT Difference: Chromatographic window where precursors to be ...
UNIMOD_dHex_1_Hex_1_HexNAc_2_NeuAc_1_Sulf_1_
dHex(1)Hex(1)HexNAc(2)NeuAc(1)Sulf(1): DHex Hex HexNAc(2) NeuAc Sulf.
MS_minimum_information_standard
minimum information standard: A specification of a minimum amount of information needed to reproduce ...
MS_LTQ_XL
LTQ XL: Thermo Scientific LTQ XL MS.
UNIMOD_Hex_2_HexNAc_3_NeuGc_1_
Hex(2)HexNAc(3)NeuGc(1): Hex(2) HexNAc(3) NeuGc.
UNIMOD_Hex_1_NeuAc_1_
Hex(1)NeuAc(1): Hex NeuAc —OR— HexNAc Kdn.
UNIMOD_Pentylamine
Pentylamine: Labeling transglutaminase substrate on glutamine side chain.
MS_ProteomeDiscoverer_Mascot_Time_interval_between_attempts_to_submit_a_search
ProteomeDiscoverer:Mascot:Time interval between attempts to submit a search: Time interval between at...
MS_ProteinExtractor_SequestPeptideScoreThreshold
ProteinExtractor:SequestPeptideScoreThreshold: Only peptides with scores higher than that threshold a...
UNIMOD_dHex_3_Hex_2_HexNAc_4_Sulf_2_
dHex(3)Hex(2)HexNAc(4)Sulf(2): DHex(3) Hex(2) HexNAc(4) Sulf(2).
UNIMOD_Deoxy
Deoxy: Reduction.
MS_TOPP_InspectAdapter
TOPP InspectAdapter: Identifies MS2 spectra using the external program Inspect.
MS_minimum_number_of_enzymatic_termini
minimum number of enzymatic termini: Minimum number of enzymatic termini a peptide must have to be ac...
UO_milli_300010009
milli: A mass unit which is equal to 1/12 the mass of 12C
MS_LightSight_Software
LightSight Software: SCIEX or Applied Biosystems|MDS SCIEX software metabolite identification.
UNIMOD_Hex_4_HexA_1_
Hex(4)HexA(1): Hex(4) HexA.
UNIMOD_Carboxyethylpyrrole
Carboxyethylpyrrole: Carboxyethylpyrrole.
MS_ProteomeDiscoverer_SEQUEST_CTerminal_Modification
ProteomeDiscoverer:SEQUEST:CTerminal Modification: Dynamic C-terminal modification that is used durin...
MS_ProteinLynx_XML_format
ProteinLynx XML format: Source file for this mzIdentML was in Waters ProteinLynx XML format.
UO_activity__of_a_radionuclide__unit
activity (of a radionuclide) unit: A unit which is a standard measure of the transformation (disinteg...
MS_SILACAnalyzer
SILACAnalyzer: Software for SILAC workflow.
UNIMOD_Xlink_DSSO_86_
Xlink:DSSO[86]: Thiol fragment of DSSO crosslinker.
MS_Trypsin
Trypsin: Enzyme trypsin.
MS_decoy_DB_accession_regexp
decoy DB accession regexp: Specify the regular expression for decoy accession numbers.
UNIMOD_dHex_2_Hex_1_HexNAc_2_NeuAc_1_
dHex(2)Hex(1)HexNAc(2)NeuAc(1): DHex(2) Hex HexNAc(2) NeuAc.
MS_printed_MALDI_matrix_preparation
printed MALDI matrix preparation: Printed MALDI matrix preparation.
UO_ratio_300000190
ratio: A dimensionless unit which denotes an amount or magnitude of one quantity relative to another.
MS_experiment_name
experiment name: The name for identifying an experiment.
MS_family_member_protein
family member protein: A protein with significant homology to another protein, but some distinguishin...
UO_megabasepair
megabasepair: A unit equal to one million base pairs
UNIMOD_Cys__Oxoalanine
Cys->Oxoalanine: Oxoalanine.
MS_mass_spectrometry_imaging
mass spectrometry imaging: A technique in which mass spectra are acquired in a spatially resolved man...
MS_TLF
TLF (time lag focusing): Energy focusing in a time-of-flight mass spectrometer that is accomplished b...
UNIMOD_Thr__Ala
Thr->Ala: Thr->Ala substitution.
UNIMOD_dHex_1_Hex_1_HexNAc_2_Sulf_1_
dHex(1)Hex(1)HexNAc(2)Sulf(1): DHex Hex HexNAc(2) Sulf.
UNIMOD_spermine
spermine: Spermine adduct.
UNIMOD_dNIC
dNIC: Deuterated Nicotinic Acid.
MS_msPrefix_precursor_recalculation
msPrefix precursor recalculation: Recalculates one or more precursor selected ions by peak detection ...
UNIMOD_NeuGc
NeuGc: N-glycoyl neuraminic acid.
MS_no_combination
no combination: Use this term if only one scan was recorded or there is no information about scans av...
MS_amaZon_X
amaZon X: Bruker Daltonics' amaZon X: ESI quadrupole ion trap, APCI, APPI, ETD, PTR.
UNIMOD_Unknown_306
Unknown:306: Unidentified modification of 306.0952 found in open search.
UNIMOD_TMT6plex
TMT6plex: Sixplex Tandem Mass Tag®.
UNIMOD_Label_2H_4_13C_1_
Label:2H(4)13C(1): Label:2H(4)13C(1).
MS_ProteomeDiscoverer_max_number_neutral_loss_modifications
ProteomeDiscoverer:max number neutral loss modifications: Max number of same neutral losses of modifi...
PEFF_Variant
Variant: DEPRECATED in favor of VariantSimple and VariantComplex. Former definition: Sequence variati...
UNIMOD_DTT
DTT: DTT adduct of cysteine.
MS_iodoTMT_quantitation_analysis
iodoTMT quantitation analysis: Quantitation analysis using the Thermo Fisher sulfhydryl-reactive iodo...
MS_microTOF_LC
microTOF LC: Bruker Daltonics' microTOF LC: ESI TOF, Nanospray, APCI, APPI.
MS_ProteomeDiscoverer_4__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:4. Dynamic Modification: ProteomeDiscoverer's 4th dynamic post-translational modif...
UNIMOD_ExacTagThiol
ExacTagThiol: ExacTag Thiol label mass for 2-4-7-10 plex.
MS_combined_FDRScore_OBSOLETE
combined FDRScore: FDRScore values specifically obtained for distinct combinations of single,...
UNIMOD_pyrophospho
pyrophospho: Pyrophosphorylation of Ser/Thr.
UO_picomolar
picomolar: A unit of molarity which is equal to 10^[-12] M.
UO_acceleration_unit
acceleration unit: A unit which is a standard measure of the rate of change of velocity in either spe...
MS_ProteomeDiscoverer_SEQUEST_NTerminal_Modification
ProteomeDiscoverer:SEQUEST:NTerminal Modification: Dynamic N-terminal modification that is used durin...
UNIMOD_dHex_1_Hex_2_HexNAc_4_Sulf_2_
dHex(1)Hex(2)HexNAc(4)Sulf(2): DHex Hex(2) HexNAc(4) Sulf(2).
MS_fragment_ion_intensity
fragment ion intensity (product ion intensity): The intensity of a single product ion.
UNIMOD_dHex_3_Hex_2_HexNAc_3_
dHex(3)Hex(2)HexNAc(3): DHex(3) Hex(2) HexNAc(3).
UNIMOD_monomethylphosphothione
monomethylphosphothione: O-methylphosphothione.
MS_baseline
baseline: An attribute of resolution when recording the detector response in absence of the analyte.
UNIMOD_BEMAD_C_2H_6_
BEMAD_C:2H(6): Beta elimination of alkylated Cys followed by Michael addition of labelled DTT.
MS_eight_sample_run
eight sample run: The raw file contains the run of eight samples (e.g. 8-plex iTraq).
MS_param__c_ion
param: c ion: Parameter information, type of product: c ion with charge on the N-terminal side.
MS_ProteinPilot_Software
ProteinPilot Software: SCIEX or Applied Biosystems|MDS SCIEX software for protein ID and quant.
MS_Phenyx_PepPvalue
Phenyx:PepPvalue: The p-value of a peptide sequence match in Phenyx.
MS_ProteomeDiscoverer_Spectrum_Files_Raw_File_names_OBSOLETE
ProteomeDiscoverer:Spectrum Files:Raw File names: Name and location of the .raw file or files.
MS_FA
FA (flowing afterglow): An ion source immersed in a flow of helium or other inert buffer gas that car...
MS_axial_ejection_linear_ion_trap
axial ejection linear ion trap: A linear ion trap mass spectrometer where ions are ejected along the ...
MS_Variance_stabilizing_normalization
Variance stabilizing normalization: The model incorporates data calibration (normalization),...
MS_enhanced_resolution_scan
enhanced resolution scan (zoom scan): Special scan mode, where data with improved resolution is acqui...
MS_SEQUEST_SelectDefault
SEQUEST:SelectDefault:
MS_TagRecon_mzFidelity
TagRecon:mzFidelity (MyriMatch:mzFidelity): The negative natural log probability that predicted peaks...
MS_LTQ_FT
LTQ FT: Finnigan LTQ FT MS.
MS_3500_QTRAP
3500 QTRAP: SCIEX 3500 QTRAP.
MS_mzTab
mzTab: Tabular result format for proteomics and metabolomics experiments.
UNIMOD_GIST_Quat_2H_3_
GIST-Quat:2H(3): Quaternary amine labeling reagent heavy (+3amu) form, N-term & K.
UNIMOD_IASD
IASD: Iodoacetamide derivative of stilbene (reaction product with thiol).
UNIMOD_Label_13C_6_15N_2__Dimethyl
Label:13C(6)15N(2)+Dimethyl: Dimethyl 13C(6)15N(2) Silac label.
MS_Bruker_XML_format
Bruker XML format: Bruker data exchange XML format.
UO_lux
lux: An illuminance unit which is equal to the illuminance produced by 1 lumen evenly spread over an ...
UO_kilogram_per_mole
kilogram per mole: A molar mass unit which is equal to one kilogram of mass of one mole of chemical e...
MS_NICI
NICI (Negative Ion chemical ionization): Chemical ionization that results in the formation of negativ...
MS_SWIFT
SWIFT (stored waveform inverse fourier transform): A technique to create excitation waveforms for ion...
MS_ProteomeDiscoverer_Target_FDR_Relaxed
ProteomeDiscoverer:Target FDR Relaxed: Specifies the relaxed target false discovery rate (FDR,...
UO_pH
pH: A dimensionless concentration notation which denotes the acidity of a solution in terms of activi...
UNIMOD_Tris
Tris: Tris adduct causes 104 Da addition at asparagine-succinimide intermediate.
MS_label_free_peptide_level_quantitation
label-free peptide level quantitation: Label-free peptide level quantitation.
MS_transient_recorder
transient recorder: A detector acquisition mode used for detecting transient signals.
MS_ProteomeDiscoverer_Mascot_Protein_Relevance_Factor
ProteomeDiscoverer:Mascot:Protein Relevance Factor: Specifies a factor that is used in calculating a ...
MS_peptide_level_score_OBSOLETE
peptide level score: Peptide level score.
UNIMOD_Thr__Tyr
Thr->Tyr: Thr->Tyr substitution.
MS_TOPP_FeatureLinkerUnlabeledQT
TOPP FeatureLinkerUnlabeledQT: Groups corresponding features from multiple maps using a quality thres...
MS_SpectrumMill_Discriminant_Score
SpectrumMill:Discriminant Score: Discriminant score from Agilent SpectrumMill software.
MS_Phenyx
Phenyx: The name of the Phenyx search engine.
MS_PMT
PMT (photomultiplier): A detector for conversion of the ion/electron signal into photon(s) which are ...
UO_newton_per_meter
newton per meter: A surface tension unit which is equal to one newton per meter.
UO_molal
molal: A unit of concentration which expresses a concentration of a solution of 1 mole per kilogram o...
MS_external_array_length
external array length: Describes how many fields an array contains.
UNIMOD_Hex_4_HexNAc_2_Pent_1_
Hex(4)HexNAc(2)Pent(1): Hex(4) HexNAc(2) Pent.
UNIMOD_Acetylhypusine
Acetylhypusine: Acetylhypusine.
MS_5800_TOF_TOF
5800 TOF/TOF: SCIEX 5800 TOF-TOF Analyzer.
UNIMOD_Gly__Gln
Gly->Gln: Gly->Gln substitution.
UNIMOD_Hex_2_HexNAc_2_NeuAc_1_Sulf_1_
Hex(2)HexNAc(2)NeuAc(1)Sulf(1): Hex(2) HexNAc(2) NeuAc Sulf.
UNIMOD_dHex_2_Hex_3_HexNAc_3_Sulf_1_
dHex(2)Hex(3)HexNAc(3)Sulf(1): Sulf dHex(2) Hex(3) HexNAc(3).
UNIMOD_Ala__Met
Ala->Met: Ala->Met substitution.
UNIMOD_IDEnT
IDEnT: Isotope Distribution Encoded Tag.
MS_TOPP_AdditiveSeries
TOPP AdditiveSeries: Computes an additive series to quantify a peptide in a set of samples.
MS_chemical_compound_attribute
chemical compound attribute: A describable property of a chemical compound.
MS_PROTEINEER_spII
PROTEINEER spII: Bruker PROTEINEER spII software.
UO_length_unit
length unit: A unit which is a standard measure of the distance between two points.
MS_param__w_ion
param: w ion: Parameter information, type of product: side chain loss w ion.
UO_disintegrations_per_minute
disintegrations per minute: An activity (of a radionuclide) unit which is equal to the activity of a ...
MS_time_array
time array: A data array of relative time offset values from a reference time.
MS_ProteinExtractor
ProteinExtractor: An algorithm for protein determination/assembly integrated into Bruker's ProteinSca...
UO_volt_per_meter
volt per meter: The volt per meter is a unit of electric field strength equal to the a potential diff...
MS_collision_gas_pressure
collision gas pressure: The gas pressure of the collision gas used for collisional excitation.
MS_transition_optimized_on_specified_instrument
transition optimized on specified instrument: The transition has been optimized by direct injection o...
UO_micron_pixel
micron pixel: A spatial resolution unit which is equal to a pixel size of one micrometer.
MS_peptide_sequence_level_global_FDR
peptide sequence-level global FDR: Estimation of the global false discovery rate for distinct peptide...
UO_molar
molar: A unit of concentration which expresses a concentration of 1 mole of solute per liter of solut...
MS_Electron_Transfer_Higher_Energy_Collision_Dissociation__EThcD_
Electron-Transfer/Higher-Energy Collision Dissociation (EThcD): A dissociation process combining elec...
MS_Waters_raw_format
Waters raw format: Waters data file format found in a Waters RAW directory, generated from an MS acqu...
MS_iTRAQH_quantitation_analysis
iTRAQH quantitation analysis: Quantification analysis using the carbonyl-reactive isobaric tags for r...
MS_PubMed_identifier
PubMed identifier: A unique identifier for a publication in the PubMed database (MIR:00000015).
MS_mzidLib_InsertMetaDataFromFasta
mzidLib:InsertMetaDataFromFasta: A tool for adding additional meta data from a FASTA file to DBSequen...
UO_concentration_unit
concentration unit: A unit which represents a standard measurement of how much of a given substance t...
UNIMOD_Carboxy__Thiocarboxy
Carboxy->Thiocarboxy: Thiocarboxylic acid.
MS_Surveyor_MSQ
Surveyor MSQ: ThermoFinnigan Surveyor MSQ MS.
MS_Phenyx_Peptides2
Phenyx:Peptides2: Second number of phenyx result "#Peptides".
MS_KERD_OBSOLETE
KERD (kinetic energy release distribution): Distribution of values of translational kinetic energy re...
MS_minute_OBSOLETE
minute: Acquisition time in minutes.
MS_ProteinScape_SequestMetaScore
ProteinScape:SequestMetaScore: The SEQUEST meta score calculated by ProteinScape from the original SE...
MS_decoy_DB_type_shuffle
decoy DB type shuffle: Decoy type: Amino acids of protein sequences are used in a random order.
UNIMOD_4_ONE_Delta_H__2_O__1_
4-ONE+Delta:H(-2)O(-1): Dehydrated 4-Oxononenal Michael adduct.
MS_focal_plane_array
focal plane array: An array of detectors for spatially disperse ion beams in which all ions simultane...
UNIMOD_O_pinacolylmethylphosphonate
O-pinacolylmethylphosphonate: O-pinacolylmethylphosphonylation.
MS_Triple_Quad_3500
Triple Quad 3500: SCIEX Triple Quad 3500.
UNIMOD_BHT
BHT: Michael addition of BHT quinone methide to Cysteine and Lysine.
UNIMOD_His__Xle
His->Xle: His->Leu/Ile substitution.
MS_manual_validation
manual validation: Result of quality estimation: decision of a manual validation.
UNIMOD_dHex_1_Hex_3_HexNAc_2_
dHex(1)Hex(3)HexNAc(2): DHex Hex(3) HexNAc(2).
MS_Byonic
Byonic: Byonic search engine from Protein Metrics.
PEFF_VariantSimple
VariantSimple: Simple sequence variation of a single amino acid change. A change to a stop codon is p...
MS_homolytic_cleavage_OBSOLETE
homolytic cleavage: Fragmentation of an odd electron ion that results from one of a pair of electrons...
MS_TMT_reagent_128C
TMT reagent 128C: The name of the sample labelled with the TMT reagent 128C.
UNIMOD_ESP
ESP: ESP-Tag light d0.
UO_milligram_per_kilogram
milligram per kilogram: A dose unit which is equal to 1 milligram of a toxic or pharmaceutical substa...
MS_researcher
researcher: Researcher role.
MS_signal_to_noise_ratio
signal-to-noise ratio: Unitless number providing the ratio of the total measured intensity of a signa...
UNIMOD_Dap_DSP
Dap-DSP: Diaminopimelic acid-DSP monolinked.
MS_6120B_Quadrupole_LC_MS
6120B Quadrupole LC/MS: The 6120B Quadrupole LC/MS system is a Agilent liquid chromatography instrume...
MS_SSRCalc
SSRCalc: Sequence Specific Retention Calculator estimates the retention time of peptides based on the...
MS_SORI
SORI (sustained off-resonance irradiation): A technique associated with Fourier transform ion cyclotr...
UO_ampere
ampere: An electric current unit which is equal to the constant current which, if maintained in two s...
UNIMOD_Label_13C_9_15N_1_
Label:13C(9)15N(1): 13C(9) 15N(1) Silac label.
UNIMOD_Gln__Val
Gln->Val: Gln->Val substitution.
MS_LIMSA
LIMSA: Software tool for the quantitative analysis of mass spectrometric lipidome data.
MS_LTQ
LTQ: Finnigan LTQ MS.
MS_isolation_window_lower_offset
isolation window lower offset: The extent of the isolation window in m/z below the isolation window t...
MS_TopMG_spectral_FDR
TopMG:spectral FDR: TopMG spectrum-level FDR.
UNIMOD_Diethyl
Diethyl: Diethylation, analogous to Dimethylation.
MS_peptide_consensus_m_z
peptide consensus m/z: Peptide consensus mass/charge ratio.
UNIMOD_Phenylisocyanate_2H_5_
Phenylisocyanate:2H(5): D5-phenyl isocyanate.
MS_TOPP_SpectraFilterNormalizer
TOPP SpectraFilterNormalizer: Applies a TIC/maximal intensity normalization to peak spectra.
MS_OMSSA_evalue
OMSSA:evalue: OMSSA E-value.
MS_ProteomeDiscoverer_input_parameter
ProteomeDiscoverer input parameter: Search engine input parameters specific to ProteomeDiscoverer.
MS_soft_ionization
soft ionization: The formation of gas-phase ions without extensive fragmentation.
MS_PSI_mzData_format
PSI mzData format: Proteomics Standards Inititative mzData file format.
UNIMOD_EGCG1
EGCG1: (-)-epigallocatechin-3-gallate.
PEFF_Chain
Chain: Sequence range of active processed polypeptide.
MS_proteoform_level_statistical_threshold
proteoform-level statistical threshold: Estimated statistical threshold at proteoform-level.
MS_Orbitrap_Fusion_Lumos
Orbitrap Fusion Lumos: Thermo Scientific Orbitrap Fusion Lumos mass spectrometer with Tribrid archite...
MS_param__z_1_ion
param: z+1 ion: Parameter information, type of product: z+1 ion.
MS_interaction_score_derived_from_cross_linking
interaction score derived from cross-linking: Parent term for interaction scores derived from cross-l...
UO_cells_per_microliter
cells per microliter: A unit of cell concentration which is equal to one cell in a volume of 1 microl...
MS_SEQUEST_sort_by_dM
SEQUEST:sort by dM: Sort order of SEQUEST search results by the difference between a theoretically ca...
MS_stainless_steel_plate
stainless steel plate: Stainless steel plate.
MS_ACQUITY_UPLC_Systems_with_2D_Technology
ACQUITY UPLC Systems with 2D Technology: Waters LC-system ACQUITY UPLC Systems with 2D Technology.
MS_D_Score_threshold
D-Score threshold: Threshold for D-score PTM site location score.
MS_database_original_uri
database original uri: URI, from where the search database was originally downloaded.
UO_kilobyte
kilobyte: An information unit which is equal to 1000 bytes.
MS_PEAKS_peptideScore
PEAKS:peptideScore: The PEAKS peptide '-10lgP Score'.
MS_conversion_dynode
conversion dynode: A surface that is held at high potential such that ions striking the surface produ...
MS_taxonomy__Swiss_Prot_ID
taxonomy: Swiss-Prot ID: This term is used if a swiss prot taxonomy id is specified,...
MS_ProteomeDiscoverer_Source_Files_OBSOLETE
ProteomeDiscoverer:Source Files: Input pepXML files.
MS_PRIDE_project_URI
PRIDE project URI: URI that allows the access to one project in the PRIDE database.
MS_DB_sequence_filter_pattern
DB sequence filter pattern: DB sequence filter pattern.
MS_continuous_flow_fast_atom_bombardment
continuous flow fast atom bombardment: Fast atom bombardment ionization in which the analyte in solut...
MS_X500R_QTOF
X500R QTOF: SCIEX X500R QTOF, a quadrupole - quadrupole - time-of-flight mass spectrometer.
MS_sum_peak_picking
sum peak picking (area peak picking): Spectral peak processing conducted on the acquired data to conv...
UNIMOD_Asp__Gly
Asp->Gly: Asp->Gly substitution.
MS_SRM_software
SRM software: Software used to predict, select, or optimize transitions or analyze the results of sel...
MS_6550_iFunnel_Q_TOF_LC_MS
6550 iFunnel Q-TOF LC/MS: The 6550 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography...
UNIMOD_Label_2H_4__Acetyl
Label:2H(4)+Acetyl: Acetyl 4,4,5,5-D4 Lysine.
MS_Bruker_TDF_format
Bruker TDF format: Bruker TDF raw file format.
MS_AMS_OBSOLETE
AMS (accelerator mass spectrometry): A mass spectrometry technique in which atoms extracted from a sa...
MS_mass_difference
mass difference (delta M): The difference between a theoretically calculated molecular mass M and the...
MS_MassIVE_dataset_identifier
MassIVE dataset identifier: Dataset identifier issued by the MassIVE repository. A dataset can refer ...
UNIMOD_Dimethyl
Dimethyl: Di-Methylation.
MS_product_ion_m_z_delta
product ion m/z delta: The difference in m/z of the predicted m/z based on the assigned product ion m...
UNIMOD_TMT2plex
TMT2plex: Duplex Tandem Mass Tag®.
UNIMOD_HNE_Delta_H_2_O
HNE-Delta:H(2)O: Dehydrated 4-hydroxynonenal.
MS_SEQUEST_sort_by_Ions
SEQUEST:sort by Ions: Sort order of SEQUEST search results given by the ions.
MS_resolution_measurement_method
resolution measurement method: Which of the available standard measures is used to define whether two...
MS_electron_multiplier_tube
electron multiplier tube: A device to amplify the current of a beam or packet of charged particles or...
MS_iTRAQ_reagent_114
iTRAQ reagent 114: The name of the sample labelled with the iTRAQ reagent 114.
MS_liquid_sample_state
liquid sample state: State if the sample is in liquid form.
MS_Citius_HRT
Citius HRT: LECO high resolution time-of-flight LC mass spectrometer.
MS_MAT900XP_Trap
MAT900XP Trap: ThermoFinnigan MAT900XP Trap MS.
MS_nanospray_inlet
nanospray inlet: Nanospray Inlet.
MS_delayed_extraction
delayed extraction: The application of the accelerating voltage pulse after a time delay in desorptio...
MS_cross_link_acceptor
cross-link acceptor: Cross-linking acceptor, assigned according to the following rules: the export so...
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_
Hex(1)HexNAc(1)NeuAc(1): Hex1HexNAc1NeuAc1.
MS_spectrum_from_database_integer_nativeID_format
spectrum from database integer nativeID format: Native format defined by databasekey=xsd:long.
MS_PTM_localization_score_threshold
PTM localization score threshold: Threshold for PTM site location score.
UNIMOD_Ala__His
Ala->His: Ala->His substitution.
MS_Quattro_Ultima
Quattro Ultima: Waters (triple) quadrupole based Ultima.
MS_TPP
TPP (Trans-Proteomic Pipeline): A suite of open source tools for the processing of MS2 proteomics dat...
UNIMOD_Gly__Thr
Gly->Thr: Gly->Thr substitution.
MS_6210_Time_of_Flight_LC_MS
6210 Time-of-Flight LC/MS: The 6210 Time-of-Flight LC/MS is a Agilent liquid chromatography instrumen...
UNIMOD_Hex_4_HexNAc_3_Pent_1_
Hex(4)HexNAc(3)Pent(1): Hex(4) HexNAc(3) Pent.
MS_scan_number_only_nativeID_format
scan number only nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
UNIMOD_DHP
DHP: Dehydropyrrolizidine alkaloid (dehydroretronecine) on cysteines.
MS_SEQUEST_matched_ions
SEQUEST:matched ions: The SEQUEST result 'Matched Ions'.
MS_laser_attribute
laser attribute: Laser properties that are associated with a value.
UNIMOD_NO_SMX_SMCT
NO_SMX_SMCT: Nitroso Sulfamethoxazole semimercaptal thiol adduct.
MS_TMT_reagent_130C
TMT reagent 130C: The name of the sample labelled with the TMT reagent 130C.
UO_zetta
zetta: A prefix in the metric system denoting a factor of ten to the power of 21.
MS_frag__b_ion___NH3
frag: b ion - NH3: Ion b-NH3 fragmentation information, type of product: b ion without ammonia.
MS_ProteoWizard_SeeMS
ProteoWizard SeeMS: An interactive GUI application to view and filter mass spectrometry data in a var...
UO_plane_angle_unit
plane angle unit: A unit which is a standard measure of the angle formed by two straight lines in the...
MS_accelerator_mass_spectrometry_OBSOLETE
accelerator mass spectrometry: A mass spectrometry technique in which atoms extracted from a sample a...
MS_Clostripain
Clostripain (Arg-C): Endoproteinase Arg-C.
UO_unit_of_molarity
unit of molarity: A concentration unit which is a standard measure of the number of moles of a given ...
UNIMOD_Unknown_162
Unknown:162: Unidentified modification of 162.1258 found in open search.
MS_experimental_condition__disease_
experimental condition 'disease': The experimental condition is 'disease' in contrast to 'healthy'.
UO_millimeters_per_day
millimeters per day: A speed/velocity unit which is equal to the speed of an object traveling 1 milli...
MS_Dataset_with_its_publication_pending
Dataset with its publication pending: A dataset which has an associated manuscript pending for public...
MS_focus_diameter_y
focus diameter y: Describes the diameter of the laser beam in y direction.
MS_7000B_Triple_Quadrupole_GC_MS
7000B Triple Quadrupole GC/MS: The 7000B Quadrupole GC/MS system is a Agilent gas chromatography inst...
MS_sample_volume
sample volume: Total volume of solution used.
MS_Q_TRAP
Q TRAP: Applied Biosystems/MDS SCIEX Q TRAP MS.
UNIMOD_Thiophospho
Thiophospho: Thiophosphorylation.
UNIMOD_Label_13C_6__GG
Label:13C(6)+GG: 13C6 labeled ubiquitinylation residue.
MS_scan_window_lower_limit
scan window lower limit: The upper m/z bound of a mass spectrometer scan window.
MS_EMR_radiation_chromatogram
EMR radiation chromatogram (electromagnetic radiation chromatogram): The measurement of electromagnet...
UNIMOD_Hex_5_HexNAc_4_Me_2_Pent_1_
Hex(5)HexNAc(4)Me(2)Pent(1): Hex(5) HexNAc(4) Me(2) Pent.
MS_OMSSA_xml_format
OMSSA xml format: Source file for this mzIdentML was in OMSSA xml file format.
UNIMOD_Pyridylacetyl
Pyridylacetyl: Pyridylacetyl.
PEFF_Individual_Sequence_Entries_Section_term
Individual Sequence Entries Section term: CV term that may appear in a PEFF Individual Entry Section.
MS_TOPP_Decharger
TOPP Decharger: Decharges and merges different feature charge variants of the same chemical entity.
MS_CS
CS (charge stripping): The reaction of a positive ion with an atom or molecule that results in the re...
UNIMOD_dHex_3_Hex_3_HexNAc_4_
dHex(3)Hex(3)HexNAc(4): DHex(3) Hex(3) HexNAc(4).
UNIMOD_Tyr__Glu
Tyr->Glu: Tyr->Glu substitution.
MS_charge_deconvolution
charge deconvolution: The determination of the mass of an ion based on the mass spectral peaks that r...
UNIMOD_Hex_4_HexNAc_2_NeuAc_1_
Hex(4)HexNAc(2)NeuAc(1): Hex(4) HexNAc(2) NeuAc —OR— Hex(3) HexNAc(2) dHex NeuGc.
MS_LipidFinder
LipidFinder: A computational workflow for the discovery of lipids for the identification of eicosanoi...
UNIMOD_Ser__Arg
Ser->Arg: Ser->Arg substitution.
MS_ProteomeDiscoverer_WinCyg_reference_database
ProteomeDiscoverer:WinCyg reference database: Windows full path for database.
PWIZ_API_DECL const CV & cv(const std::string &prefix)
returns a CV object for the specified namespace (prefix); currently supported namespaces are: MS UO
MS_identification_file_attribute
identification file attribute: Attribute describing an identification file.
MS_microflex_LRF
microflex LRF: Bruker Daltonics' microflex LRF: MALDI TOF.
MS_iProX_dataset_URI
iProX dataset URI: URI that allows the access to one dataset in the iProX repository....
MS_supplemental_collision_energy
supplemental collision energy: Energy for an ion experiencing supplemental collision with a stationar...
UNIMOD_HexNAc_1_NeuGc_1_
HexNAc(1)NeuGc(1): HexNAc NeuGc.
MS_sample_number
sample number: A reference number relevant to the sample under study.
UNIMOD_dHex_1_Hex_4_HexA_1_HexNAc_2_
dHex(1)Hex(4)HexA(1)HexNAc(2): DHex Hex(4) HexA HexNAc(2).
MS_m_z_Separation_Method_OBSOLETE
m/z Separation Method: Mass/charge separation Method.
UNIMOD_dHex_2_Hex_5_HexNAc_3_Pent_1_
dHex(2)Hex(5)HexNAc(3)Pent(1): DHex(2) Hex(5) HexNAc(3) Pent.
UNIMOD_G_H1
G-H1: Glyoxal-derived hydroimiadazolone.
UNIMOD_Hex_2_HexNAc_2_NeuGc_1_
Hex(2)HexNAc(2)NeuGc(1): Hex(2) HexNAc(2) NeuGc.
UNIMOD_Lys__Cys
Lys->Cys: Lys->Cys substitution.
PEFF_Domain
Domain: Sequence range of a domain.
UNIMOD_Tyr__Pro
Tyr->Pro: Tyr->Pro substitution.
MS_high_intensity_data_point_removal
high intensity data point removal: The removal of very high intensity data points.
UO_speed_velocity_unit
speed/velocity unit: A unit which is a standard measure of the rate of movement. Speed is measured in...
UNIMOD_dHex_1_Hex_3_HexNAc_6_
dHex(1)Hex(3)HexNAc(6): DHex Hex(3) HexNAc(6).
MS_Scaffold_Protein_Probability
Scaffold:Protein Probability: Scaffold protein probability score.
MS_label_free_protein_level_quantitation
label-free protein level quantitation: Label-free protein level quantitation.
MS_Non_peer_reviewed_dataset
Non peer-reviewed dataset: Dataset that has not been peer-reviewed by any means.
MS_MS2_tag_based_peptide_level_quantitation
MS2 tag-based peptide level quantitation: MS2 tag-based peptide level quantitation.
UNIMOD_Hex_6_HexNAc_5_
Hex(6)HexNAc(5): Hex(6) HexNAc(5).
MS_tube_lens_voltage
tube lens voltage: Potential difference setting of the tube lens in volts.
UNIMOD_dHex_2_Hex_3_HexNAc_1_Sulf_1_
dHex(2)Hex(3)HexNAc(1)Sulf(1): DHex(2) Hex(3) HexNAc Sulf.
MS_taxonomy_nomenclature_OBSOLETE
taxonomy nomenclature: OBSOLETE: The system used to indicate taxonomy. There should be an enumerated ...
UNIMOD_His__Ala
His->Ala: His->Ala substitution.
MS_API_3000
API 3000: Applied Biosystems/MDS SCIEX API 3000 MS.
UNIMOD_IMID
IMID: IMID d0.
MS_SEQUEST_Uniq
SEQUEST:Uniq:
MS_thermal_ionization
thermal ionization: The ionization of a neutral species through contact with a high temperature surfa...
MS_laser_type
laser type: Type of laser used for desorption purpose.
UNIMOD_Arg__Pro
Arg->Pro: Arg->Pro substitution.
MS_ProteinExtractor_Methodname
ProteinExtractor:Methodname: Name of the used method in the ProteinExtractor algorithm.
MS_ProteomeDiscoverer_Mascot_Significance_High
ProteomeDiscoverer:Mascot:Significance High: Calculated relaxed significance when performing a decoy ...
MS_modification_specificity_protein_C_term
modification specificity protein C-term: As parameter for search engine: apply the modification only ...
UO_becquerel
becquerel: An activity (of a radionuclide) unit which is equal to the activity of a quantity of radio...
UNIMOD_FMNC
FMNC: S-(4a-FMN).
MS_ProteomeDiscoverer_Fragment_Mass_Tolerance_OBSOLETE
ProteomeDiscoverer:Fragment Mass Tolerance: Mass tolerance used for matching fragment peaks in Da or ...
UNIMOD_Lys__Glu
Lys->Glu: Lys->Glu substitution.
MS_search_engine_specific_input_metadata
search engine specific input metadata: Search engine specific metadata that are not user-controlled s...
MS_ProteomeDiscoverer_Mascot_Weight_of_Z_Ions
ProteomeDiscoverer:Mascot:Weight of Z Ions: Determines if to use z ions for spectrum matching.
UNIMOD_Val__Ala
Val->Ala: Val->Ala substitution.
UNIMOD_PyridoxalPhosphate
PyridoxalPhosphate: Pyridoxal phosphate.
MS_intensity_array
intensity array: A data array of intensity values.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_w_Ions
ProteomeDiscoverer:SEQUEST:Weight of w Ions: Uses c ions for spectrum matching with this relative fac...
MS_confident_peptide_sequence_number
confident peptide sequence number: This counts the number of peptide sequences without regard to whet...
UNIMOD_Carbonyl
Carbonyl: Aldehyde and ketone modifications.
MS_charge_array
charge array: A data array of charge values.
MS_ProteomeDiscoverer_Organism_OBSOLETE
ProteomeDiscoverer:Organism: Sample organism (used for annotation purposes).
MS_Pepitome
Pepitome: Tabb Lab software for spectral library searches on tandem mass spectra.
MS_protein_description
protein description: The protein description line from the sequence entry in the source database FAST...
MS_product_ion_spectrum_OBSOLETE
product ion spectrum: A mass spectrum recorded from any spectrometer in which the appropriate m/z sep...
MS_ProteinExtractor_MascotUniqueScore
ProteinExtractor:MascotUniqueScore: In the final result each protein must have at least one peptide a...
UNIMOD_dHex_1_Hex_4_HexA_1_
dHex(1)Hex(4)HexA(1): DHex Hex(4) HexA.
MS_MSPathFinder_SpecEValue
MSPathFinder:SpecEValue: MSPathFinder spectral E-value.
MS_EVOQ_Elite
EVOQ Elite: Bruker Daltonics' EVOQ Elite: LC-triple quadrupole.
MS_Pegasus_III
Pegasus III: LECO nominal mass resolution time-of-flight GC mass spectrometer.
UNIMOD_dHex_1_Hex_3_HexNAc_2_Pent_1_
dHex(1)Hex(3)HexNAc(2)Pent(1): DHex Hex(3) HexNAc(2) Pent.
MS_alternating_OBSOLETE
alternating: Alternating.
MS_time_digital_converter
time-digital converter: A device for converting a signal of sporadic pluses into a digital representa...
UNIMOD_Triton
Triton: Triton synthetic polymer terminus.
UNIMOD_NA_OA_NO2
NA-OA-NO2: Nitroalkylation by Nitro Oleic Acid.
MS_TRITON
TRITON: ThermoFinnigan TRITON MS.
MS_error_on_peptide_area
error on peptide area: Error on peptide area.
UO_absorbance_unit
absorbance unit: A dimensionless logarithmic unit assigned to a measure of absorbance of light throug...
UNIMOD_Hex_1_HexNAc_2_
Hex(1)HexNAc(2): Hex1HexNAc2.
UNIMOD_DimethylArsino
DimethylArsino: Reaction with dimethylarsinous (AsIII) acid.
UNIMOD_Delta_H_6_C_3_O_1_
Delta:H(6)C(3)O(1): Reduced acrolein addition +58.
MS_PTM_localization_attribute
PTM localization attribute: Statistic derived from a post-translational modification localization ana...
UNIMOD_Arg__Gln
Arg->Gln: Arg->Gln substitution.
UNIMOD_Hex_1_HexNAc_2_Pent_1_
Hex(1)HexNAc(2)Pent(1): Hex1HexNAc2Pent1.
MS_gas_laser
gas laser: Laser which is powered by a gaseous medium.
UNIMOD_Trp__His
Trp->His: Trp->His substitution.
UNIMOD_Tyr__Asp
Tyr->Asp: Tyr->Asp substitution.
MS_micrOTOF_Q
micrOTOF-Q: Bruker Daltonics' micrOTOF-Q: ESI Q-TOF, Nanospray, APCI, APPI.
MS_isotopic_pattern_area
isotopic pattern area: Area of all peaks belonging to the isotopic pattern of light or heavy peak (e....
UNIMOD_Trioxidation
Trioxidation: Cysteine oxidation to cysteic acid.
MS_direct_insertion_probe
direct insertion probe: A device for introducing a solid or liquid sample into a mass spectrometer io...
MS_database_IPI_zebrafish
database IPI_zebrafish: International Protein Index database for Danio rerio sequences.
MS_unknown_modification
unknown modification: This term should be given if the modification was unknown.
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuAc_1_
dHex(1)Hex(5)HexNAc(3)NeuAc(1): DHex Hex(5) HexNAc(3) NeuAc.
MS_ProteomeDiscoverer_Number_of_input3_spectra
ProteomeDiscoverer:Number of input3 spectra: Number of spectra from 3+ precursor ions.
MS_decoy_DB_derived_from_OBSOLETE
decoy DB derived from: The name of the database, the search database was derived from.
MS_standard
standard: Something, such as a practice or a product, that is widely recognized or employed,...
MS_SIFT
SIFT (selected ion flow tube): A device in which m/z selected ions are entrained in an inert carrier ...
MS_protein_cluster_identification_attribute
protein cluster identification attribute: An attribute of the protein cluster concept as used in mzId...
MS_TOPP_OpenSwathDecoyGenerator
TOPP OpenSwathDecoyGenerator: Generates decoys according to different models for a specific TraML.
MS_convex_hull_baseline_reduction
convex hull baseline reduction: Constructs the baseline by fitting multiple parabolas to the spectrum...
UNIMOD_AHA_SS_CAM
AHA-SS_CAM: Carbamidomethylated form of reductively cleaved tag coupled to azidohomoalanine.
MS_TopPIC
TopPIC: TopPIC: a software tool for top-down mass spectrometry-based proteoform identification and ch...
MS_MS2_tag_based_proteingroup_level_quantitation
MS2 tag-based proteingroup level quantitation: MS2 tag-based proteingroup level quantitation.
UNIMOD_Hex_6_Phos_3_
Hex(6)Phos(3): Hex(6) Phos(3).
MS_contact_email
contact email: Email address of the contact person or organization.
UO_base_unit
base unit: A unit which is one of a particular measure to which all measures of that type can be rela...
MS_MaxQuant_Phospho__STY__Score_Diffs
MaxQuant:Phospho (STY) Score Diffs: The Phospho (STY) Score Diffs from MaxQuant software.
MS_sequence_multiply_subsumable_protein
sequence multiply subsumable protein: A protein for which the matched peptide sequences are the same,...
UNIMOD_Delta_H_2_C_3_O_1_
Delta:H(2)C(3)O(1): MDA adduct +54.
UO_kilogram
kilogram: A mass unit which is equal to the mass of the International Prototype Kilogram kept by the ...
UNIMOD_Asp__Asn
Asp->Asn: Asp->Asn substitution.
MS_LIQUID
LIQUID: An-open source software for identifying lipids in LC-MS/MS-based lipidomics data.
UO_count_per_molar_second
count per molar second: A rate unit which is equal to one over one molar second.
UNIMOD_Hex_2_HexNAc_3_NeuGc_3_
Hex(2)HexNAc(3)NeuGc(3): Hex(2) HexNAc(3) NeuGc(3).
MS_mzidLib_Csv2Mzid
mzidLib:Csv2Mzid: A converter for CSV files (following OMSSA CSV style) to mzIdentML.
UNIMOD_Hex_5_HexNAc_4_NeuAc_2_
Hex(5)HexNAc(4)NeuAc(2): Hex(5) HexNAc(4) NeuAc(2).
MS_MSnbase
MSnbase: Bioconductor package MSnbase provides infrastructure for manipulation, processing and visual...
MS_UIMF_nativeID_format
UIMF nativeID format: Native format defined by frame=xsd:nonNegativeInteger scan=xsd:nonNegativeInteg...
MS_unlabeled_peptide
unlabeled peptide: A peptide that has not been labelled with heavier-than-usual isotopes....
PEFF_DbName
DbName: Sequence Database Name.
MS_Bruker_Daltonics_HCT_Series
Bruker Daltonics HCT Series: Bruker Daltonics' HCT Series.
UNIMOD_Gln__Ser
Gln->Ser: Gln->Ser substitution.
UNIMOD_PS_Hapten
PS_Hapten: Reaction with phenyl salicylate (PS).
UNIMOD_His__Gly
His->Gly: His->Gly substitution.
MS_SCiLS_software
SCiLS software: SCiLS software for data acquisition and analysis.
MS_Auto_Spec_Ultima_NT
Auto Spec Ultima NT: Waters magnetic sector based AutoSpec Ultima NT MS.
MS_ProteomeDiscoverer_Mascot_Mascot_Server_URL
ProteomeDiscoverer:Mascot:Mascot Server URL: URL (Uniform resource Locator) of the Mascot server.
MS_DB_filter_taxonomy
DB filter taxonomy: A taxonomy filter was to the database search.
UNIMOD_phosphoRibosyl
phosphoRibosyl: Phosphate-ribosylation.
MS_peak_intensity_OBSOLETE
peak intensity: The height or area of a peak in a mass spectrum.
UNIMOD_Phosphoadenosine
Phosphoadenosine: AMP.
UNIMOD_Hex_2_HexNAc_5_
Hex(2)HexNAc(5): Hex(2) HexNAc(5).
MS_neptune
neptune: ThermoFinnigan NEPTUNE MS.
MS_first_author
first author: The first of a set of authors associated with a publication or release....
UNIMOD_Methyl_2H_3_13C_1_
Methyl:2H(3)13C(1): Monomethylation.
MS_delta_M
delta M: The difference between a theoretically calculated molecular mass M and the corresponding exp...
MS_Accepted_manuscript
Accepted manuscript: A dataset has one associated manuscript, which has been accepted but no PubMedID...
UNIMOD_Dansyl
Dansyl: 5-dimethylaminonaphthalene-1-sulfonyl.
MS_TopMG_proteoform_level_FDR
TopMG:proteoform-level FDR: TopMG proteoform-level FDR.
MS_septum
septum: A disc composed of a flexible material that seals the entrance to the reservoir....
UO_mass_percentage
mass percentage: A dimensionless concentration unit which denotes the mass of a substance in a mixtur...
MS_Paragon_special_factor
Paragon:special factor: The Paragon method setting indicating a list of one or more 'special factors'...
UNIMOD_HMVK
HMVK: Michael addition of hydroxymethylvinyl ketone to cysteine.
MS_OMSSA_e_value_threshold
OMSSA e-value threshold: Threshold for OMSSA e-value for quality estimation.
UNIMOD_Hex_4_HexNAc_4_NeuAc_1_Sulf_3_
Hex(4)HexNAc(4)NeuAc(1)Sulf(3): Hex(4) HexNAc(4) NeuAc Sulf(3).
UNIMOD_Tyr__His
Tyr->His: Tyr->His substitution.
MS_electron_volt_OBSOLETE
electron volt: A non-SI unit of energy (eV) defined as the energy acquired by a particle containing o...
MS_normalized_peptide_value
normalized peptide value: Normalized peptide value.
MS_channeltron
channeltron: A horn-shaped (or cone-shaped) continuous dynode particle multiplier....
UNIMOD_Xlink_DTBP_172_
Xlink:DTBP[172]: Intact DTBP crosslinker.
MS_time_of_flight
time-of-flight: Instrument that separates ions by m/z in a field-free region after acceleration to a ...
MS_frag__precursor_ion___NH3
frag: precursor ion - NH3: Fragmentation information, type of product: precursor ion without ammonia.
MS_Calculate_Probability_Scores
Calculate Probability Scores: Flag indicating that a probability score for the assessment that a repo...
UNIMOD_CarboxymethylDTT
CarboxymethylDTT: Carboxymethylated DTT modification of cysteine.
UNIMOD_Label_13C_6_
Label:13C(6): 13C(6) Silac label.
MS_isotopic_fit_score
isotopic fit score: The isotopic fit confidence score.
MS_cyclotron_motion_OBSOLETE
cyclotron motion: The circular motion of a charged particle moving at velocity v in a magnetic field ...
MS_unmodified_peptide_sequence
unmodified peptide sequence: A sequence of letter symbols denoting the order of amino acids that comp...
UNIMOD_HexNAc_4_
HexNAc(4): HexNAc(4).
MS_Scan_Function_OBSOLETE
Scan Function: Describes the type of mass analysis being performed. Two primary modes are: typical ac...
MS_ProteomeDiscoverer_max_differential_modifications
ProteomeDiscoverer:max differential modifications: Maximum dynamic modifications per PSM.
UNIMOD_UgiJoullie
UgiJoullie: Side reaction of HisTag.
UNIMOD_Thr__Asn
Thr->Asn: Thr->Asn substitution.
UO_foot
foot: A length unit which is equal to 0.3048 metres, or 12 inches.
MS_result_list_attribute
result list attribute: General property of an entire result list.
MS_Phenyx_Score
Phenyx:Score: The protein score of a protein match in Phenyx.
UNIMOD_Thr__Gly
Thr->Gly: Thr->Gly substitution.
MS_software_specific_input_parameter
software specific input parameter: Software specific input parameter.
MS_autoflex_II_TOF_TOF
autoflex II TOF/TOF: Bruker Daltonics' autoflex II TOF/TOF: MALDI TOF.
UNIMOD_azole
azole: Formation of five membered aromatic heterocycle.
UNIMOD_Glu__Tyr
Glu->Tyr: Glu->Tyr substitution.
UNIMOD_HNE_BAHAH
HNE-BAHAH: 4-hydroxy-2-nonenal and biotinamidohexanoic acid hydrazide, reduced.
UO_dose_equivalent_unit
dose equivalent unit: A unit which is a standard measure of the expression of dose in terms of its bi...
UNIMOD_dHex_2_HexNAc_7_
dHex(2)HexNAc(7): DHex(2) HexNAc(7).
MS_TMT_reagent_128N
TMT reagent 128N: The name of the sample labelled with the TMT reagent 128N.
UO_millisiemens
millisiemens: An electrical conduction unit which is equal to one thousandth of a siemen or 10^[-3] s...
MS_selected_ion_m_z
selected ion m/z: Mass-to-charge ratio of an selected ion.
std::vector< std::string > exactSynonyms
MS_DataAnalysis
DataAnalysis: Bruker software for data analysis.
MS_Phenyx_NumberOfMC
Phenyx:NumberOfMC: The number of missed cleavages of a peptide sequence in Phenyx.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuAc_2_
dHex(1)Hex(2)HexNAc(2)NeuAc(2): DHex Hex(2) HexNAc(2) NeuAc(2).
UNIMOD_Gln__Cys
Gln->Cys: Gln->Cys substitution.
UNIMOD_Hex_4_HexA_1_HexNAc_1_
Hex(4)HexA(1)HexNAc(1): Hex(4) HexA HexNAc.
MS_Percolator_Validation_based_on
Percolator:Validation based on: Algorithm (e.g. q-value or PEP) used for calculation of the validatio...
MS_TopPIC_spectral_cutoff_type
TopPIC:spectral cutoff type: Spectrum-level cutoff type for filtering identified proteoform spectrum ...
UO_luminous_flux_unit
luminous flux unit: A unit which is a standard measure of the flow of radiant energy.
MS_AA_sequence
AA sequence: The sequence is a amino acid sequence.
UNIMOD_Ethyl
Ethyl: Ethylation.
MS_secondary_electron_OBSOLETE
secondary electron: Electrons that are ejected from a sample surface as a result of bombardment by a ...
MS_Weierstrass_transform
Weierstrass transform (Gaussian smoothing): Reduces intensity spikes by convolving the data with a on...
UO_picoliter
picoliter: A volume unit which is equal to 10^[-12] L.
MS_Mascot_ShowHomologousProteinsWithSamePeptides
Mascot:ShowHomologousProteinsWithSamePeptides: If true, show (sequence or spectrum) same-set proteins...
UO_Roentgen_equivalent_man
Roentgen equivalent man: A dose equivalent unit which when multiplied by hundred is equal to one siev...
MS_Accela_PDA
Accela PDA: Accela PDA.
MS_Mascot_SigThreshold
Mascot:SigThreshold: Significance threshold below which the p-value of a peptide match must lie to be...
MS_sample_preparation
sample preparation: Properties of the preparation steps which took place before the measurement was p...
MS_associative_ionization
associative ionization: An ionization process in which two excited atoms or molecules react to form a...
MS_PeptideShaker_PSM_score
PeptideShaker PSM score: The probability based PeptideShaker PSM score.
MS_PIA_Combined_FDRScore_calculated
PIA:Combined FDRScore calculated: Indicates whether the combined FDR score was calculated for the PIA...
MS_FDRScore_OBSOLETE
FDRScore: A smoothing of the distribution of q-values calculated for PSMs from individual search engi...
UNIMOD_NeuAc
NeuAc: N-acetyl neuraminic acid.
UNIMOD_HNE
HNE: 4-hydroxynonenal (HNE).
MS_DiART_reagent_117
DiART reagent 117: The name of the sample labelled with the DiART reagent 117.
UNIMOD_Acetyl_13C_2_
Acetyl:13C(2): Heavy acetylation.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Mass_Analyzer_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Mass Analyzer Replacements: Specifies the mass spec...
MS_filter_string
filter string: A string unique to Thermo instrument describing instrument settings for the scan.
UNIMOD_Xlink_BuUrBu_196_
Xlink:BuUrBu[196]: Intact BuUrBu crosslinker.
UNIMOD_Ser__His
Ser->His: Ser->His substitution.
MS_PeptideShaker_PTM_confidence_type
PeptideShaker PTM confidence type: PeptideShaker quality criteria for the confidence of PTM localizat...
MS_SpectraST_delta
SpectraST:delta: SpectraST normalised difference between dot product of top hit and runner-up.
MS_BioTOF_II
BioTOF II: Bruker Daltonics' BioTOF II: ESI TOF.
UNIMOD_Met__Cys
Met->Cys: Met->Cys substitution.
MS_featureXML
featureXML: OpenMS feature file format.
UNIMOD_Hex_2_HexNAc_2_
Hex(2)HexNAc(2): Hex2HexNAc2.
UNIMOD_Xle__Phe
Xle->Phe: Leu/Ile->Phe substitution.
UNIMOD_Gly__Lys
Gly->Lys: Gly->Lys substitution.
UNIMOD_Xlink_SMCC_237_
Xlink:SMCC[237]: Water quenched monolink of SMCC.
UNIMOD_dHex_1_Hex_2_HexNAc_4_NeuAc_2_
dHex(1)Hex(2)HexNAc(4)NeuAc(2): DHex Hex(2) HexNAc(4) NeuAc(2).
UNIMOD_dHex_3_Hex_2_HexNAc_2_
dHex(3)Hex(2)HexNAc(2): DHex(3) Hex(2) HexNAc(2).
UNIMOD_Hex_2_HexNAc_1_Sulf_1_
Hex(2)HexNAc(1)Sulf(1): Hex(2) HexNAc Sulf.
MS_PAnalyzer_non_conclusive_protein
PAnalyzer:non-conclusive protein: A protein sharing all its matched peptides with either conclusive o...
MS_ISB_mzXML_format
ISB mzXML format: Institute of Systems Biology mzXML file format.
UNIMOD_TAMRA_FP
TAMRA-FP: TAMRA fluorophosphonate modification of serine.
MS_ProteoAnnotator_non_canonical_gene_model_score
ProteoAnnotator:non-canonical gene model score: The sum of peptide-level scores for peptides mapped o...
MS_local_FLR_at_threshold
local FLR at threshold: Local false localization rate for the bottom item in list of localizations so...
MS_total_ion_current_chromatogram
total ion current chromatogram: Chromatogram obtained by plotting the total ion current detected in e...
UNIMOD_Hex_7_HexNAc_4_
Hex(7)HexNAc(4): Hex(7) HexNAc(4).
UNIMOD_PhosphoHexNAc
PhosphoHexNAc: N-acetylglucosamine-1-phosphoryl.
MS_mass_selective_axial_ejection_OBSOLETE
mass selective axial ejection: The use of mass selective instability to eject ions of selected m/z va...
UNIMOD_Palmitoleyl
Palmitoleyl: Palmitoleyl.
UNIMOD_Hex_2_HexNAc_2_Sulf_1_
Hex(2)HexNAc(2)Sulf(1): Hex(2) HexNAc(2) Sulf.
MS_16_bit_float_OBSOLETE
16-bit float: Signed 16-bit float.
UNIMOD_Hex_1_HexNAc_3_Sulf_1_
Hex(1)HexNAc(3)Sulf(1): Hex HexNAc(3) Sulf.
MS_wavelength_OBSOLETE
wavelength: The distance between two peaks of the emitted laser beam.
UNIMOD_Hex_5_HexNAc_3_Pent_1_
Hex(5)HexNAc(3)Pent(1): Hex(5) HexNAc(3) Pent.
UNIMOD_Iodoacetanilide_13C_6_
Iodoacetanilide:13C(6): 13C labelled iodoacetanilide derivative.
MS_OpenXQuest_xcorr_common
OpenXQuest:xcorr common: OpenXQuest's cross-correlation of unlinked ions subscore.
MS_frag__TMT_reporter_ion
frag: TMT reporter ion: Standard reporter ion for TMT. The value slot holds the integer mass of the T...
UNIMOD_dHex_1_Hex_3_HexA_2_HexNAc_2_
dHex(1)Hex(3)HexA(2)HexNAc(2): DHex Hex(3) HexA(2) HexNAc(2).
UO_bit
bit: An information unit which refers to a digit in the binary numeral system, which consists of base...
MS_journal_article_keyword
journal article keyword: Keyword present in a scientific publication.
UO_nautical_mile
nautical mile: A maritime length unit which is equal to 6,080 feet, 10 cables, or 1,...
MS_search_engine_specific_input_parameter
search engine specific input parameter: Search engine specific input parameters.
UNIMOD_Thr__Gln
Thr->Gln: Thr->Gln substitution.
MS_search_time_taken
search time taken: The time taken to complete the search in seconds.
MS_TOPP_ConsensusMapNormalizer
TOPP ConsensusMapNormalizer: Normalizes maps of one consensus XML file (after linking).
MS_glyco_TMT_quantitation_analysis
glyco-TMT quantitation analysis: Quantitation analysis using the Thermo Fisher carbonyl-reactive glyc...
MS_API_100LC
API 100LC: Applied Biosystems/MDS SCIEX API 100LC MS.
MS_autoionization
autoionization: The formation of an ion when an atom or molecule in a discrete state with an energy g...
MS_Isotopologue_ion_OBSOLETE
Isotopologue ion: An ion that differs only in the isotopic composition of one or more of its constitu...
UNIMOD_HexA_2_HexNAc_3_
HexA(2)HexNAc(3): HexA(2) HexNAc(3).
MS_reporter_ion_intensity
reporter ion intensity: Intensity of MS2 reporter ion (e.g. iTraq).
UO_nanomolar
nanomolar: A unit of molarity which is equal to one thousandth of one millionth of a molar or 10^[-9]...
MS_radical_ion_OBSOLETE
radical ion: An ion, either a cation or anion, containing unpaired electrons in its ground state....
MS_spectrum_type
spectrum type: Spectrum type.
MS_SEQUEST_PeptideIdnumber
SEQUEST:PeptideIdnumber: The SEQUEST result 'Id#' in out file (peptide).
MS_submitter_keyword
submitter keyword: Keyword assigned by the data submitter.
PEFF_Length
Length: Sequence length.
UO_enzyme_unit
enzyme unit: A catalytic unit activity which is equal to the amount of the enzyme that catalyzes the ...
MS_electrostatic_energy_analyzer
electrostatic energy analyzer: A device consisting of conducting parallel plates, concentric cylinder...
UO_hectare
hectare: An area unit which is equal to an area of 10,000 square meters. Equivalent to 2....
UO_dimensionless_unit
dimensionless unit: A unit which is a standard measure of physical quantity consisting of only a nume...
UNIMOD_Met__Lys
Met->Lys: Met->Lys substitution.
UNIMOD_ICPL
ICPL: Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, light form.
MS_Negative_Ion_chemical_ionization
Negative Ion chemical ionization: Chemical ionization that results in the formation of negative ions.
MS_preprocessing_software
preprocessing software: Preprocessing software.
MS_Comet_sprank
Comet:sprank: The Comet result 'SpRank'.
MS_ProteomeDiscoverer_Xtract_Highest_MZ_OBSOLETE
ProteomeDiscoverer:Xtract:Highest MZ: Highest mass-to-charge (mz) value for spectral peaks in the mea...
UNIMOD_NHS_fluorescein
NHS-fluorescein: Fluorescein-hexanoate-NHS hydrolysis.
UO_cubic_meter_per_mole
cubic meter per mole: A molar volume unit which is equal to 1 cubic meter occupied by one mole of a s...
UO_pint
pint: An imperial volume unit which is equivalent to 568.261,25 millilitres.
MS_DB_source_NCBI
DB source NCBI: Database source NCBI.
MS_internal_reference_abundance
internal reference abundance: The absolute abundance of the spiked in reference peptide or protein us...
MS_Waters_instrument_model
Waters instrument model: Waters Corporation instrument model.
UO_unit_per_liter
unit per liter: A unit per milliliter unit which is equal to one unit of an agreed arbitrary amount p...
MS_ion_mobility_attribute
ion mobility attribute: An attribute describing ion mobility searches.
MS_ICPL_reagent_10
ICPL reagent 10: The name of the sample labelled with the ICPL reagent 10.
MS_protein_group_level_confidence
protein group-level confidence: Estimation of the global confidence of protein groups.
UNIMOD_Phe__His
Phe->His: Phe->His substitution.
UNIMOD_dHex_1_HexNAc_3_
dHex(1)HexNAc(3): DHex HexNAc(3).
MS_command_line_parameters
command-line parameters: Parameters string passed to a command-line interface software application,...
UNIMOD_dHex_2_Hex_2_
dHex(2)Hex(2): Hex2 dHex2.
UO_gill
gill: An imperial volume unit which is equivalent to 142.065,3125 millilitres.
UNIMOD_Propiophenone
Propiophenone: Propiophenone.
UNIMOD_Deamidated
Deamidated: Deamidation.
MS_low_intensity_threshold
low intensity threshold: Threshold below which some action is taken.
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_2_Sulf_1_
dHex(1)Hex(3)HexA(1)HexNAc(2)Sulf(1): DHex Hex(3) HexA HexNAc(2) Sulf.
MS_ProteomeDiscoverer_Xtract_Lowest_Charge
ProteomeDiscoverer:Xtract:Lowest Charge: Lowest charge state that is allowed for the deconvolution of...
MS_frag__x_ion___NH3
frag: x ion - NH3: Fragmentation information, type of product: x ion without ammonia.
MS_MetaMorpheus_score
MetaMorpheus:score: MetaMorpheus score for PSMs.
UO_maritime_length_unit
maritime length unit: A maritime length unit is one used primarily at sea.
UNIMOD_Hydroxyfarnesyl
Hydroxyfarnesyl: Hydroxyfarnesyl.
MS_FileMerger
FileMerger: Merges several MS files into one file.
UNIMOD_dHex_1_Hex_5_HexNAc_4_
dHex(1)Hex(5)HexNAc(4): Fucosylated biantennary.
MS_DB_PI_filter
DB PI filter: Filtering applied specifically by predicted protein isoelectric focussing point (pI),...
MS_Phenyx_ID
Phenyx:ID: A secondary sequence database identifier of a protein in Phenyx.
MS_Phenyx_Turbo_Series
Phenyx:Turbo:Series: The list of ion series considered in the turbo mode of Phenyx.
UNIMOD_Hex_2_HexNAc_3_NeuAc_3_
Hex(2)HexNAc(3)NeuAc(3): Hex(2) HexNAc(3) NeuAc(3).
UNIMOD_Hex_4_HexNAc_4_Pent_1_
Hex(4)HexNAc(4)Pent(1): Hex(4) HexNAc(4) Pent.
MS_SEQUEST_sp
SEQUEST:sp: The SEQUEST result 'Sp' (protein).
UNIMOD_Phospho
Phospho: Phosphorylation.
MS_appearance_energy_OBSOLETE
appearance energy: The minimum energy that must be imparted to an atom or molecule to produce a speci...
MS_TOPP_IDRTCalibration
TOPP IDRTCalibration: Calibrate Retention times of peptide hits to standards.
MS_protein_level_p_value
protein-level p-value: Estimation of the p-value for proteins.
MS_paul_ion_trap_OBSOLETE
paul ion trap: A device that permits the trapping of ions by means of an alternating current voltage....
MS_4700_Proteomics_Analyzer
4700 Proteomics Analyzer: Applied Biosystems/MDS SCIEX 4700 Proteomics Analyzer MS.
UNIMOD_Hex_8_HexNAc_1_
Hex(8)HexNAc(1): Hex(8) HexNAc.
UNIMOD_Trp__Cys
Trp->Cys: Trp->Cys substitution.
MS_mass_spectrometry_mass_spectrometry_OBSOLETE
mass spectrometry/mass spectrometry: The acquisition, study and spectra of the electrically charged p...
MS_PASSEL_experiment_URI
PASSEL experiment URI: URI that allows access to a PASSEL experiment.
MS_MSPathFinder_RawScore
MSPathFinder:RawScore: MSPathFinder raw score.
UNIMOD_methylol
methylol: Formaldehyde induced modifications.
MS_TopPIC_fixed_modification
TopPIC:fixed modification: Fixed modifications for TopPIC searching.
UNIMOD_Delta_H_2_C_5_
Delta:H(2)C(5): MDA adduct +62.
MS______FYWLKR_____P_
(?<=[FYWLKR])(?!P): Regular expression for TrypChymo.
MS_hydrogen_deuterium_exchange_OBSOLETE
hydrogen/deuterium exchange: Exchange of hydrogen atoms with deuterium atoms in a molecule or pre-for...
MS_ProteomeDiscoverer_Activation_Type_OBSOLETE
ProteomeDiscoverer:Activation Type: Fragmentation method used (CID, MPD, ECD, PQD,...
MS_atmospheric_pressure_chemical_ionization
atmospheric pressure chemical ionization: Chemical ionization that takes place at atmospheric pressur...
UNIMOD_Trp__Met
Trp->Met: Trp->Met substitution.
UNIMOD_dHex_2_Hex_3_HexNAc_2_NeuGc_1_
dHex(2)Hex(3)HexNAc(2)NeuGc(1): DHex(2) Hex(3) HexNAc(2) NeuGc —OR— Hex(4) HexNAc(2) dHex NeuAc.
MS_multiple_peak_list_nativeID_format__combined_spectra
multiple peak list nativeID format, combined spectra: Comma separated list of spectra that have been ...
MS_modified_nucleic_acid_sequence
modified nucleic acid sequence: Specification of the modified nucleic acid sequence....
MS_mass_unit_OBSOLETE
mass unit: A unit of measurement for mass.
MS_file_format
file format: Format of data files.
MS_OpenXQuest_wTIC
OpenXQuest:wTIC: OpenXQuest's weighted percent of total ion current subscore.
UNIMOD_Hex_5_HexNAc_4_NeuGc_1_
Hex(5)HexNAc(4)NeuGc(1): Hex(5) HexNAc(4) NeuGc.
UNIMOD_Propionamide
Propionamide: Acrylamide adduct.
MS_distinct_peptide_sequences
distinct peptide sequences: This counts distinct sequences hitting the protein without regard to a mi...
MS_regular_expression_for_interaction_scores_derived_from_cross_linking
)).
MS_modification_specificity_protein_N_term
modification specificity protein N-term: As parameter for search engine: apply the modification only ...
UNIMOD_Delta_H_3_C_3_O_2_
Delta:H(3)C(3)O(2): Methylglyoxal-derived carboxyethyllysine.
MS_TopMG_spectral_p_value
TopMG:spectral p-value: TopMG spectrum-level p-value.
MS_Linked_Scan_at_Constant_E2_V_OBSOLETE
Linked Scan at Constant E2/V: A linked scan performed on a sector instrument that incorporates at lea...
MS_MaxQuant_Phospho__STY__Probabilities
MaxQuant:Phospho (STY) Probabilities: The Phospho (STY) Probabilities from MaxQuant software.
UNIMOD_Phosphoguanosine
Phosphoguanosine: Phospho-guanosine.
PEFF_Prefix
Prefix: Sequence Database Prefix.
MS_PIA_protein_inference_used_PSMs
PIA:protein inference used PSMs: The method to determine the PSMs used for scoring by the protein inf...
UNIMOD_Biotin_Sigma_B1267
Biotin:Sigma-B1267: Was Biotin-maleimide.
MS_ProteomeDiscoverer_Mascot_User_Name_OBSOLETE
ProteomeDiscoverer:Mascot:User Name: Name of the user submitting the Mascot search.
UNIMOD_LG_anhyropyrrole
LG-anhyropyrrole: Levuglandinyl-lysine anhyropyrrole adduct.
MS_Data_derived_from_previous_dataset
Data derived from previous dataset: One dataset is a reanalysis of previously published data.
PWIZ_API_DECL bool cvIsA(CVID child, CVID parent)
returns true iff child IsA parent in the CV
MS_peptide_consensus_list_attribute
peptide consensus list attribute: Attribute describing a peptide consensus list.
UNIMOD_QQQTGG
QQQTGG: SUMOylation by SUMO-2/3.
MS_Progenesis_manual_alignment
Progenesis manual alignment: RT alignment of Progenesis software using automatic and manual vectors.
MS_NRMS
NRMS (neutralization reionization mass spectrometry): With this technique, m/z selected ions form neu...
UNIMOD_Label_13C_5_
Label:13C(5): 13C(5) Silac label.
MS_Bruker_Container_format
Bruker Container format: Bruker Container raw file format.
MS_ProteomeDiscoverer_Maximum_Delta_Cn
ProteomeDiscoverer:Maximum Delta Cn: Delta Cn threshold for filtering out PSM's.
MS_MRM_spectrum
MRM spectrum (SRM spectrum): Spectrum obtained when data are acquired from specific product ions corr...
MS_prolate_traochoidal_mass_spectrometer_OBSOLETE
prolate traochoidal mass spectrometer: A mass spectrometer in which the ions of different m/z are sep...
PEFF_Decoy
Decoy: Specifies whether the Sequence Database is a Decoy.
MS_TSQ
TSQ: ThermoFinnigan TSQ MS.
UNIMOD_Hex_2_Sulf_1_
Hex(2)Sulf(1): Hex(2) O(3) S.
MS_IE_OBSOLETE
IE (ionization energy): The minimum energy required to remove an electron from an atom or molecule to...
UO_volt_hour
volt-hour: A magnetic flux unit which is equal to 3600 Wb.
MS_de_novo_search
de novo search: A de novo sequencing search (without database).
MS_space_charge_effect
space charge effect: The mutual repulsion of particles of like charge that limits the current in a ch...
MS_Thermo_nativeID_format
Thermo nativeID format: Native format defined by controllerType=xsd:nonNegativeInteger controllerNumb...
UO_millisievert
millisievert: A dose equivalent unit which is equal to one thousandth of a sievert or 10^[-3] Sv.
MS_volt_second_per_square_centimeter
volt-second per square centimeter: An electrical mobility unit that equals the speed [cm/s] an ion re...
MS_three_sample_run
three sample run: The raw file contains the run of three samples (e.g. 3-plex SILAC).
MS_mzML_format
mzML format: Proteomics Standards Inititative mzML file format.
UNIMOD_Met__Val
Met->Val: Met->Val substitution.
MS_FASTA_format
FASTA format: The sequence database was stored in the FASTA format.
UO_league
league: A length unit which is equal to 3 miles, or 4,828.032 metres
MS_LCQ_Advantage
LCQ Advantage: ThermoFinnigan LCQ Advantage MS.
MS_protein_list_attribute
protein list attribute: Attribute describing a protein list.
MS_flexImaging
flexImaging: Bruker software for data analysis.
MS_spectrum_generation_information
spectrum generation information: Vocabularies describing the spectrum generation information.
MS_ProteomeDiscoverer_Search_Against_Decoy_Database_OBSOLETE
ProteomeDiscoverer:Search Against Decoy Database: Determines whether the Proteome Discoverer applicat...
MS_ProteomeDiscoverer_Strict_Score_Threshold
ProteomeDiscoverer:Strict Score Threshold: Specifies the threshold value for strict scoring.
MS_TOPP_EICExtractor
TOPP EICExtractor: Quantifies signals at given positions in (raw or picked) LC/MS maps.
MS_PSM_level_quantification_datatype
PSM-level quantification datatype: The data type of the value reported in a QuantLayer for a PSM.
MS_PolyTools
PolyTools: Bruker PolyTools software.
UNIMOD_Hex_1_HexNAc_1_
Hex(1)HexNAc(1): Hex1HexNAc1.
MS_constant_neutral_loss_scan_OBSOLETE
constant neutral loss scan: Spectrum of all precursor ions that undergo a selected m/z decrement.
MS_8800_Triple_Quadrupole_ICP_MS
8800 Triple Quadrupole ICP-MS: The 8800 Quadrupole ICP-MS system is a Agilent inductively couple plas...
MS_UNIFY
UNIFY: Waters UNIFY software for liquid chromatography and mass spectrometry acquisition.
UNIMOD_Gly__Glu
Gly->Glu: Gly->Glu substitution.
MS_SEQUEST_SQT_format
SEQUEST SQT format: Source file for this mzIdentML was in SEQUEST SQT format.
MS_technical_replicate
technical replicate: The study variable is 'technical replicate'. The string value denotes the catego...
MS_decoy_DB_from_UniProtKB_TrEMBL_OBSOLETE
decoy DB from UniProtKB/TrEMBL: Decoy database from a TrEMBL protein sequence database.
MS_ProteomeDiscoverer_Precursor_Mass_Tolerance_OBSOLETE
ProteomeDiscoverer:Precursor Mass Tolerance: Mass window for which precursor ions are considered to b...
MS_spectrum_instrument_description_OBSOLETE
spectrum instrument description: Terms used to describe the spectrum.
UNIMOD_DAET
DAET: Phosphorylation to amine thiol.
MS_TOFCalibration
TOFCalibration: Applies time of flight calibration.
MS_gaseous_sample_state
gaseous sample state: State if the sample is in gaseous form.
UNIMOD_Gly__Pro
Gly->Pro: Gly->Pro substitution.
MS_Phenyx_User
Phenyx:User: The value of the user-defined peptide acceptance filter in Phenyx.
MS_frag__y_ion___NH3
frag: y ion - NH3: Ion y-NH3 fragmentation information, type of product: y ion without ammonia.
UNIMOD_Hex_4_HexNAc_4_
Hex(4)HexNAc(4): Biantennary (-1 galactose).
MS_protein_group_level_global_FNR
protein group-level global FNR: Estimation of the global false negative rate of protein groups.
UO_watt_per_square_meter
watt per square meter: An irradiance unit which is equal to 1 watt of radiant power incident per one ...
UNIMOD_dHex_1_Hex_2_
dHex(1)Hex(2): Hex2dHex1.
MS_MGF_scans_OBSOLETE
MGF scans: OBSOLETE: replaced by MS:1000797 (peak list scans): This term can hold the scans attribute...
UNIMOD_Xlink_EGS_115_
Xlink:EGS[115]: Cleavage product of EGS protein crosslinks by hydroylamine treatment.
MS_ProteomeDiscoverer_Search_Modifications_Only_For_Identified_Proteins
ProteomeDiscoverer:Search Modifications Only For Identified Proteins: Influences the modifications se...
UNIMOD_His__Tyr
His->Tyr: His->Tyr substitution.
MS_exponential
exponential: The mass scan is done in exponential mode.
UNIMOD_Trp__Tyr
Trp->Tyr: Trp->Tyr substitution.
MS_phosphoRS_site_probability_threshold
phosphoRS site probability threshold: Threshold for phosphoRS site probability.
MS_atmospheric_pressure_ionization
atmospheric pressure ionization: Any ionization process in which ions are formed in the gas phase at ...
MS_electromagnetic_radiation_chromatogram
electromagnetic radiation chromatogram: The measurement of electromagnetic properties as a function o...
MS_ProteomeDiscoverer_Use_Neutral_Loss_z_Ions
ProteomeDiscoverer:Use Neutral Loss z Ions: Determines whether z ions with neutral loss are used for ...
MS_ProteomeDiscoverer_Use_Neutral_Loss_y_Ions
ProteomeDiscoverer:Use Neutral Loss y Ions: Determines whether y ions with neutral loss are used for ...
UNIMOD_Phe__Ser
Phe->Ser: Phe->Ser substitution.
MS_value_between_0_and_1_inclusive
value between 0 and 1 inclusive: Value range for probabilities.
MS_frag__x_ion___H2O
frag: x ion - H2O: Fragmentation information, type of product: x ion without water.
UNIMOD_Can_FP_biotin
Can-FP-biotin: 6-N-biotinylaminohexyl isopropyl phosphate.
UNIMOD_dHex_1_Hex_5_
dHex(1)Hex(5): Hex5dHex1.
MS_SEQUEST_deltacn
SEQUEST:deltacn: The SEQUEST result 'DeltaCn'.
MS_iTRAQ_reagent_117
iTRAQ reagent 117: The name of the sample labelled with the iTRAQ reagent 117.
MS_IdentityE_XML_format
IdentityE XML format: Source file for this mzIdentML was in Waters IdentityE XML format.
MS_m_z_difference
m/z difference (delta m/z): The difference between a theoretically calculated m/z and the correspondi...
MS_external_reference_data
external reference data: Data belonging to an external reference.
UO_parts_per_notation_unit
parts per notation unit: A dimensionless concentration notation which describes the amount of one sub...
UNIMOD_PyMIC
PyMIC: 3-methyl-2-pyridyl isocyanate.
UNIMOD_O_Isopropylmethylphosphonate
O-Isopropylmethylphosphonate: O-Isopropylmethylphosphonylation.
UNIMOD_Label_2H_4_
Label:2H(4): 4,4,5,5-D4 Lysine.
MS_Xevo_TQ_MS
Xevo TQ MS: Waters quadrupole based Xevo TQ MS.
MS_LD_OBSOLETE
LD (Laser Desorption): The formation of ions through the interaction of a laser with a material or wi...
UO_molar_volume_unit
molar volume unit: A unit which is a standard measure of the volume of a homogeneous substance contai...
MS_PeptideShaker_PSM_confidence_type
PeptideShaker PSM confidence type: PeptideShaker quality criteria for the confidence of PSM's.
MS_isomer
isomer: One of several species (or molecular entities) that have the same atomic composition (molecul...
MS_resonance_ion_ejection_OBSOLETE
resonance ion ejection: A mode of ion ejection in a quadrupole ion trap that relies on a auxiliary ra...
UNIMOD_Hex_4_HexNAc_6_
Hex(4)HexNAc(6): Hex(4) HexNAc(6).
MS_frag__iTRAQ_8plex_reporter_ion
frag: iTRAQ 8plex reporter ion: Standard reporter ion for iTRAQ 8Plex. The value slot holds the integ...
MS_Trypsin_P
Trypsin/P: Cleavage agent Trypsin/P.
MS_mzML_unique_identifier__combined_spectra
mzML unique identifier, combined spectra: Comma separated list of spectra that have been combined pri...
UNIMOD_Hex_4_HexNAc_5_
Hex(4)HexNAc(5): Hex(4) HexNAc(5).
MS_Progenesis_protein_group_raw_abundance
Progenesis:protein group raw abundance: The data type raw abundance for protein groups produced by Pr...
MS_frag__b_ion___H2O
frag: b ion - H2O: Fragmentation information, type of product: b ion without water.
MS_SCIEX_instrument_model
SCIEX instrument model: The brand of instruments from the joint venture between Applied Biosystems an...
UNIMOD_Dimethyl_2H_6_
Dimethyl:2H(6): Dimethyl-Medium.
MS_NIST_MSP_format
NIST MSP format: MSP text format defined by the NIST.
MS_positive_mode_adduct_ion
positive mode adduct ion: Adduct ion with positive ionization.
UO_luminous_intensity_unit
luminous intensity unit: A unit which is a standard measure of the wavelength-weighted power emitted ...
MS_Collision_cell_exit_potential
Collision cell exit potential: Potential difference between Q2 and Q3 in a triple quadrupole instrume...
MS_spectral_library_search
spectral library search: A search using a library of spectra.
UNIMOD_Tween20
Tween20: Tween 20 synthetic polymer terminus.
UNIMOD_Lipoyl
Lipoyl: Lipoyl.
MS_mzML_unique_identifier
mzML unique identifier: Native format defined by mzMLid=xsd:IDREF.
MS_4700_Explorer
4700 Explorer: Applied Biosystems software for data acquisition and analysis.
MS_detector_acquisition_mode
detector acquisition mode: Method by which detector signal is acquired by the data system.
UO_dalton
dalton: An independently to the base SI units defined mass unit which is equal to one twelfth of the ...
MS_isotopomer_peak_OBSOLETE
isotopomer peak: Identifies a peak when no de-isotoping has been performed. The value slot reports th...
MS_Unsupported_dataset_by_repository
Unsupported dataset by repository: The PX dataset is not fully supported by the submission repository...
UNIMOD_AMTzHexNAc2
AMTzHexNAc2: Photocleavable Biotin + GalNAz on O-GlcNAc.
UNIMOD_Met__Gly
Met->Gly: Met->Gly substitution.
MS_Shimadzu_MALDI_7090
Shimadzu MALDI-7090: Shimadzu MALDI-7090: MALDI-TOF-TOF.
MS_ProteomeDiscoverer_SEQUEST_Peptide_Relevance_Factor
ProteomeDiscoverer:SEQUEST:Peptide Relevance Factor: Specifies a factor to apply to the protein score...
MS_ProteinExtractor_MaxProteinMass
ProteinExtractor:MaxProteinMass: The maximum considered mass for a protein.
MS_percolator_score
percolator:score: Percolator:score.
UNIMOD_AROD
AROD: Cysteine modifier.
MS_Paragon_score
Paragon:score: The Paragon result 'Score'.
UNIMOD_dHex_2_Hex_3_HexNAc_3_NeuAc_1_
dHex(2)Hex(3)HexNAc(3)NeuAc(1): DHex(2) Hex(3) HexNAc(3) NeuAc —OR— Hex(2) HexNAc(4) dHex(2) Kdn.
UNIMOD_Hex_3_HexNAc_1_HexA_1_
Hex(3)HexNAc(1)HexA(1): Hex(3) HexNAc HexA.
MS_TopPIC_spectral_FDR
TopPIC:spectral FDR: TopPIC spectrum-level FDR.
MS_SRM_peptide_level_quantitation
SRM peptide level quantitation: Selected Reaction Monitoring peptide level quantitation.
MS_fragment_mass_type_mono
fragment mass type mono: Mass type setting for fragment mass was monoisotopic.
MS_protein_group_level_identification_attribute
protein group-level identification attribute: Protein group level information.
UNIMOD_dHex_3_Hex_2_HexNAc_3_Kdn_1_
dHex(3)Hex(2)HexNAc(3)Kdn(1): DHex(3) Hex(2) HexNAc(3) Kdn —OR— Hex(3) HexNAc(2) dHex(3) NeuAc.
UO_purity_percentage
purity percentage: A dimensionless percent unit which denotes the homogeneity of a biomaterial.
MS_Multiple_Ion_Monitoring
Multiple Ion Monitoring (selected ion monitoring): The operation of a mass spectrometer in which the ...
UO_ton_per_hectare
ton per hectare: An area density unit which is equal to the mass of an object in tons divided by the ...
UNIMOD_15N_oxobutanoic
15N-oxobutanoic: Loss of ammonia (15N).
MS_average_product_ion_intensity
average product ion intensity: Average value of product ion intensity in a collection of identified s...
MS_phosphoRS_sequence_probability
phosphoRS sequence probability: Probability that the respective isoform is correct.
MS_SEQUEST_Consensus
SEQUEST:Consensus: Specify depth as value of the CVParam.
UO_square_micrometer
square micrometer: An area unit which is equal to an area enclosed by a square with sides each 1 micr...
UNIMOD_Propyl_2H_6_
Propyl:2H(6): Propyl:2H(6).
MS_Bruker_Container_nativeID_format
Bruker Container nativeID format: Native identifier (UUID).
MS_protein_group_attribute
protein group attribute: Attribute describing a protein group.
UO_catalytic__activity__concentration_unit
catalytic (activity) concentration unit: A concentration unit which is a standard measure of the amou...
MS_percent_collision_energy_ramp_end
percent collision energy ramp end: Collision energy at the end of the collision energy ramp in percen...
UNIMOD_Biotin_Thermo_21911
Biotin:Thermo-21911: Biotin-PEG11-maleimide.
MS_ProteinExtractor_SequestUniqueScore
ProteinExtractor:SequestUniqueScore: In the final result each protein must have at least one peptide ...
UNIMOD_dHex_1_Hex_2_HexA_1_HexNAc_1_Sulf_1_
dHex(1)Hex(2)HexA(1)HexNAc(1)Sulf(1): DHex Hex(2) HexA HexNAc Sulf.
MS_membrane_inlet
membrane inlet: A semi-permeable membrane separator that permits the passage of gas sample directly t...
UNIMOD_Hex_2_HexNAc_2_NeuAc_1_
Hex(2)HexNAc(2)NeuAc(1): Hex(2) HexNAc(2) NeuAc —OR— dHex Hex HexNAc(2) NeuGc.
MS_t_test
t-test: Perform a t-test (two groups). Specify in string value, whether paired / unpaired,...
UO_deciliter
deciliter: A volume unit which is equal to one tenth of a liter or 10^[-1] L.
UO_cell_concentration_unit
cell concentration unit: A concentration unit which denotes the average cell number in a given volume...
MS_MSQuant
MSQuant: MSQuant software.
UNIMOD_Xle__Asn
Xle->Asn: Leu/Ile->Asn substitution.
UNIMOD_Cys__Glu
Cys->Glu: Cys->Glu substitution.
UNIMOD_Arg__Gly
Arg->Gly: Arg->Gly substitution.
MS_IPTL_quantitation_analysis
IPTL quantitation analysis: Quantification analysis using a labelling strategy where both peptide ter...
UO_cubic_centimeter_per_mole
cubic centimeter per mole: A molar volume unit which is equal to 1 cubic centimeter occupied by one m...
MS_RGA_OBSOLETE
RGA (residual gas analyzer): A mass spectrometer used to measure the composition and pressure of gass...
UNIMOD_betaFNA
betaFNA: Beta-Funaltrexamine.
UNIMOD_dHex_4_Hex_3_HexNAc_3_
dHex(4)Hex(3)HexNAc(3): DHex(4) Hex(3) HexNAc(3).
PEFF_SpecificKey
SpecificKey: Db specific information (not included in the current list of allowed keys).
UNIMOD_Thr__His
Thr->His: Thr->His substitution.
UNIMOD_Glu__pyro_Glu_Methyl
Glu->pyro-Glu+Methyl: Pyro-Glu from E + Methylation.
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_Ac_1_
Hex(1)HexNAc(1)NeuAc(2)Ac(1): Ac Hex HexNAc NeuAc(2).
UNIMOD_dHex_2_Hex_4_
dHex(2)Hex(4): DHex(2) Hex(4).
MS_SEQUEST_sort_by_TIC
SEQUEST:sort by TIC: Sort order of SEQUEST search results given by the total ion current.
UNIMOD_dHex_2_Hex_4_HexNAc_3_NeuAc_1_Sulf_1_
dHex(2)Hex(4)HexNAc(3)NeuAc(1)Sulf(1): DHex(2) Hex(4) HexNAc(3) NeuAc Sulf.
UNIMOD_Asn__Thr
Asn->Thr: Asn->Thr substitution.
MS_spectrum_representation
spectrum representation: Way in which the spectrum is represented, either with regularly spaced data ...
MS_hybrid_mass_spectrometer_OBSOLETE
hybrid mass spectrometer: A mass spectrometer that combines m/z analyzers of different types to perfo...
UNIMOD_Trp__Thr
Trp->Thr: Trp->Thr substitution.
MS_SILAC_reagent
SILAC reagent: Stable isotope labeling with amino acids in cell culture reagent.
MS_full_width_at_half_maximum
full width at half-maximum: A measure of resolution represented as width of the peak at half peak hei...
MS_Bruker_TDF_nativeID_format__combined_spectra
Bruker TDF nativeID format, combined spectra: Bruker TDF comma separated list of spectra that have be...
MS_data_file_checksum_type
data file checksum type: Checksum is a form of redundancy check, a simple way to protect the integrit...
UNIMOD_dHex_1_Hex_4_HexNAc_3_Sulf_1_
dHex(1)Hex(4)HexNAc(3)Sulf(1): DHex Hex(4) HexNAc(3) Sulf.
MS_instrument_model
instrument model: Instrument model name not including the vendor's name.
UNIMOD_dHex_2_Hex_4_HexNAc_4_Sulf_1_
dHex(2)Hex(4)HexNAc(4)Sulf(1): DHex(2) Hex(4) HexNAc(4) Sulf.
MS_DE
DE (delayed extraction): The application of the accelerating voltage pulse after a time delay in deso...
MS_SEQUEST_Sequences
SEQUEST:Sequences:
UNIMOD_Hex_7_HexNAc_3_Phos_1_
Hex(7)HexNAc(3)Phos(1): Hex(7) HexNAc(3) Phos.
MS_senior_author
senior author: The last of a set of authors associated with a publication or release....
UNIMOD_Pro__Phe
Pro->Phe: Pro->Phe substitution.
UNIMOD_Label_13C_6_15N_4__Dimethyl_2H_6_13C_2_
Label:13C(6)15N(4)+Dimethyl:2H(6)13C(2): 2H(6) 13C(2) Dimethylated Arg13C(6) 15N(4).
MS_spectrum_identifier_nativeID_format__combined_spectra
spectrum identifier nativeID format, combined spectra: Comma separated list of spectra that have been...
UNIMOD_NEMsulfurWater
NEMsulfurWater: N-ethylmaleimideSulfurWater.
MS_WIFF_nativeID_format__combined_spectra
WIFF nativeID format, combined spectra: WIFF comma separated list of spectra that have been combined ...
MS_accuracy
accuracy: Accuracy is the degree of conformity of a measured mass to its actual value.
UNIMOD_Xle__Arg
Xle->Arg: Leu/Ile->Arg substitution.
UNIMOD_AEC_MAEC_2H_4_
AEC-MAEC:2H(4): Deuterium cysteamine modification to S or T.
MS_SID
SID (surface-induced dissociation): Fragmentation that results from the collision of an ion with a su...
MS_SEQUEST_sort_by_PreviousAminoAcid
SEQUEST:sort by PreviousAminoAcid: Sort order of SEQUEST search results given by the previous amino a...
MS_multiple_stage_mass_spectrometry_OBSOLETE
multiple stage mass spectrometry: Multiple stages of precursor ion m/z selection followed by product ...
UNIMOD_GIST_Quat_2H_9_
GIST-Quat:2H(9): Quaternary amine labeling reagent heavy form (+9amu), N-term & K.
MS_instrument_configuration
instrument configuration (instrument): Description of the instrument or the mass spectrometer.
MS_Mascot_homology_threshold
Mascot:homology threshold: The Mascot result 'homology threshold'.
UNIMOD_dHex_1_Hex_3_HexNAc_3_Pent_1_
dHex(1)Hex(3)HexNAc(3)Pent(1): DHex Hex(3) HexNAc(3) Pent.
MS_FileFilter
FileFilter: Extracts or manipulates portions of data from peak, feature or consensus feature files.
UO_plaque_forming_unit_per_milliliter
plaque forming unit per milliliter: A concentration unit which a measure of plague forming units in o...
MS_Pro_ID
Pro ID: Applied Biosystems|MDS SCIEX software for protein identification.
UNIMOD_dHex_1_Hex_5_HexA_1_HexNAc_3_Sulf_1_
dHex(1)Hex(5)HexA(1)HexNAc(3)Sulf(1): DHex Hex(5) HexA HexNAc(3) Sulf.
MS_Mascot
Mascot: The name of the Mascot search engine.
UNIMOD_PEITC
PEITC: Phenethyl isothiocyanate.
MS_6530B_Q_TOF_LC_MS
6530B Q-TOF LC/MS: The 6530B Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instr...
MS_MS_GF_
MS-GF+: MS-GF+ software used to analyze the spectra.
MS_TOPP_PeptideIndexer
TOPP PeptideIndexer: Refreshes the protein references for all peptide hits.
UNIMOD_Thr__Arg
Thr->Arg: Thr->Arg substitution.
MS_ms_level
ms level: Stages of ms achieved in a multi stage mass spectrometry experiment.
MS_protein_level_e_value
protein-level e-value: Estimation of the e-value for proteins.
UNIMOD_dHex_1_Hex_4_HexNAc_4_Sulf_1_
dHex(1)Hex(4)HexNAc(4)Sulf(1): DHex Hex(4) HexNAc(4) Sulf.
MS_TOPP_MapAlignerSpectrum
TOPP MapAlignerSpectrum: Corrects retention time distortions between maps by spectrum alignment.
UNIMOD_ICDID_2H_6_
ICDID:2H(6): Isotope-Coded Dimedone heavy form.
UNIMOD_CLIP_TRAQ_3
CLIP_TRAQ_3: CLIP_TRAQ_3.
MS_number_of_peptide_seqs_compared_to_each_spectrum
number of peptide seqs compared to each spectrum: Number of peptide seqs compared to each spectrum.
MS_greylag
greylag: Greylag identification software.
MS_SEQUEST_sort_by_Sp
SEQUEST:sort by Sp: Sort order of SEQUEST search results by the Sp score.
UNIMOD_Glu
Glu: Monoglutamyl.
MS_mass_to_charge_ratio
mass-to-charge ratio (m/z): Three-character symbol m/z is used to denote the quantity formed by divid...
MS_TOPP_OpenSwathFeatureXMLToTSV
TOPP OpenSwathFeatureXMLToTSV: Converts a featureXML to a mProphet tsv (tab separated values).
UNIMOD_Asn__Ala
Asn->Ala: Asn->Ala substitution.
UNIMOD_Biotin_Thermo_21901_H2O
Biotin:Thermo-21901+H2O: Maleimide-Biotin + Water.
UNIMOD_Xlink_BuUrBu_85_
Xlink:BuUrBu[85]: Bu fragment of BuUrBu crosslinker.
UNIMOD_dHex_1_Hex_1_HexNAc_3_
dHex(1)Hex(1)HexNAc(3): DHex Hex HexNAc(3).
MS_Bruker_Daltonics_instrument_model
Bruker Daltonics instrument model: Bruker Daltonics' instrument model.
MS_source_interface_model
source interface model: The source interface model.
MS_detector
detector: The device that detects ions.
UNIMOD_Xle__Gln
Xle->Gln: Leu/Ile->Gln substitution.
MS_Bruker_Daltonics_amaZon_series
Bruker Daltonics amaZon series: Bruker Daltonics' amaZon series.
UNIMOD_CLIP_TRAQ_4
CLIP_TRAQ_4: CLIP_TRAQ_4.
MS_Bruker_BAF_nativeID_format__combined_spectra
Bruker BAF nativeID format, combined spectra: Bruker BAF comma separated list of spectra that have be...
MS_NG_5400
NG-5400: Waters NG-5400 MS.
MS_Element_XR
Element XR: Thermo Scientific Element XR HR-ICP-MS.
MS_electrospray_inlet
electrospray inlet: Inlet used for introducing the liquid sample into an electrospray ionization sour...
MS_Tranche_project_hash
Tranche project hash: Hash assigned by the Tranche resource to a whole project.
UNIMOD_dHex_4_Hex_1_HexNAc_2_Kdn_1_
dHex(4)Hex(1)HexNAc(2)Kdn(1): DHex(4) Hex HexNAc(2) Kdn.
MS_OMSSA_csv_format
OMSSA csv format: Source file for this mzIdentML was in OMSSA csv file format.
UNIMOD_Val__Cys
Val->Cys: Val->Cys substitution.
UNIMOD_Ser__Trp
Ser->Trp: Ser->Trp substitution.
MS_TMT_reagent_126
TMT reagent 126: The name of the sample labelled with the TMT reagent 126.
MS_Gaussian_smoothing
Gaussian smoothing: Reduces intensity spikes by convolving the data with a one-dimensional Gaussian f...
MS_MSPathFinder_EValue
MSPathFinder:EValue: MSPathFinder E-value.
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Integration_Window_Tolerance
ProteomeDiscoverer:Reporter Ions Quantizer:Integration Window Tolerance: Specifies the mass-to-charge...
MS_ProteomeDiscoverer_perform_deisotoping
ProteomeDiscoverer:perform deisotoping: Defines whether a simple deisotoping shall be performed.
MS_Comet_expectation_value
Comet:expectation value: The Comet result 'Expectation value'.
MS_number_of_spectra_searched
number of spectra searched: Number of spectra in a search.
UNIMOD_RNPXL
RNPXL: Simulate peptide-RNA conjugates.
UO_hecto
hecto: A prefix in the metric system denoting a factor of one hundred.
UNIMOD_Oxidation
Oxidation: Oxidation or Hydroxylation.
MS_ProteomeDiscoverer_Xtract_Overlapping_Remainder
ProteomeDiscoverer:Xtract:Overlapping Remainder: Fraction of the more abundant peak that an overlappi...
UNIMOD_dHex_2_HexNAc_5_
dHex(2)HexNAc(5): DHex(2) HexNAc(5).
UNIMOD_GluGlu
GluGlu: Diglutamyl.
MS_CRM_spectrum
CRM spectrum: Spectrum generated from MSn experiment with three or more stages of m/z separation and ...
MS_sequential_m_z_separation_method_OBSOLETE
sequential m/z separation method: Sequential m/z separation method.
UNIMOD_Asn__Met
Asn->Met: Asn->Met substitution.
UNIMOD_TMT
TMT: Native Tandem Mass Tag®.
UNIMOD_Glu__Asp
Glu->Asp: Glu->Asp substitution.
MS_sample_plate_type
sample plate type: The sample plate type.
MS_lab_personnel
lab personnel: Lab personnel role.
MS_absorption_chromatogram
absorption chromatogram: The measurement of light absorbed by the sample as a function of the retenti...
MS_isotope_dilution_mass_spectrometry_OBSOLETE
isotope dilution mass spectrometry: A quantitative mass spectrometry technique in which an isotopical...
MS_iTRAQ_quantitation_analysis
iTRAQ quantitation analysis: Quantification analysis using the SCIEX amine-reactive isobaric tags for...
MS_TSQ_Quantum
TSQ Quantum: ThermoFinnigan TSQ Quantum MS.
MS_binary_data_array
binary data array: A data array of values.
UNIMOD_dHex_1_Hex_5_HexNAc_2_
dHex(1)Hex(5)HexNAc(2): DHex Hex(5) HexNAc(2).
UNIMOD_Maleimide_PEO2_Biotin
Maleimide-PEO2-Biotin: Maleimide-Biotin.
MS_glutamyl_endopeptidase
glutamyl endopeptidase: Enzyme glutamyl endopeptidase (EC 3.4.21.19).
UNIMOD_Pro__Lys
Pro->Lys: Pro->Lys substitution.
MS_SRM_transition_attribute
SRM transition attribute: Attribute associated with a SRM transition.
UO_density_unit
density unit: A unit which is a standard measure of the influence exerted by some mass.
MS_PSM_level_probability
PSM-level probability: Probability that the reported peptide ion is truly responsible for some or all...
UNIMOD_Lys__MetOx
Lys->MetOx: Lys->Met substitution and sulfoxidation.
UNIMOD_DiART6plex118
DiART6plex118: Accurate mass for DiART6plex 118.
UNIMOD_Gln__Trp
Gln->Trp: Gln->Trp substitution.
MS_PureDisk
PureDisk: BrukerPureDisk software.
MS_sequence_same_set_protein
sequence same-set protein: A protein which is indistinguishable or equivalent to another protein,...
UO_conduction_unit
conduction unit: A unit which represents a standard measurement of the transmission of an entity thro...
UNIMOD_Delta_H_4_C_2_
Delta:H(4)C(2): Acetaldehyde +28.
UNIMOD_HexNAc
HexNAc: N-Acetylhexosamine.
UNIMOD_dHex_1_Hex_5_HexNAc_5_
dHex(1)Hex(5)HexNAc(5): DHex Hex(5) HexNAc(5).
UNIMOD_Fluoro
Fluoro: Fluorination.
UNIMOD_Lysbiotinhydrazide
Lysbiotinhydrazide: Oxidized Lysine biotinylated with biotin hydrazide.
MS_protein
protein: A compound composed of one or more chains of amino acids in a specific order determined by t...
UO_month
month: A time unit which is approximately equal to the length of time of one of cycle of the moon's p...
MS_LC_MS_label_free_quantitation_analysis
LC-MS label-free quantitation analysis: LC-MS label-free workflow (RT m/z map).
MS_one_sample_run
one sample run: The raw file contains the run of one sample (e.g. spectral counting,...
MS_QTRAP_5500
QTRAP 5500: Applied Biosystems|MDS SCIEX QTRAP 5500.
MS_profile_spectrum
profile spectrum: A profile mass spectrum is created when data is recorded with ion current (counts p...
MS_TMT_reagent_129C
TMT reagent 129C: The name of the sample labelled with the TMT reagent 129C.
MS_protein_group_level_p_value
protein group-level p-value: Estimation of the p-value for protein groups.
MS_reflectron_on
reflectron on: Reflectron is on.
UNIMOD_PhosphoribosyldephosphoCoA
PhosphoribosyldephosphoCoA: Phosphoribosyl dephospho-coenzyme A.
UNIMOD_Cation_Mg_II_
Cation:Mg[II]: Replacement of 2 protons by magnesium.
MS_TOF_MS_OBSOLETE
TOF-MS (time-of-flight mass spectrometer): An instrument that separates ions by m/z in a field-free r...
MS_MRM_transition_type
MRM transition type (SRM transition type): The type of the transitions, e.g. target or decoy.
MS_m_z
m/z: Three-character symbol m/z is used to denote the quantity formed by dividing the mass of an ion ...
MS_ProteomeDiscoverer_Xtract_Resolution_At_400
ProteomeDiscoverer:Xtract:Resolution At 400: Resolution at mass 400.
UO_rate_unit
rate unit: A unit which represents a standard measurement occurrence of a process per unit time.
MS_jPOST_dataset_URI
jPOST dataset URI: URI that allows the access to one dataset in the jPOST repository....
MS_quality_estimation_with_decoy_database
quality estimation with decoy database: Quality estimation by decoy database.
MS_predicted_pI
predicted pI (predicted isoelectric point): The pH of a solution at which a charged molecule would no...
MS_run_attribute
run attribute: Properties of the described run.
UNIMOD_Xlink_DTSSP_174_
Xlink:DTSSP[174]: Intact DSP/DTSSP crosslinker.
MS_Phenyx_Pepzscore
Phenyx:Pepzscore: The z-score value of a peptide sequence match in Phenyx.
MS_XCMS_intf
XCMS:intf: Feature intensity produced by XCMS findPeaks() from baseline corrected integrated peak int...
UNIMOD_dHex_4_HexNAc_3_Kdn_1_
dHex(4)HexNAc(3)Kdn(1): DHex(4) HexNAc(3) Kdn.
MS_MS2_tag_based_feature_level_quantitation
MS2 tag-based feature level quantitation: MS2 tag-based feature level quantitation.
MS_search_type
search type: Enumeration of type of search value (i.e. from PMF, sequence tag, MS2).
MS_mzQuantML_format
mzQuantML format: The mzQuantML format for quantification data from the PSI. File extension '....
MS_ms_ms_search
ms-ms search: An MS2 search (with fragment ions).
MS_ProteomeDiscoverer_Mascot_Weight_of_X_Ions
ProteomeDiscoverer:Mascot:Weight of X Ions: Determines if to use X ions for spectrum matching.
UNIMOD_ICAT_H
ICAT-H: N-iodoacetyl, p-chlorobenzyl-12C6-glucamine.
MS_Linked_Scan_at_Constant_B_1__E_E0___1_2___E_OBSOLETE
Linked Scan at Constant B[1-(E/E0)]^1/2 / E: A linked scan performed on a sector instrument that inco...
MS_6490_Triple_Quadrupole_LC_MS
6490 Triple Quadrupole LC/MS: The 6490 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_Synapt_G2_S_HDMS
Synapt G2-S HDMS: Waters oa-ToF based Synapt G2-S HDMS.
UNIMOD_Ala__Trp
Ala->Trp: Ala->Trp substitution.
MS_TSQ_Quantis
TSQ Quantis: Thermo Scientific TSQ Quantis Triple Quadrupole MS.
MS_6430_Triple_Quadrupole_LC_MS
6430 Triple Quadrupole LC/MS: The 6430 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_supplemental_beam_type_collision_induced_dissociation
supplemental beam-type collision-induced dissociation: A supplemental collision-induced dissociation ...
UNIMOD_CuSMo
CuSMo: Copper sulfido molybdopterin cytosine dinuncleotide.
MS_quantitation_software_comment_or_customizations
quantitation software comment or customizations: Quantitation software comment or any customizations ...
MS_DB_filter_on_sequence_pattern
DB filter on sequence pattern: Filtering applied specifically by amino acid sequence pattern.
UNIMOD_FTC
FTC: Fluorescein-5-thiosemicarbazide.
UO_temperature_unit
temperature unit: A unit which is a standard measure of the average kinetic energy of the particles i...
MS_MD_Score_threshold
MD-Score threshold: Threshold for MD-score PTM site location score.
UO_count_per_nanomolar
count per nanomolar: A rate unit which is equal to one over one nanomolar.
MS_TOPP_MassTraceExtractor
TOPP MassTraceExtractor: Annotates mass traces in centroided LC/MS maps.
MS_AXIMA_Confidence_MALDI_TOF
AXIMA Confidence MALDI-TOF: Shimadzu Biotech AXIMA Confidence MALDI-TOF (curved field reflectron) MS.
MS_DB_accession_filter_string
DB accession filter string: DB accession filter string.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge3: Standard high confidence XCorr paramete...
MS_no_threshold
no threshold: In case no threshold was used.
MS_TOPP_map_aligner
TOPP map aligner: Map aligner component of the TOPP software.
MS_co_eluting_ion
co-eluting ion: Co-eluting ion.
UNIMOD_DeStreak
DeStreak: Cysteine mercaptoethanol.
UNIMOD_dHex_1_Hex_5_HexNAc_2_Pent_1_
dHex(1)Hex(5)HexNAc(2)Pent(1): DHex Hex(5) HexNAc(2) Pent.
UNIMOD_IED_Biotin
IED-Biotin: Biotinoyl-iodoacetyl-ethylenediamine.
MS_lipidomics_analysis_software
lipidomics analysis software: Lipidomics analysis software.
MS_sample
sample: Terms to describe the sample.
MS_database_type_spectral_library
database type spectral library: Database containing spectra.
MS_Peak_list_file_URI
Peak list file URI: URI of one of one search engine output file associated to one PX submission.
UNIMOD_Hex_4_
Hex(4): Hex(4).
UO_milligram
milligram: A mass unit which is equal to one thousandth of a gram or 10^[-3] g.
MS_Paragon__ID_focus
Paragon: ID focus: A Paragon method setting that allows the inclusion of large sets of features such ...
MS_MALDI_Synapt_G2_S_HDMS
MALDI Synapt G2-S HDMS: Waters oa-ToF based MALDI Synapt G2 MS.
UNIMOD_Hydroxamic_acid
Hydroxamic_acid: Conversion of carboxylic acid to hydroxamic acid.
MS_text_format
text format: Simple text file format of "m/z [intensity]" values for a PMF (or single MS2) search.
UNIMOD_IodoU_AMP
IodoU-AMP: (Iodo)-uracil MP.
UNIMOD_dHex_2_Hex_2_HexNAc_3_NeuGc_1_
dHex(2)Hex(2)HexNAc(3)NeuGc(1): DHex(2) Hex(2) HexNAc(3) NeuGc —OR— Hex(3) HexNAc(3) dHex NeuAc —OR— ...
MS_centroid_spectrum
centroid spectrum: Processing of profile data to produce spectra that contains discrete peaks of zero...
UNIMOD_dHex_2_Hex_4_HexNAc_3_Pent_1_
dHex(2)Hex(4)HexNAc(3)Pent(1): DHex(2) Hex(4) HexNAc(3) Pent.
UNIMOD_Pro__pyro_Glu
Pro->pyro-Glu: Proline oxidation to pyroglutamic acid.
UNIMOD_Biotin_Thermo_21328
Biotin:Thermo-21328: EZ-Link Sulfo-NHS-SS-Biotin.
MS_contact_role
contact role: Role of the contact person.
UNIMOD_dHex_1_HexNAc_5_
dHex(1)HexNAc(5): DHex HexNAc(5).
UNIMOD_IBTP
IBTP: Thio Ether Formation - BTP Adduct.
MS_cluster_ion_OBSOLETE
cluster ion: An ion formed by a multi-component atomic or molecular assembly of one or more ions with...
MS_MPI
MPI (multiphoton ionization): Photoionization of an atom or molecule in which in two or more photons ...
MS_ProteinExtractor_PhenyxUniqueScore
ProteinExtractor:PhenyxUniqueScore: In the final result each protein must have at least one peptide a...
MS_vertical_ionization
vertical ionization: A process in which an electron is removed from or added to a molecule without a ...
MS_BioTOF_Q
BioTOF-Q: Bruker Daltonics' BioTOF-Q: ESI Q-TOF.
MS_spectrum_attribute
spectrum attribute: Spectrum properties that are associated with a value.
MS_DELTAplusXP
DELTAplusXP: ThermoFinnigan DELTAplusXP MS.
UNIMOD_dHex_1_Hex_7_HexNAc_3_Sulf_1_
dHex(1)Hex(7)HexNAc(3)Sulf(1): DHex Hex(7) HexNAc(3) Sulf.
MS_assay_attribute
assay attribute: Attribute describing an assay.
MS_PROTEINEER_fc
PROTEINEER fc: Bruker PROTEINEER fc software.
MS_MaxQuant_PTM_Delta_Score
MaxQuant:PTM Delta Score: The PTM Delta Score value from MaxQuant software (Difference between highes...
MS_proteoform_level_local_FDR
proteoform-level local FDR: Estimation of the local false discovery rate of proteoforms.
MS_sequence_coverage
sequence coverage: The percent coverage for the protein based upon the matched peptide sequences (can...
UO_kilogram_per_square_meter
kilogram per square meter: An area density unit which is equal to the mass of an object in kilograms ...
MS_peptide_sequence_level_probability
peptide sequence-level probability: Probability that the reported distinct peptide sequence (irrespec...
MS_data_processing_action
data processing action: Data processing attribute used to describe the type of data processing perfor...
UO_byte
byte: An information unit which is equal to 8 bits.
UNIMOD_Crotonaldehyde
Crotonaldehyde: Crotonaldehyde.
MS_standard_error
standard error: Standard error function.
MS_external_reference_identifier
external reference identifier: An identifier/accession number to an external reference database.
UNIMOD_Hex_4_HexNAc_3_
Hex(4)HexNAc(3): Hex(4) HexNAc(3).
MS_IKES_OBSOLETE
IKES (ion kinetic energy spectrometry): A method of analysis in which a beam of ions is separated acc...
UO_angstrom
angstrom: A length unit which is equal to 10 [-10] m.
MS_Paragon__modified_data_dictionary_or_parameter_translation
Paragon: modified data dictionary or parameter translation: This metric detects if any changes have b...
UNIMOD_Pentose
Pentose: Pentose.
UNIMOD_Phe__Thr
Phe->Thr: Phe->Thr substitution.
MS_spectrum_quality_descriptions
spectrum quality descriptions: Description of the quality of the input spectrum.
MS_ultraflex_TOF_TOF
ultraflex TOF/TOF: Bruker Daltonics' ultraflex TOF/TOF: MALDI TOF.
MS_SEQUEST_sort_by_dCn
SEQUEST:sort by dCn: Sort order of SEQUEST search results by the delta of the normalized correlation ...
MS_dynode
dynode: One of a series of electrodes in a photomultiplier tube. Such an arrangement is able to ampli...
UNIMOD_dHex_2_HexNAc_2_Kdn_1_
dHex(2)HexNAc(2)Kdn(1): DHex(2) HexNAc(2) Kdn.
UNIMOD_Biotin_Invitrogen_M1602
Biotin:Invitrogen-M1602: Nalpha-(3-maleimidylpropionyl)biocytin.
MS_absolute_quantitation_analysis
absolute quantitation analysis: Absolute quantitation analysis.
MS_Linked_Scan_at_Constant_B2_E_OBSOLETE
Linked Scan at Constant B2/E: A linked scan performed on a sector mass spectrometer that incorporates...
UNIMOD_Hex_4_Phos_1_
Hex(4)Phos(1): Hex(4) Phos.
MS_WARP_LC
WARP-LC: Bruker WARP-LC software.
MS_SILAC_medium_reagent
SILAC medium reagent: The name of the sample labelled with the medium SILAC label.
MS_mzidLib_Thresholder
mzidLib:Thresholder: A routine for keeping only identifications passing a given threshold or setting ...
MS_object_attribute
object attribute: Object Attribute.
MS_einzel_lens
einzel lens: Three element charged particle lens in which the first and third elements are held at th...
MS_average_mass_OBSOLETE
average mass: The mass of an ion or molecule calculated using the average mass of each element weight...
MS_Savitzky_Golay_smoothing
Savitzky-Golay smoothing: Reduces intensity spikes by applying local polynomial regression (of degree...
UNIMOD_Acetyl_2H_3_
Acetyl:2H(3): Acetate labeling reagent (N-term & K) (heavy form, +3amu).
MS_higher_score_better
higher score better: Indicates that a higher score is better.
MS_FD
FD (field desorption): The formation of gas-phase ions from a material deposited on a solid surface i...
UNIMOD_dHex_1_Hex_5_HexNAc_4_Sulf_2_
dHex(1)Hex(5)HexNAc(4)Sulf(2): DHex Hex(5) HexNAc(4) Sulf(2).
UNIMOD_Lys__Xle
Lys->Xle: Lys->Leu/Ile substitution.
MS_reflectron
reflectron: A time-of-flight mass spectrometer that uses a static electric field to reverse the direc...
MS_SRM_transition_type
SRM transition type: The type of the transitions, e.g. target or decoy.
UNIMOD_Gly__Val
Gly->Val: Gly->Val substitution.
MS_TopPIC_generating_function
TopPIC:generating function: P-value and E-value estimation using generating function.
MS_chromatography_separation
chromatography separation: A technique by which molecules are separated by chemical and physical prop...
MS_FlexControl
FlexControl: Bruker software for data acquisition.
MS_LipidXplorer
LipidXplorer: Software for consensual cross-platform lipidomics.
MS_orthogonal_extraction_OBSOLETE
orthogonal extraction: The pulsed acceleration of ions perpendicular to their direction of travel int...
MS_null_terminated_ASCII_string
null-terminated ASCII string: Sequence of zero or more non-zero ASCII characters terminated by a sing...
MS_contact_URL
contact URL: Uniform Resource Locator related to the contact person or organization.
UNIMOD_dHex_1_Hex_5_HexNAc_4_Pent_1_
dHex(1)Hex(5)HexNAc(4)Pent(1): DHex Hex(5) HexNAc(4) Pent.
UNIMOD_Hex_9_Phos_3_
Hex(9)Phos(3): Hex(9) Phos(3).
MS_Data_Explorer
Data Explorer: Applied Biosystems software for data acquisition and analysis.
MS_SymBiot_XVI
SymBiot XVI: Applied Biosystems/MDS SCIEX SymBiot XVI MS.
MS_ChromaTOF_HRT_software
ChromaTOF HRT software: Software for acquisition, processing and analysis of data for LECO instrument...
MS_MSPepSearch_score
MSPepSearch:score: MSPepSearch score (0 for entirely dissimilar and 1000 for identical observed spect...
MS_EA_OBSOLETE
EA (electron affinity): The electron affinity of M is the minimum energy required for the process M- ...
MS_frag__d_ion
frag: d ion: Fragmentation information, type of product: d ion.
MS_NoEnzyme_OBSOLETE
NoEnzyme:
UNIMOD_iTRAQ4plex114
iTRAQ4plex114: Accurate mass for 114.
UNIMOD_dHex_2_Hex_3_HexNAc_6_
dHex(2)Hex(3)HexNAc(6): DHex(2) Hex(3) HexNAc(6).
MS_TOPP_HighResPrecursorMassCorrector
TOPP HighResPrecursorMassCorrector: Performs precursor mz correction on centroided high resolution da...
UO_gram_per_deciliter
gram per deciliter: A mass density unit which is equal to mass of an object in grams divided by the v...
MS_gas_chromatography_separation
gas chromatography separation: Gas chromatography (GC) is a separation technique in which the mobile ...
MS_TOPP_PrecursorIonSelector
TOPP PrecursorIonSelector: A tool for precursor ion selection based on identification results.
MS_peak_list_raw_scans
peak list raw scans: A list of raw scans and or scan ranges used to generate a peak list....
MS_LTQ_Orbitrap_Discovery
LTQ Orbitrap Discovery: LTQ Orbitrap Discovery.
MS_ProteomeDiscoverer_ZCore_Protein_Score_Cutoff
ProteomeDiscoverer:ZCore:Protein Score Cutoff: Sets a minimum protein score that each protein must ex...
UO_acre
acre: An area unit which is equivalent to 1 furlong x 1 chain. This is equal to an area of 4,...
UNIMOD_Palmitoyl
Palmitoyl: Palmitoylation.
MS_isotopomer_MS_peak
isotopomer MS peak: The described isotopomer mass spectrometric signal. The value slot contains a des...
MS_ProteomeDiscoverer_Number_of_input5_spectra
ProteomeDiscoverer:Number of input5 spectra: Number of spectra from 5+ precursor ions.
MS_ProteomeDiscoverer_Initial_minimal_peptide_probability
ProteomeDiscoverer:Initial minimal peptide probability: Minimal initial peptide probability to contri...
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Selection
ProteomeDiscoverer:Spectrum Selector:Precursor Selection: Determines which precursor mass to use for ...
MS_DiLeu_reagent_118
DiLeu reagent 118: The name of the sample labelled with the DiLeu reagent 118.
MS_isotopomer
isotopomer: An isomer that differs from another only in the spatial distribution of the constitutive ...
MS_peptide_sequence_level_result_list_attribute
peptide sequence-level result list attribute: General property of all peptide sequences in the list.
MS_molecular_mass_OBSOLETE
molecular mass: The mass of one mole of a molecular substance (6.022 1415(10) x 10^23 molecules).
MS_Resampler
Resampler: Transforms an LC/MS map into a resampled map or a png image.
UO_nanoliter
nanoliter: A volume unit which is equal to one thousandth of one millionth of a liter or 10^[-9] L.
UNIMOD_Delta_H_8_C_6_O_2_
Delta:H(8)C(6)O(2): Acrolein addition +112.
MS_number_of_unmatched_peaks
number of unmatched peaks: The number of unmatched peaks.
PEFF_GO
GO: Gene Ontology code.
UNIMOD_Didehydroretinylidene
Didehydroretinylidene: 3,4-didehydroretinylidene.
UNIMOD_Hex_3_HexNAc_2_Phos_1_
Hex(3)HexNAc(2)Phos(1): Hex(3) HexNAc(2) Phos.
MS______HKR_P____P_
(?<=[HKR]P)(?!P): Regular expression for proline endopeptidase.
MS_ProteomeDiscoverer_Use_Neutral_Loss_a_Ions
ProteomeDiscoverer:Use Neutral Loss a Ions: Determines whether a ions with neutral loss are used for ...
MS_TOPP_PeakPickerHiRes
TOPP PeakPickerHiRes: Finds mass spectrometric peaks in high-resoluted profile mass spectra.
MS_ion_trap
ion trap: A device for spatially confining ions using electric and magnetic fields alone or in combin...
MS_Formic_acid
Formic_acid: Formic acid.
UNIMOD_3sulfo
3sulfo: Derivatization by N-term modification using 3-Sulfobenzoic succinimidyl ester.
UNIMOD_Gln__Gly
Gln->Gly: Gln->Gly substitution.
UNIMOD_Xlink_DMP_154_
Xlink:DMP[154]: Free monolink of DMP crosslinker.
UNIMOD_LRGG_dimethyl
LRGG+dimethyl: LeudimethylArgGlyGly.
MS_ProteomeDiscoverer_use_flanking_ions
ProteomeDiscoverer:use flanking ions: Flag for usage of flanking ions.
UNIMOD_Cation_Li
Cation:Li: Replacement of proton by lithium.
UNIMOD_Biotin_Cayman_10013
Biotin:Cayman-10013: Was PGA1-biotin.
UO_gray
gray: An absorbed dose unit which is equal to the absorption of one joule of radiation energy by one ...
UNIMOD_dHex_2_Hex_3_HexA_1_HexNAc_1_Sulf_1_
dHex(2)Hex(3)HexA(1)HexNAc(1)Sulf(1): DHex(2) Hex(3) HexA HexNAc Sulf.
MS_Lys_C_P
Lys-C/P: Proteinase Lys-C/P.
MS_unit_OBSOLETE
unit: Terms to describe units.
MS_ProteomeDiscoverer_Use_Neutral_Loss_b_Ions
ProteomeDiscoverer:Use Neutral Loss b Ions: Determines whether b ions with neutral loss are used for ...
MS_TopMG_mod_file
TopMG:mod file: The text file containing the information of common PTMs.
MS_positive_ion_OBSOLETE
positive ion: An atomic or molecular species having a net positive electric charge.
MS_SEQUEST_deltacnstar
SEQUEST:deltacnstar: The SEQUEST result 'DeltaCnStar'.
UNIMOD_dHex_3_Hex_1_HexNAc_3_Kdn_1_
dHex(3)Hex(1)HexNAc(3)Kdn(1): DHex(3) Hex HexNAc(3) Kdn.
UNIMOD_Arg__Cys
Arg->Cys: Arg->Cys substitution.
MS_normalized_retention_time
normalized retention time: A time interval from the start of chromatography when an analyte exits a s...
MS_instrument_attribute
instrument attribute: Instrument properties that are associated with a value.
MS_quantitation_software_name
quantitation software name: Quantitation software name.
UNIMOD_Hex_5_HexNAc_4_
Hex(5)HexNAc(4): Biantennary.
MS_DB_source_EBI
DB source EBI: Database source EBI.
MS_Lipid_Data_Analyzer
Lipid Data Analyzer: Lipid Data Analyzer software for lipid quantification.
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuGc_1_Sulf_1_
dHex(1)Hex(5)HexNAc(3)NeuGc(1)Sulf(1): DHex Hex(5) HexNAc(3) NeuGc Sulf.
UNIMOD_Hex_2_HexNAc_1_NeuGc_1_
Hex(2)HexNAc(1)NeuGc(1): Hex(2) HexNAc NeuGc.
UNIMOD_DNPS
DNPS: 2,4-Dinitrobenzenesulfenyl.
MS_Progeny_Fragment_Ion_OBSOLETE
Progeny Fragment Ion (progeny ion): A charged product of a series of consecutive reactions that inclu...
MS_Xevo_TQ_S_micro
Xevo TQ-S micro: Waters Corporation Xevo TQ-S micro triple quadrupole mass spectrometer.
MS_param__x_ion
param: x ion: Parameter information, type of product: x ion with charge on the C-terminal side.
MS_spectral_counting_quantitation_analysis
spectral counting quantitation analysis: Spectral counting workflow (number of identified MS2 spectra...
MS______KR_____P_
(?<=[KR])(?!P): Regular expression for Trypsin.
UNIMOD_Hydroxyheme
Hydroxyheme: Hydroxyheme.
UNIMOD_cGMP
cGMP: S-guanylation.
MS_ProteomeDiscoverer_Mascot_Error_tolerant_Search
ProteomeDiscoverer:Mascot:Error tolerant Search: Determines whether to search error-tolerant.
MS_PAnalyzer_indistinguishable_protein
PAnalyzer:indistinguishable protein: A member of a group of proteins sharing all peptides that are ex...
UNIMOD_AzidoF
AzidoF: Azidophenylalanine.
UNIMOD_Isopropylphospho
Isopropylphospho: O-Isopropylphosphorylation.
UO_katal_per_cubic_meter
katal per cubic meter: A catalytic (activity) concentration unit which is equal to 1 katal activity o...
MS_sophisticated_numerical_annotation_procedure
sophisticated numerical annotation procedure: It searches for known patterns in the measured spectrum...
MS_MaxQuant_P_site_localization_probability_threshold
MaxQuant:P-site localization probability threshold: Threshold for MaxQuant:P-site localization probab...
UNIMOD_ICAT_G_2H_8_
ICAT-G:2H(8): Gygi ICAT(TM) d8.
MS_final_PSM_list
final PSM list: A flag on a list of PSMs (SpectrumIdentificationList) to indicate that this is the fi...
UNIMOD_iTRAQ4plex
iTRAQ4plex: Representative mass and accurate mass for 116 & 117.
UNIMOD_Val__Gly
Val->Gly: Val->Gly substitution.
UNIMOD_Hex_3_
Hex(3): Hex3.
MS_molecule
molecule: A molecules is a fundamental component of a chemical compound that is the smallest part of ...
const std::string & shortName() const
UNIMOD_Pro__Val
Pro->Val: Pro->Val substitution.
UO_curie
curie: An activity (of a radionuclide) unit which is equal to the activity of a quantity of radioacti...
UO_parts_per_billion
parts per billion: A dimensionless concentration notation which denotes the amount of a given substan...
MS_DIP
DIP (direct insertion probe): A device for introducing a solid or liquid sample into a mass spectrome...
MS_scanning_method_OBSOLETE
scanning method: Describes the acquisition data type produced by a tandem mass spectrometry experimen...
UNIMOD_dHex_1_Hex_2_HexNAc_1_Sulf_1_
dHex(1)Hex(2)HexNAc(1)Sulf(1): DHex Hex(2) HexNAc Sulf.
MS_BioTOF_III
BioTOF III: Bruker Daltonics' BioTOF III: ESI TOF.
MS_chromosome_name
chromosome name: The name or number of the chromosome to which a given peptide has been mapped.
UNIMOD_Trp__Xle
Trp->Xle: Trp->Leu/Ile substitution.
MS_FWHM
FWHM (full width at half-maximum): A measure of resolution represented as width of the peak at half p...
UNIMOD_dHex_1_Hex_3_HexNAc_4_NeuAc_1_
dHex(1)Hex(3)HexNAc(4)NeuAc(1): DHex Hex(3) HexNAc(4) NeuAc.
MS_number_of_distinct_protein_sequences
number of distinct protein sequences: The number of protein clusters that have been identified,...
MS_iTRAQ_reagent_115
iTRAQ reagent 115: The name of the sample labelled with the iTRAQ reagent 115.
MS_Paragon_expression_change_p_value
Paragon:expression change p-value: The Paragon result 'Expression change P-value'.
UNIMOD_Hex_3_HexNAc_7_Sulf_1_
Hex(3)HexNAc(7)Sulf(1): Hex(3) HexNAc(7) Sulf.
MS_ProteinExtractor_input_parameter
ProteinExtractor input parameter: Search engine input parameters specific to ProteinExtractor.
MS_SQID_score
SQID:score: The SQID result 'Score'.
UNIMOD_Thyroxine
Thyroxine: Tetraiodo.
MS_6224_Time_of_Flight_LC_MS
6224 Time-of-Flight LC/MS: The 6224 Time-of-Flight LC/MS is a Agilent liquid chromatography instrumen...
MS_6530A_Q_TOF_LC_MS
6530A Q-TOF LC/MS: The 6530A Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instr...
MS_metabolic_labelling__natural_N__mainly_14N_
metabolic labelling: natural N (mainly 14N): Metabolic labelling: natural N (mainly 14N).
MS_conversion_dynode_electron_multiplier
conversion dynode electron multiplier: A surface that is held at high potential so that ions striking...
UO_megabyte
megabyte: An information unit which is equal to 1000 kB.
MS_metabolic_labelling__heavy_N__mainly_15N_
metabolic labelling: heavy N (mainly 15N): Metabolic labelling: heavy N (mainly 15N).
MS_Bruker_U2_nativeID_format
Bruker U2 nativeID format: Native format defined by declaration=xsd:nonNegativeInteger collection=xsd...
MS_peak_intensity
peak intensity: Intensity of ions as measured by the height or area of a peak in a mass spectrum.
MS_PTM_localization_result_list_statistic
PTM localization result list statistic: Statistic for all items derived from a post-translational mod...
MS_Velos_Plus
Velos Plus: Thermo Scientific second generation Velos.
MS_4000_Series_Explorer_Software
4000 Series Explorer Software: SCIEX or Applied Biosystems software for data acquisition and analysis...
MS_SRM_proteingroup_level_quantitation
SRM proteingroup level quantitation: Selected Reaction Monitoring proteingroup level quantitation.
MS_ACQUITY_UPLC
ACQUITY UPLC: Waters LC-system ACQUITY UPLC.
MS_Gel_image_file_URI
Gel image file URI: URI of one gel image file associated to one PX submission.
MS_ProteinExtractor_IncludeIdentified
ProteinExtractor:IncludeIdentified: Flag indicating if identified proteins should be included.
MS_Pepitome_MVH
Pepitome:MVH (MyriMatch:MVH): Using the multivariate hypergeometric distribution and a peak list divi...
MS_search_database_details
search database details: Details about the database searched.
UNIMOD_Asp__Cys
Asp->Cys: Asp->Cys substitution.
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_1_Sulf_1_
dHex(1)Hex(3)HexA(1)HexNAc(1)Sulf(1): DHex Hex(3) HexA HexNAc Sulf.
UNIMOD_Asp__Thr
Asp->Thr: Asp->Thr substitution.
MS_ProteinScape_second_round_Phenyx
ProteinScape:second round Phenyx: Flag indicating a second round search with Phenyx.
MS_Mascot_DAT_format
Mascot DAT format: Source file for this mzIdentML was in Mascot DAT file format.
MS_multiphoton_ionization
multiphoton ionization: Photoionization of an atom or molecule in which in two or more photons are ab...
UO_milliliter
milliliter: A volume unit which is equal to one thousandth of a liter or 10^[-3] L,...
UNIMOD_Glu__Ser
Glu->Ser: Glu->Ser substitution.
UO_electrical_conduction_unit
electrical conduction unit: A unit which represents a standard measurement of the movement of electri...
MS_TOPP_OpenSwathAnalyzer
TOPP OpenSwathAnalyzer: Picks peaks and finds features in an SRM experiment.
UNIMOD_phenylsulfonylethyl
phenylsulfonylethyl: Reaction with phenyl vinyl sulfone.
MS_raw_file_attribute
raw file attribute: Attribute describing a raw file.
MS_ProteomeDiscoverer_Minimal_peptide_weight
ProteomeDiscoverer:Minimal peptide weight: Minimum peptide weight contributing to protein probability...
UNIMOD_Pro__Tyr
Pro->Tyr: Pro->Tyr substitution.
MS_database_IPI_rat
database IPI_rat: International Protein Index database for Rattus norvegicus sequences.
MS_Progenesis_MetaScope_score
Progenesis MetaScope score: The confidence score produced by Progenesis QI.
MS_MS_MS_in_Space_OBSOLETE
MS/MS in Space: A tandem mass spectrometry method in which product ion spectra are recorded in m/z an...
MS_intensity_normalization
intensity normalization: Normalization of data point intensities.
MS_TOPP_CompNovoCID
TOPP CompNovoCID: Performs a peptide/protein identification with the CompNovo engine in collision-ind...
UNIMOD_Delta_H_2_C_2_
Delta:H(2)C(2): Acetaldehyde +26.
MS_MAT95XP_Trap
MAT95XP Trap: ThermoFinnigan MAT95XP Trap MS.
UNIMOD_Carboxymethyl_13C_2_
Carboxymethyl:13C(2): Iodoacetic acid derivative w/ 13C label.
MS_dried_droplet_MALDI_matrix_preparation
dried droplet MALDI matrix preparation: Dried droplet in MALDI matrix preparation.
MS_Bruker_Daltonics_apex_series
Bruker Daltonics apex series: Bruker Daltonics' apex series.
MS_Acquity_UPLC_FLR
Acquity UPLC FLR: Acquity UPLC Fluorescence Detector.
UO_nmole_disk
nmole/disk: A unit which is equal to one nanomole per disk, where a disk is some physical surface/con...
MS_method_file_format
method file format: Attribute describing a method file format.
MS_protein_group_level_q_value
protein group-level q-value: Estimation of the q-value for protein groups.
UO_femtogram
femtogram: A mass unit which is equal to 10^[-15] g.
UNIMOD_Hex_2_HexNAc_3_
Hex(2)HexNAc(3): Hex(2) HexNAc(3).
UNIMOD_Formylasparagine
Formylasparagine: In Bachi as Formylaspargine (typo?).
UO_kilometer_per_hour
kilometer per hour: A speed/velocity unit which is equal to the speed of an object traveling 1 kilome...
MS_SRM_protein_level_quantitation
SRM protein level quantitation: Selected Reaction Monitoring protein level quantitation.
MS_decoy_MRM_transition
decoy MRM transition (decoy SRM transition): A transition not expected to be present in the sample an...
UO_thou
thou: A length unit which is equal to 0.0254 millimetres.
MS_param__y_ion
param: y ion: Parameter information, type of product: y ion with charge on the C-terminal side.
MS_consensus_result
consensus result: Indicates a consensus result from several search engine runs.
MS_source_potential
source potential: Potential difference at the MS source in volts.
UNIMOD_Lys__Asn
Lys->Asn: Lys->Asn substitution.
UO_gallon
gallon: An imperial volume unit which is equivalent to 4,546.09 millilitres, or 8 pints.
MS_Q_Tof_micro
Q-Tof micro: Waters oa-ToF based Q-Tof micro.
MS_TOPP_MapRTTransformer
TOPP MapRTTransformer: Applies retention time transformations to maps.
MS_transition
transition: A set of two m/z values corresponding to the precursor m/z and a fragment m/z that in com...
MS_PRIDE_XML
PRIDE XML: Internal data and submission format of the PRIDE database.
MS_Byonic_Score
Byonic:Score: The Byonic score is the primary indicator of PSM correctness. The Byonic score reflects...
MS_charge_stripping
charge stripping: The reaction of a positive ion with an atom or molecule that results in the removal...
UNIMOD_BHTOH
BHTOH: Michael addition of t-butyl hydroxylated BHT (BHTOH) to C, H or K.
MS_6570_Q_TOF_LC_MS
6570 Q-TOF LC/MS: The 6570 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
UNIMOD_CarboxymethylDMAP
CarboxymethylDMAP: A fixed +1 charge tag attached to the N-terminus of peptides.
MS_Regular_expression_for_adduct_ion_formula
Regular expression for adduct ion formula: ([[:digit:]{0,1}M([+][:digit:]{0,1}(H|K|(Na)|(Li)|(Cl)|(Br...
MS_Phenyx_Modif
Phenyx:Modif: The expression of the nature and position(s) of modified residue(s) on a matched peptid...
MS_TopMG_use_ASF_DIAGONAL
TopMG:use ASF-DIAGONAL: Protein filtering using ASF-DIAGONAL method.
MS_V8_DE
V8-DE: Cleavage agent V8-DE.
MS_consecutive_reaction_monitoring_OBSOLETE_1000244
consecutive reaction monitoring: MSn experiment with three or more stages of m/z separation and in wh...
UNIMOD_serotonylation
serotonylation: 5-glutamyl serotonin.
UNIMOD_Unknown_420
Unknown:420: Unidentified modification of 420.0506 found in open search.
MS_Asp_N_ambic
Asp-N_ambic: Enzyme Asp-N, Ammonium Bicarbonate (AmBic).
MS_6510_Quadrupole_Time_of_Flight_LC_MS
6510 Quadrupole Time-of-Flight LC/MS: The 6510 Quadrupole Time-of-Flight LC/MS is a Agilent liquid ch...
PEFF_ModResPsi
ModResPsi: Modified residue with PSI-MOD identifier.
MS_Proteinscape_spectra
Proteinscape spectra: Spectra from Bruker/Protagen Proteinscape database.
MS_protein_level_q_value
protein-level q-value: Estimation of the q-value for proteins.
MS_spectrum_interpretation
spectrum interpretation: Collection of terms from the PSI Proteome Informatics standards describing t...
MS_modification_position_score
modification position score: Modification position score.
MS_SEQUEST_FormatAndLinks
SEQUEST:FormatAndLinks:
UNIMOD_Thr__Asp
Thr->Asp: Thr->Asp substitution.
UNIMOD_Met__Asn
Met->Asn: Met->Asn substitution.
UNIMOD_Xle__Glu
Xle->Glu: Leu/Ile->Glu substitution.
UO_count_per_nanomolar_second
count per nanomolar second: A rate unit which is equal to one over one nanomolar second.
MS_electromagnetic_radiation_spectrum
electromagnetic radiation spectrum: A plot of the relative intensity of electromagnetic radiation as ...
MS_cone_voltage
cone voltage: Potential difference between the sampling cone/orifice in volts.
MS_SEQUEST_sprank
SEQUEST:sprank: The SEQUEST result 'SpRank'.
MS_TOPP_MapAlignerIdentification
TOPP MapAlignerIdentification: Corrects retention time distortions between maps based on common pepti...
UNIMOD_Cation_Ag
Cation:Ag: Replacement of proton by silver.
MS_Waters_nativeID_format__combined_spectra
Waters nativeID format, combined spectra: Waters comma separated list of spectra that have been combi...
MS_spectrum_same_set_protein
spectrum same-set protein: A protein which is indistinguishable or equivalent to another protein,...
PEFF_EV
EV: Entry version.
UNIMOD_Hex_10_HexNAc_1_
Hex(10)HexNAc(1): Hex(10) HexNAc(1).
MS_quadrupole_ion_trap
quadrupole ion trap: Quadrupole Ion Trap mass analyzer captures the ions in a three dimensional ion t...
MS_6560_Q_TOF_LC_MS
6560 Q-TOF LC/MS: The 6560 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
MS_single_reaction_monitoring_OBSOLETE
single reaction monitoring: This term is not recommended. See Selected Reaction Monitoring.
UO_pico
pico: A prefix in the metric system denoting a factor of 10 to the power of -12.
UNIMOD_Methyl_2H_3_
Methyl:2H(3): Deuterated methyl ester.
MS_surface_enhanced_laser_desorption_ionization
surface enhanced laser desorption ionization: The formation of ionized species in the gas phase from ...
MS_Bioworks_SRF_format
Bioworks SRF format: Thermo Finnigan SRF file format.
MS_PEAKS_Node
PEAKS Node: PEAKS Node software for high throughput data analysis.
MS_6495A_Triple_Quadrupole_LC_MS
6495A Triple Quadrupole LC/MS: The 6495A Quadrupole LC/MS system is a Agilent liquid chromatography i...
MS_BaselineFilter
BaselineFilter: Removes the baseline from profile spectra using a top-hat filter.
MS_number_of_molecular_hypothesis_considered
number of molecular hypothesis considered: Number of Molecular Hypothesis Considered - This is the nu...
MS_GCT
GCT: Waters oa-ToF based GCT.
UO_terabyte
terabyte: An information unit which is equal to 1000 gigabytes.
UNIMOD_ZGB
ZGB: NHS ester linked Green Fluorescent Bodipy Dye.
MS_mean_drift_time_array
mean drift time array: Array of drift times, averaged from a matrix of binned m/z and drift time valu...
MS_6410_Triple_Quadrupole_LC_MS
6410 Triple Quadrupole LC/MS: The 6410 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_peptide_attribute_calculation_software
peptide attribute calculation software: Software used to predict or calculate numerical attributes of...
MS_peptide_sequence_level_identification_attribute
peptide sequence-level identification attribute: Peptide level information.
MS_charge_exchange_ionization
charge exchange ionization: The interaction of an ion with an atom or molecule in which the charge on...
UNIMOD_Trp__Phe
Trp->Phe: Trp->Phe substitution.
MS_nth_generation_product_ion_OBSOLETE
nth generation product ion: Serial product ions from dissociation of selected precursor ions where n ...
UNIMOD_dHex_2_Hex_3_HexNAc_4_Pent_2_
dHex(2)Hex(3)HexNAc(4)Pent(2): DHex(2) Hex(3) HexNAc(4) Pent(2).
MS_ion
ion: An atomic or molecular species having a net positive or negative electric charge.
MS_ProteomeDiscoverer_Amanda_middle_confidence_threshold
ProteomeDiscoverer:Amanda:middle confidence threshold: Relaxed confidence probability score.
MS_ProteomeDiscoverer_MS_Order_OBSOLETE
ProteomeDiscoverer:MS Order: Level of the mass spectrum (MS2 ... MS10).
MS_dissociation_method
dissociation method: Fragmentation method used for dissociation or fragmentation.
MS_solution
solution: State if the sample is in solution form.
UO_century
century: A time unit which is equal to 100 years.
MS_MassIVE_dataset_URI
MassIVE dataset URI: URI that allows the access to one dataset in the MassIVE repository....
MS_mass_trace_reporting__rectangles
mass trace reporting: rectangles: The mass trace of the features of this feature list specifies recta...
MS_IdentityE_Score
IdentityE Score: Waters IdentityE peptide score.
MS_TOPP_OpenSwathChromatogramExtractor
TOPP OpenSwathChromatogramExtractor: Extract chromatograms (XIC) from a MS2 map file.
MS_peptide_unique_to_one_protein
peptide unique to one protein: A peptide matching only one.
MS_ambiguous_residues
ambiguous residues: Children of this term describe ambiguous residues.
UO_millimetres_of_mercury
millimetres of mercury: A unit of pressure equal to the amount of fluid pressure one millimeter deep ...
MS_iProX_dataset_identifier
iProX dataset identifier: Dataset identifier issued by the iProX repository. A dataset can refer to e...
MS_data_processing_software
data processing software: Data processing software.
MS_data_processing_parameter
data processing parameter: Data processing parameter used in the data processing performed on the dat...
MS_ProteinExtractor_MaxNumberOfProteins
ProteinExtractor:MaxNumberOfProteins: The maximum number of proteins to consider.
UNIMOD_Ser__Xle
Ser->Xle: Ser->Leu/Ile substitution.
MS_global_FLR
global FLR: Global false localization rate for all localizations in a dataset.
UNIMOD_Val__Thr
Val->Thr: Val->Thr substitution.
UNIMOD_Gly__His
Gly->His: Gly->His substitution.
PWIZ_API_DECL const CVTermInfo & cvTermInfo(CVID cvid)
returns CV term info for the specified CVID
UNIMOD_His__Gln
His->Gln: His->Gln substitution.
MS_SEQUEST_PeptideNumber
SEQUEST:PeptideNumber: The SEQUEST result '#' in out file (peptide).
UNIMOD_Hex_3_HexNAc_1_Me_1_
Hex(3)HexNAc(1)Me(1): Hex(3) HexNAc Me.
UNIMOD_Gln__Xle
Gln->Xle: Gln->Leu/Ile substitution.
UNIMOD_His__Phe
His->Phe: His->Phe substitution.
MS_Byonic_Best_LogProb
Byonic:Best LogProb: Best (most negative) log p-value of an individual PSM.
UNIMOD_dHex_1_Hex_2_HexNAc_3_Sulf_1_
dHex(1)Hex(2)HexNAc(3)Sulf(1): DHex Hex(2) HexNAc(3) Sulf.
bool operator==(const CV &that) const
returns true iff id, URI, fullName, and version are all pairwise equal
MS_Exactive
Exactive: Thermo Scientific Exactive MS.
UO_candela
candela: A luminous intensity unit which equal to the luminous intensity, in a given direction,...
MS_emPAI_value
emPAI value: The emPAI value of protein abundance, produced from the emPAI algorithm.
MS_highest_observed_m_z
highest observed m/z: Highest m/z value observed in the m/z array.
UNIMOD_Hex_1_HexNAc_3_NeuAc_2_
Hex(1)HexNAc(3)NeuAc(2): Hex HexNAc(3) NeuAc(2).
MS_spectrum_from_database_string_nativeID_format
spectrum from database string nativeID format: Native format defined by databasekey=xsd:string.
MS_GD_MS
GD-MS (glow discharge ionization): The formation of ions in the gas phase and from solid samples at t...
MS_proteomics_solution_1
proteomics solution 1: Applied Biosystems/MDS SCIEX Proteomics Solution 1 MS.
MS_pepXML_format
pepXML format: The XML-based pepXML file format for encoding PSM information, created and maintained ...
PEFF_DbVersion
DbVersion: Database version (release date) according to database provider.
MS_frag__a_ion
frag: a ion: Fragmentation information, type of product: a ion.
MS_residue_pair_level_global_FDR
residue-pair-level global FDR: Estimation of the global false discovery rate of residue-pairs in cros...
UNIMOD_Thiadiazole
Thiadiazole: Thiadiazolydation of Cys.
std::string prefix() const
UNIMOD_Hex_1_HexNAc_2_NeuAc_2_
Hex(1)HexNAc(2)NeuAc(2): Hex HexNAc(2) NeuAc(2).
MS_high_energy_collision_OBSOLETE
high energy collision: Collision-induced dissociation process wherein the projectile ion has laborato...
UO_unit_per_milliliter
unit per milliliter: A unit per milliliter unit which is equal to one unit of an agreed arbitrary amo...
MS_SEQUEST_input_parameter
SEQUEST input parameter: Search engine input parameters specific to SEQUEST.
MS_beta_cleavage_OBSOLETE
beta-cleavage: A homolytic cleavage where the bond fission occurs between at an atom removed from the...
MS_orbitrap
orbitrap: An ion trapping device that consists of an outer barrel-like electrode and a coaxial inner ...
UNIMOD_Asn__Ser
Asn->Ser: Asn->Ser substitution.
MS_ProteomeDiscoverer_Amanda_high_confidence_threshold
ProteomeDiscoverer:Amanda:high confidence threshold: Strict confidence probability score.
MS_proteoform_level_identification_attribute
proteoform-level identification attribute: Proteoform level information.
MS_monoisotopic_mass_OBSOLETE
monoisotopic mass: The mass of an ion or molecule calculated using the mass of the most abundant isot...
MS_electron_energy_obsolete_OBSOLETE
electron energy obsolete: The potential difference through which electrons are accelerated before the...
UNIMOD_Ala__Phe
Ala->Phe: Ala->Phe substitution.
UO_percent
percent: A dimensionless ratio unit which denotes numbers as fractions of 100.
MS_fragment_ion_OBSOLETE
fragment ion: A product ion that results from the dissociation of a precursor ion.
MS_TopPIC_MIScore_threshold
TopPIC:MIScore threshold: TopPIC:MIScore threshold.
UNIMOD_Butyryl
Butyryl: Butyryl.
MS_alpha_cleavage_OBSOLETE
alpha-cleavage: A homolytic cleavage where the bond fission occurs between at the atom adjacent to th...
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_
Hex(1)HexNAc(1)NeuAc(2): Hex HexNAc NeuAc(2) —OR— Hex HexNAc(3) HexA.
UO_centiRay
centiRay: A unit of genetic map distance defined corresponding to an interval in which there is a 1% ...
MS_decoy_DB_from_IPI_human_OBSOLETE
decoy DB from IPI_human: Decoy database from a International Protein Index database for Homo sapiens.
MS_ESI
ESI (electrospray ionization): A process in which ionized species in the gas phase are produced from ...
MS_suface_ionization_OBSOLETE
suface ionization: The ionization of a neutral species when it interacts with a solid surface with an...
MS_base_peak_intensity
base peak intensity: The intensity of the greatest peak in the mass spectrum.
UNIMOD_SPITC
SPITC: 4-sulfophenyl isothiocyanate.
MS_Conventional_ion_OBSOLETE
Conventional ion: A radical cation or anion in which the charge site and the unpaired electron spin a...
UO_cells_per_well
cells per well: A unit of cell concentration which is equal to 1 cell in a well or discrete container...
MS_contact_phone_number
contact phone number: Phone number of the contact person or organization.
MS_HCT
HCT: Bruker Daltonics' HCT: ESI Q-TOF, Nanospray, APCI, APPI.
UNIMOD_LG_lactam_R
LG-lactam-R: Levuglandinyl - arginine lactam adduct.
UO_millimeter
millimeter: A length unit which is equal to one thousandth of a meter or 10^[-3] m.
UNIMOD_dHex_2_Hex_3_HexA_1_HexNAc_2_Sulf_1_
dHex(2)Hex(3)HexA(1)HexNAc(2)Sulf(1): DHex(2) Hex(3) HexA HexNAc(2) Sulf.
MS_Daly
Daly (daly detector): Detector consisting of a conversion dynode, scintillator and photomultiplier....
MS_denominator_data_type_attribute
denominator data type attribute: Attribute describing the data type of the denominator of a ratio.
MS_DB_MW_filter_minimum
DB MW filter minimum: Minimum value of molecular weight filter.
MS_database_local_file_path_OBSOLETE
database local file path: OBSOLETE: Use attribute in mzIdentML instead. Local file path of the search...
UNIMOD_Methyl_Deamidated
Methyl+Deamidated: Deamidation followed by a methylation.
MS_search_tolerance_plus_value
search tolerance plus value:
MS_ProteomeDiscoverer_Spectrum_Selector_Ionization_Source_OBSOLETE
ProteomeDiscoverer:Spectrum Selector:Ionization Source: Ionization source (electro-,...
UNIMOD_Glu__pyro_Glu
Glu->pyro-Glu: Pyro-glu from E.
MS_PIA_PSM_sets_created
PIA:PSM sets created: Indicates whether PSM sets were created.
UNIMOD_dHex_2_Hex_3_HexNAc_4_Pent_1_
dHex(2)Hex(3)HexNAc(4)Pent(1): DHex(2) Hex(3) HexNAc(4) Pent.
MS_ProteoWizard_idconvert
ProteoWizard idconvert: Converts, filters, and processes identifications from shotgun proteomics expe...
UNIMOD_Pro__His
Pro->His: Pro->His substitution.
MS_nativeID_format
nativeID format (native spectrum identifier format): Describes how the native spectrum identifiers ar...
MS_Xevo_TQD
Xevo TQD: Waters quadrupole based Xevo TQD.
MS_PolarisQ
PolarisQ: ThermoFinnigan PolarisQ MS.
MS_data_stored_in_database
data stored in database: Source file for this mzIdentML was a data set in a database.
MS_Phenyx_MaxPepPvalue
Phenyx:MaxPepPvalue: The maximal peptide p-value for a peptide to be considered for a valid identific...
MS_mass_limit_OBSOLETE
mass limit: The m/z value above which ions cannot be detected in a mass spectrometer.
MS_TMT_reagent_130N
TMT reagent 130N: The name of the sample labelled with the TMT reagent 130N.
UNIMOD_Arg__Tyr
Arg->Tyr: Arg->Tyr substitution.
MS_Reprocessed_complete_dataset
Reprocessed complete dataset: All the raw files included in the original dataset (or group of origina...
MS_LCMS_IT_TOF
LCMS-IT-TOF: Shimadzu Scientific Instruments LCMS-IT-TOF MS.
UNIMOD_CresylSaligeninPhosphate
CresylSaligeninPhosphate: Cresyl-Saligenin-phosphorylation.
UNIMOD_Asp__Val
Asp->Val: Asp->Val substitution.
UO_illuminance_unit
illuminance unit: A unit which is a standard measure of the luminous flux incident on a unit area.
UNIMOD_dHex_1_Hex_6_HexNAc_4_
dHex(1)Hex(6)HexNAc(4): DHex Hex(6) HexNAc(4).
UO_tesla
tesla: A magnetic flux density unit which is equal to one weber per square meter.
MS_DSQ
DSQ: ThermoFinnigan DSQ GC-MS.
MS_SEQUEST_ViewCV
SEQUEST:ViewCV: SEQUEST View Input Parameters.
MS_ionization_efficiency
ionization efficiency: The ratio of the number of ions formed to the number of electrons,...
MS_selected_ion_monitoring_spectrum
selected ion monitoring spectrum (SIM spectrum): Spectrum obtained with the operation of a mass spect...
UO_gram
gram: A mass unit which is equal to one thousandth of a kilogram or 10^[-3] kg.
UNIMOD_dHex_2_Hex_3_HexNAc_4_NeuAc_1_
dHex(2)Hex(3)HexNAc(4)NeuAc(1): DHex(2) Hex(3) HexNAc(4) NeuAc.
UNIMOD_dHex_2_Hex_2_HexNAc_2_
dHex(2)Hex(2)HexNAc(2): DHex(2) Hex(2) HexNAc(2).
UNIMOD_Arg__Glu
Arg->Glu: Arg->Glu substitution.
UNIMOD_Malonyl
Malonyl: Malonylation.
MS_HCD
HCD (beam-type collision-induced dissociation): A collision-induced dissociation process that occurs ...
UNIMOD_Ub_Br2
Ub-Br2: Ub Bromide probe addition.
UNIMOD_Met__His
Met->His: Met->His substitution.
MS_normalization_to_mean_of_sum_of_all_proteins
normalization to mean of sum of all proteins: Normalization of protein values to the mean of the sum ...
MS_baseline_reduction
baseline reduction: A process of removal of varying intensities generated due to variable energy abso...
MS_sustained_off_resonance_irradiation
sustained off-resonance irradiation: A technique associated with Fourier transform ion cyclotron reso...
UNIMOD_dHex_1_Hex_4_HexNAc_2_Pent_1_
dHex(1)Hex(4)HexNAc(2)Pent(1): DHex Hex(4) HexNAc(2) Pent.
MS_EI_OBSOLETE
EI (Electronic Ionization): The ionization of an atom or molecule by electrons that are typically acc...
MS_precoated_MALDI_sample_plate
precoated MALDI sample plate: Precoated MALDI sample plate.
UO_mass_per_unit_volume
mass per unit volume: A concentration unit which is a standard measure of the mass of a substance in ...
MS_SCIEX_TOF_TOF_Series_Explorer_Software
SCIEX TOF/TOF Series Explorer Software: SCIEX or Applied Biosystems software for TOF/TOF data acquisi...
UNIMOD_Methylphosphonate
Methylphosphonate: Methylphosphonylation.
MS_MS1_label_based_protein_level_quantitation
MS1 label-based protein level quantitation: MS1 label-based protein level quantitation.
UNIMOD_dHex_2_Hex_4_HexNAc_1_
dHex(2)Hex(4)HexNAc(1): DHex(2) Hex(4) HexNAc.
UNIMOD_Nethylmaleimide_water
Nethylmaleimide+water: Nethylmaleimidehydrolysis.
MS_ProteomeDiscoverer_Mascot_Protein_CutOff_Score
ProteomeDiscoverer:Mascot:Protein CutOff Score: Minimum protein score in the IonScore column that eac...
MS_NoiseFilter_OBSOLETE
NoiseFilter: Removes noise from profile spectra by using different smoothing techniques.
UNIMOD_Thiazolidine
Thiazolidine: Formaldehyde adduct.
UNIMOD_Hex_1_HexNAc_2_NeuAc_1_
Hex(1)HexNAc(2)NeuAc(1): Hex HexNAc(2) NeuAc.
MS_mzidLib_FalseDiscoveryRate
mzidLib:FalseDiscoveryRate: A routine for calculating local FDR, q-value and FDRScore for mzIdentML f...
UNIMOD_Hex_3_HexNAc_6_NeuAc_1_
Hex(3)HexNAc(6)NeuAc(1): Hex(3) HexNAc(6) NeuAc.
UNIMOD_OxLysBiotin
OxLysBiotin: Oxidized lysine biotinylated with biotin-LC-hydrazide.
MS_OMSSA_input_parameter
OMSSA input parameter: Search engine input parameters specific to OMSSA.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_d_Ions
ProteomeDiscoverer:SEQUEST:Weight of d Ions: Uses c ions for spectrum matching with this relative fac...
MS_multiple_peak_list_nativeID_format
multiple peak list nativeID format: Native format defined by index=xsd:nonNegativeInteger.
MS_Byonic_Best_Score
Byonic:Best Score: Best (largest) Byonic score of a PSM.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge2: Standard high confidence XCorr paramete...
MS_ultima
ultima: IonSpec Ultima MS.
UNIMOD_dHex_1_Hex_1_HexNAc_3_NeuGc_1_
dHex(1)Hex(1)HexNAc(3)NeuGc(1): DHex Hex HexNAc(3) NeuGc —OR— Hex(2) HexNAc(3) NeuAc.
MS_protein_name
protein name: A long name describing the function of the protein.
UNIMOD_Fluorescein
Fluorescein: 5-Iodoacetamidofluorescein (Molecular Probe, Eugene, OR).
MS_MS_GF_EValue
MS-GF:EValue: MS-GF E-value.
UNIMOD_Cation_Ca_II_
Cation:Ca[II]: Replacement of 2 protons by calcium.
MS_genome_reference_version
genome reference version: The reference genome and versioning string as used for mapping....
MS_TissueView_Software
TissueView Software: Applied Biosystems|MDS SCIEX software for tissue imaging.
MS_ProteomeDiscoverer_Number_of_input4_spectra
ProteomeDiscoverer:Number of input4 spectra: Number of spectra from 4+ precursor ions.
MS_TopMG_variable_PTM_number_in_proteoform_graph_gap
TopMG:variable PTM number in proteoform graph gap: Maximum number of variable PTMs in a proteoform gr...
UNIMOD_Cys__Ser
Cys->Ser: Cys->Ser substitution.
MS_sampling_frequency
sampling frequency: The rate of signal sampling (measurement) with respect to time.
MS_MassHunter_Mass_Profiler
MassHunter Mass Profiler: Software for quantitation and statistical analysis of TOF and Q-TOF LC/MS d...
MS_protXML_format
protXML format: The XML-based protXML file format for encoding protein identifications,...
MS_PeptideShaker_peptide_confidence
PeptideShaker peptide confidence: The probability based PeptideShaker peptide confidence.
MS_Phenyx_Trust_Parent_Charge
Phenyx:Trust Parent Charge: The parameter in Phenyx that specifies if the experimental charge state i...
UO_quarter
quarter: An imperial mass unit which is equivalent to 12.700,586,36 kilograms, or 28 pounds.
MS_SPS
SPS (synchronous prefilter selection): Synchronous prefilter selection.
MS_ProteomeDiscoverer_Lowest_Charge_State
ProteomeDiscoverer:Lowest Charge State: Minimum charge state below which peptides are filtered out.
MS_protein_level_result_list_statistic
protein-level result list statistic: A statistical metric of an entire protein list.
MS_first_column_elution_time
first column elution time: The time of elution from the first chromatographic column in the chromatog...
MS_regular_expression_for_a_digital_object_identifier__DOI_
(?:[.][0-9]+)*/(?:(?!["&\'<>])[^ \t\r \v\f])+).
UO_volume_per_unit_volume
volume per unit volume: A dimensionless concentration unit which denotes the given volume of the solu...
MS_frag__z_ion___H2O
frag: z ion - H2O: Fragmentation information, type of product: z ion without water.
MS_ion_mobility_drift_time
ion mobility drift time: Drift time of an ion or spectrum of ions as measured in an ion mobility mass...
UNIMOD_Hex_1_HexNAc_2_dHex_1_
Hex(1)HexNAc(2)dHex(1): Hex1HexNAc2dHex1.
MS_Compass_Security_Pack
Compass Security Pack: Bruker compass Security Pack software.
UO_meter_per_second_per_second
meter per second per second: An acceleration unit which is equal to the acceleration an object changi...
MS_Andromeda_score
Andromeda:score: The probability based score of the Andromeda search engine.
MS_SEQUEST_OutputLines
SEQUEST:OutputLines: Number of peptide results to show.
UO_microgram_per_liter
microgram per liter: A mass unit density which is equal to mass of an object in micrograms divided by...
UNIMOD_Hex_3_HexNAc_3_Pent_1_
Hex(3)HexNAc(3)Pent(1): Hex(3) HexNAc(3) Pent.
UNIMOD_Cys__Gln
Cys->Gln: Cys->Gln substitution.
MS_InternalCalibration
InternalCalibration: Applies an internal calibration.
MS_ProteinScape
ProteinScape: Bruker ProteinScape software.
MS_dissociative_ionization
dissociative ionization: The reaction of a gas-phase molecule that results in its decomposition to fo...
MS_inductively_coupled_plasma
inductively coupled plasma: A gas discharge ion source in which the energy to the plasma is supplied ...
MS_SEQUEST_modeCV
SEQUEST:modeCV: SEQUEST Mode Input Parameters.
MS_neutralization_reionization_mass_spectrometry
neutralization reionization mass spectrometry: With this technique, m/z selected ions form neutrals b...
UNIMOD_Hex_8_HexNAc_2_
Hex(8)HexNAc(2): Hex(8) HexNAc(2).
MS_small_molecule_identification_attribute
small molecule identification attribute: Compound identification information.
MS_number_of_precursor_ion_observations
number of precursor ion observations: The number of times the specific precursor ion has been observe...
MS_6495B_Triple_Quadrupole_LC_MS
6495B Triple Quadrupole LC/MS: The 6495B Quadrupole LC/MS system is a Agilent liquid chromatography i...
UNIMOD_Arg__Met
Arg->Met: Arg->Met substitution.
MS_peak
peak: A localized region of relatively large ion signal in a mass spectrum. Although peaks are often ...
UNIMOD_Diacylglycerol
Diacylglycerol: Diacylglycerol.
MS_search_tolerance_specification
search tolerance specification: Specification of the search tolerance.
UNIMOD_Acetyldeoxyhypusine
Acetyldeoxyhypusine: Acetyldeoxyhypusine.
MS_DELTA_plusAdvantage
DELTA plusAdvantage: ThermoFinnigan DELTA plusAdvantage MS.
MS_Xevo_TQ_XS
Xevo TQ-XS: Waters Corporation Xevo TQ-XS triple quadrupole mass spectrometer.
MS_Comet_xcorr
Comet:xcorr: The Comet result 'XCorr'.
MS_ProteomeDiscoverer_Polarity_Mode_OBSOLETE
ProteomeDiscoverer:Polarity Mode: Polarity mode (positive or negative).
MS_partial_charge_transfer_reaction_OBSOLETE
partial charge transfer reaction: Reaction of an ion with a neutral species in which some but not all...
UNIMOD_Hex_2_NeuAc_1_
Hex(2)NeuAc(1): Hex(2) NeuAc —OR— Hex HexNAc Kdn.
UNIMOD_Pro__Gln
Pro->Gln: Pro->Gln substitution.
UNIMOD_dHex_1_Hex_1_HexNAc_3_NeuAc_1_Sulf_1_
dHex(1)Hex(1)HexNAc(3)NeuAc(1)Sulf(1): DHex Hex HexNAc(3) NeuAc Sulf.
MS_CAMERA
CAMERA: Bioconductor package CAMERA for annotation of peak lists generated by xcms,...
MS_DiLeu_reagent_117
DiLeu reagent 117: The name of the sample labelled with the DiLeu reagent 117.
MS_database_file_formats
database file formats: The children of this term define file formats of the sequence database used.
MS_maldi_spot_identifier_OBSOLETE
maldi spot identifier: Maldi Spot Identifier.
MS_post_source_decay
post-source decay: A technique specific to reflectron time-of-flight mass spectrometers where product...
MS_kinetic_energy_analyzer
kinetic energy analyzer: A device for measuring the kinetic energy of charged particles using a retar...
UNIMOD_dHex_2_Hex_2_HexNAc_2_Kdn_1_
dHex(2)Hex(2)HexNAc(2)Kdn(1): DHex(2) Hex(2) HexNAc(2) Kdn.
MS_feature_level_quantification_datatype
feature-level quantification datatype: The data type of the value reported in a QuantLayer for a feat...
MS_ProLuCID_deltacn
ProLuCID:deltacn: The ProLuCID result 'DeltaCn'.
UNIMOD_dHex_2_Hex_4_HexNAc_2_
dHex(2)Hex(4)HexNAc(2): DHex(2) Hex(4) HexNAc(2).
UNIMOD_Phosphopropargyl
Phosphopropargyl: Phospho-propargylamine.
MS_PSD
PSD (post-source decay): A technique specific to reflectron time-of-flight mass spectrometers where p...
UNIMOD_MicrocinC7
MicrocinC7: (3-aminopropyl)(L-aspartyl-1-amino)phosphoryl-5-adenosine.
MS_frag__z_ion___NH3
frag: z ion - NH3: Fragmentation information, type of product: z ion without ammonia.
UNIMOD_NIC
NIC: Nicotinic Acid.
UNIMOD_Cys__Dha
Cys->Dha: Dehydroalanine (from Cysteine).
MS_diagnostic_ion_OBSOLETE
diagnostic ion: A product ion whose formation reveals structural or compositional information of its ...
MS_cross_linking_result_details
cross-linking result details: This subsection describes terms which can describe details of cross-lin...
MS_frag__a_ion___NH3
frag: a ion - NH3: Ion a-NH3 fragmentation information, type of product: a ion without ammonia.
MS_ChromaTOF_software
ChromaTOF software: Software for acquisition, processing and analysis of data for LECO instruments.
UNIMOD_Cys__Met
Cys->Met: Cys->Met substitution.
MS_TRACE_DSQ
TRACE DSQ: ThermoFinnigan TRACE DSQ MS.
MS_Cleavage_agent_regular_expression
Cleavage agent regular expression: Regular expressions for cleavage enzymes.
MS_normalized_spectral_abundance_factor
normalized spectral abundance factor: A normalized spectral abundance factor (NSAF).
UNIMOD_Val__Gln
Val->Gln: Val->Gln substitution.
MS_multiple_ion_monitoring_OBSOLETE
multiple ion monitoring: Data acquired when monitoring the ion current of a few specific m/z values....
UNIMOD_Hex_2_HexNAc_2_NeuAc_2_Sulf_1_
Hex(2)HexNAc(2)NeuAc(2)Sulf(1): Hex(2) HexNAc(2) NeuAc(2) Sulf.
MS_frag__z_2_ion
frag: z+2 ion: Fragmentation information, type of product: z+2 ion.
MS_Mascot_identity_threshold
Mascot:identity threshold: The Mascot result 'identity threshold'.
MS_software_input_parameter
software input parameter: Software input parameters.
MS_scan_direction
scan direction: Direction in terms of m/z of the scan for scanning analyzers (low to high,...
MS_static_supply_electrospray
static supply electrospray: The sprayer is loaded with sample once.
MS_apex_IV
apex IV: Bruker Daltonics' apex IV: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuAc_1_Sulf_1_
dHex(1)Hex(2)HexNAc(2)NeuAc(1)Sulf(1): DHex Hex(2) HexNAc(2) NeuAc Sulf.
UNIMOD_dHex_4_Hex_1_HexNAc_3_Kdn_1_
dHex(4)Hex(1)HexNAc(3)Kdn(1): DHex(4) Hex HexNAc(3) Kdn.
MS_SEQUEST_InfoAndLog
SEQUEST:InfoAndLog:
MS_infusion
infusion: The continuous flow of solution of a sample into the ionization source.
MS_source_file
source file (raw data file): Describes the type of file and its content.
MS_nier_johnson_geometry_OBSOLETE
nier-johnson geometry: An arrangement for a double-focusing mass spectrometer in which a deflection o...
MS_adduct_ion_attribute
adduct ion attribute: Attribute describing an adduct formation.
MS_OpenXQuest_match_odds
OpenXQuest:match-odds: OpenXQuest's match-odds subscore.
MS_doi
doi (Digital Object Identifier (DOI)): DOI unique identifier of a publication.
MS_atmospheric_pressure_matrix_assisted_laser_desorption_ionization
atmospheric pressure matrix-assisted laser desorption ionization: Matrix-assisted laser desorption io...
MS_Sequence_database_filters
Sequence database filters: Sequence database filters which actually can contains values,...
PEFF_PE
PE: Protein Evidence; A UniprotKB code.
MS_Byonic_Delta_Score
Byonic:Delta Score: The drop in Byonic score from the top-scoring peptide to the next peptide with di...
MS_stored_waveform_inverse_fourier_transform
stored waveform inverse fourier transform: A technique to create excitation waveforms for ions in FT-...
MS_parameter_file
parameter file: Parameter file used to configure the acquisition of raw data on the instrument.
MS_Bruker_FID_nativeID_format__combined_spectra
Bruker FID nativeID format, combined spectra: Bruker FID comma separated list of spectra that have be...
MS_intermediate_PSM_list
intermediate PSM list: A flag on a list of PSMs (SpectrumIdentificationList) to indicate that this is...
MS_Applied_Biosystems_software
Applied Biosystems software: Applied Biosystems|MDS SCIEX software for data acquisition and analysis.
UNIMOD_Asp__Glu
Asp->Glu: Asp->Glu substitution.
MS_ProteinScape_second_round_Mascot
ProteinScape:second round Mascot: Flag indicating a second round search with Mascot.
MS_Sonar_Score
Sonar:Score: The Sonar score.
UNIMOD_Hex_3_HexNAc_5_
Hex(3)HexNAc(5): Hex(3) HexNAc(5).
MS_ProteomeDiscoverer_SEQUEST_Fragment_Ion_Cutoff_Percentage
ProteomeDiscoverer:SEQUEST:Fragment Ion Cutoff Percentage: Percentage of the theoretical ions that mu...
MS_Xevo_G2_S_Tof
Xevo G2-S Tof: Waters oa-ToF based Xevo G2-S Tof.
UNIMOD_EDEDTIDVFQQQTGG
EDEDTIDVFQQQTGG: Sumoylation by SUMO-2/3 after Cyanogen bromide (CNBr) cleavage.
MS_selected_ion_monitoring_chromatogram
selected ion monitoring chromatogram: Chromatogram created by creating an array of the measurements o...
MS_ProteinScape_SearchEvent
ProteinScape SearchEvent: Source data for this mzIdentML was a ProteinScape SearchEvent.
UNIMOD_Diethylphosphothione
Diethylphosphothione: O-diethylphosphothione.
UNIMOD_Ala__Tyr
Ala->Tyr: Ala->Tyr substitution.
MS_declustering_potential
declustering potential: Potential difference between the orifice and the skimmer in volts.
MS_Acquity_UPLC_PDA
Acquity UPLC PDA: Acquity UPLC Photodiode Array Detector.
MS_collisional_cross_sectional_area
collisional cross sectional area: Structural molecular descriptor for the effective interaction area ...
MS_ProteomeDiscoverer_SEQUEST_Use_Average_Fragment_Masses
ProteomeDiscoverer:SEQUEST:Use Average Fragment Masses: Use average masses for the fragments.
UNIMOD_Val__Pro
Val->Pro: Val->Pro substitution.
MS_moving_average_smoothing
moving average smoothing: Reduces intensity spikes by averaging each point with two or more adjacent ...
MS_protein_pair_level_global_FDR
protein-pair-level global FDR: Estimation of the global false discovery rate of proteins-pairs in cro...
UO_pascal
pascal: A pressure unit which is equal to the pressure or stress on a surface caused by a force of 1 ...
MS_MS_MS_in_Time_OBSOLETE
MS/MS in Time: A tandem mass spectrometry method in which product ion spectra are recorded in a singl...
MS_MALDI
MALDI (matrix-assisted laser desorption ionization): The formation of gas-phase ions from molecules t...
MS_x_Tracker
x-Tracker: X-Tracker generic tool for quantitative proteomics.
MS_Synapt_G2_MS
Synapt G2 MS: Waters oa-ToF based Synapt G2 MS.
UO_tera
tera: A prefix in the metric system denoting a factor of ten to the power of 12.
MS_ProteinScape_ProfoundProbability
ProteinScape:ProfoundProbability: The Profound probability score stored by ProteinScape.
MS_iTRAQ_reagent_119
iTRAQ reagent 119: The name of the sample labelled with the iTRAQ reagent 119.
MS_MS_OBSOLETE
MS (mass spectrometry): The branch of science that deals with all aspects of mass spectrometers and t...
MS_multiple_stage_mass_spectrometry_spectrum
multiple-stage mass spectrometry spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments d...
MS_6520A_Quadrupole_Time_of_Flight_LC_MS
6520A Quadrupole Time-of-Flight LC/MS: The 6520A Quadrupole Time-of-Flight LC/MS is a Agilent liquid ...
MS_ProteomeDiscoverer_2__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:2. Dynamic Modification: ProteomeDiscoverer's 2nd dynamic post-translational modif...
MS______EZ_____P_
(?<=[EZ])(?!P): Regular expression for V8-E.
UNIMOD_Hex_1_NeuAc_1_Pent_1_
Hex(1)NeuAc(1)Pent(1): Hex NeuAc Pent.
UNIMOD_Menadione_HQ
Menadione-HQ: Menadione hydroquinone derivative.
UO_square_centimeter
square centimeter: An area unit which is equal to one ten thousandth of a square meter or 10^[-4] m^[...
UNIMOD_dHex_1_Hex_3_HexNAc_5_
dHex(1)Hex(3)HexNAc(5): DHex Hex(3) HexNAc(5).
MS_DSQ_II
DSQ II: Thermo Scientific DSQ II GC-MS.
MS_TOPP_MapAlignerPoseClustering
TOPP MapAlignerPoseClustering: Corrects retention time distortions between maps using a pose clusteri...
MS_Bruker_FID_format
Bruker FID format: Bruker FID file format.
MS_low_energy_collisions_OBSOLETE
low energy collisions: A collision between an ion and neutral species with translational energy appro...
MS_Q_Exactive_HF
Q Exactive HF: Thermo Scientific Q Exactive.
MS_thresholding
thresholding (low intensity data point removal): The removal of very low intensity data points that a...
UNIMOD_dHex_2_Hex_2_HexNAc_3_
dHex(2)Hex(2)HexNAc(3): DHex(2) Hex(2) HexNAc(3).
MS_ProteomeDiscoverer_Mascot_Weight_of_C_Ions
ProteomeDiscoverer:Mascot:Weight of C Ions: Determines if to use C ions for spectrum matching.
MS_H2O_neutral_loss_OBSOLETE
H2O neutral loss: Neutral loss of water.
MS_protein_level_global_FDR
protein-level global FDR: Estimation of the global false discovery rate of proteins.
UO_mile
mile: A length unit which is equal to 1,609.344 metres, or 8 furlongs.
MS_TopMG_use_TopFD_feature
TopMG:use TopFD feature: Proteoform identification using TopFD feature file.
MS_moving_wire
moving wire: Continuous moving surface in the form of a wire which passes through an ion source carry...
UO_millimolal
millimolal: A molality unit which is equal to one thousandth of a molal or 10^[-3] m.
UNIMOD_Asp__Trp
Asp->Trp: Asp->Trp substitution.
MS_HyStar
HyStar: Bruker software for hyphenated experiments.
UNIMOD_Glu__Arg
Glu->Arg: Glu->Arg substitution.
MS_peptide_group_ID
peptide group ID: Peptide group identifier for peptide-level stats.
MS_ProteomeDiscoverer_Minimal_peptide_probability
ProteomeDiscoverer:Minimal peptide probability: Minimum adjusted peptide probability contributing to ...
UNIMOD_iodoTMT6plex
iodoTMT6plex: Sixplex iodoacetyl Tandem Mass Tag®.
UNIMOD_Lys
Lys: Addition of lysine due to transpeptidation.
MS_ProteomeDiscoverer_Max_Modifications_Per_Peptide
ProteomeDiscoverer:Max Modifications Per Peptide: Maximum number of different modifications that a pe...
MS_TOF
TOF (time-of-flight): Instrument that separates ions by m/z in a field-free region after acceleration...
MS_LECO_software
LECO software: LECO software for data acquisition and analysis.
UNIMOD_Label_15N_2_2H_9_
Label:15N(2)2H(9): SILAC label.
UNIMOD_Label_2H_7_15N_4_
Label:2H(7)15N(4): Label:2H(7)15N(4).
UNIMOD_Label_15N_4_
Label:15N(4): SILAC 15N(4).
MS_reaction
reaction (transition): A set of two m/z values corresponding to the precursor m/z and a fragment m/z ...
UNIMOD_Hex_3_HexNAc_4_Sulf_1_
Hex(3)HexNAc(4)Sulf(1): Hex(3) HexNAc(4) Sulf.
MS_TopMG_N_term_form
TopMG:N-term form: N-terminal forms of proteins allowed in TopMG searching.
UO_volume_percentage
volume percentage: A dimensionless concentration unit which denotes the volume of the solute in mL pe...
MS_collision_induced_dissociation
collision-induced dissociation: The dissociation of an ion after collisional excitation....
MS_ACQUITY_UPLC_I_Class
ACQUITY UPLC I-Class: Waters LC-system ACQUITY UPLC I-Class.
MS_pyrolysis_mass_spectrometry
pyrolysis mass spectrometry: A mass spectrometry technique in which the sample is heated to the point...
MS_TopFD
TopFD: Top-down mass spectral feature detection.
MS_MAT253
MAT253: ThermoFinnigan MAT253 MS.
MS_reflectron_off
reflectron off: Reflectron is off.
MS_frag__b_ion
frag: b ion: Fragmentation information, type of product: b ion.
UNIMOD_Hydroxycinnamyl
Hydroxycinnamyl: Hydroxycinnamyl.
MS_MaxQuant_P_site_localization_probability
MaxQuant:P-site localization probability: The P-site localization probability value from MaxQuant sof...
MS_secondary_ionization
secondary ionization: The process in which ions are ejected from a sample surface as a result of bomb...
MS_sampled_noise_m_z_array
sampled noise m/z array: A data array of parallel, independent m/z values for a sampling of noise acr...
UNIMOD_Decanoyl
Decanoyl: Lipid.
MS_ProteomeDiscoverer_min_peptide_length
ProteomeDiscoverer:min peptide length: Minimum peptide length.
UNIMOD_Gln__Ala
Gln->Ala: Gln->Ala substitution.
MS_ITQ_900
ITQ 900: Thermo Scientific ITQ 900 GC-MS.
UO_day
day: A time unit which is equal to 24 hours.
UNIMOD_Val__Tyr
Val->Tyr: Val->Tyr substitution.
UNIMOD_Hex_6_HexNAc_4_Me_3_Pent_1_
Hex(6)HexNAc(4)Me(3)Pent(1): Hex(6) HexNAc(4) Me(3) Pent.
MS_ICAT_heavy_reagent
ICAT heavy reagent: The name of the sample labelled with the heavy ICAT label.
MS_MRMPilot_Software
MRMPilot Software: Applied Biosystems|MDS SCIEX software for MRM assay development.
UO_microsievert
microsievert: A dose equivalent unit which is equal to one millionth of a sievert or 10^[-6] Sv.
UNIMOD_ICAT_D
ICAT-D: Applied Biosystems original ICAT(TM) d0.
MS_MAT95XP
MAT95XP: ThermoFinnigan MAT95XP MS.
MS_fast_atom_bombardment_ionization
fast atom bombardment ionization: The ionization of any species by the interaction of a focused beam ...
MS_IsobariQ
IsobariQ: A quantitative software package designed for analysis of IPTL, TMT and iTRAQ data.
MS_TOPP_PrecursorMassCorrector
TOPP PrecursorMassCorrector: Correct the precursor entries of tandem MS scans.
MS_number_of_peaks_used
number of peaks used: The number of peaks from the original peak list that are used to calculate the ...
UNIMOD_Hex_2_HexNAc_3_NeuAc_1_NeuGc_1_
Hex(2)HexNAc(3)NeuAc(1)NeuGc(1): Hex(2) HexNAc(3) NeuAc NeuGc.
UNIMOD_glyoxalAGE
glyoxalAGE: Glyoxal-derived AGE.
UNIMOD_Cys__Ala
Cys->Ala: Cys->Ala substitution.
MS_search_engine_specific_score
search engine specific score: Search engine specific scores.
UNIMOD_IGBP_13C_2_
IGBP:13C(2): Heavy IDBEST tag for quantitation.
MS_absorption_spectrum
absorption spectrum: A plot of the relative intensity of electromagnetic radiation absorbed by atoms ...
MS_LTQ_Orbitrap
LTQ Orbitrap: Finnigan LTQ Orbitrap MS.
MS_XPRESS
XPRESS: A program in the TPP that calculates PSM-level abundances based on 2-channel isotope-labelled...
UNIMOD_Gly__Phe
Gly->Phe: Gly->Phe substitution.
MS_mz5_format
mz5 format: mz5 file format, modelled after mzML.
UNIMOD_dHex_2_Hex_4_HexA_1_HexNAc_3_Sulf_1_
dHex(2)Hex(4)HexA(1)HexNAc(3)Sulf(1): DHex(2) Hex(4) HexA HexNAc(3) Sulf.
UO_kilobasepair
kilobasepair: A unit equal to one thousand base pairs.
UNIMOD_Tyr__Xle
Tyr->Xle: Tyr->Leu/Ile substitution.
UNIMOD_dHex_1_Hex_4_HexNAc_1_Pent_1_
dHex(1)Hex(4)HexNAc(1)Pent(1): DHex Hex(4) HexNAc Pent.
UNIMOD_Xle__Ala
Xle->Ala: Leu/Ile->Ala substitution.
MS_Paragon__bias_correction
Paragon: bias correction: The Paragon method setting that controls whether 'Bias Correction' is invok...
UO_ug_disk
ug/disk: A unit which is equal to one microgram per disk, where a disk is some physical surface/conta...
MS_label_free_proteingroup_level_quantitation
label-free proteingroup level quantitation: Label-free proteingroup level quantitation.
MS_IMS_OBSOLETE
IMS (ion mobility spectrometry): The separation of ions according to their velocity through a buffer ...
MS_TopMG_spectral_E_value
TopMG:spectral E-value: TopMG spectrum-level E-value.
MS_product_ion_series_ordinal
product ion series ordinal: The ordinal of the fragment within a specified ion series....
UNIMOD_Hex_1_HexNAc_1_Sulf_1_
Hex(1)HexNAc(1)Sulf(1): Hex HexNAc Sulf.
UNIMOD_Cys__SecNEM_2H_5_
Cys->SecNEM:2H(5): D5 N-ethylmaleimide on selenocysteines.
MS_fragment_ion_m_z
fragment ion m/z (product ion m/z): The m/z of the product ion.
UNIMOD_dHex_3_Hex_1_HexNAc_2_Kdn_1_
dHex(3)Hex(1)HexNAc(2)Kdn(1): DHex(3) Hex HexNAc(2) Kdn.
UNIMOD_Label_13C_6_15N_2__GG
Label:13C(6)15N(2)+GG: 13C(6) 15N(2) Lysine glygly.
UNIMOD_SulfoGMBS
SulfoGMBS: High molecular absorption label for proteins.
UNIMOD_Gln__Phe
Gln->Phe: Gln->Phe substitution.
UNIMOD_Pro__Arg
Pro->Arg: Pro->Arg substitution.
MS_confident_peptide_qualification
confident peptide qualification: The point of this entry is to define what is meant by confident for ...
UNIMOD_Asp__Met
Asp->Met: Asp->Met substitution.
MS_sequence_sub_set_protein
sequence sub-set protein: A protein with a sub-set of the peptide sequence matches for another protei...
UNIMOD_LRGG
LRGG: Ubiquitination.
MS_ProteomeDiscoverer_Mascot_Number_of_attempts_to_submit_the_search
ProteomeDiscoverer:Mascot:Number of attempts to submit the search: Number of attempts to submit the M...
UO_kelvin
kelvin: A thermodynamic temperature unit which is equal to the fraction 1/273.16 of the thermodynamic...
MS_sum_of_spectra
sum of spectra: Spectra Sum.
UNIMOD_Hex_3_HexNAc_3_NeuAc_1_Sulf_1_
Hex(3)HexNAc(3)NeuAc(1)Sulf(1): Hex(3) HexNAc(3) NeuAc Sulf.
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge1: FT medium confidence XCorr parameter f...
MS_charge_transfer_reaction_OBSOLETE
charge transfer reaction: The reaction of an ion with a neutral species in which some or all of the c...
MS_wolf
wolf (massWolf): A software for converting Waters raw directory format to mzXML or mzML....
MS_ProteomeDiscoverer_1__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:1. Dynamic Modification: ProteomeDiscoverer's 1st dynamic post-translational modif...
MS_protein_inference_confidence_category
protein inference confidence category: Confidence category of inferred protein (conclusive,...
MS_autoflex
autoflex: Bruker Daltonics' autoflex: MALDI TOF.
MS_ProteomeDiscoverer_Mascot_Weight_of_W_Ions
ProteomeDiscoverer:Mascot:Weight of W Ions: Determines if to use W ions for spectrum matching.
MS_MassLynx
MassLynx: Micromass software for data acquisition and analysis.
UNIMOD_Met__Glu
Met->Glu: Met->Glu substitution.
MS_photodiode_array_detector
photodiode array detector: An array detector used to record spectra in the ultraviolet and visible re...
MS_Quistor
Quistor (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three dimensi...
MS_autoflex_II
autoflex II: Bruker Daltonics' autoflex II: MALDI TOF.
MS_nominal_mass_OBSOLETE
nominal mass: The mass of an ion or molecule calculated using the mass of the most abundant isotope o...
UNIMOD_Hex_1_HexNAc_2_NeuAc_1_Sulf_1_
Hex(1)HexNAc(2)NeuAc(1)Sulf(1): Hex HexNAc(2) NeuAc Sulf.
MS_autoflex_III_smartbeam
autoflex III smartbeam: Bruker Daltonics' autoflex III smartbeam: MALDI TOF.
MS_chromatogram_type
chromatogram type: Broad category or type of a chromatogram.
UNIMOD_Cys__Trp
Cys->Trp: Cys->Trp substitution.
UNIMOD_Hex_1_HexNAc_1_NeuGc_4_
Hex(1)HexNAc(1)NeuGc(4): Hex HexNAc NeuGc(4).
UO_gram_per_liter
gram per liter: A mass unit density which is equal to mass of an object in grams divided by the volum...
UNIMOD_Met__Trp
Met->Trp: Met->Trp substitution.
UO_deca
deca: A prefix in the metric system denoting a factor of ten.
MS_6540_Q_TOF_LC_MS
6540 Q-TOF LC/MS: The 6540 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
MS_ProteomeDiscoverer_Default_FDR_calculator
ProteomeDiscoverer:Default FDR calculator: The default FDR calculator as globally unique identifier (...
MS_ProteomeDiscoverer_Number_of_input1_spectra
ProteomeDiscoverer:Number of input1 spectra: Number of spectra from 1+ precursor ions.
MS_MaxQuant_PTM_Score
MaxQuant:PTM Score: The PTM score from MaxQuant software.
MS_ProteomeDiscoverer_Min_Precursor_Mass
ProteomeDiscoverer:Min Precursor Mass: Minimum mass limit of a singly charged precursor ion.
UNIMOD_Met__Aha
Met->Aha: Methionine replacement by azido homoalanine.
MS_PeptideShaker_peptide_confidence_type
PeptideShaker peptide confidence type: PeptideShaker quality criteria for the confidence of peptide i...
UO_megavolt
megavolt: An electric potential difference unit which is equal to one million volts or 10^[6] V.
MS_PSM_level_search_engine_specific_statistic
PSM-level search engine specific statistic: Search engine specific peptide spectrum match scores.
MS_peptide_sequence_level_identification_statistic
peptide sequence-level identification statistic: Identification confidence metric for a peptide.
MS_Atmostpheric_Pressure_Photoionization_OBSOLETE
Atmostpheric Pressure Photoionization: Atmospheric pressure chemical ionization in which the reactant...
UNIMOD_Hex_5_HexNAc_2_
Hex(5)HexNAc(2): N-linked glycan core.
UNIMOD_FP_Biotin
FP-Biotin: 10-ethoxyphosphinyl-N-(biotinamidopentyl)decanamide.
MS_SEQUEST_SequenceHeaderFilter
SEQUEST:SequenceHeaderFilter: String in the header of a sequence entry for that entry to be searched.
MS_sum_of_MatchedFeature_values_OBSOLETE
sum of MatchedFeature values: Peptide quantification value calculated as sum of MatchedFeature quanti...
MS_Additional_associated_raw_file_URI
Additional associated raw file URI: Additional URI of one raw data file associated to the PRIDE exper...
MS_TMT_quantitation_analysis
TMT quantitation analysis: Quantitation analysis using the Thermo Fisher amine-reactive tandem mass t...
MS_TSQ_Vantage
TSQ Vantage: TSQ Vantage.
UO_picogram
picogram: A mass unit which is equal to 10^[-12] g.
MS_TagRecon_MVH
TagRecon:MVH (MyriMatch:MVH): Using the multivariate hypergeometric distribution and a peak list divi...
MS_decoy_DB_from_IPI_mouse_OBSOLETE
decoy DB from IPI_mouse: Decoy database from a International Protein Index database for Mus musculus.
UNIMOD_Tyr__Gly
Tyr->Gly: Tyr->Gly substitution.
MS_molecule_taxonomy
molecule taxonomy: The taxonomy of the resultant molecule from the search.
MS_iProphet
iProphet: A program in the TPP that calculates distinct peptide probabilities based on several lines ...
UNIMOD_Ammonia_loss
Ammonia-loss: Loss of ammonia.
UO_year
year: A time unit which is equal to 12 months which in science is taken to be equal to 365....
UNIMOD_2HPG
2HPG: Bis(hydroxphenylglyoxal) arginine.
MS_matrix_application_type
matrix application type: Describes the technique how the matrix is put on the sample target.
MS_precursor_recalculation
precursor recalculation: A process that recalculates existing precursor selected ions with one or mor...
UNIMOD_Hex_5_HexNAc_5_
Hex(5)HexNAc(5): Hex(5) HexNAc(5).
MS_TMT_reagent_128
TMT reagent 128: The name of the sample labelled with the TMT reagent 128.
MS_PSM_level_local_FDR
PSM-level local FDR: Estimation of the local false discovery rate of peptide spectrum matches.
UNIMOD_Asn__Trp
Asn->Trp: Asn->Trp substitution.
MS_charge_state_calculation
charge state calculation: A process that infers the charge state of an MSn spectrum's precursor(s) by...
MS_peptide_end_on_chromosome
peptide end on chromosome: The overall end position on the chromosome to which a peptide has been map...
MS_constant_neutral_gain_spectrum
constant neutral gain spectrum: A spectrum formed of all product ions that have been produced by gain...
MS_MALDI_Synapt_HDMS
MALDI Synapt HDMS: Waters oa-ToF based MALDI Synapt HDMS.
MS_MetaMorpheus_protein_score
MetaMorpheus:protein score: MetaMorpheus score for protein groups.
MS_Mascot_expectation_value
Mascot:expectation value: The Mascot result 'expectation value'.
MS_____K____P_
(?<=K)(?!P): Regular expression for Lys-C.
UNIMOD_Glucosylgalactosyl
Glucosylgalactosyl: Glucosylgalactosyl hydroxylysine.
MS_PIA_protein_inference_filter
PIA:protein inference filter: A filter used by PIA for the protein inference.
MS_chemical_compound_formula
chemical compound formula: A combination of symbols used to express the chemical composition of a com...
MS_aromatic_ion_OBSOLETE
aromatic ion: A planar cyclic ion that obeys the Hueckel (4n + 2) rule where n is a positive integer ...
MS_msalign_format
msalign format: msalign file format.
MS_autoflex_TOF_TOF
autoflex TOF/TOF: Bruker Daltonics' autoflex TOF/TOF MS: MALDI TOF.
UNIMOD_Carboxyethyl
Carboxyethyl: Carboxyethyl.
MS_surface_ionization
surface ionization: The ionization of a neutral species when it interacts with a solid surface with a...
MS_TMT_reagent
TMT reagent: Tandem mass tag reagent used in TMT, glycoTMT, iodoTMT, aminoxyTMT or hydrazideTMT isoba...
MS_inlet_type
inlet type: The nature of the sample inlet.
MS_PIA_filter
PIA:filter: A filter used for the report generation.
std::multimap< std::string, CVID > otherRelations
MS_Bruker_Daltonics_maXis_series
Bruker Daltonics maXis series: Bruker Daltonics' maXis series.
MS_Amanda
Amanda: Amanda scoring system for PSM identification.
MS_Progenesis_feature_intensity
Progenesis:feature intensity: The data type feature intensity produced by Progenesis LC-MS.
MS_param__immonium_ion
param: immonium ion: Parameter information, type of product: immonium ion.
MS_quantification_object_attribute
quantification object attribute: Attributes describing the details of an object relevant for reportin...
MS_desorption_ionization
desorption ionization: The formation of ions from a solid or liquid material after the rapid vaporiza...
MS_mzidLib_Mzidentml2Csv
mzidLib:Mzidentml2Csv: A tool for converting mzIdentML files to CSV format.
MS_SSMS_OBSOLETE
SSMS (Spark Source Mass Spectrometry): Mass spectrometry using spark ionization.
MS_Shimadzu_Biotech_nativeID_format
Shimadzu Biotech nativeID format: Native format defined by source=xsd:string start=xsd:nonNegativeInt...
UO_furlong
furlong: A length unit which is equal to 20,116.8 metres, 660 feet, or 10 chains.
MS_TOPP_FeatureFinderRaw
TOPP FeatureFinderRaw: Detects two-dimensional features in uncentroided LC-MS data.
MS_ProteinExtractor_UseProteinSolver
ProteinExtractor:UseProteinSolver: Flag indicating to include ProteinSolver scoring for calculation o...
MS_below_precursor_intensity_dominance_charge_state_calculation
below precursor intensity dominance charge state calculation: Infers charge state as single or ambigu...
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge3: Standard medium confidence XCorr para...
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_2_
dHex(1)Hex(3)HexA(1)HexNAc(2): DHex Hex(3) HexA HexNAc(2).
MS_MultiQuant
MultiQuant: Applied Biosystems|MDS SCIEX software for MRM-based quantitation.
MS_lowest_observed_m_z
lowest observed m/z: Lowest m/z value observed in the m/z array.
MS_Progenesis_protein_normalised_abundance
Progenesis:protein normalised abundance: The data type normalised abundance for proteins produced by ...
MS_mean_charge_array
mean charge array: Array of mean charge values where the mean charge is calculated as a weighted mean...
MS_MSPathFinder_PepQValue
MSPathFinder:PepQValue: MSPathFinder peptide-level Q-value.
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Integration_Method
ProteomeDiscoverer:Reporter Ions Quantizer:Integration Method: Specifies which peak to select if more...
MS_Q_Tof_Ultima
Q-Tof Ultima: Waters oa-ToF based Q-Tof Ultima.
UNIMOD_MDCC
MDCC: Covalent linkage of maleimidyl coumarin probe (Molecular Probes D-10253).
MS_TEMPUS_TOF
TEMPUS TOF: ThermoFinnigan TEMPUS TOF MS.
MS_TOPP_ProteinQuantifier
TOPP ProteinQuantifier: Computes protein abundances from annotated feature/consensus maps.
MS_open_split
open split: A division of flowing stream of liquid into two streams.
MS_ProteomeDiscoverer_1__Static_Terminal_Modification
ProteomeDiscoverer:1. Static Terminal Modification: Determine 1st static terminal post-translational ...
UNIMOD_dHex_2_Hex_3_HexNAc_2_Sulf_1_
dHex(2)Hex(3)HexNAc(2)Sulf(1): DHex(2) Hex(3) HexNAc(2) Sulf.
UNIMOD_Ser__Lys
Ser->Lys: Ser->Lys substitution.
UNIMOD_Argbiotinhydrazide
Argbiotinhydrazide: Oxidized Arginine biotinylated with biotin hydrazide.
MS_param__y_ion_H2O_DEPRECATED
param: y ion-H2O DEPRECATED:
MS_embl_em
embl em: EMBL entry format.
UO_millisecond
millisecond: A time unit which is equal to one thousandth of a second or 10^[-3] s.
UNIMOD_Label_13C_9_
Label:13C(9): 13C(9) Silac label.
MS_SEQUEST_selectCV
SEQUEST:selectCV: SEQUEST Select Input Parameters.
MS_MaxQuant_PTM_Score_threshold
MaxQuant:PTM Score threshold: Threshold for MaxQuant:PTM Score.
MS_TopMG_proteoform_graph_gap_size
TopMG:proteoform graph gap size: Gap size in constructing proteoform graph.
UNIMOD_dHex_1_Hex_2_HexNAc_4_
dHex(1)Hex(2)HexNAc(4): DHex Hex(2) HexNAc(4).
UNIMOD_lapachenole
lapachenole: Lapachenole photochemically added to cysteine.
MS_DB_composition_target_decoy
DB composition target+decoy: Decoy database composition: database contains original (target) and deco...
MS_second_OBSOLETE
second: Acquisition time in seconds.
UNIMOD_PhosphoUridine
PhosphoUridine: Uridine phosphodiester.
MS_ProteomeDiscoverer_Mascot_Please_Do_not_Touch_this
ProteomeDiscoverer:Mascot:Please Do not Touch this: Unknown Mascot parameter which ProteomeDiscoverer...
UNIMOD_dHex_1_Hex_2_HexNAc_3_
dHex(1)Hex(2)HexNAc(3): DHex Hex(2) HexNAc(3).
UNIMOD_His__Met
His->Met: His->Met substitution.
MS_target_inclusion_exclusion_priority
target inclusion exclusion priority: A priority setting specifying whether included or excluded targe...
MS_probability_for_proteins
probability for proteins: Probability that a specific protein sequence has been correctly identified ...
MS_____K_
(?<=K): Regular expression for Lys-C/P.
UNIMOD_His__Glu
His->Glu: His->Glu substitution.
MS_Comet_total_ions
Comet:total ions: The Comet result 'Total Ions'.
UNIMOD_UgiJoullieProGly
UgiJoullieProGly: Side reaction of PG with Side chain of aspartic or glutamic acid.
MS_error_on_protein_ratio
error on protein ratio: Error on protein ratio.
MS_negative_ion_mode_OBSOLETE
negative ion mode: OBSOLETE.
MS_ProteomeDiscoverer_max_peptide_length
ProteomeDiscoverer:max peptide length: Maximum peptide length.
MS_precursor_activation_attribute
precursor activation attribute: Precursor Activation Attribute.
UO_watt_hour
watt-hour: An energy unit which is equal to the amount of electrical energy equivalent to a one-watt ...
MS_TOPP_ConsensusID
TOPP ConsensusID: Computes a consensus identification from peptide identifications of several identif...
MS_SEQUEST_ProcessAll
SEQUEST:ProcessAll:
MS_TOPP_SpectraFilterNLargest
TOPP SpectraFilterNLargest: Retains the n largest peaks of a peak spectra.
UNIMOD_dHex_1_Hex_3_HexNAc_3_Pent_2_
dHex(1)Hex(3)HexNAc(3)Pent(2): DHex Hex(3) HexNAc(3) Pent(2).
MS_modification_parameters
modification parameters: Modification parameters for the search engine run.
MS_PerSeptive_PKS_format
PerSeptive PKS format: PerSeptive peak list file format.
MS_mass_number_OBSOLETE
mass number: The sum of the protons and neutrons in an atom, molecule or ion.
MS_preset_scan_configuration
preset scan configuration: A user-defined scan configuration that specifies the instrumental settings...
MS_MSQuant_PTM_score_threshold
MSQuant:PTM-score threshold: Threshold for MSQuant:PTM-score.
UNIMOD_Furan
Furan: Chemical modification of the iodinated sites of thyroglobulin by Suzuki reaction.
MS_completion_time
completion time: The time that a data processing action was finished.
UO_micro
micro: A prefix in the metric system denoting a factor of 10 to the power of -6.
UO_watt_per_steradian
watt per steradian: A radiant intensity unit which is equal to one kilogram meter squared per second ...
UNIMOD_Label_13C_1_2H_3_
Label:13C(1)2H(3): SILAC.
MS_quadrupole
quadrupole: A mass spectrometer that consists of four parallel rods whose centers form the corners of...
UNIMOD_Hex_4_HexNAc_1_
Hex(4)HexNAc(1): Hex(4) HexNAc.
UNIMOD_Cy3_maleimide
Cy3-maleimide: Cy3 Maleimide mono-Reactive dye.
MS_Profound_z_value
Profound:z value: The Profound z value.
UO_katal_per_liter
katal per liter: A catalytic (activity) concentration unit which is equal to 1 katal activity of a ca...
UNIMOD_Glutathione
Glutathione: Glutathione disulfide.
MS_image_current_detector
image current detector (inductive detector): Inductive detector.
UNIMOD_Xlink_BuUrBu_111_
Xlink:BuUrBu[111]: BuUr fragment of BuUrBu crosslinker.
UO_pascal_second
pascal second: A viscosity unit which is equal to one pascale per second.
MS_ProteinExtractor_ProteinSolverUniqueScore
ProteinExtractor:ProteinSolverUniqueScore: In the final result each protein must have at least one pe...
MS_charge_inversion_reaction_OBSOLETE
charge inversion reaction: Reaction of an ion with a neutral species in which the charge on the produ...
MS_ProteomeDiscoverer_Maximum_Protein_References_Per_Peptide
ProteomeDiscoverer:Maximum Protein References Per Peptide: Maximum number of proteins that a single i...
MS_calibration_spectrum
calibration spectrum: A spectrum derived from a special calibration source, rather than from the prim...
MS_non_standard_data_array
non-standard data array: A data array that contains data not covered by any other term in this group....
MS_protein_level_statistical_threshold
protein-level statistical threshold: Estimated statistical threshold at protein-level.
MS_peptide_sequence_level_global_FNR
peptide sequence-level global FNR: Estimation of the global false negative rate for distinct peptides...
MS_sequence_level_spectral_count
sequence-level spectral count: The number of MS2 spectra identified for a raw peptide sequence withou...
MS_group_PSMs_by_sequence_with_modifications_and_charge
group PSMs by sequence with modifications and charge: Group PSMs by distinct peptide sequence with ta...
MS_TOPP_ProteinInference
TOPP ProteinInference: Infer proteins from a list of (high-confidence) peptides.
UNIMOD_dHex_1_Hex_5_HexNAc_4_NeuAc_2_
dHex(1)Hex(5)HexNAc(4)NeuAc(2): DHex Hex(5) HexNAc(4) NeuAc(2).
MS_MSPathFinder_QValue
MSPathFinder:QValue: MSPathFinder Q-value.
MS_LipidHunter
LipidHunter: Software for identification of phospholipids by high-throughput processing of LC-MS and ...
MS_HCTplus
HCTplus: Bruker Daltonics' HCTplus: ESI Q-TOF, Nanospray, APCI, APPI.
UNIMOD_Bacillosamine
Bacillosamine: 2,4-diacetamido-2,4,6-trideoxyglucopyranose.
MS_Paragon__cysteine_alkylation
Paragon: cysteine alkylation: The Paragon method setting indicating the actual cysteine alkylation ag...
MS_TOPP_FeatureFinderIsotopeWavelet
TOPP FeatureFinderIsotopeWavelet: Detects two-dimensional features in uncentroided LC-MS data with a ...
MS_XCMS_area
XCMS:area: Feature intensity produced by XCMS findPeaks() from feature area that is not normalized by...
MS_z
z (charge state): The charge state of the ion, single or multiple and positive or negatively charged.
UO_colony_forming_unit_per_volume
colony forming unit per volume: A concentration unit which a measure of viable bacterial numbers in a...
MS_Associated_file_URI
Associated file URI: URI of one external file associated to the PRIDE experiment (maybe through a PX ...
MS_esquire_6000
esquire 6000: Bruker Daltonics' esquire 6000: linear ion trap, ESI, MALDI, Nanospray,...
MS_ProteomeDiscoverer_Number_of_input2_spectra
ProteomeDiscoverer:Number of input2 spectra: Number of spectra from 2+ precursor ions.
UO_minute
minute: A time unit which is equal to 60 seconds.
MS_SEQUEST_sortCV
SEQUEST:sortCV: SEQUEST View / Sort Input Parameters.
MS_isoelectric_point
isoelectric point: The pH of a solution at which a charged molecule does not migrate in an electric f...
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Precursor_Overtones
ProteomeDiscoverer:Non-Fragment Filter:Remove Precursor Overtones: Determines whether precursor overt...
UNIMOD_dHex_1_Hex_1_HexNAc_2_NeuAc_1_
dHex(1)Hex(1)HexNAc(2)NeuAc(1): DHex Hex HexNAc(2) NeuAc.
UNIMOD_Dibromo
Dibromo: Dibromo.
MS_Triple_Quad_4500
Triple Quad 4500: SCIEX Triple Quad 4500.
UNIMOD_dHex_2_Hex_2_HexNAc_2_NeuAc_1_Sulf_1_
dHex(2)Hex(2)HexNAc(2)NeuAc(1)Sulf(1): DHex(2) Hex(2) HexNAc(2) NeuAc Sulf.
UO_volumetric_flow_rate_unit
volumetric flow rate unit: A unit which is a standard measure of the volume of fluid which passes thr...
MS_Agilent_MassHunter_nativeID_format
Agilent MassHunter nativeID format: Native format defined by scanId=xsd:nonNegativeInteger.
MS_TSQ_Quantum_Ultra_AM
TSQ Quantum Ultra AM: Thermo Scientific TSQ Quantum Ultra AM.
MS_vendor_OBSOLETE
vendor: Name of instrument vendor.
MS_unspecific_cleavage
unspecific cleavage: Unspecific cleavage.
MS______BDEZ_____P_
(?<=[BDEZ])(?!P): Regular expression for V8-DE.
UNIMOD_Pent_2_
Pent(2): Pent(2).
MS_field_desorption
field desorption: The formation of gas-phase ions from a material deposited on a solid surface in the...
MS_feature_list_attribute
feature list attribute: Attribute describing a feature list.
MS_database_IPI_arabidopsis
database IPI_arabidopsis: International Protein Index database for Arabidopsis thaliana sequences.
MS_Progenesis_protein_raw_abundance
Progenesis:protein raw abundance: The data type raw abundance for proteins produced by Progenesis LC-...
MS_MyriMatch_MVH
MyriMatch:MVH: Using the multivariate hypergeometric distribution and a peak list divided into severa...
MS_c_terminal_flanking_residue
c-terminal flanking residue: The residue following the last amino acid in the peptide sequence as it ...
UNIMOD_QEQTGG
QEQTGG: SUMOylation by SUMO-1.
UNIMOD_Arg__Orn
Arg->Orn: Ornithine from Arginine.
UNIMOD_Gluratylation
Gluratylation: Glutarylation.
MS_XCMS
XCMS: Bioconductor package XCMS for preprocessing high-throughput, untargeted analyte profiling data.
MS_ProteinExtractor_UsePhenyx
ProteinExtractor:UsePhenyx: Flag indicating to include Phenyx scoring for calculation of the ProteinE...
UNIMOD_4_ONE
4-ONE: 4-Oxononenal (ONE).
UNIMOD_Biotin_tyramide
Biotin-tyramide: Biotin-Phenol.
MS_ProteomeDiscoverer_SEQUEST_Low_resolution_spectra_contained
ProteomeDiscoverer:SEQUEST:Low resolution spectra contained: Flag indicating if low-resolution spectr...
MS_ProteoWizard_msconvert
ProteoWizard msconvert: Converts, filters, and processes mass spectrometry data in variety of formats...
MS_Reference
Reference: Literature reference associated with one dataset (including the authors,...
MS_error_on_absolute_quantity
error on absolute quantity: Error on absolute quantity.
MS_molecular_ion_OBSOLETE
molecular ion: An ion formed by the removal of one or more electrons to form a positive ion or the ad...
MS_consecutive_reaction_monitoring_chromatogram_OBSOLETE
consecutive reaction monitoring chromatogram: Chromatogram created by creating an array of the measur...
MS_SCiLS_Lab
SCiLS Lab: SCiLS Lab software.
UNIMOD_Hex_1_HexNAc_2_dHex_1_Pent_1_
Hex(1)HexNAc(2)dHex(1)Pent(1): Hex1HexNAc2dHex1Pent1.
MS_peptide_passes_threshold
peptide passes threshold: A Boolean attribute to determine whether the peptide has passed the thresho...
UNIMOD_Propionyl_13C_3_
Propionyl:13C(3): Propionate labeling reagent heavy form (+3amu), N-term & K.
MS_Pegasus_HRT
Pegasus HRT: LECO high resolution time-of-flight GC mass spectrometer.
UNIMOD_Hex_3_HexNAc_3_NeuGc_1_Sulf_1_
Hex(3)HexNAc(3)NeuGc(1)Sulf(1): Hex(3) HexNAc(3) NeuGc Sulf.
MS_target_list
target list: A list of peptides or compounds and their expected m/z coordinates that can be used to c...
UNIMOD_Cholesterol
Cholesterol: Cholesterol ester.
MS_MALDI_Synapt_G2_HDMS
MALDI Synapt G2 HDMS: Waters oa-ToF based MALDI Synapt G2 HDMS.
MS_progeny_ion_OBSOLETE
progeny ion: A charged product of a series of consecutive reactions that includes product ions,...
UNIMOD_Hex_3_HexNAc_3_NeuAc_3_
Hex(3)HexNAc(3)NeuAc(3): Hex(3) HexNAc(3) NeuAc(3).
MS_NA_sequence
NA sequence: The sequence is a nucleic acid sequence.
MS_polarity_OBSOLETE
polarity: Terms to describe the polarity setting of the instrument.
MS_transition_validation_attribute
transition validation attribute: Attributes of the quality of a transition that affect its selection ...
MS_mzidLib_ProteoGrouper
mzidLib:ProteoGrouper: A generic and parameterizable protein inference algorithm for mzIdentML files.
MS_study_variable_attribute
study variable attribute: Attribute describing a study variable.
UNIMOD_Aspartylurea
Aspartylurea: Aspartylurea.
MS_GENOLINK
GENOLINK: Bruker GENOLINK software.
MS_search_engine_specific_score_for_proteoforms
search engine specific score for proteoforms: Search engine specific proteoform scores.
MS_isotopologue
isotopologue: A molecular entity that differs only in isotopic composition (number of isotopic substi...
UNIMOD_Decarboxylation
Decarboxylation: Decarboxylation.
UNIMOD_SMA
SMA: N-Succinimidyl-2-morpholine acetate.
UNIMOD_Ser__Asp
Ser->Asp: Ser->Asp substitution.
UO_watt
watt: A power unit which is equal to the power used when work is done at the rate of 1 joule per seco...
PWIZ_API_DECL const std::vector< CVID > & cvids()
returns vector of all valid CVIDs
UO_force_unit
force unit: A unit which is a standard measure of the force is applied when a mass is accelerated.
UNIMOD_Pro__Glu
Pro->Glu: Pro->Glu substitution.
MS_PeptideAtlas_dataset_URI
PeptideAtlas dataset URI: URI that allows access to a PeptideAtlas dataset.
MS_pulse_energy
pulse energy: Describes output energy of the laser system. May be attenuated by filters or other mean...
UO_ratio_300010006
ratio: A dimensionless ratio unit which, given a pair of quantities a and b, for which b is a multipl...
MS_precursor_ion_OBSOLETE
precursor ion: An ion that reacts to form particular product ions. The reaction can be unimolecular d...
UNIMOD_Xlink_DSSO_158_
Xlink:DSSO[158]: Intact DSSO crosslinker.
MS_ionization_energy_OBSOLETE
ionization energy: The minimum energy required to remove an electron from an atom or molecule to prod...
MS_Trans_Proteomic_Pipeline_software
Trans-Proteomic Pipeline software: A software program that is a component of the Trans-Proteomic Pipe...
UO_turns_per_second
turns per second: A rotational frequency unit which is equal to the number complete turn in a period ...
MS_param__internal_ya_ion
param: internal ya ion: Parameter information, type of product: internal ya ion.
UNIMOD_Hex_3_HexNAc_4_
Hex(3)HexNAc(4): Biantennary (-2 galactose).
MS_analog_digital_converter
analog-digital converter: Analog-to-digital converter (abbreviated ADC, A/D or A to D) is an electron...
UNIMOD_Cys__CamSec
Cys->CamSec: Sec Iodoacetamide derivative.
MS_spectrum_sub_set_protein
spectrum sub-set protein: A protein with a sub-set of the matched spectra for another protein,...
MS_database_version_OBSOLETE
database version: OBSOLETE: Use attribute in mzIdentML instead. Version of the search database.
MS_LipidMatch
LipidMatch: An automated workflow for rule-based lipid identification using untargeted high-resolutio...
MS_boxcar_smoothing
boxcar smoothing (moving average smoothing): Reduces intensity spikes by averaging each point with tw...
MS_4800_Plus_MALDI_TOF_TOF
4800 Plus MALDI TOF/TOF: SCIEX or Applied Biosystems|MDS SCIEX 4800 Plus MALDI TOF-TOF Analyzer.
MS_Phenyx_input_parameter
Phenyx input parameter: Search engine input parameters specific to Phenyx.
MS_MS_GFDB
MS-GFDB (MS-GF+): MS-GF+ software used to analyze the spectra.
UNIMOD_Label_13C_4__Oxidation
Label:13C(4)+Oxidation: Oxidised 13C4 labelled Methionine.
MS_mass_spectrometry_OBSOLETE
mass spectrometry: The branch of science that deals with all aspects of mass spectrometers and the re...
UNIMOD_Ub_fluorescein
Ub-fluorescein: Ub Fluorescein probe addition.
MS_Mascot_score
Mascot:score: The Mascot result 'Score'.
UO_magnetic_flux_density_unit
magnetic flux density unit: A unit which is a standard measure of the strength of a magnetic field.
UNIMOD_Xlink_BS2G_217_
Xlink:BS2G[217]: Tris-quenched monolink of BS2-G crosslinker.
UNIMOD_Xlink_SMCC_219_
Xlink:SMCC[219]: Intact SMCC cross-link.
MS_PSM_level_FDRScore
PSM-level FDRScore: mzidLibrary FDRScore for peptide spectrum matches.
UNIMOD_Hex_4_HexNAc_3_NeuAc_2_
Hex(4)HexNAc(3)NeuAc(2): Hex(4) HexNAc(3) NeuAc(2).
MS_chromatograph_file_format
chromatograph file format: The format of the chromatography file being used. This could be a instrume...
UNIMOD_dHex_1_Hex_3_HexNAc_2_NeuGc_1_
dHex(1)Hex(3)HexNAc(2)NeuGc(1): DHex Hex(3) HexNAc(2) NeuGc.
MS_TOPP_IDFilter
TOPP IDFilter: Filters results from protein or peptide identification engines based on different crit...
MS_CompassXtract
CompassXtract: Bruker software library for data access.
UNIMOD_Hydroxytrimethyl
Hydroxytrimethyl: 5-hydroxy-N6,N6,N6-trimethyl.
MS_adiabatic_ionization
adiabatic ionization: A process whereby an electron is removed from an atom, ion, or molecule to prod...
MS_variation_coefficient
variation coefficient: The coefficient of variation.
MS_param__internal_yb_ion
param: internal yb ion: Parameter information, type of product: internal yb ion.
UNIMOD_Glycosyl
Glycosyl: Glycosyl-L-hydroxyproline.
UO_frequency_unit
frequency unit: A unit which is a standard measure of the number of repetitive actions in a particula...
UNIMOD_dHex_3_HexNAc_3_Kdn_1_
dHex(3)HexNAc(3)Kdn(1): DHex(3) HexNAc(3) Kdn.
UNIMOD_Met__Xle
Met->Xle: Met->Leu/Ile substitution.
MS_Lipid_Pro
Lipid-Pro: A computational lipid identification solution for untargeted lipidomics on data-independen...
MS_Pro_ICAT
Pro ICAT: Applied Biosystems|MDS SCIEX software for protein ID and quant by ICAT.
UO_area_density_unit
area density unit: A density unit which is a standard measure of the mass exerting an influence on a ...
MS_reporter_ion_raw_value
reporter ion raw value: Intensity (or area) of MS2 reporter ion (e.g. iTraq).
MS_ion_mobility_array
ion mobility array: An array of ion mobility data.
MS_native_source_path
native source path: The original source path used for directory-based sources.
MS_possible_charge_state
possible charge state: A possible charge state of the ion in a situation where the charge of an ion i...
MS_ion_neutral_species_reaction_OBSOLETE
ion/neutral species reaction: A process wherein a charged species interacts with a neutral reactant t...
MS_proton_affinity_OBSOLETE
proton affinity: The proton affinity of a species M is defined as the negative of the enthalpy change...
UNIMOD_dHex_2_Hex_1_HexNAc_2_NeuGc_1_
dHex(2)Hex(1)HexNAc(2)NeuGc(1): DHex(2) Hex HexNAc(2) NeuGc —OR— Hex(2) HexNAc(2) dHex NeuAc —OR— Hex...
UNIMOD_Tyr__Thr
Tyr->Thr: Tyr->Thr substitution.
UNIMOD_Cys__Asp
Cys->Asp: Cys->Asp substitution.
MS_TMT_reagent_129
TMT reagent 129: The name of the sample labelled with the TMT reagent 129.
MS_TopMG_input_parameter
TopMG input parameter: Search engine input parameters specific to TopMG.
UNIMOD_Cys__SecNEM
Cys->SecNEM: N-ethylmaleimide on selenocysteines.
UO_electric_field_strength_unit
electric field strength unit: The electric field strength is a unit which is a measure of the potenti...
MS_Mascot_ProteinGrouping
Mascot:ProteinGrouping: Strategy used by Mascot to group proteins with same peptide matches (one of '...
MS_PD
PD (plasma desorption): The ionization of material in a solid sample by bombarding it with ionic or n...
UNIMOD_dHex_1_Hex_3_HexNAc_4_Pent_2_
dHex(1)Hex(3)HexNAc(4)Pent(2): DHex Hex(3) HexNAc(4) Pent(2).
MS_TopPIC_mod_file
TopPIC:mod file: The text file containing the information of common PTMs.
MS_percolator_Q_value
percolator:Q value: Percolator:Q value.
UNIMOD_Methyl_2H_2_
Methyl:2H(2): Deuterium Methylation of Lysine.
MS_translation_frame
translation frame: The translated open reading frames from a nucleotide database considered in the se...
MS_NCBI___p_
NCBI *.p*: The sequence database was stored in the NCBI formatdb (*.p*) format.
MS_contact_attribute
contact attribute: Details about a person or organization to contact in case of concern or discussion...
MS_percolator_PEP
percolator:PEP: Posterior error probability.
UNIMOD_cGMP_RMP_loss
cGMP+RMP-loss: S-guanylation-2.
MS_MIDAS_Workflow_Designer
MIDAS Workflow Designer: Applied Biosystems|MDS SCIEX software for MRM assay development.
MS_feature_format
feature format: TopFD feature file format.
UO_millivolt
millivolt: An electric potential difference unit which is equal to one thousandth of a volt or 10^[-3...
MS_peptide_level_scoring
peptide-level scoring: Peptide-level scoring performed.
MS_LOBSTAHS
LOBSTAHS: Adduct-Based lipidomics software for the discovery and identification of oxidative stress b...
MS_TopMG_error_tolerance
TopMG:error tolerance: Error tolerance for precursor and fragment masses in PPM.
MS_ClinProTools
ClinProTools: Bruker ClinProTools software.
MS_median_of_spectra
median of spectra: Spectra is combined by calculating the median of the spectra.
MS_decoy_DB_details
decoy DB details: Details of decoy generation and database structure.
MS_modification_localization_scoring
modification localization scoring: Modification localization scoring performed.
MS_single_identification_result_attribute
single identification result attribute: Attribute of a single identification item (as opposed to a li...
MS_crushed_crystal_MALDI_sample_preparation
crushed crystal MALDI sample preparation: Crushed-crystal MALDI sample preparation method.
MS_6340_Ion_Trap_LC_MS
6340 Ion Trap LC/MS: The 6340 Ion Trap LC/MS is a Agilent liquid chromatography instrument combined w...
MS_spectrum
spectrum: A mass spectrum is an intensity vs m/z (mass-to-charge ratio) plot representing a chemical ...
MS_Orbitrap_Fusion
Orbitrap Fusion: Thermo Scientific Orbitrap Fusion.
MS_isolation_width_OBSOLETE
isolation width: The total width (i.e. not half for plus-or-minus) of the gate applied around a selec...
UNIMOD_Label_13C_6__Dimethyl
Label:13C(6)+Dimethyl: Dimethyl 13C(6) Silac label.
MS_Applied_Biosystems_instrument_model
Applied Biosystems instrument model: Applied Biosystems instrument model.
UNIMOD_Hex_3_HexNAc_3_NeuAc_2_
Hex(3)HexNAc(3)NeuAc(2): Hex(3) HexNAc(3) NeuAc(2).
MS_Spectrum_Mill_for_MassHunter_Workstation
Spectrum Mill for MassHunter Workstation: Software for protein identification and characterization of...
MS_mass_analyzer_type
mass analyzer type: Mass analyzer separates the ions according to their mass-to-charge ratio.
MS_MaxQuant_PEP
MaxQuant:PEP: The data type PEP (posterior error probability) produced by MaxQuant.
MS_single_peak_list_nativeID_format__combined_spectra
single peak list nativeID format, combined spectra: Comma separated list of spectra that have been co...
MS_continuous_mass_spectrum
continuous mass spectrum (profile spectrum): A profile mass spectrum is created when data is recorded...
MS_PEAKS_proteinScore
PEAKS:proteinScore: The PEAKS protein '-10lgP Score'.
UO_picovolt
picovolt: An electric potential difference unit which is equal to one trillionth of a volt or 10^[-12...
UNIMOD_dHex_2_Hex_2_HexNAc_2_Sulf_2_
dHex(2)Hex(2)HexNAc(2)Sulf(2): DHex(2) Hex(2) HexNAc(2) Sulf(2).
UO_candela_per_square_meter
candela per square meter: A luminance unit which is equal to a luminous intensity of one candela radi...
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge2: FT medium confidence XCorr parameter f...
MS_M_H_ion_1002820
M+H ion: M+H ion from positive ion mode (M in the property ionMass denotes the mass of the neutral mo...
UNIMOD_Met__Hpg
Met->Hpg: Methionine replacement by homopropargylglycine.
MS_group_PSMs_by_sequence
group PSMs by sequence: Group PSMs by distinct peptide sequence ignoring modifications.
MS_distonic_ion_OBSOLETE
distonic ion: A radical cation or anion in which the charge site and the unpaired electron spin canno...
UNIMOD_DiLeu4plex118
DiLeu4plex118: Accurate mass for DiLeu 118 isobaric tag.
MS_DTASelect_format
DTASelect format: DTASelect file format.
MS_LTQ_Velos
LTQ Velos: Thermo Scientific LTQ Velos MS.
MS_intensity_unit
intensity unit: Intensity units are commonly arbitrary. Detected in counts per second (cps) when usin...
MS_DeBunker_score
DeBunker:score: Score specific to DeBunker.
UNIMOD_spermidine
spermidine: Spermidine adduct.
UNIMOD_Iodo
Iodo: Iodination.
UO_dynamic_range_unit
dynamic range unit: An image resolution unit which is a standard measure of the amount of contrast av...
UNIMOD_Val__Asp
Val->Asp: Val->Asp substitution.
UNIMOD_Puromycin
Puromycin: Puromycin.
UNIMOD_Hex_2_HexNAc_2_Pent_1_
Hex(2)HexNAc(2)Pent(1): Hex2HexNAc2Pent1.
MS_tolerance_on_types_OBSOLETE
tolerance on types: OBSOLETE: Tolerance on types.
MS_SpectraST_dot_bias
SpectraST:dot_bias: SpectraST measure of how much of the dot product is dominated by a few peaks.
UNIMOD_CIGG
CIGG: Ubiquitin D (FAT10) leaving after chymotrypsin digestion Cys-Ile-Gly-Gly.
UNIMOD_Delta_Se_1_
Delta:Se(1): Selenyl.
MS_MS1_feature_area
MS1 feature area: Area of MS1 feature.
UNIMOD_Archaeol
Archaeol: S-diphytanylglycerol diether.
MS_TripleTOF_4600
TripleTOF 4600: SCIEX TripleTOF 4600 time-of-flight mass spectrometer.
UNIMOD_Formyl
Formyl: Formylation.
UNIMOD_GlycerylPE
GlycerylPE: Glycerylphosphorylethanolamine.
UNIMOD_dHex_1_Hex_5_HexA_1_HexNAc_3_Sulf_2_
dHex(1)Hex(5)HexA(1)HexNAc(3)Sulf(2): DHex Hex(5) HexA HexNAc(3) Sulf(2).
UNIMOD_Ser__Glu
Ser->Glu: Ser->Glu substitution.
UNIMOD_Ser__Cys
Ser->Cys: Ser->Cys substitution.
UO_mega
mega: A prefix in the metric system denoting a factor of million.
UNIMOD_Thr__Pro
Thr->Pro: Thr->Pro substitution.
UNIMOD_dHex_4_Hex_3_HexNAc_2_NeuAc_1_
dHex(4)Hex(3)HexNAc(2)NeuAc(1): DHex(4) Hex(3) HexNAc(2) NeuAc(1).
MS_thomson
thomson (m/z): Three-character symbol m/z is used to denote the quantity formed by dividing the mass ...
MS_SEQUEST_TopPercentMostIntense
SEQUEST:TopPercentMostIntense: Specify "percentage" as value of the CVParam.
UNIMOD_N_dimethylphosphate
N-dimethylphosphate: N-dimethylphosphate.
UNIMOD_Cation_Na
Cation:Na: Sodium adduct.
MS_MS_GF_PepQValue
MS-GF:PepQValue: MS-GF peptide-level Q-value.
UO_energy_unit
energy unit: A unit which is a standard measure of the work done by a certain force (gravitational,...
UO_microgram
microgram: A mass unit which is equal to one millionth of a gram or 10^[-6] g.
UNIMOD_dHex_1_Hex_3_HexNAc_4_Pent_3_
dHex(1)Hex(3)HexNAc(4)Pent(3): DHex Hex(3) HexNAc(4) Pent(3).
MS_lowest_observed_wavelength
lowest observed wavelength: Lowest wavelength observed in an EMR spectrum.
MS_analog_ion_OBSOLETE
analog ion: Ions that have similar chemical valence, for example the acetyl cation CH3-CO+ and the th...
MS_total_XIC_area
total XIC area: Summed area of all the extracted ion chromatogram for the peptide (e....
MS_nucleic_acid_base_modification
nucleic acid base modification: Nucleic acid base modification (substitution, insertion or deletion).
UNIMOD_Phe__Val
Phe->Val: Phe->Val substitution.
MS_TargetAnalysis
TargetAnalysis: Bruker TargetAnalysis software.
UNIMOD_Trimethyl_13C_3_2H_9_
Trimethyl:13C(3)2H(9): 3-fold methylation with fully labelled methyl groups.
MS_pmf_search
pmf search: A peptide mass fingerprint search.
MS_ITQ_1100
ITQ 1100: Thermo Scientific ITQ 1100 GC-MS.
MS_cleavage_agent_details
cleavage agent details: Details of cleavage agent (enzyme).
MS_ProteinScape_SearchEventId
ProteinScape:SearchEventId: The SearchEventId of the SearchEvent in the ProteinScape database.
UNIMOD_Biotin_PEG_PRA
Biotin-PEG-PRA: Biotin polyethyleneoxide (n=3) alkyne.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_b_Ions
ProteomeDiscoverer:SEQUEST:Weight of b Ions: Uses b ions for spectrum matching with this relative fac...
MS_liquid_chromatography_separation
liquid chromatography separation: Liquid chromatography (LC) is a separation technique in which the m...
MS_Phenyx_AC
Phenyx:AC: The primary sequence database identifier of a protein in Phenyx.
UNIMOD_Hex_1_Pent_3_Me_1_
Hex(1)Pent(3)Me(1): Hex Pent(3) Me.
MS_scan_law
scan law: Describes the function in control of the m/z scan (for scanning instruments)....
MS_LTQ_Orbitrap_Elite
LTQ Orbitrap Elite: Thermo Scientific second generation Velos and Orbitrap.
MS_ANOVA_p_value
ANOVA p-value: Global datatype: p-value of ANOVA of group means (e.g. Progenesis).
MS_DB_filter_on_accession_numbers
DB filter on accession numbers: Filtering applied specifically by accession number pattern.
UO_kilogram_per_cubic_meter
kilogram per cubic meter: A mass unit density which is equal to mass of an object in kilograms divide...
UNIMOD_Hex_2_HexNAc_3_Sulf_1_
Hex(2)HexNAc(3)Sulf(1): Hex(2) HexNAc(3) Sulf.
MS_Mascot_MinMSMSThreshold
Mascot:MinMSMSThreshold: Mascot peptide match ion score threshold. If between 0 and 1,...
MS_desorption_electrospray_ionization
desorption electrospray ionization: Combination of electrospray and desorption ionization method that...
MS_contact_name
contact name: Name of the contact person or organization.
MS_ion_role_OBSOLETE
ion role: Ion Role.
MS_SEND
SEND (surface enhanced neat desorption): Matrix-assisted laser desorption ionization in which the mat...
UNIMOD_HN2_mustard
HN2_mustard: Modification by hydroxylated mechloroethamine (HN-2).
MS_PeptideShaker_peptide_score
PeptideShaker peptide score: The probability based PeptideShaker peptide score.
MS_ionization_cross_section_OBSOLETE
ionization cross section: A measure of the probability that a given ionization process will occur whe...
MS_SEQUEST_sort_by_z
SEQUEST:sort by z: Sort order of SEQUEST search results given by the charge.
MS_electron_multiplier
electron multiplier: A device to amplify the current of a beam or packet of charged particles or phot...
MS_overlayer_MALDI_sample_preparation
overlayer MALDI sample preparation: Overlayer method combining features of the crushed-crystal method...
MS_identification_attribute
identification attribute: Attribute of an identification item in the result of mass spectrometry prot...
MS_ProteomeDiscoverer_SEQUEST_Weight_of_x_Ions
ProteomeDiscoverer:SEQUEST:Weight of x Ions: Uses x ions for spectrum matching with this relative fac...
MS_amaZon_ETD
amaZon ETD: Bruker Daltonics' amaZon ETD: ESI quadrupole ion trap, Nanospray, APCI,...
MS_Bruker_Daltonics_micrOTOF_series
Bruker Daltonics micrOTOF series: Bruker Daltonics' micrOTOF series.
MS_spectrum_title
spectrum title: A free-form text title describing a spectrum.
UNIMOD_Arg__Xle
Arg->Xle: Arg->Leu/Ile substitution.
MS_OBSOLETE_charge_number_OBSOLETE
OBSOLETE charge number: The total charge on an ion divided by the electron charge e....
MS_ProteomeDiscoverer_Spectrum_Exporter_Export_Format_OBSOLETE
ProteomeDiscoverer:Spectrum Exporter:Export Format: Format of the exported spectra (dta,...
MS_MyriMatch
MyriMatch: Tabb Lab software for directly comparing peptides in a database to tandem mass spectra.
MS_McLafferty_Rearrangement_OBSOLETE
McLafferty Rearrangement: A dissociation reaction triggered by transfer of a hydrogen atom via a 6-me...
MS_4800_Proteomics_Analyzer
4800 Proteomics Analyzer: Applied Biosystems|MDS SCIEX 4800 Proteomics Analyzer.
PEFF_DbDescription
DbDescription: Sequence Database Short description.
MS_EVOQ_Qube
EVOQ Qube: Bruker Daltonics' EVOQ Qube: LC-triple quadrupole.
MS_contact_affiliation
contact affiliation: Home institution of the contact person.
MS_ZCore_probScore
ZCore:probScore: The ZCore probability score.
MS_max_peak_picking
max peak picking (height peak picking): Spectral peak processing conducted on the acquired data to co...
MS_spectrum_descriptions
spectrum descriptions: Descriptions of the input spectra.
MS_micrOTOF_II
micrOTOF II: Bruker Daltonics' micrOTOF II: ESI TOF, Nanospray, APCI, APPI.
MS_double_focusing_mass_spectrometer_OBSOLETE
double-focusing mass spectrometer: A mass spectrometer that uses a magnetic sector for m/z focusing a...
MS_quantification_reagent
quantification reagent: Reagent used in labeled quantification methods.
MS_transition_purported_from_an_MS_MS_spectrum_on_a_different__specified_instrument
transition purported from an MS/MS spectrum on a different, specified instrument: The transition has ...
MS_thermospray_inlet
thermospray inlet: A method for generating gas phase ions from a solution of an analyte by rapid heat...
MS_frag__v_ion
frag: v ion: Fragmentation information, type of product: v ion.
UNIMOD_dHex_1_Hex_4_HexNAc_4_NeuAc_1_
dHex(1)Hex(4)HexNAc(4)NeuAc(1): DHex Hex(4) HexNAc(4) NeuAc —OR— Hex(3) HexNAc(5) dHex Kdn.
MS_ProteinExtractor_UseMascot
ProteinExtractor:UseMascot: Flag indicating to include Mascot scoring for calculation of the ProteinE...
MS_PIA_protein_score
PIA:protein score: The score given to a protein by any protein inference.
MS_iRT_retention_time_normalization_standard
iRT retention time normalization standard: A de facto standard providing the retention times at which...
MS_SpectraST
SpectraST: SpectraST was used to analyze the spectra.
MS_CID
CID (collision-induced dissociation): The dissociation of an ion after collisional excitation....
MS_Dataset_with_no_associated_published_manuscript
Dataset with no associated published manuscript: A dataset which does not have an associated publishe...
MS_MaxQuant_LFQ_intensity
MaxQuant:LFQ intensity: The data type LFQ intensity produced by MaxQuant.
MS_heavy_labeled_peptide
heavy labeled peptide: A peptide that has been created or labelled with some heavier-than-usual isoto...
UNIMOD_Hex_10_Phos_3_
Hex(10)Phos(3): Hex(10) Phos(3).
UNIMOD_Thr__Trp
Thr->Trp: Thr->Trp substitution.
MS_PI
PI (photoionization): The ionization of an atom or molecule by a photon, written M + h?...
MS_protein_accession
protein accession: Accession number for a specific protein in a database.
UNIMOD_Label_13C_4_
Label:13C(4): 13C4 Methionine label.
UO_magnetic_flux_unit
magnetic flux unit: A unit which is a standard measure of quantity of magnetism, taking account of th...
UNIMOD_Ethyl_Deamidated
Ethyl+Deamidated: Deamidation followed by esterification with ethanol.
MS_protein_rank
protein rank: The rank of the protein in a list sorted by the search engine.
UNIMOD_Label_18O_1_
Label:18O(1): O18 Labeling.
UO_irradiance_unit
irradiance unit: A unit which is a standard measure of the power of electromagnetic radiation at a su...
MS_6300_Series_Ion_Trap_Data_Analysis_Software
6300 Series Ion Trap Data Analysis Software: Software for data analysis of 6300 series ion trap mass ...
MS_solid_sample_state
solid sample state: State if the sample is in solid form.
MS_modification_probability
modification probability: The a priori probability of a modification.
MS_PSM_level_p_value
PSM-level p-value: Estimation of the p-value for peptide spectrum matches.
UO_nanogram
nanogram: A mass unit which is equal to one thousandth of one millionth of a gram or 10^[-9] g.
MS_ABI_WIFF_format
ABI WIFF format: Applied Biosystems WIFF file format.
MS_Continuum_Mass_Spectrum
Continuum Mass Spectrum (profile spectrum): A profile mass spectrum is created when data is recorded ...
MS_SEQUEST_TopNumber
SEQUEST:TopNumber: Specify "number" as value of the CVParam.
MS_instrument_specific_scan_attribute
instrument specific scan attribute: Instrument specific scan properties that are associated with a va...
MS_TOPP_software
TOPP software: TOPP (The OpenMS proteomics pipeline) software.
MS_translation_table_description
translation table description: A URL that describes the translation table used to translate the nucle...
MS_Phenyx_Turbo
Phenyx:Turbo: The turbo mode parameter in Phenyx.
UNIMOD_Dihydroxyimidazolidine
Dihydroxyimidazolidine: Dihydroxy methylglyoxal adduct.
UNIMOD_3_phosphoglyceryl
3-phosphoglyceryl: 3-phosphoglyceryl.
MS_external_HDF5_dataset
external HDF5 dataset: The HDF5 dataset location containing the binary data, relative to the dataset ...
UO_chain
chain: A length unit which is equal to 20.1168 metres, 66 feet, or 22 yards.
MS_MS2_tag_based_protein_level_quantitation
MS2 tag-based protein level quantitation: MS2 tag-based protein level quantitation.
UO_centimeter
centimeter: A length unit which is equal to one hundredth of a meter or 10^[-2] m.
MS_32_bit_integer
32-bit integer: Signed 32-bit little-endian integer.
MS_ProteinExtractor_GenerateNonRedundant
ProteinExtractor:GenerateNonRedundant: Flag indicating if a non redundant scoring should be generated...
UO_microliters_per_minute
microliters per minute: A volumetric flow rate unit which is equal to one microliter volume through a...
UNIMOD_Ala__Cys
Ala->Cys: Ala->Cys substitution.
MS_ProfileAnalysis
ProfileAnalysis: Bruker software for data analysis.
UNIMOD_Delta_H_2_C_3_
Delta:H(2)C(3): Acrolein addition +38.
MS_magnetic_sector
magnetic sector: A device that produces a magnetic field perpendicular to a charged particle beam tha...
MS_ten_percent_valley
ten percent valley: An attribute of resolution when the ratio between adjacent signals is 10% of the ...
MS_SEQUEST_CullTo
SEQUEST:CullTo: Specify cull string as value of the CVParam.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Activation_Type_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Activation Type Replacements: Specifies the fragmen...
UNIMOD_Difuran
Difuran: Chemical modification of the diiodinated sites of thyroglobulin by Suzuki reaction.
UNIMOD_Label_13C_4_15N_1_
Label:13C(4)15N(1): 13C4 15N1 label for SILAC.
MS_TSQ_8000_Evo
TSQ 8000 Evo: Thermo Scientific TSQ 8000 Evo MS.
MS_source_interface
source interface: The source interface.
UNIMOD_Menadione
Menadione: Menadione quinone derivative.
MS_ICAT_light_reagent
ICAT light reagent: The name of the sample labelled with the light ICAT label.
MS_MS2_format
MS2 format: MS2 file format for MS2 spectral data.
MS_atmospheric_pressure_photoionization
atmospheric pressure photoionization: Atmospheric pressure chemical ionization in which the reactant ...
MS_scan_number_only_nativeID_format__combined_spectra
scan number only nativeID format, combined spectra: Comma separated list of spectra that have been co...
MS_scan_rate
scan rate: Rate in Th/sec for scanning analyzers.
UNIMOD_bisANS_sulfonates
bisANS-sulfonates: BisANS with loss of both sulfonates.
MS_LXQ
LXQ: Finnigan LXQ MS.
UNIMOD_Delta_H_5_C_2_
Delta:H(5)C(2): Dimethylation of proline residue.
MS_ProteomeXchange_accession_number
ProteomeXchange accession number: Main identifier of a ProteomeXchange dataset.
MS_ProteinProspector_score
ProteinProspector:score: The ProteinProspector result 'Score'.
MS_CXP
CXP (Collision cell exit potential): Potential difference between Q2 and Q3 in a triple quadrupole in...
UNIMOD_dHex_2_Hex_2_HexNAc_3_NeuAc_1_
dHex(2)Hex(2)HexNAc(3)NeuAc(1): DHex(2) Hex(2) HexNAc(3) NeuAc.
MS_mzidLib_Perform_emPAI_on_mzid
mzidLib:Perform emPAI on mzid: A routine for adding emPAI quantitative values to an mzIdentML file.
MS_Mascot_SigThresholdType
Mascot:SigThresholdType: Significance threshold type used in Mascot reporting (either 'identity' or '...
UNIMOD_ExacTagAmine
ExacTagAmine: ExacTag Amine label mass for 2-4-7-10 plex.
MS_ion_stability_type_OBSOLETE
ion stability type: Stability type of the ion.
UO_week
week: A time unit which is equal to 7 days.
PEFF_SpecificValue
SpecificValue: PEFF specific values for a defined key.
MS_isolation_window_upper_offset
isolation window upper offset: The extent of the isolation window in m/z above the isolation window t...
MS_laser_desorption_ionization
laser desorption ionization: The formation of gas-phase ions by the interaction of a pulsed laser wit...
UO_kilovolt_hour
kilovolt-hour: A magnetic flux unit which is equal to one thousand volt-hours.
UO_rotational_frequency_unit
rotational frequency unit: A unit which is a standard measure of the number of rotations in a given t...
MS_SEQUEST_LimitTo
SEQUEST:LimitTo: Specify "number of dtas shown" as value of the CVParam.
MS_ITQ_700
ITQ 700: Thermo Scientific ITQ 700 GC-MS.
MS_modification_index
modification index: The order of modifications to be referenced elsewhere in the document.
UNIMOD_LG_lactam_K
LG-lactam-K: Levuglandinyl - lysine lactam adduct.
MS_special_processing
special processing: Details describing a special processing.
UNIMOD_dHex_3_Hex_4_HexNAc_4_
dHex(3)Hex(4)HexNAc(4): DHex(3) Hex(4) HexNAc(4).
UNIMOD_UgiJoullieProGlyProGly
UgiJoullieProGlyProGly: Side reaction of PGPG with Side chain of aspartic or glutamic acid.
MS_6542_Q_TOF_LC_MS
6542 Q-TOF LC/MS: The 6542 Quadrupole Time-of-Flight LC/MS is a Agilent liquid chromatography instrum...
MS______FYWL_____P_
(?<=[FYWL])(?!P): Regular expression for Chymotrypsin.
MS_Pepitome_mzFidelity
Pepitome:mzFidelity (MyriMatch:mzFidelity): The negative natural log probability that predicted peaks...
MS_Byonic_PEP
Byonic:PEP: Byonic posterior error probability.
MS_phosphoRS_site_probability
phosphoRS site probability: Estimate of the probability that the respective site is truly phosphoryla...
MS_normalized_collision_energy
normalized collision energy: Instrument setting, expressed in percent, for adjusting collisional ener...
MS_electrospray_ionization
electrospray ionization: A process in which ionized species in the gas phase are produced from an ana...
MS_collision_energy_ramp_end
collision energy ramp end: Collision energy at the end of the collision energy ramp.
UNIMOD_probiotinhydrazide
probiotinhydrazide: Oxidized proline biotinylated with biotin hydrazide.
MS_flowing_afterglow
flowing afterglow: An ion source immersed in a flow of helium or other inert buffer gas that carries ...
UNIMOD_Hex_1_HexNAc_1_dHex_1_Me_1_
Hex(1)HexNAc(1)dHex(1)Me(1): Hex HexNAc dHex Me.
UNIMOD_iodoTMT
iodoTMT: Native iodoacetyl Tandem Mass Tag®.
UNIMOD_GluGluGlu
GluGluGlu: Triglutamyl.
MS_elution_time
elution time: The time of elution from all used chromatographic columns (one or more) in the chromato...
UNIMOD_Guanidinyl
Guanidinyl: Guanidination.
MS_Morpheus
Morpheus: Morpheus search engine.
MS_ProteomeDiscoverer_Xtract_Monoisotopic_Mass_Only
ProteomeDiscoverer:Xtract:Monoisotopic Mass Only: Determines whether the isotopic pattern,...
UNIMOD_Didehydro
Didehydro: 2-amino-3-oxo-butanoic_acid.
MS_SEQUEST_out_folder
SEQUEST out folder: Source file for this mzIdentML was a SEQUEST folder with its out files.
UO_milliampere
milliampere: An electric current unit current which is equal to one thousandth of an ampere or 10^[-3...
UNIMOD_dHex_1_Hex_1_HexNAc_1_Kdn_1_
dHex(1)Hex(1)HexNAc(1)Kdn(1): DHex Hex HexNAc Kdn —OR— Hex(2) dHex NeuAc.
MS_6420_Triple_Quadrupole_LC_MS
6420 Triple Quadrupole LC/MS: The 6420 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_H_PINS_retention_time_normalization_standard
H-PINS retention time normalization standard: The de facto standard providing the retention times at ...
UNIMOD_HexNAc_3_Sulf_1_
HexNAc(3)Sulf(1): HexNAc(3) Sulf.
UNIMOD_Gln__His
Gln->His: Gln->His substitution.
UNIMOD_dHex_1_Hex_1_HexNAc_2_NeuAc_2_
dHex(1)Hex(1)HexNAc(2)NeuAc(2): DHex Hex HexNAc(2) NeuAc(2).
MS_quantitation_software_version_OBSOLETE
quantitation software version: Quantitation software version.
MS_Byonic__Peptide_AbsLogProb
Byonic: Peptide AbsLogProb: The absolute value of the log-base10 of the Byonic posterior error probab...
structure for holding CV term info
MS_Q_Exactive_HF_X
Q Exactive HF-X: Thermo Scientific Q Exactive HF-X Hybrid Quadrupole Orbitrap MS.
MS_TOPP_IDMerger
TOPP IDMerger: Merges several protein/peptide identification files into one file.
UO_watt_per_steradian_per_square_meter
watt per steradian per square meter: A radiance unit which is equal to one watt of radiant power inci...
MS_ProteinExtractor_Weighting
ProteinExtractor:Weighting: Weighting factor for protein list compilation by ProteinExtractor.
UNIMOD_Gln__Thr
Gln->Thr: Gln->Thr substitution.
UNIMOD_Xlink_BuUrBu_213_
Xlink:BuUrBu[213]: Ammonia quenched monolink of BuUrBu crosslinker.
MS_Proteomics_Standards_Initiative_Mass_Spectrometry_Vocabularies
Proteomics Standards Initiative Mass Spectrometry Vocabularies: Proteomics Standards Initiative Mass ...
UNIMOD_NQIGG
NQIGG: SUMOylation by Giardia lamblia.
MS______ALIV_____P_
(?<=[ALIV])(?!P): Regular expression for leukocyte elastase.
MS_MS1_format
MS1 format: MS1 file format for MS1 spectral data.
MS_Phenyx_Auto
Phenyx:Auto: The value of the automatic peptide acceptance filter in Phenyx.
MS_DB_MW_filter_maximum
DB MW filter maximum: Maximum value of molecular weight filter.
MS_ProteomeDiscoverer_max_number_of_same_modifs
ProteomeDiscoverer:max number of same modifs: The maximum number of possible equal modifications per ...
MS_TopMG_variable_PTM_number
TopMG:variable PTM number: Maximum number of variable PTMs.
MS_search_engine_specific_score_for_protein_groups
search engine specific score for protein groups: Search engine specific protein group scores.
MS_CompassXport
CompassXport: Bruker stand-alone software for data conversion.
MS_free_electron_laser
free electron laser: Free electron laser uses a relativistic electron beam as the lasing medium which...
MS_search_engine_specific_score_for_proteins
search engine specific score for proteins: Search engine specific protein scores.
MS_association_reaction_OBSOLETE
association reaction: The reaction of an ion with a neutral species in which the reactants combine to...
UNIMOD_Met__Pro
Met->Pro: Met->Pro substitution.
MS_protein_detection_statistical_threshold
protein detection statistical threshold: Estimated statistical threshold used for protein detection.
UNIMOD_Cys__Xle
Cys->Xle: Cys->Leu/Ile substitution.
MS_internal_protein_reference_used
internal protein reference used: States whether an internal protein reference is used or not in absol...
UNIMOD_dHex_1_Hex_2_HexNAc_1_
dHex(1)Hex(2)HexNAc(1): DHex Hex(2) HexNAc.
UNIMOD_pupylation
pupylation: Addition of GGE.
std::vector< CVID > id_list
MS_MS_Numpress_short_logged_float_compression
MS-Numpress short logged float compression: Compression using MS-Numpress short logged float compress...
MS_Triple_Quad_6500
Triple Quad 6500: SCIEX Triple Quad 6500.
MS_no_peptide_level_threshold
no peptide-level threshold: Indicating that no peptide-level threshold was used.
UNIMOD_Biotin_Thermo_21901_2H2O
Biotin:Thermo-21901+2H2O: Maleimide-Biotin + 2Water.
MS_TOPP_FeatureFinderMRM
TOPP FeatureFinderMRM: Quantifies features LC-MS/MS MRM data.
UO_electric_potential_difference_unit
electric potential difference unit: A unit which is a standard measure of the work done per unit char...
MS_TripleTOF_5600_
TripleTOF 5600+: SCIEX TripleTOF 5600+ time-of-flight mass spectrometer.
MS_ProteomeDiscoverer_Maximum_Missed_Cleavage_Sites
ProteomeDiscoverer:Maximum Missed Cleavage Sites: Maximum number of missed cleavage sites to consider...
MS_ProteomeDiscoverer_Use_Average_Precursor_Mass_OBSOLETE
ProteomeDiscoverer:Use Average Precursor Mass: Use average mass for the precursor.
MS_ProteomeXchange_accession_number_version_number
ProteomeXchange accession number version number: Version number of a ProteomeXchange accession number...
MS_anchor_protein
anchor protein: A representative protein selected from a set of sequence same-set or spectrum same-se...
UNIMOD_Arg_loss
Arg-loss: Loss of arginine due to transpeptidation.
UO_ton
ton: An imperial mass unit which is equivalent to 1,016.046,9088 kilograms, or 2,240 pounds.
UNIMOD_dHex_2_Hex_3_HexNAc_3_NeuAc_2_
dHex(2)Hex(3)HexNAc(3)NeuAc(2): DHex(2) Hex(3) HexNAc(3) NeuAc(2).
MS_Lys_C
Lys-C: Endoproteinase Lys-C.
MS_amaZon_Speed
amaZon Speed: Bruker Daltonics' amaZon ETD: ESI quadrupole ion trap, Nanospray, APCI,...
MS_API_165
API 165: Applied Biosystems/MDS SCIEX API 165 MS.
UNIMOD_Hex_1_HexNAc_1_NeuGc_3_
Hex(1)HexNAc(1)NeuGc(3): Hex HexNAc NeuGc(3).
UNIMOD_Lys__Val
Lys->Val: Lys->Val substitution.
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuGc_1_
dHex(1)Hex(5)HexNAc(3)NeuGc(1): DHex Hex(5) HexNAc(3) NeuGc —OR— Hex(6) HexNAc(3) NeuAc.
MS_secondary_isotope_peak
secondary isotope peak: Fragment ion is an isotopic peak other than that monoisotopic peak....
MS_64_bit_integer
64-bit integer: Signed 64-bit little-endian integer.
UNIMOD_glycidamide
glycidamide: Glycidamide adduct.
UNIMOD_Carbamidomethyl
Carbamidomethyl: Iodoacetamide derivative.
MS_nth_generation_product_ion_spectrum
nth generation product ion spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments designe...
MS_fourier_transform_ion_cyclotron_resonance_mass_spectrometer
fourier transform ion cyclotron resonance mass spectrometer: A mass spectrometer based on the princip...
UO_megaHertz
megaHertz: A frequency unit which is equal to one million hertz or 10^[6] V.
MS_max_fold_change
max fold change: Global datatype: Maximum of all pair-wise fold changes of group means (e....
UNIMOD_Xle__Tyr
Xle->Tyr: Leu/Ile->Tyr substitution.
UNIMOD_Deoxyhypusine
Deoxyhypusine: Deoxyhypusine.
UO_square_millimeter
square millimeter: An area unit which is equal to one millionth of a square meter or 10^[-6] m^[2].
MS_surface_enhanced_neat_desorption
surface enhanced neat desorption: Matrix-assisted laser desorption ionization in which the matrix is ...
MS_TOPP_IDFileConverter
TOPP IDFileConverter: Converts identification engine file formats.
MS_SpectrumMill_SPI
SpectrumMill:SPI: SpectrumMill SPI score (%).
MS_TRIZAIC_UPLC_nanoTile
TRIZAIC UPLC nanoTile: Waters LC-system TRIZAIC UPLC nanoTile.
UNIMOD_Asn__Glu
Asn->Glu: Asn->Glu substitution.
UNIMOD_mTRAQ
mTRAQ: MTRAQ light.
MS_MaxQuant_sequence_length
MaxQuant:sequence length: The data type sequence length produced by MaxQuant.
UO_gram_per_mole
gram per mole: A molar mass unit which is equal to one gram of mass of one mole of chemical element o...
MS_scan_polarity
scan polarity: Relative orientation of the electromagnetic field during the selection and detection o...
MS_ProteinScape_input_parameter
ProteinScape input parameter: Search engine input parameters specific to ProteinScape.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_MS_Order_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized MS Order Replacements: Specifies the MS scan order ...
MS_date___time_search_performed_OBSOLETE
date / time search performed: OBSOLETE: use attribute in mzIdentML instead. Date and time of the actu...
MS_SHA_1
SHA-1: SHA-1 (Secure Hash Algorithm-1) is a cryptographic hash function designed by the National Secu...
MS_membrane_separator
membrane separator: A device to separate carrier molecules from analyte molecules on the basis of eas...
MS_database_type_nucleotide
database type nucleotide: Database contains nucleic acid sequences.
MS_ProteomeDiscoverer_Peptide_NTerminus
ProteomeDiscoverer:Peptide NTerminus: Static modification for the N terminal of the peptide used duri...
UNIMOD_Hex_1_HexNAc_2_dHex_2_
Hex(1)HexNAc(2)dHex(2): Hex1HexNAc2dHex2.
UNIMOD_Dehydro
Dehydro: Half of a disulfide bridge.
MS_TSQ_Quantum_Ultra
TSQ Quantum Ultra: Thermo Scientific TSQ Quantum Ultra.
UNIMOD_CLIP_TRAQ_2
CLIP_TRAQ_2: CLIP_TRAQ_2.
MS_translation_table
translation table: The translation table used to translate the nucleotides to amino acids.
MS_MassHunter_Easy_Access
MassHunter Easy Access: Software for open access data acquisition.
UNIMOD_Val__Arg
Val->Arg: Val->Arg substitution.
UO_radiant_intensity_unit
radiant intensity unit: A unit which is a standard measure of the intensity of electromagnetic radiat...
MS_source
source: Terms to describe the source.
MS_buffer_gas
buffer gas: An inert gas used for collisional deactivation of internally excited ions.
MS_database_UniProtKB_TrEMBL
database UniProtKB/TrEMBL: The name of the UniProtKB/TrEMBL database.
MS_DiLeu_quantitation_analysis
DiLeu quantitation analysis: Quantification analysis using the amine-reactive dimethyl leucine (DiLeu...
UO_microgram_per_milliliter
microgram per milliliter: A mass unit density which is equal to mass of an object in micrograms divid...
MS_retention_time_window_upper_offset
retention time window upper offset: The extent of the retention time window in time units above the t...
UNIMOD_Label_13C_9__Phospho
Label:13C(9)+Phospho: C13 label (Phosphotyrosine).
MS_first_stability_region
first stability region: The region of a Mathieu stability diagram closest to the origin....
MS_DLI
DLI (direct liquid introduction): The delivery of a liquid sample into a mass spectrometer for spray ...
MS_MALDI_Solutions_LC_MALDI
MALDI Solutions LC-MALDI: Software for automated LC-MALDI analysis and reporting.
MS_generic_experimental_condition
generic experimental condition: The experimental condition is given in the value of this term.
UNIMOD_Biotin_HPDP
Biotin-HPDP: Pierce EZ-Link Biotin-HPDP.
MS_PSM_level_identification_statistic
PSM-level identification statistic: Identification confidence metric for a peptide spectrum match.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Charge_Reduced_Precursor
ProteomeDiscoverer:Non-Fragment Filter:Remove Charge Reduced Precursor: Determines whether the charge...
UNIMOD_dHex_2_Hex_2_HexA_1_
dHex(2)Hex(2)HexA(1): DHex(2) Hex(2) HexA.
UNIMOD_Gly_loss_Amide
Gly-loss+Amide: Enzymatic glycine removal leaving an amidated C-terminus.
UNIMOD_Diphthamide
Diphthamide: Diphthamide.
MS_PSM_level_result_list_attribute
PSM-level result list attribute: General property of the list of all PSMs.
UNIMOD_Ala__Thr
Ala->Thr: Ala->Thr substitution.
MS_source_interface_manufacturer
source interface manufacturer: The source interface manufacturer.
MS_ABI
ABI (Applied Biosystems instrument model): Applied Biosystems instrument model.
MS_ProteinProspector_expectation_value
ProteinProspector:expectation value: The ProteinProspector result 'Expectation value'.
UNIMOD_Phe__Cys
Phe->Cys: Phe->Cys substitution.
MS_cross_linking_score
cross-linking score: Cross-linking scoring value.
MS_single_protein_identification_statistic
single protein identification statistic: Results specific for one protein as part of a protein ambigu...
MS_frag__c_ion___H2O
frag: c ion - H2O: Fragmentation information, type of product: c ion without water.
MS_DB_PI_filter_maximum
DB PI filter maximum: Maximum value of isoelectric point filter.
MS_ProteomeDiscoverer_Xtract_Lowest_MZ_OBSOLETE
ProteomeDiscoverer:Xtract:Lowest MZ: Lowest mass-to-charge (mz) value for spectral peaks in the measu...
UNIMOD_Ser__Ala
Ser->Ala: Ser->Ala substitution.
MS_MetaMorpheus
MetaMorpheus: MetaMorpheus search engine.
UNIMOD_Trp__Asn
Trp->Asn: Trp->Asn substitution.
MS_Greazy
Greazy: Open-source software for automated phospholipid tandem mass spectrometry identification.
UO_lumen
lumen: A luminous flux unit which is equal to the luminous flux emitted into 1 steradian by a point s...
UO_microliter
microliter: A volume unit which is equal to one millionth of a liter or 10^[-6] L.
UNIMOD_dHex_2_Hex_2_HexNAc_2_NeuAc_1_
dHex(2)Hex(2)HexNAc(2)NeuAc(1): DHex(2) Hex(2) HexNAc(2) NeuAc —OR— Hex HexNAc(3) dHex(2) Kdn.
UNIMOD_dHex_1_Hex_7_HexNAc_3_Phos_1_
dHex(1)Hex(7)HexNAc(3)Phos(1): DHex Hex(7) HexNAc(3) Phos.
MS_Sequence_database_filter_types
Sequence database filter types: Filter types which are used to filter a sequence database.
MS_ProteomeDiscoverer_Mascot_Max_MGF_File_Size
ProteomeDiscoverer:Mascot:Max MGF File Size: Maximum size of the .mgf (Mascot Generic Format) file in...
MS_sector_mass_spectrometer_OBSOLETE
sector mass spectrometer: A mass spectrometer consisting of one or more magnetic sectors for m/z sele...
UNIMOD_Hex_1_NeuGc_1_
Hex(1)NeuGc(1): Hex NeuGc.
MS_MS_GF_DeNovoScore
MS-GF:DeNovoScore: MS-GF de novo score.
MS_TraML_format
TraML format: The TraML format for transitions in SRM from the PSI. File extension '....
MS_PIA_protein_inference_scoring
PIA:protein inference scoring: The used scoring method for the protein inference using PIA.
MS_pep_FDR_threshold
pep:FDR threshold: False-discovery rate threshold for peptides.
UNIMOD_NO_SMX_SIMD
NO_SMX_SIMD: Nitroso Sulfamethoxazole Sulfinamide thiol adduct.
MS_SEQUEST_sort_by_XCorr
SEQUEST:sort by XCorr: Sort order of SEQUEST search results by the correlation score.
UNIMOD_Hex_4_HexNAc_5_Sulf_1_
Hex(4)HexNAc(5)Sulf(1): Hex(4) HexNAc(5) Sulf.
UNIMOD_CarbamidomethylDTT
CarbamidomethylDTT: Carbamidomethylated DTT modification of cysteine.
MS_CLINPROT_micro
CLINPROT micro: Bruker CLINPROT micro software.
PEFF_GeneralComment
GeneralComment: PEFF file general comment.
UNIMOD_Hex_3_HexNAc_4_Pent_1_
Hex(3)HexNAc(4)Pent(1): Hex(3) HexNAc(4) Pent.
MS_apexControl
apexControl: Bruker software for data acquisition.
MS_Original_data
Original data: One dataset is not a reanalysis of previously published data.
UNIMOD_Diiodo
Diiodo: Di-Iodination.
MS_Other_type_file_URI
Other type file URI: URI of one file labeled as 'Other', associated to one PX submission.
MS_postprocessing_software
postprocessing software: Postprocessing software.
UNIMOD_dHex_1_Hex_3_HexNAc_3_Pent_3_
dHex(1)Hex(3)HexNAc(3)Pent(3): DHex Hex(3) HexNAc(3) Pent(3) —OR— Hex(4) HexNAc(2) dHex(2) NeuAc.
UNIMOD_Asp__Pro
Asp->Pro: Asp->Pro substitution.
MS_Experiment_additional_parameter
Experiment additional parameter: Root node for terms relating to the description of an Experiment in ...
MS_HCTcontrol
HCTcontrol: Bruker software for data acquisition.
MS_____BD__
(?=[BD]): Regular expression for Asp-N.
MS_constant_OBSOLETE
constant: When resolution is constant with respect to m/z.
UO_liter
liter: A volume unit which is equal to one thousandth of a cubic meter or 10^[-3] m^[3],...
MS_peptide_consensus_RT
peptide consensus RT: Peptide consensus retention time.
MS_sampled_noise_baseline_array
sampled noise baseline array: A data array of baseline intensity values (the intensity in the absence...
MS_TSQ_7000
TSQ 7000: ThermoFinnigan TSQ 7000 MS.
UNIMOD_dHex_2_Hex_4_HexNAc_4_Pent_1_
dHex(2)Hex(4)HexNAc(4)Pent(1): DHex(2) Hex(4) HexNAc(4) Pent.
UNIMOD_Deamidated_18O_1_
Deamidated:18O(1): Deamidation in presence of O18.
MS_frag__y_ion___H2O
frag: y ion - H2O: Fragmentation information, type of product: y ion without water.
MS_unmapped_peptide
unmapped peptide: Within the context of a proteogenomics approach, a peptide sequence that has not be...
UNIMOD_Xle__Lys
Xle->Lys: Leu/Ile->Lys substitution.
MS_enium_ion_OBSOLETE
enium ion: A positively charged lower-valency ion of the nonmetallic elements. The methenium ion is C...
UNIMOD_Galactosyl
Galactosyl: Gluconoylation.
UO_gram_per_cubic_centimeter
gram per cubic centimeter: A mass unit density which is equal to mass of an object in grams divided b...
MS_ICPL_reagent_0
ICPL reagent 0: The name of the sample labelled with the ICPL reagent 0.
MS_ion_optics_type
ion optics type: The electrical potential used to impart kinetic energy to ions in a mass spectromete...
MS_Triple_Quad_6500_
Triple Quad 6500+: SCIEX Triple Quad 6500+.
MS_Byonic_Protein_LogProb
Byonic:Protein LogProb: The log p-value of the protein.
MS_ProteinExtractor_Score
ProteinExtractor:Score: The score calculated by ProteinExtractor.
MS_TopPIC_proteoform_level_FDR
TopPIC:proteoform-level FDR: TopPIC proteoform-level FDR.
MS_database_type_amino_acid
database type amino acid: Database contains amino acid sequences.
UO_ounce
ounce: An imperial mass unit which is equivalent to 28.349,523,125 grams, or 1/16 of 1 pound.
MS_PIA_protein_inference
PIA:protein inference: The used algorithm for the protein inference using PIA.
UNIMOD_Xlink_BuUrBu_214_
Xlink:BuUrBu[214]: Water quenched monolink of BuUrBu crosslinker.
UNIMOD_dHex_3_Hex_3_HexNAc_3_NeuAc_1_
dHex(3)Hex(3)HexNAc(3)NeuAc(1): DHex(3) Hex(3) HexNAc(3) NeuAc.
PEFF_SeqStatus
SeqStatus: Sequence Status. Complete or Fragment.
UNIMOD_Pro__Cys
Pro->Cys: Pro->Cys substitution.
MS_predicted_isoelectric_point
predicted isoelectric point: The pH of a solution at which a charged molecule would not migrate in an...
MS______KR__
(?<=[KR]): Regular expression for Trypsin/P.
UNIMOD_2_hydroxyisobutyrylation
2-hydroxyisobutyrylation: 2-hydroxyisobutyrylation.
MS_Bruker_Daltonics_esquire_series
Bruker Daltonics esquire series: Bruker Daltonics' esquire series.
UNIMOD_Myristoleyl
Myristoleyl: (cis-delta 5)-tetradecaenoyl.
MS_NH3_neutral_loss_OBSOLETE
NH3 neutral loss: Neutral loss of ammonia.
UNIMOD_iTRAQ4plex115
iTRAQ4plex115: Accurate mass for 115.
MS_charge_inversion_mass_spectrum
charge inversion mass spectrum: The measurement of the relative abundance of ions that result from a ...
MS_cross_linking_attribute
cross-linking attribute: Cross-linking attribute.
UO_micromole_per_litre
micromole per litre: A specific concentration unit which is equal to 1 micromole in a given volume of...
MS_mass_resolution
mass resolution: Smallest mass difference between two equal magnitude peaks so that the valley betwee...
MS_detector_potential
detector potential: Detector potential difference in volts.
MS_plasma_desorption_ionization
plasma desorption ionization: The ionization of material in a solid sample by bombarding it with ioni...
MS_point_collector
point collector: A detector in which the ion beam is focused onto a point and the individual ions arr...
UNIMOD_Cy3b_maleimide
Cy3b-maleimide: Fluorescent dye that labels cysteines.
MS_zoom_scan
zoom scan: Special scan mode, where data with improved resolution is acquired. This is typically achi...
MS_decoy_DB_from_IPI_cow_OBSOLETE
decoy DB from IPI_cow: Decoy database from a International Protein Index database for Bos taurus.
UNIMOD_Label_13C_6_15N_4_
Label:13C(6)15N(4): 13C(6) 15N(4) Silac label.
UNIMOD_FNEM
FNEM: Fluorescein-5-maleimide.
MS_AXIMA_CFR_plus
AXIMA-CFR plus: Shimadzu Biotech AXIMA-CFR plus MS.
MS_glow_discharge_ionization
glow discharge ionization: The formation of ions in the gas phase and from solid samples at the catho...
MS_binary_data_compression_type
binary data compression type: Compression Type.
UNIMOD_Tyr__Dha
Tyr->Dha: Dehydroalanine (from Tyrosine).