13348 UO_microgram_per_liter = 200000301
13371 bool empty()
const;
13397 const std::string& shortName()
const;
13398 std::string prefix()
const;
UO_liter_per_kilogram
liter per kilogram: A specific volume unit which is equal to one liter volume occupied by one kilogra...
MS_static_field
static field: An electric or magnetic field that does not change in time.
MS_SEQUEST_PeptideRankSp
SEQUEST:PeptideRankSp: The SEQUEST result 'Sp' of 'Rank/Sp' in out file (peptide). Also called 'rsp'.
MS_nanospray
nanospray (nanoelectrospray): Electrospray ionization at a flow rate less than ~25 nL/min...
MS_contact_address
contact address: Postal address of the contact person or organization.
MS_thermospray_inlet
thermospray inlet: A method for generating gas phase ions from a solution of an analyte by rapid heat...
MS_tandem_mass_spectrometer_OBSOLETE
tandem mass spectrometer: A mass spectrometer designed for mass spectrometry/mass spectrometry...
MS_modification_specificity_protein_N_term
modification specificity protein N-term: As parameter for search engine: apply the modification only ...
MS_KERD_OBSOLETE
KERD (kinetic energy release distribution): Distribution of values of translational kinetic energy re...
MS_Mascot_input_parameter
Mascot input parameter: Search engine input parameters specific to Mascot.
UNIMOD_4_ONE_Delta_H__2_O__1_
4-ONE+Delta:H(-2)O(-1): Dehydrated 4-Oxononenal Michael adduct.
MS_p_value_OBSOLETE
p-value: Quality estimation by p-value.
MS_TOPP_SpectraFilterMarkerMower
TOPP SpectraFilterMarkerMower: Applies a filter to peak spectra for marked peaks. ...
MS_Triple_Quad_3500
Triple Quad 3500: SCIEX Triple Quad 3500.
UNIMOD_Ub_VME
Ub-VME: Ubiquitin vinylmethylester.
MS_Applied_Biosystems_instrument_model
Applied Biosystems instrument model: Applied Biosystems instrument model.
UNIMOD_Guanidinyl
Guanidinyl: Guanidination.
MS_senior_author
senior author: The last of a set of authors associated with a publication or release. There may be more than one senior author in cases where several authors share senior attribution.
MS_heavy_labeled_peptide
heavy labeled peptide: A peptide that has been created or labelled with some heavier-than-usual isoto...
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_retention_time_window_width
retention time window width: The full width of a retention time window for a chromatographic peak...
MS_H_PINS_retention_time_normalization_standard
H-PINS retention time normalization standard: The de facto standard providing the retention times at ...
MS_continuous_mass_spectrum
continuous mass spectrum (profile spectrum): A profile mass spectrum is created when data is recorded...
MS_nth_generation_product_ion_OBSOLETE
nth generation product ion: Serial product ions from dissociation of selected precursor ions where n ...
UNIMOD_Lys_loss
Lys-loss: Loss of C-terminal K from Heavy Chain of MAb.
std::string id
the short label to be used as a reference tag with which to refer to this particular Controlled Vocab...
UNIMOD_Biotin
Biotin: Biotinylation.
UNIMOD_Met__Hpg
Met->Hpg: Methionine replacement by homopropargylglycine.
MS_modification_probability
modification probability: The a priori probability of a modification.
MS_ProteomeDiscoverer_Mascot_X_Static_Modification
ProteomeDiscoverer:Mascot:X Static Modification: Number of attempts to submit the Mascot search...
UNIMOD_NQIGG
NQIGG: SUMOylation by Giardia lamblia.
MS_MassHunter_BioConfirm
MassHunter BioConfirm: Software for protein characterization.
UO_plaque_forming_unit_per_milliliter
plaque forming unit per milliliter: A concentration unit which a measure of plague forming units in o...
MS_DeBunker_score
DeBunker:score: Score specific to DeBunker.
MS_solariX
solariX: Bruker Daltonics' solariX: ESI, MALDI, Qh-FT_ICR.
UO_dynamic_range_unit
dynamic range unit: An image resolution unit which is a standard measure of the amount of contrast av...
UNIMOD_Puromycin
Puromycin: Puromycin.
UNIMOD_Glycerophospho
Glycerophospho: Glycerophospho.
MS_SEQUEST_DescriptionLines
SEQUEST:DescriptionLines: Number of full protein descriptions to show for top N peptides.
MS_free_electron_laser
free electron laser: Free electron laser uses a relativistic electron beam as the lasing medium which...
MS_tolerance_on_types_OBSOLETE
tolerance on types: OBSOLETE: Tolerance on types.
MS_coated_glass_plate
coated glass plate: Coated glass plate.
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_GCT_Premier
GCT Premier: Waters oa-ToF based GCT Premier.
UNIMOD_Gln__Pro
Gln->Pro: Gln->Pro substitution.
MS_peptide_labeling_state
peptide labeling state: A state description of how a peptide might be isotopically or isobarically la...
MS_ProfileAnalysis
ProfileAnalysis: Bruker software for data analysis.
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).
MS_param__z_1_ion
param: z+1 ion: Parameter information, type of product: z+1 ion.
UNIMOD_Biotin_Thermo_21901_2H2O
Biotin:Thermo-21901+2H2O: Maleimide-Biotin + 2Water.
MS_ion_kinetic_energy_spectrometry_OBSOLETE
ion kinetic energy spectrometry: A method of analysis in which a beam of ions is separated according ...
UNIMOD_Label_13C_4_15N_1_
Label:13C(4)15N(1): 13C4 15N1 label for SILAC.
UO_disintegrations_per_second
disintegrations per second: An activity (of a radionuclide) unit which is equal to the activity of a ...
MS_ProteomeDiscoverer_Mascot_Decoy_Search_OBSOLETE
ProteomeDiscoverer:Mascot:Decoy Search: Determines whether the Proteome Discoverer application search...
MS_Cleavage_agent_regular_expression
Cleavage agent regular expression: Regular expressions for cleavage enzymes.
UNIMOD_Hex_1_HexNAc_1_Kdn_1_Sulf_1_
Hex(1)HexNAc(1)Kdn(1)Sulf(1): Hex HexNAc Kdn Sulf.
MS_isobaric_label_quantitation_analysis
isobaric label quantitation analysis: Quantitation analysis using an isobaric labelling workflow...
MS_LCQ_Classic
LCQ Classic: ThermoFinnigan LCQ Classic MS.
MS_frag__z_2_ion
frag: z+2 ion: Fragmentation information, type of product: z+2 ion.
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_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_D_Score_threshold
D-Score threshold: Threshold for D-score PTM site location score.
MS_Element_GD
Element GD: Thermo Scientific Element GD Glow Discharge MS.
UNIMOD_Propionamide_2H_3_
Propionamide:2H(3): Acrylamide d3.
UNIMOD_dHex_1_Hex_1_HexNAc_3_
dHex(1)Hex(1)HexNAc(3): DHex Hex HexNAc(3).
MS_two_dimensional_liquid_chromatography_with_fixed_modulation_time
two-dimensional liquid chromatography with fixed modulation time: Two-dimensional liquid chromatograp...
MS_NG_5400
NG-5400: Waters NG-5400 MS.
MS_liquid_chromatography_separation
liquid chromatography separation: Liquid chromatography (LC) is a separation technique in which the m...
UNIMOD_mTRAQ_13C_6_15N_2_
mTRAQ:13C(6)15N(2): MTRAQ heavy.
MS_product_ion_drift_time_OBSOLETE
product ion drift time: The ion drift time of an MS2 product ion.
MS_CRM_OBSOLETE
CRM (consecutive reaction monitoring): MSn experiment with three or more stages of m/z separation and...
UNIMOD_Biotin_phenacyl
Biotin-phenacyl: Alkylation by biotinylated form of phenacyl bromide.
MS_ProteomeDiscoverer_SEQUEST_Fragment_Ion_Cutoff_Percentage
ProteomeDiscoverer:SEQUEST:Fragment Ion Cutoff Percentage: Percentage of the theoretical ions that mu...
MS_Bruker_Daltonics_EVOQ_series
Bruker Daltonics EVOQ series: Bruker Daltonics' EVOQ series.
MS_wavelength_array
wavelength array: A data array of electromagnetic radiation wavelength values.
MS_deisotoping
deisotoping: The removal of isotope peaks to represent the fragment ion as one data point and is comm...
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_leading_protein
leading protein: At least one protein within each group should be annotated as a leading protein to i...
UNIMOD_dHex_3_Hex_4_HexNAc_4_
dHex(3)Hex(4)HexNAc(4): DHex(3) Hex(4) HexNAc(4).
MS_Scaffold__Minimum_Peptide_Probability
Scaffold: Minimum Peptide Probability: Minimum probability a peptide must have to be accepted for pro...
MS_TIC
TIC (total ion current): The sum of all the separate ion currents carried by the ions of different m/...
UNIMOD_Lys__Tyr
Lys->Tyr: Lys->Tyr substitution.
UNIMOD_Ala__Glu
Ala->Glu: Ala->Glu substitution.
MS_electromagnetic_radiation_chromatogram
electromagnetic radiation chromatogram: The measurement of electromagnetic properties as a function o...
MS_selected_reaction_monitoring_chromatogram
selected reaction monitoring chromatogram: Chromatogram created by creating an array of the measureme...
UNIMOD_DiART6plex
DiART6plex: Representative mass and accurate mass for 114.
MS_TOPP_IDPosteriorErrorProbability
TOPP IDPosteriorErrorProbability: Estimates posterior error probabilities using a mixture model...
UNIMOD_Hex_4_HexNAc_3_NeuGc_1_
Hex(4)HexNAc(3)NeuGc(1): Hex(4) HexNAc(3) NeuGc.
UNIMOD_Ala__Tyr
Ala->Tyr: Ala->Tyr substitution.
MS_chromatogram
chromatogram: The representation of detector response versus time.
MS_MRMaid
MRMaid: A web-based SRM assay design tool whose transitions are generated by mining the millions of i...
MS_SEQUEST_deltacn
SEQUEST:deltacn: The SEQUEST result 'DeltaCn'.
MS_param__z_ion
param: z ion: Parameter information, type of product: z ion with charge on the C-terminal side...
MS_m_z_difference
m/z difference (delta m/z): The difference between a theoretically calculated m/z and the correspondi...
UNIMOD_Val__Pro
Val->Pro: Val->Pro substitution.
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.
UNIMOD_Diphthamide
Diphthamide: Diphthamide.
UNIMOD_GluGluGlu
GluGluGlu: Triglutamyl.
MS_ProteomeDiscoverer_Xtract_Monoisotopic_Mass_Only
ProteomeDiscoverer:Xtract:Monoisotopic Mass Only: Determines whether the isotopic pattern...
MS_Paragon_confidence
Paragon:confidence: The Paragon result 'Confidence'.
UNIMOD_DHP
DHP: Dehydropyrrolizidine alkaloid (dehydroretronecine) on cysteines.
UNIMOD_dHex_1_Hex_1_HexNAc_2_NeuAc_2_
dHex(1)Hex(1)HexNAc(2)NeuAc(2): DHex Hex HexNAc(2) NeuAc(2).
UNIMOD_Lysbiotinhydrazide
Lysbiotinhydrazide: Oxidized Lysine biotinylated with biotin hydrazide.
MS_cross_linking_score
cross-linking score: Cross-linking scoring value.
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_Arg__Tyr
Arg->Tyr: Arg->Tyr substitution.
MS_QuantAnalysis
QuantAnalysis: Bruker software for data analysis.
MS_Bioworks
Bioworks: Thermo Finnigan software for data analysis of peptides and proteins.
MS_MZmine
MZmine: A framework for differential analysis of mass spectrometry data.
MS_m_z_calibration
m/z calibration: Calibration of data point m/z positions.
UNIMOD_FAD
FAD: Flavin adenine dinucleotide.
MS_ProteomeDiscoverer_Xtract_Resolution_At_400
ProteomeDiscoverer:Xtract:Resolution At 400: Resolution at mass 400.
UO_mass_volume_percentage
mass volume percentage: A dimensionless concentration unit which denotes the mass of the substance in...
MS_thresholding
thresholding (low intensity data point removal): The removal of very low intensity data points that a...
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_solid_sample_state
solid sample state: State if the sample is in solid form.
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...
UNIMOD_HexNAc_2_dHex_1_
HexNAc(2)dHex(1): HexNAc2dHex1.
MS_CompassXport
CompassXport: Bruker stand-alone software for data conversion.
MS_Continuum_Mass_Spectrum
Continuum Mass Spectrum (profile spectrum): A profile mass spectrum is created when data is recorded ...
MS_SEQUEST_sort_by_Sequence
SEQUEST:sort by Sequence: Sort order of SEQUEST search results given by the sequence.
UO_millimolal
millimolal: A molality unit which is equal to one thousandth of a molal or 10^[-3] m...
MS_delta_m_z
delta m/z: The difference between a theoretically calculated m/z and the corresponding experimentally...
MS_Phenyx_Turbo
Phenyx:Turbo: The turbo mode parameter in Phenyx.
UNIMOD_dHex_2_Hex_2_HexNAc_2_
dHex(2)Hex(2)HexNAc(2): DHex(2) Hex(2) HexNAc(2).
UNIMOD_AMTzHexNAc2
AMTzHexNAc2: Photocleavable Biotin + GalNAz on O-GlcNAc.
MS_MS_Numpress_short_logged_float_compression
MS-Numpress short logged float compression: Compression using MS-Numpress short logged float compress...
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_Paragon_score
Paragon:score: The Paragon result 'Score'.
MS_____BD__
(?=[BD]): Regular expression for Asp-N.
UO_liter
liter: A volume unit which is equal to one thousandth of a cubic meter or 10^[-3] m^[3]...
MS_SRM_peptide_level_quantitation
SRM peptide level quantitation: Selected Reaction Monitoring peptide level quantitation.
MS_SEQUEST_Chromatogram
SEQUEST:Chromatogram:
UNIMOD_Hex_3_HexNAc_4_Sulf_1_
Hex(3)HexNAc(4)Sulf(1): Hex(3) HexNAc(4) Sulf.
UNIMOD_PhosphoHex
PhosphoHex: Phosphoglycosyl-D-mannose-1-phosphoryl.
MS_SCIEX_TOF_TOF_Series_Explorer_Software
SCIEX TOF/TOF Series Explorer Software: SCIEX or Applied Biosystems software for TOF/TOF data acquisi...
MS_ProteomeDiscoverer_1__Static_Modification_OBSOLETE
ProteomeDiscoverer:1. Static Modification: ProteomeDiscoverer's 1st static post-translational modific...
UNIMOD_Methylphosphonate
Methylphosphonate: Methylphosphonylation.
MS_HiRes_MALDI
HiRes MALDI: IonSpec HiResMALDI MS.
MS_Paragon_unused_protscore
Paragon:unused protscore: The Paragon result 'Unused ProtScore'.
UNIMOD_Gly__Asp
Gly->Asp: Gly->Asp substitution.
MS_pyrolysis_mass_spectrometry
pyrolysis mass spectrometry: A mass spectrometry technique in which the sample is heated to the point...
UNIMOD_Val__Phe
Val->Phe: Val->Phe substitution.
MS_OpenXQuest_intsum
OpenXQuest:intsum: OpenXQuest's sum of matched peak intensity subscore.
MS_scan_number_s__OBSOLETE
scan number(s): OBSOLETE: use spectrumID attribute of SpectrumIdentificationResult. Take from mzData.
UNIMOD_Thiazolidine
Thiazolidine: Addition of Carbon to cysteine.
MS_param__a_ion_NH3_DEPRECATED
param: a ion-NH3 DEPRECATED: Ion a-NH3 parameter information, type of product: a ion with lost ammoni...
UO_hour
hour: A time unit which is equal to 3600 seconds or 60 minutes.
MS_instrument
instrument: Description of the instrument or the mass spectrometer.
UNIMOD_Arg_loss
Arg-loss: Loss of arginine due to transpeptidation.
MS_ICAT_light_reagent
ICAT light reagent: The name of the sample labelled with the light ICAT label.
MS_percent_collision_energy_ramp_end
percent collision energy ramp end: Collision energy at the end of the collision energy ramp in percen...
UNIMOD_Hex_1_HexNAc_1_NeuGc_1_
Hex(1)HexNAc(1)NeuGc(1): Hex HexNAc NeuGc.
MS_membrane_inlet
membrane inlet: A semi-permeable membrane separator that permits the passage of gas sample directly t...
UO_microsievert
microsievert: A dose equivalent unit which is equal to one millionth of a sievert or 10^[-6] Sv...
MS_de_facto_standard
de facto standard: A practice or product that has become a standard not because it has been approved ...
UO_pixels_per_millimeter
pixels per millimeter: A spatial resolution unit which is a standard measure of the number of pixels ...
MS_xi
xi: Search engine for cross-linked peptides.
MS_PAnalyzer
PAnalyzer: PAnalyzer software for getting protein evidence categories.
MS_mzidLib_Omssa2Mzid
mzidLib:Omssa2Mzid: A converter for OMSSA OMX to mzIdentML.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge3: Standard high confidence XCorr paramete...
UNIMOD_Retinylidene
Retinylidene: Retinal.
UNIMOD_Xle__Ala
Xle->Ala: Leu/Ile->Ala substitution.
UNIMOD_Cation_Ca_II_
Cation:Ca[II]: Replacement of 2 protons by calcium.
UNIMOD_dHex_2_Hex_3_HexNAc_3_Pent_1_
dHex(2)Hex(3)HexNAc(3)Pent(1): DHex(2) Hex(3) HexNAc(3) Pent.
MS_cross_linking_attribute
cross-linking attribute: Cross-linking attribute.
UO_microgray
microgray: An absorbed dose unit which is equal to one millionth of a gray or 10^[-6] Gy...
MS_decoy_DB_from_IPI_arabidopsis_OBSOLETE
decoy DB from IPI_arabidopsis: Decoy database from a International Protein Index database for Arabido...
MS_label_free_protein_level_quantitation
label-free protein level quantitation: Label-free protein level quantitation.
UNIMOD_Hex_6_HexNAc_5_
Hex(6)HexNAc(5): Hex(6) HexNAc(5).
UNIMOD_Dehydro
Dehydro: Half of a disulfide bridge.
UNIMOD_dHex_1_Hex_2_HexNAc_4_NeuAc_1_
dHex(1)Hex(2)HexNAc(4)NeuAc(1): DHex Hex(2) HexNAc(4) NeuAc.
MS_intensity_of_precursor_ion
intensity of precursor ion: The intensity of the precursor ion.
MS_decoy_DB_from_IPI_cow_OBSOLETE
decoy DB from IPI_cow: Decoy database from a International Protein Index database for Bos taurus...
MS_mass_spectrometer_file_format
mass spectrometer file format: The format of the file being used. This could be a instrument or vendo...
UNIMOD_cysTMT6plex
cysTMT6plex: Cysteine-reactive Sixplex Tandem Mass Tag®.
MS_Phenyx_Peptides1
Phenyx:Peptides1: First number of phenyx result "#Peptides".
UNIMOD_LRGG
LRGG: Ubiquitination.
UNIMOD_Hex_3_HexNAc_3_NeuAc_2_Sulf_1_
Hex(3)HexNAc(3)NeuAc(2)Sulf(1): Hex(3) HexNAc(3) NeuAc(2) Sulf.
MS_peak_list_scans
peak list scans: A list of scan numbers and or scan ranges associated with a peak list...
UO_microsecond
microsecond: A time unit which is equal to one millionth of a second or 10^[-6] s.
UNIMOD_dHex_1_HexNAc_5_
dHex(1)HexNAc(5): DHex HexNAc(5).
UNIMOD_iodoTMT
iodoTMT: Native iodoacetyl Tandem Mass Tag®.
MS_autoflex
autoflex: Bruker Daltonics' autoflex: MALDI TOF.
MS_DB_PI_filter_maximum
DB PI filter maximum: Maximum value of isoelectric point filter.
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_ProteomeDiscoverer_SEQUEST_Weight_of_w_Ions
ProteomeDiscoverer:SEQUEST:Weight of w Ions: Uses c ions for spectrum matching with this relative fac...
MS_InternalCalibration
InternalCalibration: Applies an internal calibration.
MS_light_labeled_sample
light labeled sample (unlabeled sample): A sample that has not been labelled or modified. This is often referred to as "light" to distinguish from "heavy".
MS_dissociative_ionization
dissociative ionization: The reaction of a gas-phase molecule that results in its decomposition to fo...
MS_ProteinExtractor_ProteinSolverPeptideScoreThreshold
ProteinExtractor:ProteinSolverPeptideScoreThreshold: Only peptides with scores higher than that thres...
MS_quantitation_software_version_OBSOLETE
quantitation software version: Quantitation software version.
MS_Bruker_U2_format
Bruker U2 format: Bruker HyStar U2 file format.
MS_Quistor
Quistor (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three dimensi...
MS_BioTOF_Q
BioTOF-Q: Bruker Daltonics' BioTOF-Q: ESI Q-TOF.
MS_inductively_coupled_plasma
inductively coupled plasma: A gas discharge ion source in which the energy to the plasma is supplied ...
MS_field_ionization
field ionization: The removal of electrons from any species by interaction with a high electric field...
UNIMOD_Hex_5_
Hex(5): Hex(5).
MS_number_of_precursor_ion_observations
number of precursor ion observations: The number of times the specific precursor ion has been observe...
UNIMOD_CyDye_Cy5
CyDye-Cy5: Cy5 CyDye DIGE Fluor saturation dye.
MS_TraML_format
TraML format: The TraML format for transitions in SRM from the PSI. File extension '...
MS_EVOQ_Elite
EVOQ Elite: Bruker Daltonics' EVOQ Elite: LC-triple quadrupole.
MS_LC_MS_feature_intensity
LC-MS feature intensity: Maximum peak intensity of the LC-MS feature.
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_MSn_spectrum
MSn spectrum: MSn refers to multi-stage MS2 experiments designed to record product ion spectra where ...
MS_mass_chromatogram
mass chromatogram: A plot of the relative abundance of a beam or other collection of ions as a functi...
MS_TOPP_OpenSwathRTNormalizer
TOPP OpenSwathRTNormalizer: Generates a transformation file for retention time space into normalized ...
MS_ProteomeDiscoverer_Target_FDR_Strict
ProteomeDiscoverer:Target FDR Strict: Specifies the strict target false discovery rate (FDR...
MS_SCIEX_TOF_TOF_nativeID_format
SCIEX TOF/TOF nativeID format: Native format defined by jobRun=xsd:nonNegativeInteger spotLabel=xsd:s...
UNIMOD_Hex_1_HexA_1_HexNAc_2_
Hex(1)HexA(1)HexNAc(2): Hex HexA HexNAc(2).
MS_domain_range
domain range: Domain range of a numerical value.
MS_coefficient_of_variation
coefficient of variation: Variation of a set of signal measurements calculated as the standard deviat...
UNIMOD_Cys__Xle
Cys->Xle: Cys->Leu/Ile substitution.
UNIMOD_Tyr__Asp
Tyr->Asp: Tyr->Asp substitution.
UNIMOD_dHex_1_Hex_2_HexNAc_1_
dHex(1)Hex(2)HexNAc(1): DHex Hex(2) HexNAc.
MS_Asp_N
Asp-N: Endoproteinase Asp-N.
UNIMOD_Trioxidation
Trioxidation: Cysteine oxidation to cysteic acid.
PWIZ_API_DECL const CVTermInfo & cvTermInfo(CVID cvid)
returns CV term info for the specified CVID
MS_QSTAR_XL
QSTAR XL: Applied Biosystems|MDS SCIEX QSTAR XL.
UNIMOD_Phosphogluconoylation
Phosphogluconoylation: Phosphogluconoylation.
UNIMOD_Xlink_DST
Xlink:DST: Monolink of DST crosslinker to Lys or N-terminus.
MS_MzStar
MzStar: A software program for converting Applied Biosystems wiff file format to mzXML format...
UNIMOD_Hex_2_HexNAc_3_NeuGc_2_
Hex(2)HexNAc(3)NeuGc(2): Hex(2) HexNAc(3) NeuGc(2).
UNIMOD_GG
GG: Ubiquitinylation residue.
MS_frag__a_ion___NH3
frag: a ion - NH3: Ion a-NH3 fragmentation information, type of product: a ion without ammonia...
MS_average_mass_OBSOLETE
average mass: The mass of an ion or molecule calculated using the average mass of each element weight...
UNIMOD_Ser__Gly
Ser->Gly: Ser->Gly substitution.
MS_selected_reaction_monitoring
selected reaction monitoring: Data acquired from specific product ions corresponding to m/z selected ...
MS_PASSEL_transition_group_browser_URI
PASSEL transition group browser URI: URI to retrieve transition group data for a PASSEL (PeptideAtlas...
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).
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.
MS_chemical_compound_formula
chemical compound formula: A combination of symbols used to express the chemical composition of a com...
MS_SEQUEST_InfoAndLog
SEQUEST:InfoAndLog:
MS_reflectron
reflectron: A time-of-flight mass spectrometer that uses a static electric field to reverse the direc...
MS_API_165
API 165: Applied Biosystems/MDS SCIEX API 165 MS.
UNIMOD_Hex_9_HexNAc_2_
Hex(9)HexNAc(2): Hex(9) HexNAc(2).
UNIMOD_glycidamide
glycidamide: Glycidamide adduct.
MS_sequence_multiply_subsumable_protein
sequence multiply subsumable protein: A protein for which the matched peptide sequences are the same...
MS_superelastic_collision_OBSOLETE
superelastic collision: Collision in which the translational energy of the fast-moving collision part...
MS_Compass
Compass: Bruker Compass software.
MS_Element_XR
Element XR: Thermo Scientific Element XR HR-ICP-MS.
MS_Thermo_Electron_instrument_model
Thermo Electron instrument model: Thermo Electron Corporation instrument model.
MS_apex_ultra
apex ultra: Bruker Daltonics' apex ultra: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR.
UNIMOD_Ser__Trp
Ser->Trp: Ser->Trp substitution.
MS_Byonic_Delta_Score
Byonic:Delta Score: The drop in Byonic score from the top-scoring peptide to the next peptide with di...
MS_protein_ambiguity_group_result_details
protein ambiguity group result details:
MS_Phenyx_Conflict_Resolution
Phenyx:Conflict Resolution: The parameter in Phenyx that specifies if the conflict resolution algorit...
MS_number_of_spectra_searched
number of spectra searched: Number of spectra in a search.
UO_count_per_molar_second
count per molar second: A rate unit which is equal to one over one molar second.
UNIMOD_GluGlu
GluGlu: Diglutamyl.
MS_assay_label_attribute
assay label attribute: Attribute describing an assay label.
MS_SEQUEST_out_file_format
SEQUEST out file format: Source file for this mzIdentML was in SEQUEST out file format.
MS_membrane_separator
membrane separator: A device to separate carrier molecules from analyte molecules on the basis of eas...
UNIMOD_His__Gly
His->Gly: His->Gly substitution.
MS_zoom_scan
zoom scan: Special scan mode, where data with improved resolution is acquired. This is typically achi...
MS_TOPP_HighResPrecursorMassCorrector
TOPP HighResPrecursorMassCorrector: Performs precursor mz correction on centroided high resolution da...
MS_sample_batch
sample batch: Sample batch lot identifier.
UO_mole_fraction
mole fraction: A concentration unit which denotes the number of moles of solute as a proportion of th...
MS_mass_spectrometer_OBSOLETE
mass spectrometer: An instrument that measures the mass-to-charge ratio and relative abundances of io...
MS_ProteomeDiscoverer_Initial_minimal_peptide_probability
ProteomeDiscoverer:Initial minimal peptide probability: Minimal initial peptide probability to contri...
MS_ProteomeDiscoverer_SEQUEST_Maximum_Peptides_Considered
ProteomeDiscoverer:SEQUEST:Maximum Peptides Considered: Maximum number of peptides that are searched ...
MS_frag__c_ion
frag: c ion: Fragmentation information, type of product: c ion.
MS_ProteomeDiscoverer_SEQUEST_Use_Average_Fragment_Masses
ProteomeDiscoverer:SEQUEST:Use Average Fragment Masses: Use average masses for the fragments...
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_Ethanolamine
Ethanolamine: Carboxyl modification with ethanolamine.
UNIMOD_QAT_2H_3_
QAT:2H(3): APTA d3.
MS_area_peak_picking
area peak picking: Spectral peak processing conducted on the acquired data to convert profile data to...
UNIMOD_dHex_1_Hex_2_HexNAc_3_
dHex(1)Hex(2)HexNAc(3): DHex Hex(2) HexNAc(3).
MS_protein
protein: A compound composed of one or more chains of amino acids in a specific order determined by t...
MS_PQD
PQD (pulsed q dissociation): A process that involves precursor ion activation at high Q...
UNIMOD_Asn__Phe
Asn->Phe: Asn->Phe substitution.
UNIMOD_Methyl
Methyl: Methylation.
UNIMOD_NBS
NBS: Shimadzu NBS-12C.
UO_nanometer
nanometer: A length unit which is equal to one thousandth of one millionth of a meter or 10^[-9] m...
UNIMOD_Menadione_HQ
Menadione-HQ: Menadione hydroquinone derivative.
UO_steradian
steradian: A solid angle unit which is equal to the solid angle subtended at the center of a sphere b...
MS_precursor_activation_attribute
precursor activation attribute: Precursor Activation Attribute.
MS_quadratic
quadratic: The mass scan is done in quadratic mode.
UNIMOD_Hex_1_NeuGc_1_
Hex(1)NeuGc(1): Hex NeuGc.
MS_SEQUEST_ProcessAll
SEQUEST:ProcessAll:
MS_micrOTOF_Q_III
micrOTOF-Q III: Bruker Daltonics' micrOTOF-Q III: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_SRM_feature_level_quantitation
SRM feature level quantitation: Selected Reaction Monitoring feature level quantitation.
MS_Bruker_Daltonics_solarix_series
Bruker Daltonics solarix series: Bruker Daltonics' solarix: ESI quadrupole ion trap, APCI, APPI, ETD, PTR.
UNIMOD_dHex_1_HexNAc_4_
dHex(1)HexNAc(4): DHex HexNAc(4).
MS_ProteomeDiscoverer_Residue_substitution_list
ProteomeDiscoverer:Residue substitution list: Residues considered equivalent when comparing peptides...
UNIMOD_Pyridylethyl
Pyridylethyl: S-pyridylethylation.
MS_spectral_count_peptide_level_quantitation
spectral count peptide level quantitation: Spectral count peptide level quantitation.
MS_peptide_consensus_attribute
peptide consensus attribute: Attribute describing a peptide consensus.
MS_SEQUEST_sort_by_XCorr
SEQUEST:sort by XCorr: Sort order of SEQUEST search results by the correlation score.
MS_mass_number_OBSOLETE
mass number: The sum of the protons and neutrons in an atom, molecule or ion.
MS_peptide_H_Score
peptide:H-Score: H-Score for peptide phosphorylation site location at the peptide-level.
UNIMOD_CarbamidomethylDTT
CarbamidomethylDTT: Carbamidomethylated DTT modification of cysteine.
MS_FlexAnalysis
FlexAnalysis: Bruker software for data analysis.
MS_normalized_retention_time
normalized retention time: A time interval from the start of chromatography when an analyte exits a s...
UNIMOD_Thr__Xle
Thr->Xle: Thr->Leu/Ile substitution.
MS_EMR_spectrum
EMR spectrum (electromagnetic radiation spectrum): A plot of the relative intensity of electromagneti...
UNIMOD_EHD_diphenylpentanone
EHD-diphenylpentanone: 2-ethyl-3-hydroxy-1,3-diphenylpentan-1-one.
MS_Phenyx_Pepzscore
Phenyx:Pepzscore: The z-score value of a peptide sequence match in Phenyx.
MS_normalized_XIC_area
normalized XIC area: Normalized area of the extracted ion chromatogram (e.g. of a transition in SRM)...
MS_postprocessing_software
postprocessing software: Postprocessing software.
MS_TOPP_XTandemAdapter
TOPP XTandemAdapter: Identifies MS2 spectra using the external program XTandem.
MS_SQID
SQID: Software for data analysis of peptides and proteins.
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_spectrum_identification_statistical_threshold
spectrum identification statistical threshold: Estimated statistical threshold used for spectrum iden...
MS_constant_OBSOLETE
constant: When resolution is constant with respect to m/z.
MS_Libra
Libra: A program in the TPP that calculates PSM, peptide, and protein-level abundances based on N-cha...
MS_Finnigan_MAT_instrument_model
Finnigan MAT instrument model: Finnigan MAT instrument model.
UO_siemens
siemens: An electrical conduction unit which is equal to A/V.
MS_charge_inversion_reaction_OBSOLETE
charge inversion reaction: Reaction of an ion with a neutral species in which the charge on the produ...
MS_Hitachi_instrument_model
Hitachi instrument model: Hitachi instrument model.
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_Hex_6_HexNAc_2_Phos_1_
Hex(6)HexNAc(2)Phos(1): Hex(6) HexNAc(2) Phos.
UNIMOD_FormylMet
FormylMet: Addition of N-formyl met.
MS_SRM
SRM (selected reaction monitoring): Data acquired from specific product ions corresponding to m/z sel...
MS_Arg_C
Arg-C: Endoproteinase Arg-C.
UNIMOD_iTRAQ4plex
iTRAQ4plex: Representative mass and accurate mass for 116 & 117.
MS_DBExporter
DBExporter: Exports data from an OpenMS database to a file.
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_ProteomeDiscoverer_Mascot_Significance_Middle
ProteomeDiscoverer:Mascot:Significance Middle: Calculated relaxed significance when performing a deco...
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Quantitation_Method
ProteomeDiscoverer:Reporter Ions Quantizer:Quantitation Method: Quantitation method for isobarically ...
MS_____M_
(?<=M): Regular expression for CNBr.
MS_charge_permutation_reaction_OBSOLETE
charge permutation reaction: The reaction of an ion with a neutral species with a resulting change in...
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_base_peak
base peak: The peak in a mass spectrum that has the greatest intensity. This term may be applied to t...
MS_absorption_spectrum
absorption spectrum: A plot of the relative intensity of electromagnetic radiation absorbed by atoms ...
MS_SEQUEST_sortCV
SEQUEST:sortCV: SEQUEST View / Sort Input Parameters.
MS_DI
DI (desorption ionization): The formation of ions from a solid or liquid material after the rapid vap...
UO_pixels_per_inch
pixels per inch: A spatial resolution unit which is a standard measure of the resolution of a compute...
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_ELEMENT2_OBSOLETE
ELEMENT2: ThermoFinnigan ELEMENT2 MS.
UNIMOD_Hex_2_HexNAc_1_
Hex(2)HexNAc(1): Hex(2) HexNAc.
MS_protein_group_level_identification_statistic
protein group-level identification statistic: Identification confidence metric for a protein group...
MS_common_software_input_parameter
common software input parameter: Software input parameter that is shared by more than one software...
MS_MD_Score
MD-Score: MD-Score for PTM site location at the PSM-level.
MS_co_eluting_ion
co-eluting ion: Co-eluting ion.
UO_megabyte
megabyte: An information unit which is equal to 1000 kB.
MS_ProteinLynx_XML_format
ProteinLynx XML format: Source file for this mzIdentML was in Waters ProteinLynx XML format...
MS_decoy_DB_accession_regexp
decoy DB accession regexp: Specify the regular expression for decoy accession numbers.
MS_point_collector
point collector: A detector in which the ion beam is focused onto a point and the individual ions arr...
MS_FFR
FFR (field-free region): A section of a mass spectrometer in which there are no electric or magnetic ...
MS_total_ion_current_chromatogram
total ion current chromatogram: Chromatogram obtained by plotting the total ion current detected in e...
MS_microflex_LT
microflex LT: Bruker Daltonics' microflex LT: MALDI TOF.
UNIMOD_Hex_1_HexNAc_1_Sulf_1_
Hex(1)HexNAc(1)Sulf(1): Hex HexNAc Sulf.
MS_t_test_p_value
t-test p-value: P-value of t-Test of two groups.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_v_Ions
ProteomeDiscoverer:SEQUEST:Weight of v Ions: Uses c ions for spectrum matching with this relative fac...
MS_AXIMA_CFR_MALDI_TOF
AXIMA CFR MALDI-TOF: Shimadzu Biotech AXIMA CFR MALDI-TOF MS.
UNIMOD_Thr__Ala
Thr->Ala: Thr->Ala substitution.
MS_matrix_assisted_laser_desorption_ionization
matrix-assisted laser desorption ionization: The formation of gas-phase ions from molecules that are ...
MS_ICAT_reagent
ICAT reagent: Isotope coded affinity tag reagent.
MS_wolf
wolf (massWolf): A software for converting Waters raw directory format to mzXML or mzML...
MS_Bruker_Agilent_YEP_nativeID_format
Bruker/Agilent YEP nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
UNIMOD_Cholesterol
Cholesterol: Cholesterol ester.
MS_no_combination
no combination: Use this term if only one scan was recorded or there is no information about scans av...
MS_Acquity_SQD
Acquity SQD: Waters quadrupole based Acquity SQD.
MS_SEQUEST_sort_by_Sf
SEQUEST:sort by Sf: Sort order of SEQUEST search results given by the SEQUEST result 'Sf'...
MS_multiple_enzyme_combination_rules_OBSOLETE
multiple enzyme combination rules: OBSOLETE: use attribute independent in mzIdentML instead...
MS_MassHunter_Quantitative_Analysis
MassHunter Quantitative Analysis: Software for quantitation of Triple Quadrupole and Quadrupole Time-...
MS_mzidLib_ProteoGrouper
mzidLib:ProteoGrouper: A generic and parameterizable protein inference algorithm for mzIdentML files...
MS_contact_role
contact role: Role of the contact person.
MS_ProteomeDiscoverer_Minimal_peptide_weight
ProteomeDiscoverer:Minimal peptide weight: Minimum peptide weight contributing to protein probability...
MS_MassLynx
MassLynx: Micromass software for data acquisition and analysis.
MS_ProteoWizard_chainsaw
ProteoWizard chainsaw: Filters and processes protein sequence databases.
MS_ProteomeDiscoverer_4__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:4. Dynamic Modification: ProteomeDiscoverer's 4th dynamic post-translational modif...
MS_Isotopologue_ion_OBSOLETE
Isotopologue ion: An ion that differs only in the isotopic composition of one or more of its constitu...
UNIMOD_Cys__methylaminoAla
Cys->methylaminoAla: Carbamidomethylated Cys that undergoes beta-elimination and Michael addition of ...
MS_DELTAplusXP
DELTAplusXP: ThermoFinnigan DELTAplusXP MS.
MS_dilution_series__concentration_X
dilution series, concentration X: The experimental design followed a dilution series design...
MS_local_retention_time
local retention time: A time interval from the start of chromatography when an analyte exits an unspe...
UNIMOD_Cys__Trp
Cys->Trp: Cys->Trp substitution.
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_peptide
peptide: A compound of low molecular weight that is composed of two or more amino acids...
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_plasma_desorption
plasma desorption: The ionization of material in a solid sample by bombarding it with ionic or neutra...
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_ProteomeDiscoverer_Min_Precursor_Mass
ProteomeDiscoverer:Min Precursor Mass: Minimum mass limit of a singly charged precursor ion...
MS_PeptideShaker_peptide_confidence_type
PeptideShaker peptide confidence type: PeptideShaker quality criteria for the confidence of peptide i...
MS_baseline_array
baseline array: A data array of signal baseline values (the signal in the absence of analytes)...
MS_dynode
dynode: One of a series of electrodes in a photomultiplier tube. Such an arrangement is able to ampli...
MS_internal_reference_abundance
internal reference abundance: The absolute abundance of the spiked in reference peptide or protein us...
UNIMOD_Hex_7_HexNAc_3_
Hex(7)HexNAc(3): Hex(7) HexNAc(3).
MS_TOPP_FalseDiscoveryRate
TOPP FalseDiscoveryRate: Estimates the false discovery rate on peptide and protein level using decoy ...
UO_foot_candle
foot candle: An illuminance unit which is equal to the illuminance produced by 1 lumen evenly spread ...
UNIMOD_Hex_6_HexNAc_2_
Hex(6)HexNAc(2): Hex(6) HexNAc(2).
MS_API
API (atmospheric pressure ionization): Any ionization process in which ions are formed in the gas pha...
MS_SRM_protein_level_quantitation
SRM protein level quantitation: Selected Reaction Monitoring protein level quantitation.
MS_modification_specificity_peptide_C_term
modification specificity peptide C-term: As parameter for search engine: apply the modification only ...
MS_product_ion_intensity
product ion intensity: The intensity of a single product ion.
UNIMOD_Lys__Gln
Lys->Gln: Lys->Gln substitution.
UNIMOD_Hydroxytrimethyl
Hydroxytrimethyl: 5-hydroxy-N6,N6,N6-trimethyl.
MS_Phenyx_Turbo_Series
Phenyx:Turbo:Series: The list of ion series considered in the turbo mode of Phenyx.
MS_ionization_efficiency_OBSOLETE
ionization efficiency: The ratio of the number of ions formed to the number of electrons, molecules or photons used.
UNIMOD_Xle__Ser
Xle->Ser: Leu/Ile->Ser substitution.
MS_Phenyx
Phenyx: The name of the Phenyx search engine.
MS_SRM_transition_type
SRM transition type: The type of the transitions, e.g. target or decoy.
UNIMOD_DiART6plex115
DiART6plex115: Accurate mass for DiART6plex 115.
UO_area_density_unit
area density unit: A density unit which is a standard measure of the mass exerting an influence on a ...
MS_reflectron_state
reflectron state: Status of the reflectron, turned on or off.
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_protein_level_q_value
protein-level q-value: Estimation of the q-value for proteins.
UNIMOD_Biotin_Thermo_21325
Biotin:Thermo-21325: Was ChromoBiotin.
UNIMOD_Val__Trp
Val->Trp: Val->Trp substitution.
MS_Amanda
Amanda: Amanda scoring system for PSM identification.
MS_proton_affinity_OBSOLETE
proton affinity: The proton affinity of a species M is defined as the negative of the enthalpy change...
UO_milliliter_per_kilogram
milliliter per kilogram: A specific volume unit which is equal to a thousandth of a liter per kilogra...
UNIMOD_His__Ser
His->Ser: His->Ser substitution.
MS_PROTEINEER_spII
PROTEINEER spII: Bruker PROTEINEER spII software.
UNIMOD_Gly__Arg
Gly->Arg: Gly->Arg substitution.
MS_biological_replicate
biological replicate: The study variable is 'biological replicate'. This means, the run was generated...
MS_MaRiMba
MaRiMba: Software used to predict transitions for selected reaction monitoring experiments based on o...
UNIMOD_dHex_2_Hex_3_
dHex(2)Hex(3): DHex(2) Hex(3).
MS_height_peak_picking
height peak picking: Spectral peak processing conducted on the acquired data to convert profile data ...
MS_fast_evaporation_MALDI_sample_preparation
fast evaporation MALDI sample preparation: Fast-evaporation MALDI sample preparation method...
UNIMOD_Lys__Pro
Lys->Pro: Lys->Pro substitution.
MS_contact_attribute
contact attribute: Details about a person or organization to contact in case of concern or discussion...
MS_MaxQuant_peptide_counts__razor_unique_
MaxQuant:peptide counts (razor+unique): The data type peptide counts (razor+unique) produced by MaxQu...
UNIMOD_Delta_H_6_C_6_O_1_
Delta:H(6)C(6)O(1): Acrolein addition +94.
MS_proteogenomics_attribute
proteogenomics attribute: Proteogenomics attribute.
UNIMOD_DiART6plex116_119
DiART6plex116/119: Accurate mass for DiART6plex 116 and 119.
MS_molecular_mass_OBSOLETE
molecular mass: The mass of one mole of a molecular substance (6.022 1415(10) x 10^23 molecules)...
MS_metabolic_labelling_purity
metabolic labelling purity: Metabolic labelling: Description of labelling purity. Usually the purity ...
UO_nanoliter
nanoliter: A volume unit which is equal to one thousandth of one millionth of a liter or 10^[-9] L...
MS_DB_composition_target_decoy
DB composition target+decoy: Decoy database composition: database contains original (target) and deco...
MS_H3PO4_neutral_loss_OBSOLETE
H3PO4 neutral loss: Neutral loss of phosphoric acid.
UNIMOD_dHex_2_Hex_3_HexNAc_3_NeuGc_1_
dHex(2)Hex(3)HexNAc(3)NeuGc(1): DHex(2) Hex(3) HexNAc(3) NeuGc.
MS_Orbitrap_Fusion
Orbitrap Fusion: Thermo Scientific Orbitrap Fusion.
MS_EM
EM (electron multiplier): A device to amplify the current of a beam or packet of charged particles or...
MS_Phenyx_Peptides2
Phenyx:Peptides2: Second number of phenyx result "#Peptides".
UNIMOD_GeranylGeranyl
GeranylGeranyl: Geranyl-geranyl.
UNIMOD_unimod_root_node
unimod root node: The root node of the unimod modifications ontology.
UNIMOD_Triiodo
Triiodo: Tri-Iodination.
MS_peptide_start_positions_on_chromosome
peptide start positions on chromosome: A comma separated list of start positions within exons to whic...
MS_UniProtKB_XML_sequence_format
UniProtKB XML sequence format: XML-based format used by UniProtKB for sequence entries.
UNIMOD_dHex_1_Hex_7_HexNAc_2_
dHex(1)Hex(7)HexNAc(2): DHex Hex(7) HexNAc(2).
MS_GCT
GCT: Waters oa-ToF based GCT.
MS_decoy_DB_type_shuffle
decoy DB type shuffle: Decoy type: Amino acids of protein sequences are used in a random order...
UNIMOD_O_pinacolylmethylphosphonate
O-pinacolylmethylphosphonate: O-pinacolylmethylphosphonylation.
MS_peptide_attribute_calculation_software
peptide attribute calculation software: Software used to predict or calculate numerical attributes of...
MS_frag__internal_yb_ion
frag: internal yb ion: Fragmentation information, type of product: internal yb ion.
MS_MALDI_Synapt_MS
MALDI Synapt MS: Waters oa-ToF based MALDI Synapt MS.
UNIMOD_Label_13C_3_15N_1_
Label:13C(3)15N(1): 13C3 15N1 label for SILAC.
MS_Andromeda
Andromeda: Andromeda is a peptide search engine.
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_ProteomeDiscoverer_Amanda_middle_confidence_threshold
ProteomeDiscoverer:Amanda:middle confidence threshold: Relaxed confidence probability score...
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.
MS_homolytic_cleavage_OBSOLETE
homolytic cleavage: Fragmentation of an odd electron ion that results from one of a pair of electrons...
UNIMOD_Hex_3_HexNAc_7_
Hex(3)HexNAc(7): Hex(3) HexNAc(7).
MS_NRMS
NRMS (neutralization reionization mass spectrometry): With this technique, m/z selected ions form neu...
UNIMOD_GEE
GEE: Transamidation of glycine ethyl ester to glutamine.
UNIMOD_Met__Arg
Met->Arg: Met->Arg substitution.
MS_MALDI_matrix_application
MALDI matrix application: Attributes to describe the technique how the sample is prepared with the ma...
MS_SSRCalc
SSRCalc: Sequence Specific Retention Calculator estimates the retention time of peptides based on the...
MS_DB_MW_filter
DB MW filter: Filtering applied specifically by protein molecular weight, specified as either a range...
UNIMOD_Gly__Met
Gly->Met: Gly->Met substitution.
MS_heterolytic_cleavage_OBSOLETE
heterolytic cleavage: Fragmentation of a molecule or ion in which both electrons forming the single b...
MS_MSQuant_PTM_score_threshold
MSQuant:PTM-score threshold: Threshold for MSQuant:PTM-score.
MS_quantitation_software_name
quantitation software name: Quantitation software name.
UNIMOD_Molybdopterin
Molybdopterin: Molybdopterin.
UNIMOD_Glu__His
Glu->His: Glu->His substitution.
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_3100
3100: Waters quadrupole based 3100.
MS_space_charge_effect
space charge effect: The mutual repulsion of particles of like charge that limits the current in a ch...
UNIMOD_Gly__His
Gly->His: Gly->His substitution.
MS_peptide_consensus_m_z
peptide consensus m/z: Peptide consensus mass/charge ratio.
UNIMOD_Farnesyl
Farnesyl: Farnesylation.
MS_MS1_feature_area
MS1 feature area: Area of MS1 feature.
UNIMOD_GlycerylPE
GlycerylPE: Glycerylphosphorylethanolamine.
UNIMOD_Ser__Glu
Ser->Glu: Ser->Glu substitution.
MS_peptide_MD_Score
peptide:MD-Score: MD-Score for PTM site location at the peptide-level.
MS_multi_collector
multi-collector: A detector system commonly used in inductively coupled plasma mass spectrometers...
MS_BP
BP (base peak): The peak in a mass spectrum that has the greatest intensity. This term may be applied...
UNIMOD_Phe__Lys
Phe->Lys: Phe->Lys substitution.
UNIMOD_Lys__Arg
Lys->Arg: Lys->Arg substitution.
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_group_PSMs_by_sequence_with_modifications_and_charge
group PSMs by sequence with modifications and charge: Group PSMs by distinct peptide sequence with ta...
UNIMOD_BMP_piperidinol
BMP-piperidinol: 1-methyl-3-benzoyl-4-hydroxy-4-phenylpiperidine.
MS_microflex_II
microflex II: Bruker Daltonics' microflex II: MALDI TOF.
MS_statistical_threshold
statistical threshold: Estimated statistical threshold.
UNIMOD_Hex_3_HexNAc_1_Pent_1_
Hex(3)HexNAc(1)Pent(1): Hex3HexNAc1Pent1.
MS_None____OBSOLETE
None ??: None.
MS_high_energy_collision_OBSOLETE
high energy collision: Collision-induced dissociation process wherein the projectile ion has laborato...
MS_taxonomy__Swiss_Prot_ID
taxonomy: Swiss-Prot ID: This term is used if a swiss prot taxonomy id is specified, e.g. Human. Recommend using MS:1001467 (taxonomy: NCBI TaxID) where possible.
MS_ProteomeDiscoverer_Number_of_input2_spectra
ProteomeDiscoverer:Number of input2 spectra: Number of spectra from 2+ precursor ions.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_b_Ions
ProteomeDiscoverer:SEQUEST:Weight of b Ions: Uses b ions for spectrum matching with this relative fac...
MS_Progenesis_protein_group_normalised_abundance
Progenesis:protein group normalised abundance: The data type normalised abundance for protein groups ...
MS_isoelectric_point
isoelectric point: The pH of a solution at which a charged molecule does not migrate in an electric f...
MS_continuous_flow_fast_atom_bombardment
continuous flow fast atom bombardment: Fast atom bombardment ionization in which the analyte in solut...
MS_Compass_for_micrOTOF
Compass for micrOTOF: Bruker Compass for micrOTOF software.
MS_Pegasus_4D
Pegasus 4D: LECO nominal mass resolution time-of-flight GCxGC mass spectrometer.
MS_SCIEX_TOF_TOF_T2D_format
SCIEX TOF/TOF T2D format: Applied Biosystems/MDS Analytical Technologies TOF/TOF instrument export fo...
MS_scan_law
scan law: Describes the function in control of the m/z scan (for scanning instruments). Commonly the scan function is linear, but in principle any function can be used.
UO_joule
joule: An energy unit which is equal to the energy required when a force of 1 newton moves an object ...
MS_frag__y_ion___NH3
frag: y ion - NH3: Ion y-NH3 fragmentation information, type of product: y ion without ammonia...
MS_Mascot_MinMSMSThreshold
Mascot:MinMSMSThreshold: Mascot peptide match ion score threshold. If between 0 and 1...
std::multimap< std::string, std::string > propertyValues
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_IRMS_OBSOLETE
IRMS (isotope ratio mass spectrometry): The measurement of the relative quantity of the different iso...
MS_base_peak_intensity
base peak intensity: The intensity of the greatest peak in the mass spectrum.
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_Ac_1_
Hex(1)HexNAc(1)NeuAc(1)Ac(1): Ac Hex HexNAc NeuAc.
MS_contact_phone_number
contact phone number: Phone number of the contact person or organization.
MS_IonSpec_instrument_model
IonSpec instrument model: IonSpec corporation instrument model.
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_protein_value__median_of_peptide_ratios
protein value: median of peptide ratios: Protein quantification value calculated as median of peptide...
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.
MS_Daly
Daly (daly detector): Detector consisting of a conversion dynode, scintillator and photomultiplier...
UNIMOD_Gln__Lys
Gln->Lys: Gln->Lys substitution.
MS_SCIEX_API_III_format
SCIEX API III format: PE SCIEX peak list file format.
MS_frag__z_1_ion
frag: z+1 ion: Fragmentation information, type of product: z+1 ion.
UNIMOD_DTT_C_2H_6_
DTT_C:2H(6): Isotopically labeled Dithiothreitol (DTT) modification of cysteines. ...
MS_MS_GF_PEP
MS-GF:PEP: MS-GF posterior error probability.
MS_TOPP_SpectraFilterParentPeakMower
TOPP SpectraFilterParentPeakMower: Filters putative unfragmented precursor ions from tandem spectra...
UO_spatial_resolution_unit
spatial resolution unit: An image resolution unit which is a standard measure of the way luminance an...
MS_data_filtering
data filtering: Filtering out part of the data.
MS_inductive_detector
inductive detector: Inductive detector.
UNIMOD_Ala__His
Ala->His: Ala->His substitution.
MS_percent_of_base_peak
percent of base peak: The magnitude of a peak or measurement element expressed in terms of the percen...
UO_unit_of_molality
unit of molality: A concentration unit which is a standard measure of the number of moles of a given ...
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Precursor_Peak
ProteomeDiscoverer:Non-Fragment Filter:Remove Precursor Peak: Determines whether precursor artifact p...
UNIMOD_Glu__pyro_Glu
Glu->pyro-Glu: Pyro-glu from E.
MS_quantification_reagent
quantification reagent: Reagent used in labeled quantification methods.
MS_Tranche_file_hash
Tranche file hash: Hash assigned by the Tranche resource to an individual file.
UNIMOD_Gly__Thr
Gly->Thr: Gly->Thr substitution.
UO_microeinstein_per_square_meter_per_second
microeinstein per square meter per second: An irradiance unit which is equal to one microeinstein per...
MS_mattauch_herzog_geometry_OBSOLETE
mattauch-herzog geometry: An arrangement for a double-focusing mass spectrometer in which a deflectio...
MS_PIA_protein_score
PIA:protein score: The score given to a protein by any protein inference.
std::vector< CVID > id_list
MS_parent_mass_type_mono
parent mass type mono: Mass type setting for parent mass was monoisotopic.
MS_SEQUEST_matched_ions
SEQUEST:matched ions: The SEQUEST result 'Matched Ions'.
UNIMOD_Asp__Val
Asp->Val: Asp->Val substitution.
MS_ProteinLynx_Global_Server
ProteinLynx Global Server: Waters software for data analysis.
MS_SCIEX_instrument_model
SCIEX instrument model: The brand of instruments from the joint venture between Applied Biosystems an...
UNIMOD_Dipyridyl
Dipyridyl: Cys modified with dipy ligand.
UNIMOD_Carboxymethyl_13C_2_
Carboxymethyl:13C(2): Iodoacetic acid derivative w/ 13C label.
MS_lab_head
lab head: The scientist responsible for personnel, grants, and instrumentation in a functional labora...
UO_turns_per_second
turns per second: A rotational frequency unit which is equal to the number complete turn in a period ...
MS_CLINPROT
CLINPROT: Bruker CLINPROT software.
MS_Paragon__quantitation
Paragon: quantitation: The Paragon method setting that controls whether quantitation analysis is cond...
MS_4700_Explorer
4700 Explorer: Applied Biosystems software for data acquisition and analysis.
MS_massWolf
massWolf: A software for converting Waters raw directory format to mzXML or mzML. MassWolf was origin...
MS_database_version_OBSOLETE
database version: OBSOLETE: Use attribute in mzIdentML instead. Version of the search database...
MS_TOPP_NoiseFilterSGolay
TOPP NoiseFilterSGolay: Removes noise from profile spectra by using a Savitzky-Golay smoothing...
MS_Agilent_MassHunter_format
Agilent MassHunter format: A data file format found in an Agilent MassHunter directory which contains...
MS_TOPP_software_adaptor
TOPP software adaptor: Software adaptor to an external program in the TOPP software.
UO_radian_per_second
radian per second: An angular unit velocity which is equal to about 9.54930 rpm (revolutions per minu...
UNIMOD_DiART6plex117
DiART6plex117: Accurate mass for DiART6plex 117.
MS_electrospray_supply_type
electrospray supply type: Whether the sprayer is fed or is loaded with sample once.
MS_compact
compact: Bruker Daltonics' compact: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_____W_
(?<=W): Regular expression for 2-iodobenzoate.
MS_binomial_smoothing
binomial smoothing (Gaussian smoothing): Reduces intensity spikes by convolving the data with a one-d...
MS_sample_name
sample name: A reference string relevant to the sample under study.
MS_sustained_off_resonance_irradiation
sustained off-resonance irradiation: A technique associated with Fourier transform ion cyclotron reso...
MS_API_5000
API 5000: SCIEX or Applied Biosystems|MDS SCIEX API 5000 MS.
UNIMOD_Val__Ser
Val->Ser: Val->Ser substitution.
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_mass_per_unit_volume
mass per unit volume: A concentration unit which is a standard measure of the mass of a substance in ...
UNIMOD_HexNAc_2_NeuAc_1_
HexNAc(2)NeuAc(1): HexNAc(2) NeuAc.
MS_source_sprayer
source sprayer: The source sprayer.
MS_magnetic_sector
magnetic sector: A device that produces a magnetic field perpendicular to a charged particle beam tha...
UNIMOD_Hex_4_HexNAc_3_NeuAc_2_
Hex(4)HexNAc(3)NeuAc(2): Hex(4) HexNAc(3) NeuAc(2).
MS_normalized_protein_value
normalized protein value: Normalized protein value.
MS_SEQUEST_Consensus
SEQUEST:Consensus: Specify depth as value of the CVParam.
MS_cluster_identifier
cluster identifier: An identifier applied to protein groups to indicate that they are linked by share...
MS_LIFT
LIFT: A Bruker's proprietary technique where molecular ions are initially accelerated at lower energy...
MS_selected_ion_monitoring
selected ion monitoring: The operation of a mass spectrometer in which the intensities of several spe...
MS_ProteomeDiscoverer_Mascot_Protein_CutOff_Score
ProteomeDiscoverer:Mascot:Protein CutOff Score: Minimum protein score in the IonScore column that eac...
UNIMOD_HexNAc_2_NeuAc_1_Sulf_1_
HexNAc(2)NeuAc(1)Sulf(1): HexNAc(2) NeuAc Sulf.
UNIMOD_Hex_4_HexNAc_5_NeuAc_1_
Hex(4)HexNAc(5)NeuAc(1): Hex(4) HexNAc(5) NeuAc.
MS_chromatograph_file_format
chromatograph file format: The format of the chromatography file being used. This could be a instrume...
MS_Phenyx_XML_format
Phenyx XML format: Phenyx open XML file format.
MS_Mascot_ProteinScoringMethod
Mascot:ProteinScoringMethod: Mascot protein scoring method; either 'Standard' or 'MudPIT'.
UNIMOD_Biotin_Thermo_21911
Biotin:Thermo-21911: Biotin-PEG11-maleimide.
MS_Phenyx_Modif
Phenyx:Modif: The expression of the nature and position(s) of modified residue(s) on a matched peptid...
UNIMOD_Met__Ala
Met->Ala: Met->Ala substitution.
MS_OMSSA_input_parameter
OMSSA input parameter: Search engine input parameters specific to OMSSA.
UNIMOD_Arg__Gly
Arg->Gly: Arg->Gly substitution.
UNIMOD_Xle__Pro
Xle->Pro: Leu/Ile->Pro substitution.
MS_IsoPrime
IsoPrime: Waters IsoPrime MS.
UO_kilowatt_hour
kilowatt-hour: An energy unit which is equal to 1,000 watt-hours.
MS_constant_neutral_mass_gain_spectrum
constant neutral mass gain spectrum (constant neutral gain spectrum): A spectrum formed of all produc...
MS_empirical_formula
empirical formula: A chemical formula which expresses the proportions of the elements present in a su...
UNIMOD_Chlorination
Chlorination: Chlorination of tyrosine residues.
UNIMOD_Thr__His
Thr->His: Thr->His substitution.
MS_unlabeled_sample
unlabeled sample: A sample that has not been labelled or modified. This is often referred to as "ligh...
MS_2500_QTRAP
2500 QTRAP: SCIEX 2500 QTRAP.
MS_SEQUEST_sprank
SEQUEST:sprank: The SEQUEST result 'SpRank'.
MS_ProteomeDiscoverer_Number_of_input4_spectra
ProteomeDiscoverer:Number of input4 spectra: Number of spectra from 4+ precursor ions.
UNIMOD_Asn__Thr
Asn->Thr: Asn->Thr substitution.
MS_hybrid_mass_spectrometer_OBSOLETE
hybrid mass spectrometer: A mass spectrometer that combines m/z analyzers of different types to perfo...
UNIMOD_Cys__Ser
Cys->Ser: Cys->Ser substitution.
MS_translation_frame
translation frame: The translated open reading frames from a nucleotide database considered in the se...
UNIMOD_Label_13C_6_15N_2_
Label:13C(6)15N(2): 13C(6) 15N(2) Silac label.
MS_small_molecule_attribute
small molecule attribute: Attribute describing a small molecule.
UO_parts_per_hundred
parts per hundred: A dimensionless concentration notation which denotes the amount of a given substan...
UNIMOD_Methylamine
Methylamine: Michael addition with methylamine.
MS_alternate_single_letter_codes
alternate single letter codes: List of standard residue one letter codes which are used to replace a ...
MS_number_of_peaks_submitted
number of peaks submitted: The number of peaks from the original peaks listed that were submitted to ...
MS_mass_spectrograph_obsolete_OBSOLETE
mass spectrograph obsolete: An instrument that separates a beam of ions according to their mass-to-ch...
MS_non_classical_ion_OBSOLETE
non-classical ion: Hyper-coordinated carbonium ion such as the penta-coordinated norbornyl cation...
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.
MS_PEAKS_Node
PEAKS Node: PEAKS Node software for high throughput data analysis.
MS_modification_localization_scoring
modification localization scoring: Modification localization scoring performed.
MS_TruTOF
TruTOF: LECO bench-top GC time-of-flight mass spectrometer.
UNIMOD_Ala__Ser
Ala->Ser: Ala->Ser substitution.
MS_spectrum
spectrum: A mass spectrum is an intensity vs m/z (mass-to-charge ratio) plot representing a chemical ...
MS_direct_inlet
direct inlet: The sample is directly inserted into the ion source, usually on the end of a heatable p...
UNIMOD_Hex_7_HexNAc_3_Phos_1_
Hex(7)HexNAc(3)Phos(1): Hex(7) HexNAc(3) Phos.
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_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...
MS_protein_level_PSM_counts
protein level PSM counts: The number of spectra identified for this protein in spectral counting...
MS_sprayed_MALDI_matrix_preparation
sprayed MALDI matrix preparation: Sprayed MALDI matrix preparation.
MS_frag__a_ion___H2O
frag: a ion - H2O: Fragmentation information, type of product: a ion without water.
UNIMOD_Lys__His
Lys->His: Lys->His substitution.
MS_isolation_window_lower_limit_OBSOLETE
isolation window lower limit: The lowest m/z being isolated in an isolation window.
MS_TOPP_IDMerger
TOPP IDMerger: Merges several protein/peptide identification files into one file. ...
MS_APCI
APCI (atmospheric pressure chemical ionization): Chemical ionization that takes place at atmospheric ...
MS_time_unit_OBSOLETE
time unit: Time Unit.
MS_retention_time_alignment
retention time alignment: The correction of the spectrum scan times, as used e.g. in label-free prote...
MS_spectrum_identifier_nativeID_format
spectrum identifier nativeID format: Native format defined by spectrum=xsd:nonNegativeInteger.
MS_MS_Amanda_csv_format
MS Amanda csv format: MS Amanda csv output format.
UNIMOD_Hex_2_NeuAc_1_
Hex(2)NeuAc(1): Hex(2) NeuAc.
MS_____DE__
(?=[DE]): Regular expression for Asp-N-ambic.
MS_FT_ICR
FT_ICR (fourier transform ion cyclotron resonance mass spectrometer): A mass spectrometer based on th...
UNIMOD_Ser__Xle
Ser->Xle: Ser->Leu/Ile substitution.
MS_ProteinExtractor_MinNumberOfPeptides
ProteinExtractor:MinNumberOfPeptides: The minimum number of proteins to consider. ...
UO_radiation_unit
radiation unit: A unit which is a standard measure of the amount of radiation emitted by a given radi...
UNIMOD_NA_OA_NO2
NA-OA-NO2: Nitroalkylation by Nitro Oleic Acid.
UNIMOD_Succinyl
Succinyl: Succinic anhydride labeling reagent light form (N-term & K).
MS_kinetic_energy_analyzer
kinetic energy analyzer: A device for measuring the kinetic energy of charged particles using a retar...
MS_scan_mode_OBSOLETE
scan mode: OBSOLETE.
UNIMOD_GPIanchor
GPIanchor: Glycosylphosphatidylinositol.
MS_internal_protein_reference_used
internal protein reference used: States whether an internal protein reference is used or not in absol...
MS_spectrum_from_ProteinScape_database_nativeID_format
spectrum from ProteinScape database nativeID format: Native format defined by databasekey=xsd:long.
UO_nanomole
nanomole: A substance unit equal to one thousandth of one millionth of a mole or 10^[-9] mol...
MS_PEAKS_inChorusPeptideScore
PEAKS:inChorusPeptideScore: The PEAKS inChorus peptide score.
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_Comet_matched_ions
Comet:matched ions: The Comet result 'Matched Ions'.
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_multiple_reaction_monitoring_OBSOLETE
multiple reaction monitoring: This term is not recommended. See Selected Reaction Monitoring...
UNIMOD_HPG
HPG: Hydroxyphenylglyoxal arginine.
MS_ChromaTOF_software
ChromaTOF software: Software for acquisition, processing and analysis of data for LECO instruments...
MS_highest_observed_m_z
highest observed m/z: Highest m/z value observed in the m/z array.
MS_Phenyx_MinPepzscore
Phenyx:MinPepzscore: The minimal peptide z-score for a peptide to be considered for a valid identific...
MS_apex_IV
apex IV: Bruker Daltonics' apex IV: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR. ...
MS_residue_pair_level_global_FDR
residue-pair-level global FDR: Estimation of the global false discovery rate of residue-pairs in cros...
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_no_special_processing
no special processing: No special processing performed.
MS_SpectrumMill_directories
SpectrumMill directories: Source file for this mzIdentML was in Agilent SpectrumMill directory format...
MS_software_vendor
software vendor: Software vendor role.
MS_source_interface_model
source interface model: The source interface model.
MS_detector
detector: The device that detects ions.
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuGc_1_
dHex(1)Hex(5)HexNAc(3)NeuGc(1): DHex Hex(5) HexNAc(3) NeuGc.
MS_FAIMS_CV
FAIMS CV (FAIMS compensation voltage): The DC potential applied to the asymmetric waveform in FAIMS t...
UNIMOD_s_GlcNAc
s-GlcNAc: O3S1HexNAc1.
UNIMOD_Ethylphosphate
Ethylphosphate: O-Ethylphosphorylation.
MS_OMSSA_csv_format
OMSSA csv format: Source file for this mzIdentML was in OMSSA csv file format.
MS_ISQ
ISQ: Thermo Scientific ISQ single quadrupole MS with the ExtractraBrite source.
UO_nanosecond
nanosecond: A time unit which is equal to one thousandth of one millionth of a second or 10^[-9] s...
MS_ions_series_considered_in_search
ions series considered in search: The description of the DEPRECATED ion fragment series (including ch...
UNIMOD_Butyryl
Butyryl: Butyryl.
UNIMOD_Asn__Glu
Asn->Glu: Asn->Glu substitution.
UNIMOD_TMT
TMT: Native Tandem Mass Tag®.
UNIMOD_Glu__Asp
Glu->Asp: Glu->Asp substitution.
MS_SEQUEST
SEQUEST: The name of the SEQUEST search engine.
MS_absorption_chromatogram
absorption chromatogram: The measurement of light absorbed by the sample as a function of the retenti...
UNIMOD_Hex_2_HexNAc_3_NeuGc_3_
Hex(2)HexNAc(3)NeuGc(3): Hex(2) HexNAc(3) NeuGc(3).
MS_SEQUEST_sort_by_z
SEQUEST:sort by z: Sort order of SEQUEST search results given by the charge.
MS_ProteomeDiscoverer_Spectrum_Grouper_Allow_MS_Order_Mismatch
ProteomeDiscoverer:Spectrum Grouper:Allow MS Order Mismatch: Determines whether spectra from differen...
UNIMOD_NHS_LC_Biotin
NHS-LC-Biotin: NHS-LC-Biotin.
MS_identification_attribute
identification attribute: Attribute of an identification item in the result of mass spectrometry prot...
UO_counts_per_minute
counts per minute: An activity (of a radionuclide) unit which is equal to the number of light emissio...
MS_ProteomeDiscoverer_Mascot_Mascot_Server_URL
ProteomeDiscoverer:Mascot:Mascot Server URL: URL (Uniform resource Locator) of the Mascot server...
MS_Bruker_BAF_format
Bruker BAF format: Bruker BAF raw file format.
MS_source
source: Terms to describe the source.
MS_frag__w_ion
frag: w ion: Fragmentation information, type of product: w ion.
MS_database_local_file_path_OBSOLETE
database local file path: OBSOLETE: Use attribute in mzIdentML instead. Local file path of the search...
UNIMOD_Pro__Lys
Pro->Lys: Pro->Lys substitution.
UNIMOD_Glu__Asn
Glu->Asn: Glu->Asn substitution.
UNIMOD_Asp__Tyr
Asp->Tyr: Asp->Tyr substitution.
MS_first_stability_region
first stability region: The region of a Mathieu stability diagram closest to the origin. Ions within this region can traverse the full length of a transmission quadrupole.
MS_contact_affiliation
contact affiliation: Home institution of the contact person.
UO_catalytic_activity_unit
catalytic activity unit: A unit which is a standard measure of the amount of the action of a catalyst...
MS_API_4000
API 4000: Applied Biosystems/MDS SCIEX API 4000 MS.
UNIMOD_Oxidation_NEM
Oxidation+NEM: N-ethylmaleimide on cysteine sulfenic acid.
MS_metabolic_labeling_14N___15N_quantitation_analysis
metabolic labeling 14N / 15N quantitation analysis: Metabolic labeling workflow (heavy and light vers...
MS_X_Tandem_expect
X!Tandem:expect: The X!Tandem expectation value.
UNIMOD_dHex_1_Hex_5_HexNAc_4_NeuAc_1_
dHex(1)Hex(5)HexNAc(4)NeuAc(1): DHex Hex(5) HexNAc(4) NeuAc.
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...
UNIMOD_Label_2H_9_13C_6_15N_2_
Label:2H(9)13C(6)15N(2): 13C(6) 15N(2) (D)9 SILAC label.
UNIMOD_PET
PET: Phosphorylation to pyridyl thiol.
MS_ProteinScape_ProfoundProbability
ProteinScape:ProfoundProbability: The Profound probability score stored by ProteinScape.
UO_pi
pi: A dimensionless unit which denoted an irrational real number, approximately equal to 3...
UO_micrometer
micrometer: A length unit which is equal to one millionth of a meter or 10^[-6] m.
MS_Xevo_TQD
Xevo TQD: Waters quadrupole based Xevo TQD.
UNIMOD_Asp__Arg
Asp->Arg: Asp->Arg substitution.
UNIMOD_Pro__Gly
Pro->Gly: Pro->Gly substitution.
MS_SpectraST
SpectraST: SpectraST was used to analyze the spectra.
UNIMOD_dHex_1_Hex_5_HexNAc_5_
dHex(1)Hex(5)HexNAc(5): DHex Hex(5) HexNAc(5).
MS_emission_chromatogram
emission chromatogram: The measurement of light emitted by the sample as a function of the retention ...
MS_OpenXQuest_xcorr_xlink
OpenXQuest:xcorr xlink: OpenXQuest's cross-correlation of cross-linked ions subscore.
MS_Voyager_DE_PRO
Voyager-DE PRO: Applied Biosystems/MDS SCIEX Voyager-DE PRO MS.
MS_peptide_level_statistical_threshold
peptide-level statistical threshold: Estimated statistical threshold at peptide-level.
UNIMOD_CresylSaligeninPhosphate
CresylSaligeninPhosphate: Cresyl-Saligenin-phosphorylation.
MS_vacuum_drying_MALDI_sample_preparation
vacuum drying MALDI sample preparation: Vacuum-drying MALDI sample preparation crystallization method...
UNIMOD_dHex_1_Hex_7_HexNAc_3_Phos_1_
dHex(1)Hex(7)HexNAc(3)Phos(1): DHex Hex(7) HexNAc(3) Phos.
UNIMOD_HexNAc_4_
HexNAc(4): HexNAc(4).
UNIMOD_UgiJoullie
UgiJoullie: Side reaction of HisTag.
MS_combined_pmf___ms_ms_search
combined pmf + ms-ms search: Search that includes data from Peptide Mass Fingerprint (PMF) and MS2 (a...
MS_pulsed_q_dissociation
pulsed q dissociation: A process that involves precursor ion activation at high Q, a time delay to allow the precursor to fragment, then a rapid pulse to low Q where all fragment ions are trapped. The product ions can then be scanned out of the ion trap and detected.
MS_PSM_level_p_value
PSM-level p-value: Estimation of the p-value for peptide spectrum matches.
MS_beam_type_collision_induced_dissociation
beam-type collision-induced dissociation: A collision-induced dissociation process that occurs in a b...
UNIMOD_Biotin_Thermo_21345
Biotin:Thermo-21345: Was PentylamineBiotin.
UNIMOD_Trp__Gly
Trp->Gly: Trp->Gly substitution.
UNIMOD_BDMAPP
BDMAPP: Mass Defect Tag on lysine e-amino.
MS_instrument_specific_scan_attribute
instrument specific scan attribute: Instrument specific scan properties that are associated with a va...
UNIMOD_Hex_3_HexNAc_4_Pent_1_
Hex(3)HexNAc(4)Pent(1): Hex(3) HexNAc(4) Pent.
MS_spark_ionization
spark ionization: The formation of ions from a solid material by an intermittent electrical discharge...
MS_spectral_count_proteingroup_level_quantitation
spectral count proteingroup level quantitation: Spectral count proteingroup level quantitation...
MS_instrument_vendor
instrument vendor: Instrument vendor role.
UNIMOD_dHex_1_Hex_7_HexNAc_3_
dHex(1)Hex(7)HexNAc(3): DHex Hex(7) HexNAc(3).
UNIMOD_AEBS
AEBS: Aminoethylbenzenesulfonylation.
UNIMOD_Ub_Br2
Ub-Br2: Ub Bromide probe addition.
UNIMOD_Ser__Met
Ser->Met: Ser->Met substitution.
MS_mzidLib
mzidLib: A library of Java routines for manipulating mzIdentML files.
UO_centimeter
centimeter: A length unit which is equal to one hundredth of a meter or 10^[-2] m.
MS_peptide_group_ID
peptide group ID: Peptide group identifier for peptide-level stats.
MS_ProteinExtractor_GenerateNonRedundant
ProteinExtractor:GenerateNonRedundant: Flag indicating if a non redundant scoring should be generated...
UNIMOD_Label_2H_7_15N_4_
Label:2H(7)15N(4): Label:2H(7)15N(4).
MS_ProteomeDiscoverer_Enzyme_Name_OBSOLETE
ProteomeDiscoverer:Enzyme Name: Specifies the enzyme reagent used for protein digestion.
MS_frag__immonium_ion
frag: immonium ion: Fragmentation information, type of product: immonium ion.
MS_surface_induced_reaction_OBSOLETE
surface-induced reaction: A process wherein a reactant ion interacts with a surface to produce either...
MS_particle_beam
particle beam: Method for generating ions from a solution of an analyte.
UNIMOD_dHex_2_Hex_2_HexNAc_1_
dHex(2)Hex(2)HexNAc(1): DHex(2) Hex(2) HexNAc.
MS_frag__b_ion
frag: b ion: Fragmentation information, type of product: b ion.
MS_TOPP_SpectraMerger
TOPP SpectraMerger: Merges spectra from an LC/MS map, either by precursor or by RT blocks...
MS_ion__OBSOLETE
ion?: An atomic or molecular species having a net positive or negative electric charge.
UNIMOD_sulfo_amino
sulfo+amino: Aminotyrosine with sulfation.
UNIMOD_Lys__Trp
Lys->Trp: Lys->Trp substitution.
UNIMOD_Xle__Val
Xle->Val: Leu/Ile->Val substitution.
UNIMOD_Hex_3_HexNAc_2_Pent_1_
Hex(3)HexNAc(2)Pent(1): Hex(3) HexNAc(2) Pent.
MS_MS2_format
MS2 format: MS2 file format for MS2 spectral data.
UO_day
day: A time unit which is equal to 24 hours.
UNIMOD_Biotin_PEO_Amine
Biotin-PEO-Amine: Biotin polyethyleneoxide amine.
MS_6520_Quadrupole_Time_of_Flight_LC_MS
6520 Quadrupole Time-of-Flight LC/MS: The 6520 Quadrupole Time-of-Flight LC/MS is a Agilent liquid ch...
MS_FAB
FAB (fast atom bombardment ionization): The ionization of any species by the interaction of a focused...
MS_fast_atom_bombardment_ionization
fast atom bombardment ionization: The ionization of any species by the interaction of a focused beam ...
UNIMOD_Ser__Pro
Ser->Pro: Ser->Pro substitution.
UNIMOD_Cys__Lys
Cys->Lys: Cys->Lys substitution.
MS_Unify
Unify: Waters Unify software for liquid chromatography and mass spectrometry acquisition.
UO_femtoliter
femtoliter: A volume unit which is equal to 10^[-15] L.
UNIMOD_dHex_2_Hex_3_HexNAc_4_
dHex(2)Hex(3)HexNAc(4): DHex(2) Hex(3) HexNAc(4).
MS_CXP
CXP (Collision cell exit potential): Potential difference between Q2 and Q3 in a triple quadrupole in...
MS_TOPP_MassTraceExtractor
TOPP MassTraceExtractor: Annotates mass traces in centroided LC/MS maps.
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_PeptideShaker_PSM_confidence
PeptideShaker PSM confidence: The probability based PeptideShaker PSM confidence. ...
UNIMOD_Acetyl_13C_2_
Acetyl:13C(2): Heavy acetylation.
MS_no_threshold
no threshold: In case no threshold was used.
MS_PeptideShaker_PTM_confidence_type
PeptideShaker PTM confidence type: PeptideShaker quality criteria for the confidence of PTM localizat...
MS_METLIN
METLIN: Personal Metabolite Database for MassHunter Workstation. Software for identification of human...
MS_PSM_FDR_threshold
PSM:FDR threshold: False-discovery rate threshold for peptide-spectrum matches.
UO_rotational_frequency_unit
rotational frequency unit: A unit which is a standard measure of the number of rotations in a given t...
UNIMOD_Phosphopantetheine
Phosphopantetheine: Phosphopantetheine.
MS_sampling_frequency
sampling frequency: The rate of signal sampling (measurement) with respect to time.
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_Carboxy
Carboxy: Carboxylation.
UNIMOD_Label_13C_6_15N_4_
Label:13C(6)15N(4): 13C(6) 15N(4) Silac label.
MS_Waters_nativeID_format
Waters nativeID format: Native format defined by function=xsd:positiveInteger process=xsd:nonNegative...
MS_binary_data_compression_type
binary data compression type: Compression Type.
UNIMOD_dHex_1_Hex_2_HexNAc_2_Pent_1_
dHex(1)Hex(2)HexNAc(2)Pent(1): DHex Hex(2) HexNAc(2) Pent.
MS_analysis_software
analysis software: Analysis software.
UNIMOD_Asp__Met
Asp->Met: Asp->Met substitution.
MS_Laser_Desorption_OBSOLETE
Laser Desorption: The formation of ions through the interaction of a laser with a material or with ga...
MS_purgatory_OBSOLETE
purgatory: Terms that will likely become obsolete unless there are wails of dissent.
UNIMOD_Arg__Asp
Arg->Asp: Arg->Asp substitution.
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.
MS_X_Tandem
X!Tandem: X!Tandem was used to analyze the spectra.
UNIMOD_dNIC
dNIC: Deuterated Nicotinic Acid.
UNIMOD_Phycocyanobilin
Phycocyanobilin: Phycocyanobilin.
UNIMOD_NeuGc
NeuGc: N-glycoyl neuraminic acid.
MS_OpenXQuest_xcorr_common
OpenXQuest:xcorr common: OpenXQuest's cross-correlation of unlinked ions subscore.
UNIMOD_dHex_1_Hex_6_HexNAc_3_
dHex(1)Hex(6)HexNAc(3): DHex Hex(6) HexNAc(3).
UNIMOD_IBTP
IBTP: Thio Ether Formation - BTP Adduct.
MS_TOPP_ConsensusMapNormalizer
TOPP ConsensusMapNormalizer: Normalizes maps of one consensus XML file (after linking).
UNIMOD_dHex_1_Hex_1_HexNAc_1_Kdn_1_
dHex(1)Hex(1)HexNAc(1)Kdn(1): DHex Hex HexNAc Kdn.
MS_6420_Triple_Quadrupole_LC_MS
6420 Triple Quadrupole LC/MS: The 6420 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_param__b_ion
param: b ion: Parameter information, type of product: b ion with charge on the N-terminal side...
UNIMOD_Ser__Val
Ser->Val: Ser->Val substitution.
MS_MaxQuant_PTM_Delta_Score
MaxQuant:PTM Delta Score: The PTM Delta Score value from MaxQuant software (Difference between highes...
MS_inclusive_low_intensity_threshold
inclusive low intensity threshold: Threshold at or below which some action is taken.
MS_Scaffold__Minimum_Peptide_Count
Scaffold: Minimum Peptide Count: Minimum number of peptides a protein must have to be accepted...
MS_SEQUEST_Sum
SEQUEST:Sum:
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...
MS_Platform_ICP
Platform ICP: Waters Platform ICP MS.
MS_sample_pre_fractionation
sample pre-fractionation: Sample pre-fractionation performed.
MS_modified_peptide_sequence
modified peptide sequence: A sequence of letter symbols denoting the order of amino acids that compos...
MS_Comet_xcorr
Comet:xcorr: The Comet result 'XCorr'.
MS_SEQUEST_PeptideIdnumber
SEQUEST:PeptideIdnumber: The SEQUEST result 'Id#' in out file (peptide).
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_SymBiot_I
SymBiot I: Applied Biosystems/MDS SCIEX SymBiot I MS.
MS_ion_molecule_reaction_OBSOLETE
ion/molecule reaction: The reaction of an ion with a neutral molecule. The term ion-molecule reaction...
MS_selected_ion_detection_OBSOLETE
selected ion detection: Please see Single Ion Monitoring.
MS_peptide_exon_count
peptide exon count: The number of exons to which the peptide has been mapped.
MS_enhanced_resolution_scan
enhanced resolution scan (zoom scan): Special scan mode, where data with improved resolution is acqui...
MS_iProphet
iProphet: A program in the TPP that calculates distinct peptide probabilities based on several lines ...
MS_HiRes_ESI
HiRes ESI: IonSpec HiResESI MS.
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_square_meter
square meter: An area unit which is equal to an area enclosed by a square with sides each 1 meter lon...
UNIMOD_Ammonia_loss
Ammonia-loss: Loss of ammonia.
UNIMOD_AHA_Alkyne_KDDDD
AHA-Alkyne-KDDDD: Azidohomoalanine (AHA) bound to DDDDK-propargylglycine-NH2 (alkyne).
MS_DB_source_UniProt
DB source UniProt: Database source UniProt.
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_mzTab
mzTab: Tabular result format for proteomics and metabolomics experiments.
MS_quantification_datatype
quantification datatype: The data type of the value reported in a QuantLayer for a feature...
MS_frag__x_ion___NH3
frag: x ion - NH3: Fragmentation information, type of product: x ion without ammonia.
MS_SWIFT
SWIFT (stored waveform inverse fourier transform): A technique to create excitation waveforms for ion...
MS_proportional_OBSOLETE
proportional: When resolution is proportional with respect to m/z.
MS_product_ion_intensity_standard_deviation
product ion intensity standard deviation: Standard deviation of product ion intensity in a collection...
MS_mzidLib_CombineSearchEngines
mzidLib:CombineSearchEngines: A tool for combining results analysed in parallel in two or three searc...
MS_protein_group_level_global_FDR
protein group-level global FDR: Estimation of the global false discovery rate of protein groups...
MS_software_input_parameter
software input parameter: Software input parameters.
UNIMOD_dHex_1_Hex_4_HexNAc_3_Pent_1_
dHex(1)Hex(4)HexNAc(3)Pent(1): DHex Hex(4) HexNAc(3) Pent.
MS_Phenyx_ID
Phenyx:ID: A secondary sequence database identifier of a protein in Phenyx.
UNIMOD_Tripalmitate
Tripalmitate: N-acyl diglyceride cysteine.
MS_GC_IsoLink
GC IsoLink: Thermo Scientific GC IsoLink Isotope Ratio MS.
UNIMOD_Carboxyethyl
Carboxyethyl: Carboxyethyl.
UNIMOD_HexNAc_2_dHex_2_
HexNAc(2)dHex(2): HexNAc2dHex2.
UO_plaque_forming_unit
plaque forming unit: A dimensionless count unit which a measure of plague forming units in a given vo...
MS_mzidLib_Tandem2Mzid
mzidLib:Tandem2Mzid: A converter for Tandem XML to mzIdentML.
MS_database_type
database type: Database containing amino acid or nucleic acid sequences.
MS_FlexControl
FlexControl: Bruker software for data acquisition.
MS_contact_URL
contact URL: Uniform Resource Locator related to the contact person or organization.
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_ProteomeDiscoverer_Spectrum_Grouper_Precursor_Mass_Criterion
ProteomeDiscoverer:Spectrum Grouper:Precursor Mass Criterion: Groups spectra measured within the give...
MS_precursor_ion_detection_probability
precursor ion detection probability: Probability of detecting precursor when parent protein is presen...
UNIMOD_Delta_H_2_C_5_
Delta:H(2)C(5): MDA adduct +62.
UNIMOD_ICAT_G
ICAT-G: Gygi ICAT(TM) d0.
MS_decoy_DB_from_IPI_chicken_OBSOLETE
decoy DB from IPI_chicken: Decoy database from a International Protein Index database for Gallus gall...
MS_below_precursor_intensity_dominance_charge_state_calculation
below precursor intensity dominance charge state calculation: Infers charge state as single or ambigu...
MS_PeptideShaker_protein_group_confidence
PeptideShaker protein group confidence: The probability based PeptideShaker protein group confidence...
MS_SCIEX_software
SCIEX software: SCIEX or Applied Biosystems 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_date___time_search_performed_OBSOLETE
date / time search performed: OBSOLETE: use attribute in mzIdentML instead. Date and time of the actu...
MS_TOPP_SpectraFilterSqrtMower
TOPP SpectraFilterSqrtMower: Applies a filter to peak spectra after intensity scaling to the square r...
MS_Mascot_Distiller
Mascot Distiller: Mascot Distiller.
MS_ProteinExtractor
ProteinExtractor: An algorithm for protein determination/assembly integrated into Bruker's ProteinSca...
UNIMOD_glucosone
glucosone: Condensation product of glucosone.
MS_magnetic_field_strength
magnetic field strength: A property of space that produces a force on a charged particle equal to qv ...
MS_gas_chromatography_separation
gas chromatography separation: Gas chromatography (GC) is a separation technique in which the mobile ...
MS_linked_scan_OBSOLETE
linked scan: A scan in an instrument with two or more m/z analysers or in a sector mass spectrometer ...
MS_database_UniProtKB_TrEMBL
database UniProtKB/TrEMBL: The name of the UniProtKB/TrEMBL database.
MS_embl_em
embl em: EMBL entry format.
MS_retention_time_window_upper_offset
retention time window upper offset: The extent of the retention time window in time units above the t...
MS_constant_neutral_gain_scan_OBSOLETE
constant neutral gain scan: Spectrum of all precursor ions that undergo a selected m/z increment...
UO_millisecond
millisecond: A time unit which is equal to one thousandth of a second or 10^[-3] s.
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...
UNIMOD_Arg__Phe
Arg->Phe: Arg->Phe substitution.
UNIMOD_dHex_2_Hex_2_HexA_1_
dHex(2)Hex(2)HexA(1): DHex(2) Hex(2) HexA.
UNIMOD_Gly__Tyr
Gly->Tyr: Gly->Tyr substitution.
MS_esquireControl
esquireControl: Bruker software for data acquisition.
UO_milligram_per_liter
milligram per liter: A mass unit density which is equal to mass of an object in milligrams divided by...
MS_mzidLib_InsertMetaDataFromFasta
mzidLib:InsertMetaDataFromFasta: A tool for adding additional meta data from a FASTA file to DBSequen...
MS_retention_time_normalization_standard
retention time normalization standard: A standard providing the retention times at which a set of ref...
MS_ProteinProspector_expectation_value
ProteinProspector:expectation value: The ProteinProspector result 'Expectation value'.
MS_spin_coating_MALDI_sample_preparation
spin coating MALDI sample preparation: Spin coating MALDI sample preparation method.
UNIMOD_GIST_Quat
GIST-Quat: Quaternary amine labeling reagent light form (N-term & K).
MS_ICPL_reagent_6
ICPL reagent 6: The name of the sample labelled with the ICPL reagent 6.
UNIMOD_Ala__Val
Ala->Val: Ala->Val substitution.
UNIMOD_Ser__Ala
Ser->Ala: Ser->Ala substitution.
UNIMOD_His__Glu
His->Glu: His->Glu substitution.
MS_Comet_total_ions
Comet:total ions: The Comet result 'Total Ions'.
MS_TOPP_SpectraFilterThresholdMower
TOPP SpectraFilterThresholdMower: Applies a filter of peaks below a given threshold to peak spectra...
MS_ultrafleXtreme
ultrafleXtreme: Bruker Daltonics' ultrafleXtreme: MALDI TOF.
MS_Sequence_database_filter_types
Sequence database filter types: Filter types which are used to filter a sequence database.
MS_ProteomeDiscoverer_max_peptide_length
ProteomeDiscoverer:max peptide length: Maximum peptide length.
MS_Mascot_UseUnigeneClustering
Mascot:UseUnigeneClustering: If true, then the search results are against a nucleic acid database and...
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_MaxQuant_Phospho__STY__Probabilities_threshold
MaxQuant:Phospho (STY) Probabilities threshold: Threshold for MaxQuant:Phospho (STY) Probabilities...
MS_Byonic
Byonic: Byonic search engine from Protein Metrics.
MS_Skyline
Skyline: Software used to predict, select, and optimize transitions as well as analyze the results of...
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_QQQTGG
QQQTGG: SUMOylation by SUMO-2/3.
MS_OMEGA
OMEGA: IonSpec OMEGA MS.
MS_ProteomeDiscoverer_Mascot_Weight_of_C_Ions
ProteomeDiscoverer:Mascot:Weight of C Ions: Determines if to use C ions for spectrum matching...
MS_ProteomeDiscoverer_Use_Neutral_Loss_b_Ions
ProteomeDiscoverer:Use Neutral Loss b Ions: Determines whether b ions with neutral loss are used for ...
MS_PerSeptive_PKS_format
PerSeptive PKS format: PerSeptive peak list file format.
UNIMOD_Label_13C_5_
Label:13C(5): 13C(5) Silac label.
MS_Profound_ClusterRank
Profound:ClusterRank: The Profound cluster rank.
MS_CLINPROT_micro
CLINPROT micro: Bruker CLINPROT micro software.
UO_kibibyte
kibibyte: An information unit which is equal to 1024 B.
MS_counts_per_second
counts per second: The number of counted events observed per second in one or a group of elements of ...
UO_poise
poise: A viscosity unit which is equal to one dyne second per square centimeter.
MS_MS1_label_based_analysis
MS1 label-based analysis: MS1 label-based analysis.
MS_MS1_feature_maximum_intensity
MS1 feature maximum intensity: Maximum intensity of MS1 feature.
MS_PTM_localization_PSM_level_statistic
PTM localization PSM-level statistic: Statistic to convey the confidence of the localization of an am...
UO_power_unit
power unit: A unit which is a standard measure power or the rate of doing work.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_y_Ions
ProteomeDiscoverer:SEQUEST:Weight of y Ions: Uses y ions for spectrum matching with this relative fac...
UNIMOD_dHex_1_Hex_2_HexA_1_HexNAc_2_
dHex(1)Hex(2)HexA(1)HexNAc(2): DHex Hex(2) HexA HexNAc(2).
UO_volt_hour
volt-hour: A magnetic flux unit which is equal to 3600 Wb.
MS______KR_____P_
(?<=[KR])(?!P): Regular expression for Trypsin.
MS_ACQUITY_UPLC_I_Class
ACQUITY UPLC I-Class: Waters LC-system ACQUITY UPLC I-Class.
MS_mzML_format
mzML format: Proteomics Standards Inititative mzML file format.
UNIMOD_Gly
Gly: Addition of Glycine.
MS_sophisticated_numerical_annotation_procedure
sophisticated numerical annotation procedure: It searches for known patterns in the measured spectrum...
MS_area_normalization
area normalization: Normalization of areas below the curves.
MS_ion_series_considered_in_search
ion series considered in search: The description of the ion fragment series (including charges and ne...
UNIMOD_dHex_1_Hex_5_HexNAc_4_NeuAc_2_
dHex(1)Hex(5)HexNAc(4)NeuAc(2): DHex Hex(5) HexNAc(4) NeuAc(2).
UNIMOD_Hex_6_HexNAc_4_Me_3_Pent_1_
Hex(6)HexNAc(4)Me(3)Pent(1): Hex(6) HexNAc(4) Me(3) Pent.
UO_curie
curie: An activity (of a radionuclide) unit which is equal to the activity of a quantity of radioacti...
UNIMOD_Label_13C_6__Acetyl
Label:13C(6)+Acetyl: Acetyl 13C(6) Silac label.
MS_LTQ_XL
LTQ XL: Thermo Scientific LTQ XL MS.
UNIMOD_IGBP_13C_2_
IGBP:13C(2): Heavy IDBEST tag for quantitation.
UNIMOD_cysTMT
cysTMT: Native cysteine-reactive Tandem Mass Tag®.
MS_technical_replicate
technical replicate: The study variable is 'technical replicate'. The string value denotes the catego...
MS_OMSSA_pvalue
OMSSA:pvalue: OMSSA p-value.
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.
UNIMOD_dHex_1_Hex_3_HexNAc_3_Sulf_1_
dHex(1)Hex(3)HexNAc(3)Sulf(1): DHex Hex(3) HexNAc(3) Sulf.
UNIMOD_Trp__Xle
Trp->Xle: Trp->Leu/Ile substitution.
MS_ProteinExtractor_SequestPeptideScoreThreshold
ProteinExtractor:SequestPeptideScoreThreshold: Only peptides with scores higher than that threshold a...
MS_XPRESS
XPRESS: A program in the TPP that calculates PSM-level abundances based on 2-channel isotope-labelled...
MS_mathieu_stability_diagram_OBSOLETE
mathieu stability diagram: A graphical representation expressed in terms of reduced coordinates that ...
UNIMOD_Hex_3_HexNAc_7_Sulf_1_
Hex(3)HexNAc(7)Sulf(1): Hex(3) HexNAc(7) Sulf.
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.
MS_gaseous_sample_state
gaseous sample state: State if the sample is in gaseous form.
UNIMOD_Carboxyethylpyrrole
Carboxyethylpyrrole: Carboxyethylpyrrole.
UNIMOD_EDT_maleimide_PEO_biotin
EDT-maleimide-PEO-biotin: EDT-maleimide-PEO-biotin.
MS_protein_group_level_global_FNR
protein group-level global FNR: Estimation of the global false negative rate of protein groups...
MS_Bruker_U2_nativeID_format
Bruker U2 nativeID format: Native format defined by declaration=xsd:nonNegativeInteger collection=xsd...
MS_Trypsin
Trypsin: Enzyme trypsin.
MS_MSDK
MSDK: Mass Spectrometry Development Kit (MSDK) is a Java library of algorithms for processing of mass...
MS_fragment_ion_m_z
fragment ion m/z (product ion m/z): The m/z of the product ion.
UNIMOD_His__Asn
His->Asn: His->Asn substitution.
UNIMOD_Methylpyrroline
Methylpyrroline: 4-methyl-delta-1-pyrroline-5-carboxyl.
MS_frag__TMT_ETD_reporter_ion
frag: TMT ETD reporter ion: Standard reporter ion for TMT with ETD fragmentation. The value slot hold...
MS_ProteoWizard_msconvert
ProteoWizard msconvert: Converts, filters, and processes mass spectrometry data in variety of formats...
UNIMOD_Glu__Phe
Glu->Phe: Glu->Phe substitution.
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_Channeltron_Detector
Channeltron Detector (channeltron): A horn-shaped (or cone-shaped) continuous dynode particle multipl...
UNIMOD_Cys__Pro
Cys->Pro: Cys->Pro substitution.
UNIMOD_SulfanilicAcid_13C_6_
SulfanilicAcid:13C(6): Heavy Sulfanilic Acid (SA) C13.
UNIMOD_Hex_3_HexNAc_2_
Hex(3)HexNAc(2): Hex3HexNAc2.
MS_PTM_localization_score_threshold
PTM localization score threshold: Threshold for PTM site location score.
MS_search_database_details
search database details: Details about the database searched.
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.
MS_modulation_time
modulation time: The duration of a complete cycle of modulation in a comprehensive two-dimensional se...
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...
UNIMOD_Ser__Phe
Ser->Phe: Ser->Phe substitution.
UNIMOD_methylsulfonylethyl
methylsulfonylethyl: Reaction with methyl vinyl sulfone.
MS_iTRAQ_reagent_117
iTRAQ reagent 117: The name of the sample labelled with the iTRAQ reagent 117.
UO_milliliter
milliliter: A volume unit which is equal to one thousandth of a liter or 10^[-3] L, or to 1 cubic centimeter.
MS_IdentityE_XML_format
IdentityE XML format: Source file for this mzIdentML was in Waters IdentityE XML format.
MS_iTRAQ_reagent
iTRAQ reagent: Isobaric tag for relative and absolute quantitation reagent.
MS_attenuation
attenuation: Describes the reduction of the intensity of the laser beam energy.
UNIMOD_Met__Glu
Met->Glu: Met->Glu substitution.
UNIMOD_Dimethyl_2H_6_13C_2_
Dimethyl:2H(6)13C(2): Dimethylation.
UNIMOD_GIST_Quat_2H_6_
GIST-Quat:2H(6): Quaternary amine labeling reagent heavy form (+6amu), N-term & K.
MS_database_IPI_rat
database IPI_rat: International Protein Index database for Rattus norvegicus sequences.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Mass_Window_Offset
ProteomeDiscoverer:Non-Fragment Filter:Mass Window Offset: Specifies the size of the mass-to-charge r...
MS_mass_scan_OBSOLETE
mass scan: A variation of instrument where a selected mass is scanned.
MS_param__b_ion_H3PO4_DEPRECATED
param: b ion-H3PO4 DEPRECATED: Ion b-H3PO4: b ion with lost phosphoric acid.
MS_false_localization_rate
false localization rate: Estimation of the false localization rate for modification site assignment...
MS_database_IPI_chicken
database IPI_chicken: International Protein Index database for Gallus gallus sequences.
UNIMOD_NO_SMX_SMCT
NO_SMX_SMCT: Nitroso Sulfamethoxazole semimercaptal thiol adduct.
UO_dots_per_inch
dots per inch: A spatial resolution unit which is a standard measure of the printing resolution...
MS_theoretical_mass
theoretical mass: The theoretical mass of the molecule (e.g. the peptide sequence and its modificatio...
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_ProteomeDiscoverer_Scan_Type_OBSOLETE
ProteomeDiscoverer:Scan Type: Scan type for the precursor ion (full, Single Ion Monitoring (SIM)...
MS_SEQUEST_consensus_score
SEQUEST:consensus score: The SEQUEST result 'Consensus Score'.
UNIMOD_dHex_1_Hex_3_HexNAc_2_Sulf_1_
dHex(1)Hex(3)HexNAc(2)Sulf(1): DHex Hex(3) HexNAc(2) Sulf.
MS_splash_key
splash key: The Splash, is an unique identifier for Spectra, as the InChI Key is an unique identifier...
MS_ion_chemical_type_OBSOLETE
ion chemical type: Ion Type.
MS_even_electron_ion_OBSOLETE
even-electron ion: An ion containing no unpaired electrons in its ground electronic state...
MS_Clostripain
Clostripain (Arg-C): Endoproteinase Arg-C.
MS_transmission_quadrupole_mass_spectrometer_OBSOLETE
transmission quadrupole mass spectrometer: A mass spectrometer that consists of four parallel rods wh...
MS_PAnalyzer_ambiguous_group_member
PAnalyzer:ambiguous group member: A protein sharing at least one peptide not matched to either conclu...
MS_selected_ion_current_chromatogram
selected ion current chromatogram: Chromatogram created by creating an array of the measurements of a...
MS_consecutive_reaction_monitoring_OBSOLETE_1000327
consecutive reaction monitoring: A type of MS2 experiments with three or more stages of m/z separatio...
UNIMOD_ICAT_C
ICAT-C: Applied Biosystems cleavable ICAT(TM) light.
MS_Paragon__FDR_analysis
Paragon: FDR analysis: The Paragon method setting that controls whether FDR analysis is conducted...
MS_DeBunker
DeBunker: DeBunker software.
MS_mean_of_spectra
mean of spectra: Spectra is combined by calculating the mean of the spectra.
MS_Cliquid
Cliquid: SCIEX Cliquid software for data analysis and quantitation.
UNIMOD_Phe__Asn
Phe->Asn: Phe->Asn substitution.
UNIMOD_Asp__His
Asp->His: Asp->His substitution.
MS_TSQ_Quantiva
TSQ Quantiva: Thermo Scientific TSQ Quantiva MS.
MS_Ascore_threshold
Ascore threshold: Threshold for Ascore PTM site location score.
MS_TOPP_CompNovo
TOPP CompNovo: Performs a peptide/protein identification with the CompNovo engine.
MS_constant_neutral_gain_spectrum
constant neutral gain spectrum: A spectrum formed of all product ions that have been produced by gain...
UNIMOD_Dimethyl_2H_4_
Dimethyl:2H(4): DiMethyl-CHD2.
MS_TOPP_IDFilter
TOPP IDFilter: Filters results from protein or peptide identification engines based on different crit...
MS_ProteomeDiscoverer_Reference_Database_OBSOLETE
ProteomeDiscoverer:Reference Database: Full path database name.
UO_mebibyte
mebibyte: An information unit which is equal to 1024 KiB.
MS_ProteomeDiscoverer_Mascot_Protein_Relevance_Factor
ProteomeDiscoverer:Mascot:Protein Relevance Factor: Specifies a factor that is used in calculating a ...
MS_molecules_per_cell
molecules per cell: The absolute abundance of protein in a cell.
MS_PSM_level_statistical_threshold
PSM-level statistical threshold: Estimated statistical threshold at PSM-level.
MS_Analyst
Analyst: SCIEX or Applied Biosystems|MDS SCIEX software for data acquisition.
UNIMOD_Tyr__Glu
Tyr->Glu: Tyr->Glu substitution.
UNIMOD_dHex_3_HexNAc_3_Kdn_1_
dHex(3)HexNAc(3)Kdn(1): DHex(3) HexNAc(3) Kdn.
MS_instrument_additional_description_OBSOLETE
instrument additional description: Additional terms to describe the instrument as outlined in the mas...
MS_Byonic_DeltaMod_Score
Byonic:DeltaMod Score: The drop in Byonic score from the top-scoring peptide to the next peptide diff...
MS_two_dimensional_liquid_chromatography_with_discrete_modulation_time_steps
two-dimensional liquid chromatography with discrete modulation time steps: Two-dimensional liquid chr...
MS_collision_gas
collision gas: An inert gas used for collisional excitation. The term target gas is not recommended...
MS_modification_position_score
modification position score: Modification position score.
MS_LCQ_Deca_XP_Plus
LCQ Deca XP Plus: ThermoFinnigan LCQ Deca XP Plus MS.
MS_param__immonium_ion
param: immonium ion: Parameter information, type of product: immonium ion.
UO_exposure_unit
exposure unit: A unit which is a standard measure of the quantity that expresses the ability of radia...
MS_native_source_path
native source path: The original source path used for directory-based sources.
MS_quantification_object_attribute
quantification object attribute: Attributes describing the details of an object relevant for reportin...
UO_milliunits_per_milliliter
milliunits per milliliter: A unit per milliliter unit which is equal to one thousandth of a unit of a...
MS_Bruker_FID_nativeID_format
Bruker FID nativeID format: Native format defined by file=xsd:IDREF.
MS_ProteoWizard_software
ProteoWizard software: ProteoWizard software for data processing and analysis. Primarily developed by...
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_2_
dHex(1)Hex(3)HexA(1)HexNAc(2): DHex Hex(3) HexA HexNAc(2).
MS_Mascot_ProteinGrouping
Mascot:ProteinGrouping: Strategy used by Mascot to group proteins with same peptide matches (one of '...
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_FileConverter
FileConverter: Converts between different MS file formats.
UNIMOD_Phe__Gly
Phe->Gly: Phe->Gly substitution.
UNIMOD_Met_loss_Acetyl
Met-loss+Acetyl: Removal of initiator methionine from protein N-terminus, then acetylation of the new...
MS_microelectrospray
microelectrospray: Electrospray ionization at a solvent flow rate of 300-800 nL/min where the flow is...
MS_TOPP_ProteinQuantifier
TOPP ProteinQuantifier: Computes protein abundances from annotated feature/consensus maps...
UNIMOD_O_Dimethylphosphate
O-Dimethylphosphate: O-Dimethylphosphorylation.
MS_travelling_wave_ion_mobility_mass_spectrometer_OBSOLETE
travelling wave ion mobility mass spectrometer: An ion mobility mass spectrometry technique based on ...
UNIMOD_MTSL
MTSL: Cys modification by (1-oxyl-2,2,5,5-tetramethyl-3-pyrroline-3-methyl)methanesulfonate (MTSL)...
UNIMOD_ICPL_2H_4_
ICPL:2H(4): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, medium form.
MS_group_member_with_undefined_relationship_OR_ortholog_protein
group member with undefined relationship OR ortholog protein: TO ENDETAIL: a really generic relations...
MS_percolator_PEP
percolator:PEP: Posterior error probability.
UNIMOD_Gly__Cys
Gly->Cys: Gly->Cys substitution.
UNIMOD_Argbiotinhydrazide
Argbiotinhydrazide: Oxidized Arginine biotinylated with biotin hydrazide.
MS_taxonomy_nomenclature_OBSOLETE
taxonomy nomenclature: OBSOLETE: The system used to indicate taxonomy. There should be an enumerated ...
MS_search_statistics
search statistics: The details of the actual run of the search.
MS_pre_ionization_state_OBSOLETE
pre-ionization state: An electronic state capable of undergoing auto-Ionization.
UNIMOD_dHex_1_Hex_3_HexNAc_4_Sulf_1_
dHex(1)Hex(3)HexNAc(4)Sulf(1): DHex Hex(3) HexNAc(4) Sulf.
MS_quantitation_analysis_summary
quantitation analysis summary: The overall workflow of this quantitation report.
UNIMOD_Gly__Asn
Gly->Asn: Gly->Asn substitution.
MS_Phenyx_AC_Score
Phenyx:AC Score: The minimal protein score required for a protein database entry to be displayed in t...
MS_Percolator_input_parameter
Percolator input parameter: Search engine input parameters specific to Percolator.
UNIMOD_dHex_1_Hex_4_HexNAc_2_
dHex(1)Hex(4)HexNAc(2): DHex Hex(4) HexNAc(2).
UNIMOD_PhosphoUridine
PhosphoUridine: Uridine phosphodiester.
MS_database_IPI_human
database IPI_human: International Protein Index database for Homo sapiens sequences.
UNIMOD_Met__Hsl
Met->Hsl: Homoserine lactone.
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_ProteomeDiscoverer_Mascot_Weight_of_Z_Ions
ProteomeDiscoverer:Mascot:Weight of Z Ions: Determines if to use z ions for spectrum matching...
UNIMOD_Asn__Gln
Asn->Gln: Asn->Gln substitution.
UNIMOD_Hex_1_HexNAc_1_NeuAc_3_
Hex(1)HexNAc(1)NeuAc(3): Hex HexNAc NeuAc(3).
MS_MyriMatch_mzFidelity
MyriMatch:mzFidelity: The negative natural log probability that predicted peaks match to experimental...
MS_constant_neutral_mass_loss_spectrum
constant neutral mass loss spectrum (constant neutral loss spectrum): A spectrum formed of all produc...
UNIMOD_Xlink_DSS
Xlink:DSS: Water-quenched monolink of DSS/BS3 crosslinker to Lys or N-terminus.
MS_Pepitome
Pepitome: Tabb Lab software for spectral library searches on tandem mass spectra. ...
MS_retention_time
retention time: A time interval from the start of chromatography when an analyte exits a chromatograp...
MS_multiple_stage_mass_spectrometry_OBSOLETE
multiple stage mass spectrometry: Multiple stages of precursor ion m/z selection followed by product ...
UNIMOD_Iodo
Iodo: Iodination.
MS_data_processing_software
data processing software: Data processing software.
MS_autodetachment
autodetachment: The formation of a neutral when a negative ion in a discrete state with an energy gre...
UNIMOD_Furan
Furan: Chemical modification of the iodinated sites of thyroglobulin by Suzuki reaction.
UNIMOD_Hex_2_HexNAc_2_Pent_1_
Hex(2)HexNAc(2)Pent(1): Hex2HexNAc2Pent1.
MS_highest_observed_wavelength
highest observed wavelength: Highest wavelength observed in an EMR spectrum.
MS_EThcD
EThcD (Electron-Transfer/Higher-Energy Collision Dissociation (EThcD)): A dissociation process combin...
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge4: Standard medium confidence XCorr para...
MS_TOPP_SpectraFilterNormalizer
TOPP SpectraFilterNormalizer: Applies a TIC/maximal intensity normalization to peak spectra...
UO_coulomb
coulomb: An electrical charge unit which is equal to the amount of charge transferred by a current of...
MS_OMSSA_evalue
OMSSA:evalue: OMSSA E-value.
UNIMOD_Trp__His
Trp->His: Trp->His substitution.
MS_Xevo_G2_S_QTof
Xevo G2-S QTof: Waters oa-ToF based Xevo G2-S QTof.
MS_IsoProbe_T
IsoProbe T: Waters IsoProbe T MS.
MS_database_source
database source: The organisation, project or laboratory from where the database is obtained (UniProt...
UNIMOD_Ser__Tyr
Ser->Tyr: Ser->Tyr substitution.
UNIMOD_Glutathione
Glutathione: Glutathione disulfide.
MS_image_current_detector
image current detector (inductive detector): Inductive detector.
MS_soft_ionization
soft ionization: The formation of gas-phase ions without extensive fragmentation. ...
UO_pascal_second
pascal second: A viscosity unit which is equal to one pascale per second.
UO_molar_mass_unit
molar mass unit: A unit which is a standard measure of the mass of a homogeneous substance containing...
MS_prot_FDR_threshold
prot:FDR threshold: False-discovery rate threshold for proteins.
UNIMOD_Arg__GluSA
Arg->GluSA: Arginine oxidation to glutamic semialdehyde.
UO_cubic_meter_per_kilogram
cubic meter per kilogram: A specific volume unit which is equal to one cubic meter volume occupied by...
MS_source_temperature
source temperature: The temperature of the source of a mass spectrometer.
UNIMOD_N_dimethylphosphate
N-dimethylphosphate: N-dimethylphosphate.
UNIMOD_NEMsulfur
NEMsulfur: N-ethylmaleimideSulfur.
UNIMOD_Label_13C_5_15N_1_
Label:13C(5)15N(1): 13C(5) 15N(1) Silac label.
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_emPAI_value
emPAI value: The emPAI value of protein abundance, produced from the emPAI algorithm.
UNIMOD_Hex_1_HexNAc_3_NeuAc_2_
Hex(1)HexNAc(3)NeuAc(2): Hex HexNAc(3) NeuAc(2).
MS_ProteinProphet
ProteinProphet: A program in the TPP that calculates protein-level probabilities based on input PSM o...
MS_AP_MALDI
AP MALDI (atmospheric pressure matrix-assisted laser desorption ionization): Matrix-assisted laser de...
MS_scan_start_time
scan start time: The time that an analyzer started a scan, relative to the start of the MS run...
MS_ReAdW
ReAdW: A software program for converting Thermo Finnigan RAW file format to mzXML or mzML...
UNIMOD_Glu
Glu: Monoglutamyl.
MS_pepXML_format
pepXML format: Source file for this mzIdentML was in a pepXML file format.
UNIMOD_Diironsubcluster
Diironsubcluster: Hydrogenase diiron subcluster.
MS_cleavage_agent_name
cleavage agent name: The name of the cleavage agent.
UNIMOD_Hex_2_HexNAc_1_NeuGc_4_
Hex(2)HexNAc(1)NeuGc(4): Hex(2) HexNAc NeuGc(4).
UNIMOD_Octanoyl
Octanoyl: Octanoyl.
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)...
MS_Paragon__cysteine_alkylation
Paragon: cysteine alkylation: The Paragon method setting indicating the actual cysteine alkylation ag...
MS_nth_generation_product_ion_scan_OBSOLETE
nth generation product ion scan: The specific scan functions or processes that record the appropriate...
UNIMOD_Trimethyl_13C_3_2H_9_
Trimethyl:13C(3)2H(9): 3-fold methylation with fully labelled methyl groups.
UNIMOD_Xle__Asp
Xle->Asp: Leu/Ile->Asp substitution.
UNIMOD_AHA_SS_CAM
AHA-SS_CAM: Carbamidomethylated form of reductively cleaved tag coupled to azidohomoalanine.
UNIMOD_Asn__Ala
Asn->Ala: Asn->Ala substitution.
MS_PEAKS_inChorusProteinScore
PEAKS:inChorusProteinScore: The PEAKS inChorus protein score.
MS_SEQUEST_input_parameter
SEQUEST input parameter: Search engine input parameters specific to SEQUEST.
MS_ProteinScape_SearchEventId
ProteinScape:SearchEventId: The SearchEventId of the SearchEvent in the ProteinScape database...
MS_MS1_label_based_raw_feature_quantitation
MS1 label-based raw feature quantitation: MS1 label-based raw feature quantitation.
MS_No_fixed_modifications_searched
No fixed modifications searched: No fixed modifications are included as a parameter for the search...
MS_collisionally_activated_dissociation
collisionally activated dissociation (collision-induced dissociation): The dissociation of an ion aft...
UNIMOD_DTT_C
DTT_C: Dithiothreitol (DTT) on Cys.
UNIMOD_dHex_4_Hex_1_HexNAc_2_Kdn_1_
dHex(4)Hex(1)HexNAc(2)Kdn(1): DHex(4) Hex HexNAc(2) Kdn.
MS_TOPP_FeatureLinkerUnlabeled
TOPP FeatureLinkerUnlabeled: Groups corresponding features from multiple maps.
MS_feature_list_attribute
feature list attribute: Attribute describing a feature list.
MS_Mascot_MGF_format
Mascot MGF format: Mascot MGF file format.
MS_c_terminal_flanking_residue
c-terminal flanking residue: The residue following the last amino acid in the peptide sequence as it ...
MS_ProteinExtractor_MascotPeptideScoreThreshold
ProteinExtractor:MascotPeptideScoreThreshold: Only peptides with scores higher than that threshold ar...
UNIMOD_4_ONE
4-ONE: 4-Oxononenal (ONE).
MS_M_LDI_L
M L: Waters oa-ToF based MALDI L.
UNIMOD_Phosphoadenosine
Phosphoadenosine: AMP.
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...
MS_PSM_level_global_FDR
PSM-level global FDR: Estimation of the global false discovery rate of peptide spectrum matches...
UNIMOD_Hex_1_Pent_2_
Hex(1)Pent(2): Hex Pent(2).
MS_matrix_solution
matrix solution: Describes the chemical solution used as matrix.
UNIMOD_Propionyl_13C_3_
Propionyl:13C(3): Propionate labeling reagent heavy form (+3amu), N-term & K.
MS_target_list
target list: A list of peptides or compounds and their expected m/z coordinates that can be used to c...
MS_protein_identification_confidence_metric
protein identification confidence metric: Identification confidence metric for a protein.
MS_spectrum_descriptions
spectrum descriptions: Descriptions of the input spectra.
UNIMOD_EQAT_2H_5_
EQAT:2H(5): EAPTA d5.
UNIMOD_Succinyl_2H_4_
Succinyl:2H(4): Succinic anhydride labeling reagent, heavy form (+4amu, 4H2), N-term & K...
UNIMOD_TMAB_2H_9_
TMAB:2H(9): D9-4-trimethyllammoniumbutyryl-.
MS_temperature_array
temperature array: A data array of temperature measurements.
UNIMOD_dHex_1_Hex_4_HexNAc_4_NeuAc_1_
dHex(1)Hex(4)HexNAc(4)NeuAc(1): DHex Hex(4) HexNAc(4) NeuAc.
MS_electron_volt_OBSOLETE
electron volt: A non-SI unit of energy (eV) defined as the energy acquired by a particle containing o...
MS_OpenXQuest
OpenXQuest: Cross-Linking MS search engine.
MS_microflex
microflex: Bruker Daltonics' microflex: MALDI TOF.
UNIMOD_Ala__Xle
Ala->Xle: Ala->Leu/Ile substitution.
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_dHex_1_Hex_2_HexNAc_2_NeuGc_3_
dHex(1)Hex(2)HexNAc(2)NeuGc(3): DHex Hex(2) HexNAc(2) NeuGc(3).
UO_illuminance_unit
illuminance unit: A unit which is a standard measure of the luminous flux incident on a unit area...
UNIMOD_Trp__Asp
Trp->Asp: Trp->Asp substitution.
MS_precursor_ion_OBSOLETE
precursor ion: An ion that reacts to form particular product ions. The reaction can be unimolecular d...
MS_z_OBSOLETE
z (OBSOLETE charge number): The total charge on an ion divided by the electron charge e...
MS_profile_spectrum
profile spectrum: A profile mass spectrum is created when data is recorded with ion current (counts p...
MS_DSQ
DSQ: ThermoFinnigan DSQ GC-MS.
MS_Trans_Proteomic_Pipeline_software
Trans-Proteomic Pipeline software: A software program that is a component of the Trans-Proteomic Pipe...
UNIMOD_Arg__Ala
Arg->Ala: Arg->Ala substitution.
MS_Thermo_Fisher_Scientific_instrument_model
Thermo Fisher Scientific instrument model: Thermo Fisher Scientific instrument model. The company has gone through several names including Thermo Finnigan, Thermo Scientific.
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_SEQUEST_sort_by_Ref
SEQUEST:sort by Ref: Sort order of SEQUEST search results given by the reference. ...
MS_ProteomeDiscoverer_Spectrum_Selector_SN_Threshold_FTonly
ProteomeDiscoverer:Spectrum Selector:SN Threshold FTonly: Signal-to-Noise ratio below which peaks are...
UO_colony_forming_unit
colony forming unit: A dimensionless count unit which a measure of viable bacterial numbers...
MS_quality_estimation_with_decoy_database
quality estimation with decoy database: Quality estimation by decoy database.
MS_field_free_region
field-free region: A section of a mass spectrometer in which there are no electric or magnetic fields...
UO_gram
gram: A mass unit which is equal to one thousandth of a kilogram or 10^[-3] kg.
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...
UNIMOD_IMEHex_2_NeuAc_1_
IMEHex(2)NeuAc(1): Glycosylation with IME linked Hex(2) NeuAc.
UO_unit_of_molarity
unit of molarity: A concentration unit which is a standard measure of the number of moles of a given ...
MS_ProteomeDiscoverer_Spectrum_Selector_Total_Intensity_Threshold
ProteomeDiscoverer:Spectrum Selector:Total Intensity Threshold: Used to filter out tandem mass spectr...
MS_ADC
ADC (analog-digital converter): Analog-to-digital converter (abbreviated ADC, A/D or A to D) is an el...
MS_baseline_reduction
baseline reduction: A process of removal of varying intensities generated due to variable energy abso...
MS_PyMS
PyMS (pyrolysis mass spectrometry): A mass spectrometry technique in which the sample is heated to th...
MS_Mascot_score
Mascot:score: The Mascot result 'Score'.
MS_precoated_MALDI_sample_plate
precoated MALDI sample plate: Precoated MALDI sample plate.
MS_MS1_label_based_protein_level_quantitation
MS1 label-based protein level quantitation: MS1 label-based protein level quantitation.
MS_MaxQuant_feature_intensity
MaxQuant:feature intensity: The data type feature intensity produced by MaxQuant. ...
MS_Thermo_Scientific_instrument_model
Thermo Scientific instrument model: Thermo Scientific instrument model.
MS_Q1_spectrum
Q1 spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stage ...
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_DiLeu4plex115
DiLeu4plex115: Accurate mass for DiLeu 115 isobaric tag.
UNIMOD_Nethylmaleimide
Nethylmaleimide: N-ethylmaleimide on cysteines.
MS_6490_Triple_Quadrupole_LC_MS
6490 Triple Quadrupole LC/MS: The 6490 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_Weierstrass_transform
Weierstrass transform (Gaussian smoothing): Reduces intensity spikes by convolving the data with a on...
MS_software
software: Software related to the recording or transformation of spectra.
UO_count_per_molar
count per molar: A rate unit which is equal to one over one molar.
UNIMOD_Pro__Trp
Pro->Trp: Pro->Trp substitution.
MS_positive_scan
positive scan: Polarity of the scan is positive.
MS_Mascot_MaxProteinHits
Mascot:MaxProteinHits: The number of protein hits to display in the report. If 'Auto', all protein hits that have a protein score exceeding the average peptide identity threshold are reported. Otherwise an integer at least 1.
MS_identification_file_attribute
identification file attribute: Attribute describing an identification file.
UNIMOD_Xle__Thr
Xle->Thr: Leu/Ile->Thr substitution.
UNIMOD_FTC
FTC: Fluorescein-5-thiosemicarbazide.
UNIMOD_Thrbiotinhydrazide
Thrbiotinhydrazide: Oxidized Threonine biotinylated with biotin hydrazide.
UNIMOD_HNE
HNE: 4-hydroxynonenal (HNE).
UO_temperature_unit
temperature unit: A unit which is a standard measure of the average kinetic energy of the particles i...
MS_search_engine_specific_peptide_sequence_level_identification_statistic
search engine specific peptide sequence-level identification statistic: Search engine specific distin...
UNIMOD_Cys__SecNEM
Cys->SecNEM: N-ethylmaleimide on selenocysteines.
MS_LC_MS_feature_volume
LC-MS feature volume: Real (intensity times area) volume of the LC-MS feature.
MS_percolator_Q_value
percolator:Q value: Percolator:Q value.
UNIMOD_Methyl_2H_2_
Methyl:2H(2): Deuterium Methylation of Lysine.
UNIMOD_NIPCAM
NIPCAM: N-isopropylcarboxamidomethyl.
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_MALDI_Solutions
MALDI Solutions: Shimadzu Biotech software for data acquisition, processing, and analysis.
MS_group_PSMs_by_sequence_with_modifications
group PSMs by sequence with modifications: Group PSMs by distinct peptide sequence with taking modifi...
MS_param__v_ion
param: v ion: Parameter information, type of product: side chain loss v ion.
MS_special_processing
special processing: Details describing a special processing.
MS_Glu_C
Glu-C (glutamyl endopeptidase): Enzyme glutamyl endopeptidase (EC 3.4.21.19).
UNIMOD_DimethylpyrroleAdduct
DimethylpyrroleAdduct: 2,5-dimethypyrrole.
MS_BioTOF
BioTOF: Bruker Daltonics' BioTOF: ESI TOF.
UNIMOD_IMID
IMID: IMID d0.
UNIMOD_Hex_5_HexNAc_4_Sulf_1_
Hex(5)HexNAc(4)Sulf(1): Hex(5) HexNAc(4) Sulf.
MS_electric_field_strength
electric field strength: The magnitude of the force per unit charge at a given point in space...
MS_Pepitome_mzFidelity
Pepitome:mzFidelity (MyriMatch:mzFidelity): The negative natural log probability that predicted peaks...
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_ProteomeDiscoverer_Mascot_Weight_of_V_Ions
ProteomeDiscoverer:Mascot:Weight of V Ions: Determines if to use V ions for spectrum matching...
UNIMOD_Hydroxamic_acid
Hydroxamic_acid: Conversion of carboxylic acid to hydroxamic acid.
UNIMOD_Hex_6_HexNAc_4_
Hex(6)HexNAc(4): Hex(6) HexNAc(4).
UNIMOD_Sulfo
Sulfo: O-Sulfonation.
UO_colony_forming_unit_per_milliliter
colony forming unit per milliliter: A colony forming unit which a measure of viable bacterial numbers...
UNIMOD_dHex_2_Hex_2_HexNAc_3_NeuGc_1_
dHex(2)Hex(2)HexNAc(3)NeuGc(1): DHex(2) Hex(2) HexNAc(3) NeuGc.
MS_ProteomeDiscoverer_Fragment_Mass_Tolerance_OBSOLETE
ProteomeDiscoverer:Fragment Mass Tolerance: Mass tolerance used for matching fragment peaks in Da or ...
UNIMOD_Hex_3_HexNAc_3_NeuAc_2_
Hex(3)HexNAc(3)NeuAc(2): Hex(3) HexNAc(3) NeuAc(2).
UNIMOD_HexNAc_3_Sulf_1_
HexNAc(3)Sulf(1): HexNAc(3) Sulf.
UNIMOD_TMAB
TMAB: 4-trimethyllammoniumbutyryl-.
MS_TOPP_peak_picker
TOPP peak picker: Peak picker component of the TOPP software.
MS_cluster_ion_OBSOLETE
cluster ion: An ion formed by a multi-component atomic or molecular assembly of one or more ions with...
UNIMOD_Label_13C_6_15N_4__Methyl
Label:13C(6)15N(4)+Methyl: Monomethylated Arg13C(6) 15N(4).
MS_MPI
MPI (multiphoton ionization): Photoionization of an atom or molecule in which in two or more photons ...
UNIMOD_Pro__Met
Pro->Met: Pro->Met substitution.
MS_ProteomeDiscoverer_WinCyg_source_files
ProteomeDiscoverer:WinCyg source files: Windows pepXML file names.
MS_neutralization_reionization_mass_spectrometry
neutralization reionization mass spectrometry: With this technique, m/z selected ions form neutrals b...
MS_vertical_ionization
vertical ionization: A process in which an electron is removed from or added to a molecule without a ...
MS_ProteomeDiscoverer_5__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:5. Dynamic Modification: ProteomeDiscoverer's 5th dynamic post-translational modif...
MS_MAT900XP
MAT900XP: ThermoFinnigan MAT900XP MS.
UNIMOD_HexNAc_1_dHex_2_
HexNAc(1)dHex(2): HexNAc1dHex2.
MS_peptide_sequence_level_probability
peptide sequence-level probability: Probability that the reported distinct peptide sequence (irrespec...
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_database_name
database name: The name of the search database (nr, SwissProt or est_human).
UNIMOD_Label_15N_3_
Label:15N(3): 15N(3).
UNIMOD_BMOE
BMOE: Addition of BMOE crosslinker.
MS_Pegasus_III
Pegasus III: LECO nominal mass resolution time-of-flight GC mass spectrometer.
MS_contact_fax_number
contact fax number: Fax number for the contact person or organization.
UNIMOD_Glu__Gln
Glu->Gln: Glu->Gln substitution.
MS_no_PSM_threshold
no PSM threshold: Indicating that no PSM threshold was used.
UNIMOD_PropylNAGthiazoline
PropylNAGthiazoline: Propyl-1,2-dideoxy-2\'-methyl-alpha-D-glucopyranoso-[2,1-d]-Delta2\'-thiazoline...
MS_database_UniProtKB_Swiss_Prot
database UniProtKB/Swiss-Prot: The name of the UniProtKB/Swiss-Prot knowledgebase.
UO_mole
mole: A substance unit which is equal to the amount of substance of a molecular system which contains...
UNIMOD_Hex_2_HexNAc_2_NeuAc_2_
Hex(2)HexNAc(2)NeuAc(2): Hex(2) HexNAc(2) NeuAc(2).
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.
MS_Paragon__digestion
Paragon: digestion: The Paragon method setting indicating the actual digestion agent - unlike other s...
MS_supplemental_collision_induced_dissociation
supplemental collision-induced dissociation: The dissociation of an ion after supplemental collisiona...
MS_thomson
thomson (m/z): Three-character symbol m/z is used to denote the quantity formed by dividing the mass ...
UNIMOD_Cation_Zn_II_
Cation:Zn[II]: Replacement of 2 protons by zinc.
UNIMOD_Methylthio
Methylthio: Beta-methylthiolation.
MS_cross_linking_result_details
cross-linking result details: This subsection describes terms which can describe details of cross-lin...
UNIMOD_Met__Tyr
Met->Tyr: Met->Tyr substitution.
UNIMOD_HCysThiolactone
HCysThiolactone: N-Homocysteine thiolactone.
UNIMOD_Deamidated
Deamidated: Deamidation.
UNIMOD_Hex_2_HexNAc_2_dHex_1_
Hex(2)HexNAc(2)dHex(1): Hex2HexNAc2dHex1.
MS_Quattro_UItima
Quattro UItima: Waters oa-ToF based Ultima.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Neutral_Loss_Peaks
ProteomeDiscoverer:Non-Fragment Filter:Remove Neutral Loss Peaks: Determines whether neutral loss pea...
MS_Scaffold
Scaffold: Scaffold analysis software.
UNIMOD_Acetyl_2H_3_
Acetyl:2H(3): Acetate labeling reagent (N-term & K) (heavy form, +3amu).
MS_ProteinLynx_Ladder_Score
ProteinLynx:Ladder Score: Waters ProteinLynx Ladder score.
MS_higher_score_better
higher score better: Indicates that a higher score is better.
MS_SIM_spectrum
SIM spectrum: Spectrum obtained with the operation of a mass spectrometer in which the abundances of ...
UNIMOD_Ala__Arg
Ala->Arg: Ala->Arg substitution.
MS_infusion
infusion: The continuous flow of solution of a sample into the ionization source. ...
MS_amaZon_Speed
amaZon Speed: Bruker Daltonics' amaZon ETD: ESI quadrupole ion trap, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_nanoelectrospray
nanoelectrospray: Electrospray ionization at a flow rate less than ~25 nL/min. Nanoelectrospray is sy...
UNIMOD_Lys__Val
Lys->Val: Lys->Val substitution.
MS_reporter_ion_normalized_value
reporter ion normalized value: Normalized value of MS2 reporter ion (e.g. iTraq). ...
MS_desorption_ionization_on_silicon
desorption/ionization on silicon: The formation of ions by laser desorption ionization of a sample de...
MS_fourier_transform_ion_cyclotron_resonance_mass_spectrometer
fourier transform ion cyclotron resonance mass spectrometer: A mass spectrometer based on the princip...
MS_TOPP_MascotAdapter
TOPP MascotAdapter: Identifies MS2 spectra using the external program Mascot.
MS_quistor_OBSOLETE
quistor: An abbreviation of quadrupole ion storage trap. This term is synonymous with Paul Ion Trap...
MS_doi
doi (Digital Object Identifier (DOI)): DOI unique identifier of a publication.
MS_Scaffold_Peptide_Probability
Scaffold:Peptide Probability: Scaffold peptide probability score.
MS_count_of_identified_clusters
count of identified clusters: The number of protein clusters that have been identified, which must match the number of clusters that pass the threshold in the file.
MS_4700_Proteomics_Analyzer
4700 Proteomics Analyzer: Applied Biosystems/MDS SCIEX 4700 Proteomics Analyzer MS.
MS_Thermo_RAW_format
Thermo RAW format: Thermo Scientific RAW file format.
MS_orthogonal_extraction_OBSOLETE
orthogonal extraction: The pulsed acceleration of ions perpendicular to their direction of travel int...
UNIMOD_Asp__Asn
Asp->Asn: Asp->Asn substitution.
UO_watt_per_meter_kelvin
watt per meter kelvin: An heat conduction unit which is equal to one watt divided by meter kelvin...
UO_katal
katal: A catalytic unit activity which is equal to the activity of a catalyst in moles per second...
MS_surface_enhanced_neat_desorption
surface enhanced neat desorption: Matrix-assisted laser desorption ionization in which the matrix is ...
MS_dataset_submitter
dataset submitter: A person who submits a dataset to a repository.
UNIMOD_Trp__Arg
Trp->Arg: Trp->Arg substitution.
MS_ion_optics
ion optics: Device used in the construction of a mass spectrometer to focus, contain or otherwise man...
MS_no_nativeID_format
no nativeID format: No nativeID format indicates that the file tagged with this term does not contain...
MS_electron_multiplier
electron multiplier: A device to amplify the current of a beam or packet of charged particles or phot...
MS_Phenyx_Turbo_ErrorTol
Phenyx:Turbo:ErrorTol: The maximal allowed fragment m/z error filter considered in the turbo mode of ...
MS_MALDI_LTQ_Orbitrap
MALDI LTQ Orbitrap: Thermo Scientific MALDI LTQ Orbitrap MS.
UNIMOD_Ethoxyformyl
Ethoxyformyl: Ethoxyformylation.
MS_chromatogram_attribute
chromatogram attribute: Chromatogram properties that are associated with a value. ...
UNIMOD_phosphoRibosyl
phosphoRibosyl: Phosphate-ribosylation.
MS_MapNormalizer
MapNormalizer: Normalizes peak intensities in an MS run.
MS_protein_value__sum_of_peptide_values
protein value: sum of peptide values: Protein quantification value calculated as sum of peptide value...
UNIMOD_Thioacyl
Thioacyl: 3-sulfanylpropanoyl.
MS_mass_table_options
mass table options: Root node for options for the mass table used.
MS_2000_QTRAP
2000 QTRAP: SCIEX 2000 QTRAP.
MS_declustering_potential
declustering potential: Potential difference between the orifice and the skimmer in volts...
MS_sequence_subsumable_protein
sequence subsumable protein: A sequence same-set or sequence sub-set protein where the matches are di...
UO_information_unit
information unit: A unit which is a standard measure of the amount of information.
MS_Mascot_PreferredTaxonomy
Mascot:PreferredTaxonomy: NCBI TaxID taxonomy ID to prefer when two or more proteins match the same s...
MS_DLI
DLI (direct liquid introduction): The delivery of a liquid sample into a mass spectrometer for spray ...
MS_generic_experimental_condition
generic experimental condition: The experimental condition is given in the value of this term...
MS_mass_unit_OBSOLETE
mass unit: A unit of measurement for mass.
MS_quality_estimation_method_details
quality estimation method details: Method for quality estimation (manually or with decoy database)...
MS_ProteomeDiscoverer_Max_Precursor_Mass
ProteomeDiscoverer:Max Precursor Mass: Maximum mass limit of a singly charged precursor ion...
UNIMOD_Hex_1_HexA_1_HexNAc_1_
Hex(1)HexA(1)HexNAc(1): Hex HexA HexNAc.
UNIMOD_Delta_H_8_C_6_O_1_
Delta:H(8)C(6)O(1): Reduced acrolein addition +96.
MS_Constant_Neutral_Mass_Gain_Scan_OBSOLETE
Constant Neutral Mass Gain Scan (constant neutral gain scan): Spectrum of all precursor ions that und...
MS_Resampler
Resampler: Transforms an LC/MS map into a resampled map or a png image.
MS_fluorescence_detector
fluorescence detector: A detector using a fluorescent signal after excitation with light...
MS_ABI
ABI (Applied Biosystems instrument model): Applied Biosystems instrument model.
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_CID
CID (collision-induced dissociation): The dissociation of an ion after collisional excitation...
MS_TOPP_IDMapper
TOPP IDMapper: Assigns protein/peptide identifications to feature or consensus features.
UNIMOD_Xlink_B10621
Xlink:B10621: Bis-N-I-sulfonerahodamine.
UO_square_centimeter
square centimeter: An area unit which is equal to one thousand of square meter or 10^[-3] m^[2]...
UO_irradiance_unit
irradiance unit: A unit which is a standard measure of the power of electromagnetic radiation at a su...
MS_peak_intensity_rank
peak intensity rank: Ordinal specifying the rank in intensity of a peak in a spectrum. Base peak is 1. The next most intense peak is 2, etc.
Information about an ontology or CV source and a short 'lookup' tag to refer to.
MS_ProteomeDiscoverer_max_differential_modifications
ProteomeDiscoverer:max differential modifications: Maximum dynamic modifications per PSM...
UNIMOD_Thr__Cys
Thr->Cys: Thr->Cys substitution.
MS_moving_wire
moving wire: Continuous moving surface in the form of a wire which passes through an ion source carry...
MS_TIC_chromatogram
TIC chromatogram (total ion current chromatogram): Chromatogram obtained by plotting the total ion cu...
MS_identification_parameter
identification parameter: Identification parameter for the search engine run.
UNIMOD_dHex_1_Hex_6_
dHex(1)Hex(6): Hex6dHex1.
UNIMOD_Asp__Trp
Asp->Trp: Asp->Trp substitution.
UNIMOD_Glu__Tyr
Glu->Tyr: Glu->Tyr substitution.
UNIMOD_iodoTMT6plex
iodoTMT6plex: Sixplex iodoacetyl Tandem Mass Tag®.
UNIMOD_Label_15N_2_2H_9_
Label:15N(2)2H(9): SILAC label.
MS_alternate_mass
alternate mass: List of masses a non-standard letter code is replaced with.
MS_simple_ratio_of_two_values
simple ratio of two values: Simple ratio of two values (enumerator and denominator).
MS_de_novo_search
de novo search: A de novo sequencing search (without database).
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. The term collisional-activated dissociation is not recommended.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Activation_Type_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Activation Type Replacements: Specifies the fragmen...
UNIMOD_Met__Val
Met->Val: Met->Val substitution.
UNIMOD_dHex_4_Hex_2_HexNAc_3_
dHex(4)Hex(2)HexNAc(3): DHex(4) Hex(2) HexNAc(3).
MS_site_global_FDR
site:global FDR: Estimation of global false discovery rate of peptides with a post-translational modi...
UO_radian
radian: A plane angle unit which is equal to the angle subtended at the center of a circle by an arc ...
UNIMOD_Arg__Ser
Arg->Ser: Arg->Ser substitution.
MS_TrypChymo
TrypChymo: Cleavage agent TrypChymo.
MS_ion_optics_type
ion optics type: The electrical potential used to impart kinetic energy to ions in a mass spectromete...
MS_ProteomeDiscoverer_Search_Against_Decoy_Database_OBSOLETE
ProteomeDiscoverer:Search Against Decoy Database: Determines whether the Proteome Discoverer applicat...
UNIMOD_Ethyl
Ethyl: Ethylation.
MS_atmospheric_pressure_photoionization
atmospheric pressure photoionization: Atmospheric pressure chemical ionization in which the reactant ...
MS_ProteinExtractor_Score
ProteinExtractor:Score: The score calculated by ProteinExtractor.
UNIMOD_Thiophos_S_S_biotin
Thiophos-S-S-biotin: Thiophosphate labeled with biotin-HPDP.
MS_PolyTools
PolyTools: Bruker PolyTools software.
MS_light_labeled_peptide
light labeled peptide (unlabeled peptide): A peptide that has not been labelled with heavier-than-usu...
MS_PIA_protein_inference
PIA:protein inference: The used algorithm for the protein inference using PIA.
MS_LTQ_Orbitrap
LTQ Orbitrap: Finnigan LTQ Orbitrap MS.
UNIMOD_ICAT_C_13C_9_
ICAT-C:13C(9): Applied Biosystems cleavable ICAT(TM) heavy.
UNIMOD_Deoxy
Deoxy: Reduction.
MS_Mascot_SigThresholdType
Mascot:SigThresholdType: Significance threshold type used in Mascot reporting (either 'identity' or '...
MS_minimum_number_of_enzymatic_termini
minimum number of enzymatic termini: Minimum number of enzymatic termini a peptide must have to be ac...
MS_taxonomy__common_name
taxonomy: common name: This term is used if a common name is specified, e.g. human. Recommend using MS:1001467 (taxonomy: NCBI TaxID) where possible.
UNIMOD_iTRAQ4plex115
iTRAQ4plex115: Accurate mass for 115.
MS_iTRAQ_reagent_115
iTRAQ reagent 115: The name of the sample labelled with the iTRAQ reagent 115.
MS_SpectraST_delta
SpectraST:delta: SpectraST normalised difference between dot product of top hit and runner-up...
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_contact_toll_free_phone_number
contact toll-free phone number: Toll-free phone number of the contact person or organization.
UNIMOD_Cys__SecNEM_2H_5_
Cys->SecNEM:2H(5): D5 N-ethylmaleimide on selenocysteines.
MS_experiment_name
experiment name: The name for identifying an experiment.
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_UgiJoullieProGlyProGly
UgiJoullieProGlyProGly: Side reaction of PGPG with Side chain of aspartic or glutamic acid...
MS_phosphoRS_site_probability_threshold
phosphoRS site probability threshold: Threshold for phosphoRS site probability.
UNIMOD_trifluoro
trifluoro: Trifluoroleucine replacement of leucine.
MS______FYWL_____P_
(?<=[FYWL])(?!P): Regular expression for Chymotrypsin.
UNIMOD_Phe__Ser
Phe->Ser: Phe->Ser substitution.
MS_frag__x_ion___H2O
frag: x ion - H2O: Fragmentation information, type of product: x ion without water.
MS_MS1_label_based_peptide_level_quantitation
MS1 label-based peptide level quantitation: MS1 label-based peptide level quantitation.
MS_PAnalyzer_conclusive_protein
PAnalyzer:conclusive protein: A protein identified by at least one unique (distinct, discrete) peptide (peptides are considered different only if they can be distinguished by evidence in mass spectrum).
UNIMOD_Asp__Cys
Asp->Cys: Asp->Cys substitution.
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_maXis_4G
maXis 4G: Bruker Daltonics' maXis 4G: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_ProteinScape_second_round_Phenyx
ProteinScape:second round Phenyx: Flag indicating a second round search with Phenyx.
MS_protein_inference_confidence_category
protein inference confidence category: Confidence category of inferred protein (conclusive, non conclusive, ambiguous group or indistinguishable).
MS_SRM_chromatogram
SRM chromatogram (selected reaction monitoring chromatogram): Chromatogram created by creating an arr...
UNIMOD_Withaferin
Withaferin: Modification of cystein by withaferin.
UNIMOD_Biotin_Thermo_88317
Biotin:Thermo-88317: Desthiobiotin fluorophosphonate.
MS_Morpheus
Morpheus: Morpheus search engine.
MS_product_ion_detection_probability
product ion detection probability: Probability of detecting product ion when precursor ion is present...
MS_LD_OBSOLETE
LD (Laser Desorption): The formation of ions through the interaction of a laser with a material or wi...
UNIMOD_OxArgBiotin
OxArgBiotin: Oxidized arginine biotinylated with biotin-LC-hydrazide.
MS_Bruker_Daltonics_SCION_series
Bruker Daltonics SCION series: Bruker Daltonics' SCION series.
UNIMOD_Xlink_EGScleaved
Xlink:EGScleaved: EGS crosslinker to Lys or N-terminus following hydroxylamine cleavage.
UNIMOD_pyrophospho
pyrophospho: Pyrophosphorylation of Ser/Thr.
UNIMOD_ethylsulfonylethyl
ethylsulfonylethyl: Reaction with ethyl vinyl sulfone.
MS_QSTAR
QSTAR: Applied Biosystems/MDS SCIEX QSTAR MS.
UNIMOD_Hydroxymethyl
Hydroxymethyl: Hydroxymethyl.
MS_Waters_software
Waters software: Waters software for data acquisition and analysis.
MS_B
B (magnetic field strength): A property of space that produces a force on a charged particle equal to...
UNIMOD_Asp__Ala
Asp->Ala: Asp->Ala substitution.
MS_Thermo_Finnigan_software
Thermo Finnigan software: Thermo Finnigan software for data acquisition and analysis.
MS_Xevo_G2_Q_Tof
Xevo G2 Q-Tof: Waters oa-ToF based Xevo G2 Q-Tof.
UNIMOD_Lys__Asp
Lys->Asp: Lys->Asp substitution.
MS_Paragon_contrib
Paragon:contrib: The Paragon result 'Contrib'.
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_peptide_shared_in_multiple_proteins
peptide shared in multiple proteins: A peptide matching multiple proteins.
UNIMOD_Nitro
Nitro: Oxidation to nitro.
UNIMOD_Hex_4_HexNAc_2_
Hex(4)HexNAc(2): Hex(4) HexNAc(2).
MS_MaxQuant_peptide_counts__unique_
MaxQuant:peptide counts (unique): The data type peptide counts (unique) produced by MaxQuant...
MS_constant_neutral_mass_loss_OBSOLETE
constant neutral mass loss: A spectrum formed of all product ions that have been produced with a sele...
MS_Th
Th (m/z): Three-character symbol m/z is used to denote the quantity formed by dividing the mass of an...
MS_ProteomeDiscoverer_Spectrum_Files_Raw_File_names_OBSOLETE
ProteomeDiscoverer:Spectrum Files:Raw File names: Name and location of the .raw file or files...
MS_Profound_Cluster
Profound:Cluster: The Profound cluster score.
UO_amount_per_container
amount per container: A concentration unit which is a standard measure of the amount of a substance i...
UO_radian_per_second_per_second
radian per second per second: An angular unit acceleration which is equal to the angular acceleration...
UNIMOD_Tyr__Ser
Tyr->Ser: Tyr->Ser substitution.
UO_weber
weber: A magnetic flux unit which is equal to the amount of flux that when linked with a single turn ...
MS_Triple_Quad_5500
Triple Quad 5500: SCIEX Triple Quad 5500.
MS_selection_window_attribute
selection window attribute: Selection window properties that are associated with a value...
UNIMOD_AROD
AROD: Cysteine modifier.
MS_value_greater_than_zero
value greater than zero: Positive value range.
MS_SNAP
SNAP (sophisticated numerical annotation procedure): It searches for known patterns in the measured s...
UNIMOD_dHex_1_HexNAc_3_
dHex(1)HexNAc(3): DHex HexNAc(3).
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...
UNIMOD_dHex_1_Hex_3_HexNAc_6_Sulf_1_
dHex(1)Hex(3)HexNAc(6)Sulf(1): DHex Hex(3) HexNAc(6) Sulf.
MS_additional_description_OBSOLETE
additional description: Terms to describe Additional.
UNIMOD_Tyr__Lys
Tyr->Lys: Tyr->Lys substitution.
MS_SQID_deltaScore
SQID:deltaScore: The SQID result 'deltaScore'.
MS_ProteomeDiscoverer_Maximum_Missed_Cleavage_Sites
ProteomeDiscoverer:Maximum Missed Cleavage Sites: Maximum number of missed cleavage sites to consider...
MS_param__y_ion
param: y ion: Parameter information, type of product: y ion with charge on the C-terminal side...
MS_MS2_tag_based_analysis
MS2 tag-based analysis: MS2 tag-based analysis.
MS_phosphoRS_sequence_probability
phosphoRS sequence probability: Probability that the respective isoform is correct.
MS_ProteomeDiscoverer_Peptide_Without_Protein_Cut_Off_Score
ProteomeDiscoverer:Peptide Without Protein Cut Off Score: Cut off score for storing peptides that do ...
MS_X_Tandem_hyperscore
X!Tandem:hyperscore: The X!Tandem hyperscore.
MS_aromatic_ion_OBSOLETE
aromatic ion: A planar cyclic ion that obeys the Hueckel (4n + 2) rule where n is a positive integer ...
MS_q
q (collision quadrupole): A transmission quadrupole to which an oscillating potential is applied so a...
MS_database_filtering
database filtering: Was there filtering used on the database.
UNIMOD_O_Methylphosphate
O-Methylphosphate: O-Methylphosphorylation.
MS_Digital_Object_Identifier__DOI_
Digital Object Identifier (DOI): DOI unique identifier of a publication.
MS_Asp_N_ambic
Asp-N_ambic: Enzyme Asp-N, Ammonium Bicarbonate (AmBic).
MS_CNBr
CNBr: Cyanogen bromide.
UNIMOD_Hex_1_HexNAc_3_NeuAc_1_
Hex(1)HexNAc(3)NeuAc(1): Hex HexNAc(3) NeuAc.
UNIMOD_MolybdopterinGD_Delta_S__1_Se_1_
MolybdopterinGD+Delta:S(-1)Se(1): L-selenocysteinyl molybdenum bis(molybdopterin guanine dinucleotide...
MS_SpectrumMill_Score
SpectrumMill:Score: Spectrum mill peptide score.
MS_mass_spectrometry_mass_spectrometry_OBSOLETE
mass spectrometry/mass spectrometry: The acquisition, study and spectra of the electrically charged p...
UNIMOD_Deoxyhypusine
Deoxyhypusine: Deoxyhypusine.
UNIMOD_Xlink_DMP_s
Xlink:DMP-s: One end of crosslink attached, one end free.
UO_decibel
decibel: An ratio unit which is an indicator of sound power per unit area.
UNIMOD_Pro__Asn
Pro->Asn: Pro->Asn substitution.
MS_mzidLib_Mzidentml2Csv
mzidLib:Mzidentml2Csv: A tool for converting mzIdentML files to CSV format.
UNIMOD_Asn__Cys
Asn->Cys: Asn->Cys substitution.
MS_param__a_ion_H2O_DEPRECATED
param: a ion-H2O DEPRECATED: Ion a-H2O if a significant and fragment includes STED.
MS_TOPP_FeatureFinderRaw
TOPP FeatureFinderRaw: Detects two-dimensional features in uncentroided LC-MS data.
MS_mass_trace_reporting__polygons
mass trace reporting: polygons: The mass trace of the features of this feature list specifies polygon...
MS_ProteinProspector
ProteinProspector: ProteinProspector software for data acquisition and analysis.
UNIMOD_Asp__Xle
Asp->Xle: Asp->Leu/Ile substitution.
MS_LTQ_Orbitrap_XL_ETD
LTQ Orbitrap XL ETD: Thermo Scientific LTQ Orbitrap XL MS with ETD.
UNIMOD_dHex_4_Hex_3_HexNAc_3_
dHex(4)Hex(3)HexNAc(3): DHex(4) Hex(3) HexNAc(3).
MS_ProteomeDiscoverer_Spectrum_Selector_Use_New_Precursor_Reevaluation
ProteomeDiscoverer:Spectrum Selector:Use New Precursor Reevaluation: Determines if to use precursor r...
UNIMOD_OxLysBiotinRed
OxLysBiotinRed: Oxidized lysine biotinylated with biotin-LC-hydrazide, reduced.
UO_count_per_nanomolar_second
count per nanomolar second: A rate unit which is equal to one over one nanomolar second.
MS_Byonic__Protein_AbsLogProb
Byonic: Protein AbsLogProb: The absolute value of the log-base10 of the Byonic posterior error probab...
UNIMOD_Pro__Asp
Pro->Asp: Pro->Asp substitution.
MS_transition_validation_method
transition validation method: The strategy used to validate that a transition is effective.
MS_cone_voltage
cone voltage: Potential difference between the sampling cone/orifice in volts.
UNIMOD_Hex_1_HexNAc_1_Phos_1_
Hex(1)HexNAc(1)Phos(1): Hex HexNAc Phos.
UNIMOD_dHex_2_Hex_2_HexNAc_4_
dHex(2)Hex(2)HexNAc(4): DHex(2) Hex(2) HexNAc(4).
UNIMOD_Asp__Phe
Asp->Phe: Asp->Phe substitution.
MS_ProteomeDiscoverer_1__Static_Terminal_Modification
ProteomeDiscoverer:1. Static Terminal Modification: Determine 1st static terminal post-translational ...
UNIMOD_maleimide3
maleimide3: Maleimide-3-saccharide.
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge4: FT medium confidence XCorr parameter f...
UO_micron_pixel
micron pixel: A spatial resolution unit which is equal to a pixel size of one micrometer.
MS_ion_attribute_OBSOLETE
ion attribute: Ion properties that are associated with a value.
UNIMOD_Methyl_Acetyl_2H_3_
Methyl+Acetyl:2H(3): Mono-methylated lysine labelled with Acetyl_heavy.
MS_API_365
API 365: Applied Biosystems/MDS SCIEX API 365 MS.
MS_quick_and_dirty_MALDI_sample_preparation
quick and dirty MALDI sample preparation: Quick & dirty (Q&D) sample preparation separating matrix ha...
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)...
UNIMOD_Trp__Oxolactone
Trp->Oxolactone: Tryptophan oxidation to oxolactone.
MS_regular_expression
regular expression: Regular expression.
MS_H_Score
H-Score: H-Score for peptide phosphorylation site location.
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge3: FT medium confidence XCorr parameter f...
MS_MSQuant_PTM_score
MSQuant:PTM-score: The PTM score from MSQuant software.
MS_MaxQuant_PTM_Score_threshold
MaxQuant:PTM Score threshold: Threshold for MaxQuant:PTM Score.
MS_SEQUEST_probability
SEQUEST:probability: The SEQUEST result 'Probability'.
MS_Bioworks_SRF_format
Bioworks SRF format: Thermo Finnigan SRF file format.
MS_distinct_peptide_sequences
distinct peptide sequences: This counts distinct sequences hitting the protein without regard to a mi...
MS_BSI_software
BSI software: Bioinformatics Solutions Inc. Software for data processing and analysis.
MS_MS1_label_based_proteingroup_level_quantitation
MS1 label-based proteingroup level quantitation: MS1 label-based proteingroup level quantitation...
MS_ECD
ECD (electron capture dissociation): A process in which a multiply protonated molecules interacts wit...
MS_sandwich_MALDI_sample_preparation
sandwich MALDI sample preparation: Sandwich MALDI sample preparation method.
UNIMOD_maleimide
maleimide: Maleimide.
MS_ProteomeDiscoverer_Xtract_Lowest_MZ_OBSOLETE
ProteomeDiscoverer:Xtract:Lowest MZ: Lowest mass-to-charge (mz) value for spectral peaks in the measu...
MS_ProteinExtractor_MascotWeighting
ProteinExtractor:MascotWeighting: Influence of Mascot search engine in the process of merging the sea...
UNIMOD_Asn__His
Asn->His: Asn->His substitution.
UNIMOD_dHex_1_Hex_3_HexNAc_5_NeuAc_1_
dHex(1)Hex(3)HexNAc(5)NeuAc(1): DHex Hex(3) HexNAc(5) NeuAc.
UNIMOD_ADP_Ribosyl
ADP-Ribosyl: ADP Ribose addition.
MS_TWIMS_OBSOLETE
TWIMS (travelling wave ion mobility mass spectrometer): An ion mobility mass spectrometry technique b...
MS_Synapt_MS
Synapt MS: Waters oa-ToF based Synapt MS.
MS_Bruker_software
Bruker software: Bruker software for data acquisition and analysis.
UNIMOD_His__Xle
His->Xle: His->Leu/Ile substitution.
UNIMOD_Nmethylmaleimide_water
Nmethylmaleimide+water: Nmethylmaleimidehydrolysis.
MS_charge_exchange_ionization
charge exchange ionization: The interaction of an ion with an atom or molecule in which the charge on...
PWIZ_API_DECL const std::vector< CVID > & cvids()
returns vector of all valid CVIDs
MS_spectrum_identification_result_details
spectrum identification result details: This subsection describes terms which can describe details of...
MS_final_MS_exponent
final MS exponent: Final MS level achieved when performing PFF with the ion trap (e.g. MS E10).
MS_Shimadzu_Biotech_database_entity
Shimadzu Biotech database entity: Shimadzu Biotech format.
MS_accuracy
accuracy: Accuracy is the degree of conformity of a measured mass to its actual value.
MS_protein_group_level_statistical_threshold
protein group-level statistical threshold: Estimated statistical threshold at protein group-level...
UO_surface_tension_unit
surface tension unit: A unit which is a standard measure of the ability of a liguid to attraction of ...
MS_apexControl
apexControl: Bruker software for data acquisition.
UNIMOD_OxProBiotinRed
OxProBiotinRed: Oxidized proline biotinylated with biotin-LC-hydrazide, reduced.
UNIMOD_ICPL_13C_6_2H_4_
ICPL:13C(6)2H(4): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, +10 Da form...
UO_milliliter_per_cubic_meter
milliliter per cubic meter: A volume per unit volume unit which is equal to one millionth of a liter ...
MS_global_FLR
global FLR: Global false localization rate for all localizations in a dataset.
MS_spectrum_multiply_subsumable_protein
spectrum multiply subsumable protein: A protein for which the matched spectra are the same...
MS_HCTcontrol
HCTcontrol: Bruker software for data acquisition.
MS_second_pass_peptide_identification
second-pass peptide identification: A putative identified peptide found in a second-pass search of pr...
UNIMOD_Label_13C_6_15N_4__Dimethyl
Label:13C(6)15N(4)+Dimethyl: Dimethylated Arg13C(6) 15N(4).
MS_ions_series_considered
ions series considered: The ion series that were used during the calculation of the count (e...
UO_heat_conduction_unit
heat conduction unit: A unit which represents a standard measurement of the spontaneous transfer of t...
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_HCysteinyl
HCysteinyl: S-homocysteinylation.
MS_quattro_micro
quattro micro: Waters oa-ToF based micro.
MS_calibration_spectrum
calibration spectrum: A spectrum derived from a special calibration source, rather than from the prim...
MS_Triple_Quad_6500_
Triple Quad 6500+: SCIEX Triple Quad 6500+.
MS_TOPP_ProteinInference
TOPP ProteinInference: Infer proteins from a list of (high-confidence) peptides.
MS_SEQUEST_sort_by_dM
SEQUEST:sort by dM: Sort order of SEQUEST search results by the difference between a theoretically ca...
MS_TOPP_PeakPickerWavelet
TOPP PeakPickerWavelet: Finds mass spectrometric peaks with a wavelet algorithm in low-resoluted prof...
MS_GD_MS
GD-MS (glow discharge ionization): The formation of ions in the gas phase and from solid samples at t...
MS_frag__y_ion
frag: y ion: Fragmentation information, type of product: y ion.
MS_surface_induced_dissociation
surface-induced dissociation: Fragmentation that results from the collision of an ion with a surface...
UNIMOD_Hex_3_HexNAc_5_Sulf_1_
Hex(3)HexNAc(5)Sulf(1): Hex(3) HexNAc(5) Sulf.
MS_chemical_compound
chemical compound: A substance formed by chemical union of two or more elements or ingredients in def...
MS_decoy_DB_type_reverse
decoy DB type reverse: Decoy type: Amino acids of protein sequences are used in reverse order...
MS_ProteomeDiscoverer_Spectrum_Grouper_Max_RT_Difference_OBSOLETE
ProteomeDiscoverer:Spectrum Grouper:Max RT Difference: Chromatographic window where precursors to be ...
UO_milligram_per_milliliter
milligram per milliliter: A mass unit density which is equal to mass of an object in milligrams divid...
MS_ProteomeDiscoverer_Source_Files_OBSOLETE
ProteomeDiscoverer:Source Files: Input pepXML files.
MS_excludes_supersede_includes
excludes supersede includes: A priority setting specifying that excluded targets have priority over t...
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...
MS_predicted_isoelectric_point
predicted isoelectric point: The pH of a solution at which a charged molecule would not migrate in an...
MS_LTQ_FT_Ultra
LTQ FT Ultra: LTQ FT Ultra.
UNIMOD_Cation_Cu_I_
Cation:Cu[I]: Replacement of proton by copper.
UNIMOD_Asp__Gly
Asp->Gly: Asp->Gly substitution.
MS_ProLuCID
ProLuCID: The SEQUEST-like sequence search engine ProLuCID, developed in the Yates Lab at the Scripps...
UNIMOD_Val__Cys
Val->Cys: Val->Cys substitution.
MS_NH3_neutral_loss_OBSOLETE
NH3 neutral loss: Neutral loss of ammonia.
UNIMOD_Ala__Phe
Ala->Phe: Ala->Phe substitution.
MS_curator_keyword
curator keyword: Keyword assigned by a data curator.
MS_Phenyx_User
Phenyx:User: The value of the user-defined peptide acceptance filter in Phenyx.
UNIMOD_Myristoyl_Delta_H__4_
Myristoyl+Delta:H(-4): (cis,cis-delta 5, delta 8)-tetradecadienoyl.
MS_alpha_cleavage_OBSOLETE
alpha-cleavage: A homolytic cleavage where the bond fission occurs between at the atom adjacent to th...
MS_time_lag_focusing
time lag focusing: Energy focusing in a time-of-flight mass spectrometer that is accomplished by intr...
UO_activity__of_a_radionuclide__unit
activity (of a radionuclide) unit: A unit which is a standard measure of the transformation (disinteg...
MS_scan
scan: Function or process of the mass spectrometer where it records a spectrum.
MS_MS_Numpress_positive_integer_compression
MS-Numpress positive integer compression: Compression using MS-Numpress positive integer compression...
MS_kinetic_method_OBSOLETE
kinetic method: An approach to determination of ion thermodynamic quantities by a bracketing procedur...
MS_plasma_desorption_ionization
plasma desorption ionization: The ionization of material in a solid sample by bombarding it with ioni...
MS_Mascot_C13_counts
Mascot:C13 counts: C13 peaks to use in peak detection.
MS_analyzer_type_OBSOLETE
analyzer type: The common name of the particular analyzer stage being described. Synonym of mass anal...
MS_iTRAQ_reagent_114
iTRAQ reagent 114: The name of the sample labelled with the iTRAQ reagent 114.
UNIMOD_Cys__Oxoalanine
Cys->Oxoalanine: Oxoalanine.
MS_Citius_HRT
Citius HRT: LECO high resolution time-of-flight LC mass spectrometer.
UNIMOD_ICAT_D_2H_8_
ICAT-D:2H(8): Applied Biosystems original ICAT(TM) d8.
MS_mass_spectrometry_imaging
mass spectrometry imaging: A technique in which mass spectra are acquired in a spatially resolved man...
UNIMOD_dHex_2_Hex_4_HexNAc_5_
dHex(2)Hex(4)HexNAc(5): DHex(2) Hex(4) HexNAc(5).
UNIMOD_Maleimide_PEO2_Biotin
Maleimide-PEO2-Biotin: Maleimide-Biotin.
UNIMOD_Hex_3_HexNAc_3_NeuGc_1_Sulf_1_
Hex(3)HexNAc(3)NeuGc(1)Sulf(1): Hex(3) HexNAc(3) NeuGc Sulf.
UNIMOD_dHex_1_Hex_3_HexNAc_1_Sulf_1_
dHex(1)Hex(3)HexNAc(1)Sulf(1): DHex Hex(3) HexNAc Sulf.
MS_ESA
ESA (electrostatic energy analyzer): A device consisting of conducting parallel plates, concentric cylinders or concentric spheres that separates charged particles according to their kinetic energy by means of an electric field that is constant in time.
UNIMOD_SulfurDioxide
SulfurDioxide: SulfurDioxide.
MS_FAIMS_compensation_voltage
FAIMS compensation voltage: The DC potential applied to the asymmetric waveform in FAIMS that compens...
UNIMOD_Iodoacetanilide
Iodoacetanilide: Iodoacetanilide derivative.
MS_Xevo_TQ_MS
Xevo TQ MS: Waters quadrupole based Xevo TQ MS.
UO_molar_volume_unit
molar volume unit: A unit which is a standard measure of the volume of a homogeneous substance contai...
MS_Maui
Maui: The Maltcms Graphical User Interface.
MS_PeptideShaker_PSM_confidence_type
PeptideShaker PSM confidence type: PeptideShaker quality criteria for the confidence of PSM's...
MS_Mascot_ShowDecoyMatches
Mascot:ShowDecoyMatches: If true, then the search results are against an automatically generated deco...
MS_nativeID_format
nativeID format (native spectrum identifier format): Describes how the native spectrum identifiers ar...
MS_emulsion
emulsion: State if the sample is in emulsion form.
UNIMOD_Label_13C_6_15N_2__Acetyl
Label:13C(6)15N(2)+Acetyl: Acetyl_13C(6) 15N(2) Silac label.
UNIMOD_SMA
SMA: N-Succinimidyl-2-morpholine acetate.
MS_SEQUEST_ProcessCV
SEQUEST:ProcessCV: SEQUEST View / Process Input Parameters.
UNIMOD_Amidated
Amidated: Amidation.
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 ...
UNIMOD_dHex_1_Hex_1_HexNAc_2_NeuGc_1_
dHex(1)Hex(1)HexNAc(2)NeuGc(1): DHex Hex HexNAc(2) NeuGc.
UO_acceleration_unit
acceleration unit: A unit which is a standard measure of the rate of change of velocity in either spe...
MS_mass_limit_OBSOLETE
mass limit: The m/z value above which ions cannot be detected in a mass spectrometer.
MS_APPI_OBSOLETE
APPI (Atmostpheric Pressure Photoionization): Atmospheric pressure chemical ionization in which the r...
MS_ICPL_reagent_4
ICPL reagent 4: The name of the sample labelled with the ICPL reagent 4.
MS_TagRecon
TagRecon: Tabb Lab software for reconciling sequence tags to a protein database.
UNIMOD_Cys__His
Cys->His: Cys->His substitution.
MS_UniProtKB_text_sequence_format
UniProtKB text sequence format: Text-based format used by UniProtKB for sequence entries.
UO_tesla
tesla: A magnetic flux density unit which is equal to one weber per square meter. ...
MS_SQ_Detector_2
SQ Detector 2: Waters quadrupole based SQ Detector 2.
UNIMOD_Cys__PyruvicAcid
Cys->PyruvicAcid: Pyruvic acid from N-term cys.
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.
MS_unstable_ion_OBSOLETE
unstable ion: An ion with sufficient energy to dissociate within the ion source.
MS_Phenyx_PepPvalue
Phenyx:PepPvalue: The p-value of a peptide sequence match in Phenyx.
UNIMOD_Asn__Pro
Asn->Pro: Asn->Pro substitution.
UNIMOD_Lys__Met
Lys->Met: Lys->Met substitution.
MS_ionization_efficiency
ionization efficiency: The ratio of the number of ions formed to the number of electrons, molecules or photons used.
MS_SILAC_quantitation_analysis
SILAC quantitation analysis: SILAC workflow (heavy, light, and sometimes medium peak).
MS_SRM_transition_ID
SRM transition ID: Identifier for an SRM transition in an external document describing additional inf...
MS_ProteomeDiscoverer_SEQUEST_Weight_of_c_Ions
ProteomeDiscoverer:SEQUEST:Weight of c Ions: Uses c ions for spectrum matching with this relative fac...
MS_experimental_condition__disease_
experimental condition 'disease': The experimental condition is 'disease' in contrast to 'healthy'...
MS_spectrum_identification_list_result_details
spectrum identification list result details: Information about the list of PSMs (SpectrumIdentificati...
MS_mass_spectrometry_OBSOLETE
mass spectrometry: The branch of science that deals with all aspects of mass spectrometers and the re...
UNIMOD_Met__Gly
Met->Gly: Met->Gly substitution.
MS_product_ion_spectrum
product ion spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments designed to record pro...
MS_add_others_OBSOLETE
add_others: OBSOLETE.
UNIMOD_GIST_Quat_2H_3_
GIST-Quat:2H(3): Quaternary amine labeling reagent heavy (+3amu) form, N-term & K.
MS_phosphoRS_score_threshold
phosphoRS score threshold: Threshold for phosphoRS score.
UO_pH
pH: A dimensionless concentration notation which denotes the acidity of a solution in terms of activi...
MS_Q_Tof_Premier
Q-Tof Premier: Waters oa-ToF based Q-Tof Premier.
UNIMOD_Hex_6_HexNAc_3_
Hex(6)HexNAc(3): Hex(6) HexNAc(3).
UNIMOD_Glu__Thr
Glu->Thr: Glu->Thr substitution.
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_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_infrared_multiphoton_dissociation
infrared multiphoton dissociation: Multiphoton ionization where the reactant ion dissociates as a res...
MS_decoy_DB_type_randomized
decoy DB type randomized: Decoy type: Amino acids of protein sequences are randomized (keeping the or...
MS_SELDI
SELDI (surface enhanced laser desorption ionization): The formation of ionized species in the gas pha...
MS_V8_E
V8-E: Cleavage agent V8-E.
UNIMOD_Trp__Pro
Trp->Pro: Trp->Pro substitution.
MS_AAIndex_mass_table
AAIndex mass table: The masses used in the mass table are taken from AAIndex.
UNIMOD_Hex_4_HexNAc_2_Pent_1_
Hex(4)HexNAc(2)Pent(1): Hex(4) HexNAc(2) Pent.
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...
UNIMOD_Dehydrated
Dehydrated: Dehydration.
MS_5800_TOF_TOF
5800 TOF/TOF: SCIEX 5800 TOF-TOF Analyzer.
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.
UNIMOD_Hex_4_HexNAc_2_NeuAc_1_
Hex(4)HexNAc(2)NeuAc(1): Hex(4) HexNAc(2) NeuAc.
MS_nativeID_format__combined_spectra
nativeID format, combined spectra (native spectrum identifier format, combined spectra): Describes ho...
MS_search_tolerance_minus_value
search tolerance minus value:
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...
UNIMOD_Met__Asp
Met->Asp: Met->Asp substitution.
MS_nanoACQUITY_UPLC_System_with_Technology
nanoACQUITY UPLC System with Technology: Waters LC-system nanoACQUITY UPLC System with Technology...
MS_dwell_time
dwell time: The time spent gathering data across a peak.
MS_jet_separator
jet separator: A device that separates carrier gas from gaseous analyte molecules on the basis of dif...
UNIMOD_Xle__Asn
Xle->Asn: Leu/Ile->Asn substitution.
MS_Genespring_MS
Genespring MS: Software for quantitation and statistical analysis of TOF and Q-TOF LC/MS data...
MS_TOPP_AdditiveSeries
TOPP AdditiveSeries: Computes an additive series to quantify a peptide in a set of samples...
UNIMOD_Xlink_DTSSP
Xlink:DTSSP: Monolink of DSP/DTSSP crosslinker to Lys or N-terminus.
MS_param__y_ion_H3PO4_DEPRECATED
param: y ion-H3PO4 DEPRECATED: Ion y-H3PO4: y ion with lost phosphoric acid.
MS_protein_name
protein name: A long name describing the function of the protein.
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.
UNIMOD_dHex_1_Hex_4_HexNAc_3_NeuAc_1_
dHex(1)Hex(4)HexNAc(3)NeuAc(1): DHex Hex(4) HexNAc(3) NeuAc.
MS_frag__iTRAQ_4plex_reporter_ion
frag: iTRAQ 4plex reporter ion: Standard reporter ion for iTRAQ 4Plex. The value slot holds the integ...
structure for holding CV term info
UNIMOD_maleimide5
maleimide5: Maleimide-5-saccharide.
MS_Morpheus_summed_Morpheus_score
Morpheus:summed Morpheus score: Summed Morpheus score for protein groups.
MS_QTRAP_4500
QTRAP 4500: SCIEX QTRAP 4500.
MS_ProteomeDiscoverer_SEQUEST_Max_Identical_Modifications_Per_Peptide
ProteomeDiscoverer:SEQUEST:Max Identical Modifications Per Peptide: Maximum number of identical modif...
MS_detector_resolution
detector resolution: The resolving power of the detector to detect the smallest difference between tw...
MS_LCQ_Deca
LCQ Deca: ThermoFinnigan LCQ Deca.
MS_scan_attribute
scan attribute: Scan properties that are associated with a value.
MS_frag__z_ion
frag: z ion: Fragmentation information, type of product: z ion.
MS_Ascore
Ascore: A-score for PTM site location at the PSM-level.
MS_MALDI_Synapt_G2_S_HDMS
MALDI Synapt G2-S HDMS: Waters oa-ToF based MALDI Synapt G2 MS.
MS_decoy_DB_details
decoy DB details: Details of decoy generation and database structure.
MS_single_identification_result_attribute
single identification result attribute: Attribute of a single identification item (as opposed to a li...
MS_TripleTOF_5600
TripleTOF 5600: SCIEX TripleTOF 5600, a quadrupole - quadrupole - time-of-flight mass spectrometer...
UNIMOD_Label_2H_10_
Label:2H(10): 2H(10) label.
MS_dpControl
dpControl: Bruker software for data acquisition.
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...
MS_binary_data_type
binary data type: Encoding type of binary data specifying the binary representation and precision...
UNIMOD_Glu__Met
Glu->Met: Glu->Met substitution.
UNIMOD_Label_13C_6__Dimethyl
Label:13C(6)+Dimethyl: Dimethyl 13C(6) Silac label.
MS_DE
DE (delayed extraction): The application of the accelerating voltage pulse after a time delay in deso...
MS_product_ion_mobility
product ion mobility: The mobility of an MS2 product ion, as measured by ion mobility mass spectromet...
MS_Progenesis_peptide_raw_abundance
Progenesis:peptide raw abundance: The data type raw abundance for peptide produced by Progenesis LC-M...
MS_Andromeda_score
Andromeda:score: The probability based score of the Andromeda search engine.
UNIMOD_Acetyl
Acetyl: Acetylation.
UNIMOD_TMPP_Ac
TMPP-Ac: Tris(2,4,6-trimethoxyphenyl)phosphonium acetic acid N-hydroxysuccinimide ester derivative...
UNIMOD_dHex_1_Hex_3_HexNAc_2_
dHex(1)Hex(3)HexNAc(2): DHex Hex(3) HexNAc(2).
UNIMOD_NEMsulfurWater
NEMsulfurWater: N-ethylmaleimideSulfurWater.
MS_ProteinExtractor_PhenyxUniqueScore
ProteinExtractor:PhenyxUniqueScore: In the final result each protein must have at least one peptide a...
MS_Mascot_PTM_site_assignment_confidence_threshold
Mascot:PTM site assignment confidence threshold: Threshold for Mascot PTM site assignment confidence...
UNIMOD_ESP
ESP: ESP-Tag light d0.
MS_identification_file_format
identification file format: Attribute describing an identification file format.
MS_group_PSMs_by_sequence
group PSMs by sequence: Group PSMs by distinct peptide sequence ignoring modifications.
UNIMOD_Xlink_DMP_de
Xlink:DMP-de: Monolink of DMP crosslinker to Lys or N-terminus.
MS_cationized_molecule_OBSOLETE
cationized molecule: An ion formed by the association of a cation with a neutral molecule, M, for example [M+ Na]+ and [M + K]+. The terms quasi-molecular ion and pseudo-molecular ion should not be used.
UNIMOD_Tyr__Phe
Tyr->Phe: Tyr->Phe substitution.
MS_PA_OBSOLETE
PA (proton affinity): The proton affinity of a species M is defined as the negative of the enthalpy c...
UO_byte
byte: An information unit which is equal to 8 bits.
UNIMOD_dHex_2_Hex_3_HexNAc_2_
dHex(2)Hex(3)HexNAc(2): DHex(2) Hex(3) HexNAc(2).
UNIMOD_dHex_1_Hex_3_HexNAc_3_Pent_1_
dHex(1)Hex(3)HexNAc(3)Pent(1): DHex Hex(3) HexNAc(3) Pent.
UNIMOD_DimethylamineGMBS
DimethylamineGMBS: Modified GMBS X linker for proteins.
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge4: FT high confidence XCorr parameter for c...
UNIMOD_Acetyldeoxyhypusine
Acetyldeoxyhypusine: Acetyldeoxyhypusine.
MS_pulse_counting
pulse counting: Definition to do.
MS_database_release_date_OBSOLETE
database release date: OBSOLETE: Use attribute in mzIdentML instead. Release date of the search datab...
MS_protein_group_list_attribute
protein group list attribute: Attribute describing a protein group list.
UO_absorbance_unit
absorbance unit: A dimensionless logarithmic unit assigned to a measure of absorbance of light throug...
MS_SpectraST_dot_bias
SpectraST:dot_bias: SpectraST measure of how much of the dot product is dominated by a few peaks...
UNIMOD_VIEVYQEQTGG
VIEVYQEQTGG: SUMOylation by SUMO-1 (formic acid cleavage).
MS_cyclotron
cyclotron: A device that uses an oscillating electric field and magnetic field to accelerate charged ...
MS_data_processing_start_time
data processing start time: The time that a data processing action was started.
MS_Bruker_BAF_nativeID_format
Bruker BAF nativeID format: Native format defined by scan=xsd:nonNegativeInteger. ...
MS_ms_level
ms level: Stages of ms achieved in a multi stage mass spectrometry experiment.
MS_Isotopomeric_ion_OBSOLETE
Isotopomeric ion: Isomeric ion having the same numbers of each isotopic atom but differing in their p...
UNIMOD_Phosphopropargyl
Phosphopropargyl: Phospho-propargylamine.
MS_Morpheus_Morpheus_score
Morpheus:Morpheus score: Morpheus score for PSMs.
MS_xi_score
xi:score: The xi result 'Score'.
UNIMOD_Hex_1_HexNAc_3_NeuGc_1_
Hex(1)HexNAc(3)NeuGc(1): Hex HexNAc(3) NeuGc.
UNIMOD_Trp__Gln
Trp->Gln: Trp->Gln substitution.
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_64_bit_float
64-bit float: 64-bit precision little-endian floating point conforming to IEEE-754.
MS_diagnostic_ion_OBSOLETE
diagnostic ion: A product ion whose formation reveals structural or compositional information of its ...
MS_fraction_identifier
fraction identifier: Identier string that describes the sample fraction. This identifier should conta...
MS_SILAC_medium_reagent
SILAC medium reagent: The name of the sample labelled with the medium SILAC label.
MS_ProteomeDiscoverer_Number_of_input3_spectra
ProteomeDiscoverer:Number of input3 spectra: Number of spectra from 3+ precursor ions.
MS_interaction_score_derived_from_cross_linking
interaction score derived from cross-linking: Parent term for interaction scores derived from cross-l...
MS_DirecTag
DirecTag: Tabb Lab software for generating sequence tags from tandem mass spectra.
UNIMOD_Val__Gln
Val->Gln: Val->Gln substitution.
MS_PeptideShaker_protein_confidence_type
PeptideShaker protein confidence type: PeptideShaker quality criteria for the confidence of protein i...
MS_TargetAnalysis
TargetAnalysis: Bruker TargetAnalysis software.
MS_4000_QTRAP_OBSOLETE
4000 QTRAP: SCIEX or Applied Biosystems|MDS SCIEX QTRAP 4000.
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...
UNIMOD_Arg__Asn
Arg->Asn: Arg->Asn substitution.
MS_protein_group_or_subset_relationship
protein group or subset relationship: Protein group or subset relationships.
UNIMOD_Gly__Val
Gly->Val: Gly->Val substitution.
MS_nier_johnson_geometry_OBSOLETE
nier-johnson geometry: An arrangement for a double-focusing mass spectrometer in which a deflection o...
UO_second
second: A time unit which is equal to the duration of 9 192 631 770 periods of the radiation correspo...
MS_Paragon__sample_type
Paragon: sample type: The Paragon method setting indicating the type of sample at the high level...
MS_stored_waveform_inverse_fourier_transform
stored waveform inverse fourier transform: A technique to create excitation waveforms for ions in FT-...
UNIMOD_Hex_2_HexNAc_3_Sulf_1_
Hex(2)HexNAc(3)Sulf(1): Hex(2) HexNAc(3) Sulf.
MS_intermediate_PSM_list
intermediate PSM list: A flag on a list of PSMs (SpectrumIdentificationList) to indicate that this is...
MS_desorption_electrospray_ionization
desorption electrospray ionization: Combination of electrospray and desorption ionization method that...
MS_PDA_spectrum_OBSOLETE
PDA spectrum: Spectrum generated from a photodiode array detector (ultraviolet/visible spectrum)...
UNIMOD_Phenylisocyanate
Phenylisocyanate: Phenyl isocyanate.
MS_TOPP_SpecLibSearcher
TOPP SpecLibSearcher: Identifies peptide MS2 spectra by spectral matching with a searchable spectral ...
MS_Progenesis_automatic_alignment
Progenesis automatic alignment: Automatic RT alignment of Progenesis software.
MS_Sonar_Score
Sonar:Score: The Sonar score.
MS_ProteinScape_IntensityCoverage
ProteinScape:IntensityCoverage: The intensity coverage of the identified peaks in the spectrum calcul...
UNIMOD_Phe__Glu
Phe->Glu: Phe->Glu substitution.
MS_FIB
FIB (fast ion bombardment): The ionization of any species by the interaction of a focused beam of ion...
UNIMOD_EDEDTIDVFQQQTGG
EDEDTIDVFQQQTGG: Sumoylation by SUMO-2/3 after Cyanogen bromide (CNBr) cleavage.
MS_ProteomeDiscoverer_Highest_Charge_State
ProteomeDiscoverer:Highest Charge State: Maximum charge above which peptides are filtered out...
MS_Thermo_nativeID_format__combined_spectra
Thermo nativeID format, combined spectra: Thermo comma separated list of spectra that have been combi...
MS_SCiLS_software
SCiLS software: SCiLS software for data acquisition and analysis.
MS_MAT900XP_Trap
MAT900XP Trap: ThermoFinnigan MAT900XP Trap MS.
MS_nanospray_inlet
nanospray inlet: Nanospray Inlet.
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuGc_1_
dHex(1)Hex(2)HexNAc(2)NeuGc(1): DHex Hex(2) HexNAc(2) NeuGc.
UNIMOD_dHex_1_Hex_1_HexNAc_1_NeuAc_1_
dHex(1)Hex(1)HexNAc(1)NeuAc(1): DHex Hex HexNAc NeuAc.
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_ProteomeDiscoverer_Mascot_Weight_of_A_Ions
ProteomeDiscoverer:Mascot:Weight of A Ions: Determines if to use A ions for spectrum matching...
MS_Single_Stage_Mass_Spectrometry
Single-Stage Mass Spectrometry (MS1 spectrum): Mass spectrum created by a single-stage MS experiment ...
UNIMOD_dHex_1_Hex_2_HexA_1_
dHex(1)Hex(2)HexA(1): DHex Hex(2) HexA.
UNIMOD_Ala__Gly
Ala->Gly: Ala->Gly substitution.
MS_search_engine_input_parameter
search engine input parameter: Search engine input parameter.
MS_Acquity_UPLC_PDA
Acquity UPLC PDA: Acquity UPLC Photodiode Array Detector.
UNIMOD_AEC_MAEC
AEC-MAEC: Aminoethylcysteine.
MS_ProteomeDiscoverer_Mascot_Weight_of_B_Ions
ProteomeDiscoverer:Mascot:Weight of B Ions: Determines if to use B ions for spectrum matching...
UNIMOD_dHex_1_Hex_1_HexNAc_1_NeuGc_1_
dHex(1)Hex(1)HexNAc(1)NeuGc(1): DHex Hex HexNAc NeuGc.
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.
MS_PIA_workflow_parameter
PIA workflow parameter: A parameter set for a single PIA analysis.
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_frag__v_ion
frag: v ion: Fragmentation information, type of product: v ion.
MS_frag__c_ion___NH3
frag: c ion - NH3: Fragmentation information, type of product: c ion without ammonia.
MS_PureDisk
PureDisk: BrukerPureDisk software.
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_Tyr__His
Tyr->His: Tyr->His substitution.
MS_HCTultra
HCTultra: Bruker Daltonics' HCTultra: ESI TOF, Nanospray, APCI, APPI.
MS_FDRScore_for_proteins
FDRScore for proteins: mzidLibrary FDRScore for proteins specifically obtained for distinct combinati...
MS_resolution_type_OBSOLETE
resolution type: Specify the nature of resolution for the mass analyzer. Resolution is usually either...
MS_normalized_peptide_value
normalized peptide value: Normalized peptide value.
MS_protein_group_level_result_list_attribute
protein group-level result list attribute: Details describing a protein cluster.
UNIMOD_Thr__Trp
Thr->Trp: Thr->Trp substitution.
MS_AE_OBSOLETE
AE (appearance energy): The minimum energy that must be imparted to an atom or molecule to produce a ...
UNIMOD_CarboxymethylDTT
CarboxymethylDTT: Carboxymethylated DTT modification of cysteine.
MS_counts_reporting
counts reporting: FeatureList of spectral counts.
MS_collision_energy_ramp_start
collision energy ramp start: Collision energy at the start of the collision energy ramp...
MS_sliding_average_smoothing
sliding average smoothing (moving average smoothing): Reduces intensity spikes by averaging each poin...
UNIMOD_Arg__Npo
Arg->Npo: Arginine replacement by Nitropyrimidyl ornithine.
MS_protein_group_level_p_value
protein group-level p-value: Estimation of the p-value for protein groups.
UNIMOD_PhosphoribosyldephosphoCoA
PhosphoribosyldephosphoCoA: Phosphoribosyl dephospho-coenzyme A.
MS_PeakPicker_OBSOLETE
PeakPicker: Finds mass spectrometric peaks in profile mass spectra.
UO_fraction
fraction: A dimensionless ratio unit which relates the part (the numerator) to the whole (the denomin...
MS_Scan_Function_OBSOLETE
Scan Function: Describes the type of mass analysis being performed. Two primary modes are: typical ac...
MS_ProteoAnnotator_count_alternative_peptides
ProteoAnnotator:count alternative peptides: The count of the number of peptide sequences mapped to no...
UNIMOD_Hex_7_HexNAc_2_
Hex(7)HexNAc(2): Hex(7) HexNAc(2).
MS_peptide_sequence_level_result_list_statistic
peptide sequence-level result list statistic: Statistic pertaining to all peptide sequences in the li...
UNIMOD_Glu__Lys
Glu->Lys: Glu->Lys substitution.
MS_TOPP_noise_filter
TOPP noise filter: Noise filter component of the TOPP software.
UNIMOD_Arg
Arg: Addition of arginine due to transpeptidation.
MS_multichannel_plate
multichannel plate (microchannel plate detector): A thin plate that contains a closely spaced array o...
MS_protein_modifications
protein modifications: Encoding of modifications of the protein sequence from the specified accession...
MS_ProteomeDiscoverer_SN_Threshold
ProteomeDiscoverer:SN Threshold: Signal-to-Noise ratio below which peaks are removed.
MS_eV_OBSOLETE
eV (electron volt): A non-SI unit of energy (eV) defined as the energy acquired by a particle contain...
MS_selected_ion_m_z
selected ion m/z: Mass-to-charge ratio of an selected ion.
UO_parts_per_quadrillion
parts per quadrillion: A dimensionless concentration notation which denotes the amount of a given sub...
UNIMOD_dHex_2_Hex_3_HexNAc_3_
dHex(2)Hex(3)HexNAc(3): DHex(2) Hex(3) HexNAc(3).
UNIMOD_Phe__Met
Phe->Met: Phe->Met substitution.
MS_regular_expressions_for_a_GUID
).
MS_Phenyx_NumberOfMC
Phenyx:NumberOfMC: The number of missed cleavages of a peptide sequence in Phenyx.
UO_luminance_unit
luminance unit: A unit which is a standard measure of the luminous intensity impinging on a given are...
MS_Percolator_Validation_based_on
Percolator:Validation based on: Algorithm (e.g. q-value or PEP) used for calculation of the validatio...
UNIMOD_ESP_2H_10_
ESP:2H(10): ESP-Tag heavy d10.
UO_luminous_flux_unit
luminous flux unit: A unit which is a standard measure of the flow of radiant energy.
MS_sample_mass
sample mass: Total mass of sample used.
UNIMOD_Isopropylphospho
Isopropylphospho: O-Isopropylphosphorylation.
MS_ion_to_photon_detector
ion-to-photon detector: A detector in which ions strike a conversion dynode to produce electrons that...
UNIMOD_Hydroxycinnamyl
Hydroxycinnamyl: Hydroxycinnamyl.
MS_Bruker_Agilent_YEP_format
Bruker/Agilent YEP format: Bruker/Agilent YEP file format.
MS_LCQ_Fleet
LCQ Fleet: LCQ Fleet.
MS_OMEGA_2001
OMEGA-2001: IonSpec OMEGA-2001 MS.
MS_TDC
TDC (time-digital converter): A device for converting a signal of sporadic pluses into a digital repr...
MS_p_value
p-value: P-value as result of one of the processing steps described. Specify in the description...
MS_transition_predicted_by_informatic_analysis
transition predicted by informatic analysis: The transition has been predicted by informatics softwar...
UNIMOD_NBS_13C_6_
NBS:13C(6): Shimadzu NBS-13C.
MS_param__b_ion_H2O_DEPRECATED
param: b ion-H2O DEPRECATED: Ion b-H2O if b significant and fragment includes STED.
UNIMOD_Asn__Lys
Asn->Lys: Asn->Lys substitution.
UNIMOD_Cation_Ni_II_
Cation:Ni[II]: Replacement of 2 protons by nickel.
MS_2E_Mass_Spectrum_OBSOLETE
2E Mass Spectrum: A mass spectrum obtained by setting the electric sector field E to twice the value ...
UNIMOD_dHex_3_Hex_3_HexNAc_3_Pent_1_
dHex(3)Hex(3)HexNAc(3)Pent(1): DHex(3) Hex(3) HexNAc(3) Pent.
UNIMOD_Dioxidation
Dioxidation: Dihydroxy.
MS_IsobariQ
IsobariQ: A quantitative software package designed for analysis of IPTL, TMT and iTRAQ data...
UNIMOD_Hex_2_HexNAc_3_NeuAc_1_NeuGc_1_
Hex(2)HexNAc(3)NeuAc(1)NeuGc(1): Hex(2) HexNAc(3) NeuAc NeuGc.
MS_FDRScore_OBSOLETE
FDRScore: A smoothing of the distribution of q-values calculated for PSMs from individual search engi...
UO_hertz
hertz: A frequency unit which is equal to 1 complete cycle of a recurring phenomenon in 1 second...
MS_Voyager_DE_STR
Voyager-DE STR: Applied Biosystems/MDS SCIEX Voyager-DE STR MS.
MS_nth_generation_product_ion_spectrum_OBSOLETE
nth generation product ion spectrum: The mass spectrum recorded from any mass spectrometer in which t...
MS_label_free_raw_feature_quantitation
label-free raw feature quantitation: Label-free raw feature quantitation.
UNIMOD_Hex_2_HexNAc_2_NeuGc_1_
Hex(2)HexNAc(2)NeuGc(1): Hex(2) HexNAc(2) NeuGc.
UNIMOD_Hex_2_HexNAc_4_NeuAc_1_
Hex(2)HexNAc(4)NeuAc(1): Hex(2) HexNAc(4) NeuAc.
UNIMOD_Lys__Cys
Lys->Cys: Lys->Cys substitution.
MS_filter_string
filter string: A string unique to Thermo instrument describing instrument settings for the scan...
MS_metastable_ion_OBSOLETE
metastable ion: An ion that is formed with internal energy higher than the threshold for dissociation...
UNIMOD_Tyr__Xle
Tyr->Xle: Tyr->Leu/Ile substitution.
UNIMOD_Cys__Tyr
Cys->Tyr: Cys->Tyr substitution.
MS_metabolic_labelling__natural_N__mainly_14N_
metabolic labelling: natural N (mainly 14N): Metabolic labelling: natural N (mainly 14N)...
MS_SpectraST_dot
SpectraST:dot: SpectraST dot product of two spectra, measuring spectral similarity.
MS_no_compression
no compression: No Compression.
MS_peak_intensity
peak intensity: Intensity of ions as measured by the height or area of a peak in a mass spectrum...
MS_tube_lens_voltage
tube lens voltage: Potential difference setting of the tube lens in volts.
UNIMOD_Nitrosyl
Nitrosyl: S-nitrosylation.
MS_SEQUEST_SequencePartialFilter
SEQUEST:SequencePartialFilter:
MS_peptide_ratio
peptide ratio: Peptide ratio.
UNIMOD_Cation_Fe_II_
Cation:Fe[II]: Replacement of 2 protons by iron.
UNIMOD_Palmitoleyl
Palmitoleyl: Palmitoleyl.
MS_ACQUITY_UPLC
ACQUITY UPLC: Waters LC-system ACQUITY UPLC.
MS_OMSSA
OMSSA: Open Mass Spectrometry Search Algorithm was used to analyze the spectra.
MS_UltroTOF_Q
UltroTOF-Q: Bruker Daltonics' UltroTOF-Q: ESI Q-TOF (MALDI optional).
UNIMOD_Label_15N_1_
Label:15N(1): 15N(1).
MS_Byonic_PEP
Byonic:PEP: Byonic posterior error probability.
MS_modification_specificity_protein_C_term
modification specificity protein C-term: As parameter for search engine: apply the modification only ...
MS_peptide_sequence_level_global_confidence
peptide sequence-level global confidence: Estimation of the global confidence for distinct peptides o...
UNIMOD_Label_13C_1_2H_3__Oxidation
Label:13C(1)2H(3)+Oxidation: Oxidised methionine 13C(1)2H(3) SILAC label.
UNIMOD_HexNAc_1_Kdn_2_
HexNAc(1)Kdn(2): HexNAc Kdn(2).
UNIMOD_Lys__Glu
Lys->Glu: Lys->Glu substitution.
UNIMOD_Didehydro
Didehydro: 2-amino-3-oxo-butanoic_acid.
MS_search_time_taken
search time taken: The time taken to complete the search in seconds.
UNIMOD_NDA
NDA: Naphthalene-2,3-dicarboxaldehyde.
MS_intensity_array
intensity array: A data array of intensity values.
UNIMOD_FMNH
FMNH: Flavin mononucleotide.
MS_peptide_spectrum_match_scoring_algorithm
peptide spectrum match scoring algorithm: Algorithm used to score the match between a spectrum and a ...
MS_protein_description
protein description: The protein description line from the sequence entry in the source database FAST...
UNIMOD_dHex_1_Hex_3_HexNAc_3_
dHex(1)Hex(3)HexNAc(3): DHex Hex(3) HexNAc(3).
UNIMOD_His__Val
His->Val: His->Val substitution.
UNIMOD_4AcAllylGal
4AcAllylGal: 2,3,4,6-tetra-O-Acetyl-1-allyl-alpha-D-galactopyranoside modification of cysteine...
MS_nominal_mass_OBSOLETE
nominal mass: The mass of an ion or molecule calculated using the mass of the most abundant isotope o...
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_Proteomics_Standards_Initiative_Mass_Spectrometry_Vocabularies
Proteomics Standards Initiative Mass Spectrometry Vocabularies: Proteomics Standards Initiative Mass ...
MS_radical_ion_OBSOLETE
radical ion: An ion, either a cation or anion, containing unpaired electrons in its ground state...
MS_ion_selection_attribute
ion selection attribute: Ion selection properties that are associated with a value.
MS_feature_attribute
feature attribute: Attribute describing a feature.
MS_ProteomeDiscoverer_max_number_of_same_modifs
ProteomeDiscoverer:max number of same modifs: The maximum number of possible equal modifications per ...
UNIMOD_dHex_1_Hex_3_HexNAc_2_Pent_1_
dHex(1)Hex(3)HexNAc(2)Pent(1): DHex Hex(3) HexNAc(2) Pent.
UNIMOD_Cys__Phe
Cys->Phe: Cys->Phe substitution.
MS_FindPairs
FindPairs: Software e.g. for SILAC and 14N/15N workflow, part of the PeakQuant suite.
UO_dimensionless_unit
dimensionless unit: A unit which is a standard measure of physical quantity consisting of only a nume...
MS_Paragon__modified_data_dictionary_or_parameter_translation
Paragon: modified data dictionary or parameter translation: This metric detects if any changes have b...
MS_residual_gas_analyzer_OBSOLETE
residual gas analyzer: A mass spectrometer used to measure the composition and pressure of gasses in ...
MS_instrument_serial_number
instrument serial number: Serial Number of the instrument.
MS_Proteome_Discoverer
Proteome Discoverer: Thermo Scientific software for data analysis of peptides and proteins...
UNIMOD_pupylation
pupylation: Addition of GGE.
MS_PTM_localization_attribute
PTM localization attribute: Statistic derived from a post-translational modification localization ana...
MS_Atmostpheric_Pressure_Photoionization_OBSOLETE
Atmostpheric Pressure Photoionization: Atmospheric pressure chemical ionization in which the reactant...
UNIMOD_FP_Biotin
FP-Biotin: 10-ethoxyphosphinyl-N-(biotinamidopentyl)decanamide.
UNIMOD_Hex_2_HexNAc_3_
Hex(2)HexNAc(3): Hex(2) HexNAc(3).
MS_SEQUEST_sort_by_dCn
SEQUEST:sort by dCn: Sort order of SEQUEST search results by the delta of the normalized correlation ...
UNIMOD_HexNAc_3_
HexNAc(3): HexNAc(3).
UO_newton
newton: A force unit which is equal to the force required to cause an acceleration of 1m/s2 of a mass...
UNIMOD_Hex_3_HexNAc_2_NeuAc_1_
Hex(3)HexNAc(2)NeuAc(1): Hex(3) HexNAc(2) NeuAc.
MS_protein_group_level_confidence
protein group-level confidence: Estimation of the global confidence of protein groups.
MS_product_ion_attribute
product ion attribute: Fragmentation information like ion types.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_a_Ions
ProteomeDiscoverer:SEQUEST:Weight of a Ions: Uses a ions for spectrum matching with this relative fac...
UNIMOD_iTRAQ8plex_13C_6_15N_2_
iTRAQ8plex:13C(6)15N(2): Accurate mass for 115, 118, 119 & 121.
UO_kilodalton
kilodalton: A mass unit which is equal to one thousand daltons.
std::string fullName
the usual name for the resource (e.g. The PSI-MS Controlled Vocabulary).
MS_MALDI_LTQ_XL
MALDI LTQ XL: Thermo Scientific MALDI LTQ XL MS.
UNIMOD_dHex_2_Hex_4_HexNAc_3_
dHex(2)Hex(4)HexNAc(3): DHex(2) Hex(4) HexNAc(3).
MS_Agilent_software
Agilent software: Agilent software for data acquisition and analysis.
MS_TOPP_MapRTTransformer
TOPP MapRTTransformer: Applies retention time transformations to maps.
MS_electron_transfer_dissociation
electron transfer dissociation: A process to fragment ions in a mass spectrometer by inducing fragmen...
MS_absolute_quantity
absolute quantity: Absolute quantity in terms of real concentration or molecule copy number in sample...
UNIMOD_Delta_H_4_C_3_O_1_
Delta:H(4)C(3)O(1): Acrolein addition +56.
MS_V8_DE
V8-DE: Cleavage agent V8-DE.
MS_time_delayed_fragmentation_spectrum
time-delayed fragmentation spectrum: MSn spectrum in which the product ions are collected after a tim...
UNIMOD_DNCB_hapten
DNCB_hapten: Chemical reaction with 2,4-dinitro-1-chloro benzene (DNCB).
MS_photodissociation
photodissociation: A process wherein the reactant ion is dissociated as a result of absorption of one...
UNIMOD_Lys__Thr
Lys->Thr: Lys->Thr substitution.
UNIMOD_2_succinyl
2-succinyl: S-(2-succinyl) cysteine.
UNIMOD_dHex_1_Hex_1_HexNAc_3_Sulf_1_
dHex(1)Hex(1)HexNAc(3)Sulf(1): DHex Hex HexNAc(3) Sulf.
MS_SHA_1
SHA-1: SHA-1 (Secure Hash Algorithm-1) is a cryptographic hash function designed by the National Secu...
MS_ProteomeDiscoverer_Peptide_NTerminus
ProteomeDiscoverer:Peptide NTerminus: Static modification for the N terminal of the peptide used duri...
MS_SEQUEST_FormatAndLinks
SEQUEST:FormatAndLinks:
MS_ProteomeDiscoverer_3__Static_Modification_OBSOLETE
ProteomeDiscoverer:3. Static Modification: ProteomeDiscoverer's 3rd static post-translational modific...
UNIMOD_Gln__Asn
Gln->Asn: Gln->Asn substitution.
MS_electromagnetic_radiation_spectrum
electromagnetic radiation spectrum: A plot of the relative intensity of electromagnetic radiation as ...
UNIMOD_Val__Arg
Val->Arg: Val->Arg substitution.
MS_number_of_product_ion_observations
number of product ion observations: The number of times the specific product ion has been observed in...
UNIMOD_Trp__Met
Trp->Met: Trp->Met substitution.
MS_TOPP_MapAlignerIdentification
TOPP MapAlignerIdentification: Corrects retention time distortions between maps based on common pepti...
UNIMOD_dHex_2_Hex_3_HexNAc_6_
dHex(2)Hex(3)HexNAc(6): DHex(2) Hex(3) HexNAc(6).
UNIMOD_Cys__Arg
Cys->Arg: Cys->Arg substitution.
MS_Waters_nativeID_format__combined_spectra
Waters nativeID format, combined spectra: Waters comma separated list of spectra that have been combi...
MS_MS_GF_SpecEValue
MS-GF:SpecEValue: MS-GF spectral E-value.
MS_MaxQuant_peptide_counts__all_
MaxQuant:peptide counts (all): The data type peptide counts (all) produced by MaxQuant.
MS_m_z_array
m/z array: A data array of m/z values.
UNIMOD_Label_18O_2_
Label:18O(2): O18 label at both C-terminal oxygens.
MS_OMSSA_e_value_threshold
OMSSA e-value threshold: Threshold for OMSSA e-value for quality estimation.
MS_decoy_DB_from_EST_OBSOLETE
decoy DB from EST: Decoy database from an expressed sequence tag nucleotide sequence database...
MS_MRM_OBSOLETE
MRM (multiple reaction monitoring): This term is not recommended. See Selected Reaction Monitoring...
MS_precursor_ion_scan_OBSOLETE
precursor ion scan: The specific scan function or process that will record a precursor ion spectrum...
MS_OmniFlex
OmniFlex: Bruker Daltonics' OmniFlex: MALDI TOF.
UO_cubic_centimeter
cubic centimeter: A volume unit which is equal to one millionth of a cubic meter or 10^[-9] m^[3]...
MS_target_inclusion_exclusion_priority
target inclusion exclusion priority: A priority setting specifying whether included or excluded targe...
MS_ProteomeDiscoverer_Mascot_User_Name_OBSOLETE
ProteomeDiscoverer:Mascot:User Name: Name of the user submitting the Mascot search.
UO_gray
gray: An absorbed dose unit which is equal to the absorption of one joule of radiation energy by one ...
MS_Phenyx_Default_Parent_Charge
Phenyx:Default Parent Charge: The default parent charge value in Phenyx.
UNIMOD_Hex_3_HexNAc_3_NeuGc_1_
Hex(3)HexNAc(3)NeuGc(1): Hex(3) HexNAc(3) NeuGc.
UNIMOD_Xle__Cys
Xle->Cys: Leu/Ile->Cys substitution.
MS_Mascot_Instrument
Mascot:Instrument: Type of instrument used to acquire the data in the raw file.
MS_ATAQS
ATAQS: Software suite used to predict, select, and optimize transitions as well as analyze the result...
MS_Lys_C_P
Lys-C/P: Proteinase Lys-C/P.
MS_PSM_level_global_confidence
PSM-level global confidence: Estimation of the global confidence of peptide spectrum matches...
MS_confident_distinct_peptide_sequences
confident distinct peptide sequences: This counts the number of distinct peptide sequences. Multiple charge states and multiple modification states do NOT count as multiple sequences. The definition of 'confident' must be qualified elsewhere.
MS_positive_ion_OBSOLETE
positive ion: An atomic or molecular species having a net positive electric charge.
MS_mass_trace_reporting__rectangles
mass trace reporting: rectangles: The mass trace of the features of this feature list specifies recta...
MS_autoflex_II_TOF_TOF
autoflex II TOF/TOF: Bruker Daltonics' autoflex II TOF/TOF: MALDI TOF.
UNIMOD_dHex_3_Hex_1_HexNAc_3_Kdn_1_
dHex(3)Hex(1)HexNAc(3)Kdn(1): DHex(3) Hex HexNAc(3) Kdn.
UNIMOD_azole
azole: Formation of five membered aromatic heterocycle.
MS_ambiguous_residues
ambiguous residues: Children of this term describe ambiguous residues.
UNIMOD_Hex_5_HexNAc_4_
Hex(5)HexNAc(4): Biantennary.
UNIMOD_Propionyl
Propionyl: Propionate labeling reagent light form (N-term & K).
MS_Scaffold__Minimum_Protein_Probability
Scaffold: Minimum Protein Probability: Minimum protein probability a protein must have to be accepted...
UO_micromolal
micromolal: A molality unit which is equal to one millionth of a molal or 10^[-6] m...
UNIMOD_Ala__Lys
Ala->Lys: Ala->Lys substitution.
UNIMOD_Glucuronyl
Glucuronyl: Hexuronic acid.
UNIMOD_Hex_4_HexNAc_1_
Hex(4)HexNAc(1): Hex(4) HexNAc.
MS_frag__y_ion___H2O
frag: y ion - H2O: Fragmentation information, type of product: y ion without water.
MS_source_attribute
source attribute: Property of a source device that need a value.
MS_CF_FAB
CF-FAB (continuous flow fast atom bombardment): Fast atom bombardment ionization in which the analyte...
MS_Profound_z_value
Profound:z value: The Profound z value.
UO_angular_acceleration_unit
angular acceleration unit: A unit which is a standard measure of the rate of change of angular veloci...
UNIMOD_Lys__AminoadipicAcid
Lys->AminoadipicAcid: Alpha-amino adipic acid.
UNIMOD_mTRAQ_13C_3_15N_1_
mTRAQ:13C(3)15N(1): MTRAQ medium.
UNIMOD_Cyano
Cyano: Cyano.
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_flexImaging
flexImaging: Bruker software for data analysis.
MS_Surveyor_PDA
Surveyor PDA: Surveyor PDA.
MS_number_of_decoy_sequences
number of decoy sequences: The number of decoy sequences, if the concatenated target-decoy approach i...
UNIMOD_dHex_2_Hex_5_HexNAc_4_
dHex(2)Hex(5)HexNAc(4): DHex(2) Hex(5) HexNAc(4).
UNIMOD_MercaptoEthanol
MercaptoEthanol: 2-OH-ethyl thio-Ser.
MS_IsoProbe
IsoProbe: Waters IsoProbe MS.
MS_frag__a_ion
frag: a ion: Fragmentation information, type of product: a ion.
MS_constant_neutral_loss_scan_OBSOLETE
constant neutral loss scan: Spectrum of all precursor ions that undergo a selected m/z decrement...
MS_SEQUEST_SQT_format
SEQUEST SQT format: Source file for this mzIdentML was in SEQUEST SQT format.
UNIMOD_dHex_3_Hex_3_HexNAc_3_NeuAc_1_
dHex(3)Hex(3)HexNAc(3)NeuAc(1): DHex(3) Hex(3) HexNAc(3) NeuAc.
UNIMOD_Hex_1_HexNAc_2_NeuAc_2_
Hex(1)HexNAc(2)NeuAc(2): Hex HexNAc(2) NeuAc(2).
UNIMOD_Dipyrrolylmethanemethyl
Dipyrrolylmethanemethyl: Dipyrrolylmethanemethyl.
MS_z
z (charge state): The charge state of the ion, single or multiple and positive or negatively charged...
MS_Bruker_Daltonics_esquire_series
Bruker Daltonics esquire series: Bruker Daltonics' esquire series.
MS_TSQ_Quantum_Ultra_AM
TSQ Quantum Ultra AM: Thermo Scientific TSQ Quantum Ultra AM.
MS_mass_resolving_power_OBSOLETE
mass resolving power: In a mass spectrum, the observed mass divided by the difference between two mas...
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_detector_potential
detector potential: Detector potential difference in volts.
MS_MS_MS_OBSOLETE
MS/MS (mass spectrometry/mass spectrometry): The acquisition, study and spectra of the electrically c...
MS_Conventional_ion_OBSOLETE
Conventional ion: A radical cation or anion in which the charge site and the unpaired electron spin a...
MS_SEQUEST_ShowFragmentIons
SEQUEST:ShowFragmentIons: Flag indicating that fragment ions should be shown.
MS_collision_energy
collision energy: Energy for an ion experiencing collision with a stationary gas particle resulting i...
MS_32_bit_float
32-bit float: 32-bit precision little-endian floating point conforming to IEEE-754.
UNIMOD_Methyl_Deamidated
Methyl+Deamidated: Deamidation followed by a methylation.
MS_value_between_0_and_1_inclusive
value between 0 and 1 inclusive: Value range for probabilities.
MS_wavelength_OBSOLETE
wavelength: The distance between two peaks of the emitted laser beam.
MS_frag__precursor_ion
frag: precursor ion: Fragmentation information, type of product: precursor ion.
MS_frag__TMT_reporter_ion
frag: TMT reporter ion: Standard reporter ion for TMT. The value slot holds the integer mass of the T...
MS_box_smoothing
box smoothing (moving average smoothing): Reduces intensity spikes by averaging each point with two o...
MS_peak_targeting_suitability_rank
peak targeting suitability rank: Ordinal specifying the rank of a peak in a spectrum in terms of suit...
UO_electrical_conduction_unit
electrical conduction unit: A unit which represents a standard measurement of the movement of electri...
MS_LCMS_2010A
LCMS-2010A: Shimadzu Scientific Instruments LCMS-2010A MS.
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.
UO_roentgen
roentgen: An exposure unit which is equal to the amount of radiation required to liberate positive an...
MS_protein_group_level_probability
protein group-level probability: Probability that at least one of the members of a group of protein s...
MS_SEQUEST_summary
SEQUEST summary: Source file for this mzIdentML was a SEQUEST summary page (proteins).
UNIMOD_Gly__Ser
Gly->Ser: Gly->Ser substitution.
MS_SEQUEST_NormalizeXCorrValues
SEQUEST:NormalizeXCorrValues:
UNIMOD_Tyr__Gln
Tyr->Gln: Tyr->Gln substitution.
MS_Varian_instrument_model
Varian instrument model: Varian instrument model.
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).
MS_TOPP_CompNovoCID
TOPP CompNovoCID: Performs a peptide/protein identification with the CompNovo engine in collision-ind...
MS_PTM_scoring_algorithm_version
PTM scoring algorithm version: Version of the post-translational modification scoring algorithm...
MS_SEQUEST_Fast
SEQUEST:Fast:
UNIMOD_His__Asp
His->Asp: His->Asp substitution.
MS_Progenesis_peptide_count
Progenesis:peptide count: The data type peptide count produced by Progenesis LC-MS.
UNIMOD_Ethanedithiol
Ethanedithiol: EDT.
UNIMOD_Ser__Gln
Ser->Gln: Ser->Gln substitution.
UNIMOD_Pro__Xle
Pro->Xle: Pro->Leu/Ile substitution.
MS_ProteinPilot_Software
ProteinPilot Software: SCIEX or Applied Biosystems|MDS SCIEX software for protein ID and quant...
MS_analog_digital_converter
analog-digital converter: Analog-to-digital converter (abbreviated ADC, A/D or A to D) is an electron...
UNIMOD_Hex_5_Phos_1_
Hex(5)Phos(1): Hex(5) Phos.
MS_mzML_unique_identifier
mzML unique identifier: Native format defined by mzMLid=xsd:IDREF.
MS_NBRF_PIR
NBRF PIR: The NBRF PIR was used as format.
UNIMOD_Trimethyl_2H_9_
Trimethyl:2H(9): 3-fold methylation with deuterated methyl groups.
MS_Negative_Ion_chemical_ionization
Negative Ion chemical ionization: Chemical ionization that results in the formation of negative ions...
MS_protein_group_level_e_value
protein group-level e-value: Estimation of the e-value for protein groups.
UNIMOD_Met_loss
Met-loss: Removal of initiator methionine from protein N-terminus.
UNIMOD_HexNAc_2_NeuGc_1_
HexNAc(2)NeuGc(1): HexNAc(2) NeuGc.
MS_protein_group_level_q_value
protein group-level q-value: Estimation of the q-value for protein groups.
UNIMOD_Hex_5_Phos_3_
Hex(5)Phos(3): Hex(5) Phos(3).
MS_co_author
co-author: One of a set of authors associated with a publication or release.
UNIMOD_HexNAc_2_
HexNAc(2): HexNAc2.
MS_Shimadzu_MALDI_7090
Shimadzu MALDI-7090: Shimadzu MALDI-7090: MALDI-TOF-TOF.
UNIMOD_Tyr__Val
Tyr->Val: Tyr->Val substitution.
UNIMOD_ethylamino
ethylamino: Ethyl amino.
MS_product_interpretation_rank
product interpretation rank: The integer rank given an interpretation of an observed product ion...
MS_6140_Quadrupole_LC_MS
6140 Quadrupole LC/MS: The 6140 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_TOPP_FeatureLinkerLabeled
TOPP FeatureLinkerLabeled: Groups corresponding isotope-labeled features in a feature map...
MS_external_reference_keyword
external reference keyword: Free text attribute that can enrich the information about an entity...
MS_Bruker_XML_format
Bruker XML format: Bruker data exchange XML format.
UNIMOD_dHex_1_Hex_4_HexNAc_2_Pent_1_
dHex(1)Hex(4)HexNAc(2)Pent(1): DHex Hex(4) HexNAc(2) Pent.
UNIMOD_Propiophenone
Propiophenone: Propiophenone.
MS_TOPP_spectra_filter
TOPP spectra filter: Spectra filter component of the TOPP software.
UO_magnetic_flux_density_unit
magnetic flux density unit: A unit which is a standard measure of the strength of a magnetic field...
MS_protein_group_level_identification_attribute
protein group-level identification attribute: Protein group level information.
MS_consensus_result
consensus result: Indicates a consensus result from several search engine runs.
MS_impact_HD
impact HD: Bruker Daltonics' impact HD.
UNIMOD_dHex_2_Hex_1_HexNAc_3_
dHex(2)Hex(1)HexNAc(3): DHex(2) Hex HexNAc(3).
MS_FileMerger
FileMerger: Merges several MS files into one file.
MS_PSM_level_global_FNR
PSM-level global FNR: Estimation of the global false negative rate of peptide spectrum matches...
MS_DB_PI_filter
DB PI filter: Filtering applied specifically by predicted protein isoelectric focussing point (pI)...
MS_Conversion_to_mzXML
Conversion to mzXML: Conversion of a file format to Institute of Systems Biology mzXML file format...
UNIMOD_Hex_4_HexNAc_3_NeuAc_1_
Hex(4)HexNAc(3)NeuAc(1): Hex(4) HexNAc(3) NeuAc.
MS_ProteinExtractor_SequestUniqueScore
ProteinExtractor:SequestUniqueScore: In the final result each protein must have at least one peptide ...
MS_WIFF_nativeID_format
WIFF nativeID format: Native format defined by sample=xsd:nonNegativeInteger period=xsd:nonNegativeIn...
MS_CAD
CAD (collision-induced dissociation): The dissociation of an ion after collisional excitation...
MS_ProteomeDiscoverer_SEQUEST_Weight_of_d_Ions
ProteomeDiscoverer:SEQUEST:Weight of d Ions: Uses c ions for spectrum matching with this relative fac...
MS_t_test
t-test: Perform a t-test (two groups). Specify in string value, whether paired / unpaired, variance equal / different, one- / two-sided version is performed.
MS_minimum_information_standard
minimum information standard: A specification of a minimum amount of information needed to reproduce ...
MS_radial_ejection_linear_ion_trap
radial ejection linear ion trap: A linear ion trap mass spectrometer where ions are ejected along the...
UNIMOD_MurNAc
MurNAc: N-Acetylmuramic acid.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge2: Standard high confidence XCorr paramete...
MS_Conversion_to_dta
Conversion to dta: Conversion to dta format.
MS_APEX_value
APEX value: The APEX value of protein abundance, produced from the APEX software. ...
MS_TOPP_InspectAdapter
TOPP InspectAdapter: Identifies MS2 spectra using the external program Inspect.
UO_rad
rad: An absorbed dose unit which is equal to 0.01 gray (Gy).
MS_ProteomeDiscoverer_SEQUEST_CTerminal_Modification
ProteomeDiscoverer:SEQUEST:CTerminal Modification: Dynamic C-terminal modification that is used durin...
MS_signal_to_noise_array
signal to noise array: A data array of signal-to-noise values.
UNIMOD_Hex_1_HexA_1_
Hex(1)HexA(1): Hex HexA.
UNIMOD_Lys__Allysine
Lys->Allysine: Lysine oxidation to aminoadipic semialdehyde.
MS_ProteinScape_PFFSolverScore
ProteinScape:PFFSolverScore: The ProteinSolver score stored by ProteinScape.
MS_modified_nucleic_acid_sequence
modified nucleic acid sequence: Specification of the modified nucleic acid sequence. The value slot should hold the DNA or RNA sequence.
MS_Waters_raw_format
Waters raw format: Waters data file format found in a Waters RAW directory, generated from an MS acqu...
MS_peptide_level_scoring
peptide-level scoring: Peptide-level scoring performed.
MS_OpenXQuest_wTIC
OpenXQuest:wTIC: OpenXQuest's weighted percent of total ion current subscore.
UNIMOD_Cresylphosphate
Cresylphosphate: O-toluyl-phosphorylation.
MS_fringing_field
fringing field: The electric or magnetic field that extends from the edge of a sector, lens or other ion optics element.
UNIMOD_Trp__Ser
Trp->Ser: Trp->Ser substitution.
UO_kilogram_per_hectare
kilogram per hectare: An area density unit which is equal to the mass of an object in kilograms divid...
MS_ProteinScape_SequestMetaScore
ProteinScape:SequestMetaScore: The SEQUEST meta score calculated by ProteinScape from the original SE...
UNIMOD_Label_2H_4_13C_1_
Label:2H(4)13C(1): Label:2H(4)13C(1).
UNIMOD_Phe__Arg
Phe->Arg: Phe->Arg substitution.
MS_ProteomeDiscoverer_Maximum_Peptides_Output
ProteomeDiscoverer:Maximum Peptides Output: Maximum number of peptide matches reported per spectrum...
MS_MaxQuant_Phospho__STY__Probabilities
MaxQuant:Phospho (STY) Probabilities: The Phospho (STY) Probabilities from MaxQuant software...
UNIMOD_His__Lys
His->Lys: His->Lys substitution.
MS_onium_ion_OBSOLETE
onium ion: A positively charged hypervalent ion of the nonmetallic elements. Examples are the methoni...
UNIMOD_Ahx2_Hsl
Ahx2+Hsl: C-terminal homoserine lactone and two aminohexanoic acids.
MS_ProteomeDiscoverer_Source_Files_old_OBSOLETE
ProteomeDiscoverer:Source Files old: Input pepXML files (old).
MS_Spectrum_Mill_for_MassHunter_Workstation
Spectrum Mill for MassHunter Workstation: Software for protein identification and characterization of...
UNIMOD_dHex_1_Hex_5_HexNAc_4_Sulf_1_
dHex(1)Hex(5)HexNAc(4)Sulf(1): DHex Hex(5) HexNAc(4) Sulf.
MS_OpenXQuest_combined_score
OpenXQuest:combined score: OpenXQuest's combined score for a cross-link spectrum match.
MS_protein_short_name
protein short name: A short name or symbol of a protein (e.g., HSF 1 or HSF1_HUMAN).
MS_MaxQuant_PEP
MaxQuant:PEP: The data type PEP (posterior error probability) produced by MaxQuant.
MS_SQID_protein_score
SQID:protein score: The SQID result 'protein score'.
MS_peptide_sequence_level_identification_attribute
peptide sequence-level identification attribute: Peptide level information.
UO_picomolar
picomolar: A unit of molarity which is equal to 10^[-12] M.
UNIMOD_EQAT
EQAT: EAPTA d0.
MS_four_sample_run
four sample run: The raw file contains the run of four samples (e.g. 4-plex iTraq).
MS_Percolator
Percolator: Percolator.
UNIMOD_AEC_MAEC_2H_4_
AEC-MAEC:2H(4): Deuterium cysteamine modification to S or T.
MS_solution
solution: State if the sample is in solution form.
MS_PIA
PIA: PIA - Protein Inference Algorithms, a toolbox for protein inference and identification analysis...
UNIMOD_Label_13C_9_15N_1_
Label:13C(9)15N(1): 13C(9) 15N(1) Silac label.
MS_search_tolerance_specification
search tolerance specification: Specification of the search tolerance.
MS_LTQ_Velos
LTQ Velos: Thermo Scientific LTQ Velos MS.
UNIMOD_Hex_1_Pent_1_
Hex(1)Pent(1): Hex Pent.
UNIMOD_C8_QAT
C8-QAT: [3-(2,5)-Dioxopyrrolidin-1-yloxycarbonyl)-propyl]dimethyloctylammonium.
UNIMOD_dHex_1_Hex_4_HexNAc_3_NeuGc_1_
dHex(1)Hex(4)HexNAc(3)NeuGc(1): DHex Hex(4) HexNAc(3) NeuGc.
UNIMOD_Label_2H_3_
Label:2H(3): Trideuteration.
MS_post_source_decay
post-source decay: A technique specific to reflectron time-of-flight mass spectrometers where product...
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_SEQUEST_SelectDefault
SEQUEST:SelectDefault:
UNIMOD_DFDNB
DFDNB: Addition of DFDNB crosslinker.
UNIMOD_OxProBiotin
OxProBiotin: Oxidized Proline biotinylated with biotin-LC-hydrazide.
UNIMOD_Glu__Pro
Glu->Pro: Glu->Pro substitution.
UNIMOD_Archaeol
Archaeol: S-diphytanylglycerol diether.
UNIMOD_Carbofuran
Carbofuran: 2,3-dihydro-2,2-dimethyl-7-benzofuranol N-methyl carbamate.
MS_PSI_mzData_format
PSI mzData format: Proteomics Standards Inititative mzData file format.
MS_TOPP_MapAlignerSpectrum
TOPP MapAlignerSpectrum: Corrects retention time distortions between maps by spectrum alignment...
MS_ProteomeDiscoverer_Static_Modification
ProteomeDiscoverer:Static Modification: Static Modification to all occurrences of a named amino acid...
MS_PROTEINEER_LC
PROTEINEER-LC: Bruker PROTEINEER-LC software.
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Clipping_Range_Before
ProteomeDiscoverer:Spectrum Selector:Precursor Clipping Range Before: Precursor clipping range before...
MS_ProteomeDiscoverer_automatic_workload
ProteomeDiscoverer:automatic workload: Flag indicating automatic estimation of the workload level...
MS_4000_QTRAP
4000 QTRAP: Applied Biosystems/MDS SCIEX Q 4000 TRAP MS.
MS_Exactive
Exactive: Thermo Scientific Exactive MS.
MS_protein_list_attribute
protein list attribute: Attribute describing a protein list.
MS_Mascot_ShowHomologousProteinsWithSubsetOfPeptides
Mascot:ShowHomologousProteinsWithSubsetOfPeptides: If true, show (sequence or spectrum) sub-set and s...
UO_candela
candela: A luminous intensity unit which equal to the luminous intensity, in a given direction...
MS_ProteomeDiscoverer_Strict_Score_Threshold
ProteomeDiscoverer:Strict Score Threshold: Specifies the threshold value for strict scoring...
MS_IRMPD
IRMPD (infrared multiphoton dissociation): Multiphoton ionization where the reactant ion dissociates ...
UNIMOD_Trp__Lys
Trp->Lys: Trp->Lys substitution.
MS_stainless_steel_plate
stainless steel plate: Stainless steel plate.
UNIMOD_Hex_1_HexNAc_1_
Hex(1)HexNAc(1): Hex1HexNAc1.
MS_tag_search
tag search: A sequence tag search.
MS_micrOTOF
micrOTOF: Bruker Daltonics' micrOTOF: ESI TOF, APCI, APPI.
UO_molal
molal: A unit of concentration which expresses a concentration of a solution of 1 mole per kilogram o...
MS_ProteinScape_SearchResultId
ProteinScape:SearchResultId: The SearchResultId of this peptide as SearchResult in the ProteinScape d...
UNIMOD_Hex_1_NeuAc_1_
Hex(1)NeuAc(1): Hex NeuAc.
UNIMOD_ICDID
ICDID: Isotope-Coded Dimedone light form.
UNIMOD_Pentylamine
Pentylamine: Labeling transglutaminase substrate on glutamine side chain.
MS_spectrum_instrument_description_OBSOLETE
spectrum instrument description: Terms used to describe the spectrum.
MS_source_file
source file (raw data file): Describes the type of file and its content.
UNIMOD_dHex_1_Hex_1_
dHex(1)Hex(1): Hex1dHex1.
MS_monoisotopic_mass_OBSOLETE
monoisotopic mass: The mass of an ion or molecule calculated using the mass of the most abundant isot...
UNIMOD_Nmethylmaleimide
Nmethylmaleimide: Nmethylmaleimide.
UNIMOD_CAMthiopropanoyl
CAMthiopropanoyl: 3-(carbamidomethylthio)propanoyl.
MS_LightSight_Software
LightSight Software: SCIEX or Applied Biosystems|MDS SCIEX software metabolite identification.
UO_cubic_meter
cubic meter: A volume unit which is equal to the volume of a cube with edges one meter in length...
UO_length_unit
length unit: A unit which is a standard measure of the distance between two points.
MS_Byonic__Peptide_AbsLogProb2D
Byonic: Peptide AbsLogProb2D: The absolute value of the log-base10 Byonic two-dimensional posterior e...
MS_Bruker_Daltonics_BioTOF_series
Bruker Daltonics BioTOF series: Bruker Daltonics' BioTOF series.
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...
MS_Shimadzu_instrument_model
Shimadzu instrument model: Shimadzu corporation instrument model.
MS_time_array
time array: A data array of relative time offset values from a reference time.
UNIMOD_SPITC
SPITC: 4-sulfophenyl isothiocyanate.
MS_TSQ_Quantum
TSQ Quantum: ThermoFinnigan TSQ Quantum MS.
UNIMOD_Asn__Arg
Asn->Arg: Asn->Arg substitution.
UNIMOD_Triiodothyronine
Triiodothyronine: Triiodo.
MS_Paragon_input_parameter
Paragon input parameter: Search engine input parameters specific to Paragon.
MS_multidimensional_chromatography_modulation_description
multidimensional chromatography modulation description: Multidimensional chromatography modulation de...
UNIMOD_Delta_S__1_Se_1_
Delta:S(-1)Se(1): Selenium replaces sulfur.
MS_unimolecular_dissociation_OBSOLETE
unimolecular dissociation: Fragmentation reaction in which the molecularity is treated as one...
MS_Acquity_TQD
Acquity TQD: Waters quadrupole based Acquity TQD.
UNIMOD_Hex_3_HexNAc_3_
Hex(3)HexNAc(3): Hex(3) HexNAc(3).
MS_decoy_DB_from_UniProtKB_Swiss_Prot_OBSOLETE
decoy DB from UniProtKB/Swiss-Prot: Decoy database from a Swiss-Prot protein sequence database...
UO_density_unit
density unit: A unit which is a standard measure of the influence exerted by some mass...
MS_fed_supply_electrospray
fed supply electrospray: The sprayer is continuously fed with sample.
UNIMOD_dHex_1_Hex_4_
dHex(1)Hex(4): Hex4dHex1.
UNIMOD_Val__Glu
Val->Glu: Val->Glu substitution.
UNIMOD_TNBS
TNBS: Tri nitro benzene.
MS_double_focusing_mass_spectrometer_OBSOLETE
double-focusing mass spectrometer: A mass spectrometer that uses a magnetic sector for m/z focusing a...
UO_parts_per_notation_unit
parts per notation unit: A dimensionless concentration notation which describes the amount of one sub...
MS_SRM_spectrum
SRM spectrum: Spectrum obtained when data are acquired from specific product ions corresponding to m/...
MS_mzML_unique_identifier__combined_spectra
mzML unique identifier, combined spectra: Comma separated list of spectra that have been combined pri...
MS_data_stored_in_database
data stored in database: Source file for this mzIdentML was a data set in a database.
UO_attomole
attomole: A substance unit equal to 10^[-18] mol.
MS_multiphoton_dissociation
multiphoton dissociation (photodissociation): A process wherein the reactant ion is dissociated as a ...
UNIMOD_Gly__Ala
Gly->Ala: Gly->Ala substitution.
MS_frag__b_ion___H2O
frag: b ion - H2O: Fragmentation information, type of product: b ion without water.
UNIMOD_Cation_Mg_II_
Cation:Mg[II]: Replacement of 2 protons by magnesium.
UNIMOD_Ethyl_Deamidated
Ethyl+Deamidated: Deamidation followed by esterification with ethanol.
MS_researcher
researcher: Researcher role.
MS_SEQUEST_ViewCV
SEQUEST:ViewCV: SEQUEST View Input Parameters.
MS_ProteomeDiscoverer_Source_file_extension_OBSOLETE
ProteomeDiscoverer:Source file extension: File type (if not pepXML).
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_data_transformation
data transformation: Terms used to describe types of data processing.
MS_ProteomeDiscoverer_Static_Modification_for_X
ProteomeDiscoverer:Static Modification for X: Static Modification for X.
UNIMOD_Lipoyl
Lipoyl: Lipoyl.
MS_predicted_pI
predicted pI (predicted isoelectric point): The pH of a solution at which a charged molecule would no...
MS_MPD
MPD (photodissociation): A process wherein the reactant ion is dissociated as a result of absorption ...
MS_protein_level_global_FDR
protein-level global FDR: Estimation of the global false discovery rate of proteins.
MS_run_attribute
run attribute: Properties of the described run.
UNIMOD_3_phosphoglyceryl
3-phosphoglyceryl: 3-phosphoglyceryl.
UNIMOD_Hex_3_HexNAc_2_NeuAc_2_
Hex(3)HexNAc(2)NeuAc(2): Hex(3) HexNAc(2) NeuAc(2).
UNIMOD_Glu__Arg
Glu->Arg: Glu->Arg substitution.
MS_Xevo_G2_Tof
Xevo G2 Tof: Waters oa-ToF based Xevo G2 Tof.
UNIMOD_Phenylisocyanate_2H_5_
Phenylisocyanate:2H(5): D5-phenyl isocyanate.
UNIMOD_Lys
Lys: Addition of lysine due to transpeptidation.
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.
UNIMOD_Amidine
Amidine: Amidination of lysines or N-terminal amines with methyl acetimidate.
MS_Bruker_Daltonics_flex_series
Bruker Daltonics flex series: Bruker Daltonics' flex series.
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_enhanced_multiply_charged_spectrum
enhanced multiply charged spectrum: MS1 spectrum that is enriched in multiply-charged ions compared t...
MS_ProteomeDiscoverer_Target_FDR_Relaxed
ProteomeDiscoverer:Target FDR Relaxed: Specifies the relaxed target false discovery rate (FDR...
UNIMOD_Arg2PG
Arg2PG: Adduct of phenylglyoxal with Arg.
UO_unit_per_volume_unit
unit per volume unit: A concentration unit which is a standard measure of the number of units...
MS_NoiseFilter_OBSOLETE
NoiseFilter: Removes noise from profile spectra by using different smoothing techniques.
UO_solid_angle_unit
solid angle unit: A unit which is a standard measure of the angle formed by three or more planes inte...
UNIMOD_Hex_2_HexA_1_HexNAc_1_Sulf_1_
Hex(2)HexA(1)HexNAc(1)Sulf(1): Hex(2) HexA HexNAc Sulf.
MS_Comet_deltacnstar
Comet:deltacnstar: The Comet result 'DeltaCnStar'.
MS_SEQUEST_CleavesAt
SEQUEST:CleavesAt:
UNIMOD_Gly__Xle
Gly->Xle: Gly->Leu/Ile substitution.
MS_SpectrumMill_Discriminant_Score
SpectrumMill:Discriminant Score: Discriminant score from Agilent SpectrumMill software.
MS_ProteomeDiscoverer_min_peptide_length
ProteomeDiscoverer:min peptide length: Minimum peptide length.
MS_analysis_attribute
analysis attribute: Attribute of an item in the result of mass spectrometry proteomics data analysis...
MS_Synapt_G2_S_HDMS
Synapt G2-S HDMS: Waters oa-ToF based Synapt G2-S HDMS.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Charge_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Charge Replacements: Specifies the charge state of ...
UNIMOD_OxLysBiotin
OxLysBiotin: Oxidized lysine biotinylated with biotin-LC-hydrazide.
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_Conversion_to_mzData
Conversion to mzData: Conversion of a file format to Proteomics Standards Initiative mzData file form...
UNIMOD_bisANS_sulfonates
bisANS-sulfonates: BisANS with loss of both sulfonates.
UO_mass_unit
mass unit: A unit which is a standard measure of the amount of matter/energy of a physical object...
MS_MAT95XP
MAT95XP: ThermoFinnigan MAT95XP MS.
MS_ProteomeDiscoverer_WinCyg_reference_database
ProteomeDiscoverer:WinCyg reference database: Windows full path for database.
UNIMOD_Delta_H_5_C_2_
Delta:H(5)C(2): Dimethylation of proline residue.
MS_X500R_QTOF
X500R QTOF: SCIEX X500R QTOF, a quadrupole - quadrupole - time-of-flight mass spectrometer.
MS_no_cleavage
no cleavage: No cleavage.
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_Synapt_G2_HDMS
Synapt G2 HDMS: Waters oa-ToF based Synapt G2 HDMS.
MS_ProteomeDiscoverer_Mascot_Peptide_CutOff_Score
ProteomeDiscoverer:Mascot:Peptide CutOff Score: Minimum score in the IonScore column that each peptid...
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.
UNIMOD_Tyr__Pro
Tyr->Pro: Tyr->Pro substitution.
UNIMOD_Fluorescein
Fluorescein: 5-Iodoacetamidofluorescein (Molecular Probe, Eugene, OR).
MS_AMS_OBSOLETE
AMS (accelerator mass spectrometry): A mass spectrometry technique in which atoms extracted from a sa...
UO_week
week: A time unit which is equal to 7 days.
MS_mass_analyzer
mass analyzer: Terms used to describe the Analyzer.
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_Ac_1_
Hex(1)HexNAc(1)NeuAc(2)Ac(1): Ac Hex HexNAc NeuAc(2).
MS_Orbitrap_Fusion_ETD
Orbitrap Fusion ETD: Thermo Scientific Orbitrap Fusion with ETD.
MS_product_ion_OBSOLETE
product ion: An ion formed as the product of a reaction involving a particular precursor ion...
UNIMOD_HNE_Delta_H_2_O
HNE-Delta:H(2)O: Dehydrated 4-hydroxynonenal.
MS_non_leading_protein
non-leading protein: Zero to many proteins within each group should be annotated as non-leading to in...
UNIMOD_dHex_1_Hex_5_HexNAc_2_Pent_1_
dHex(1)Hex(5)HexNAc(2)Pent(1): DHex Hex(5) HexNAc(2) Pent.
MS_spectrum_representation
spectrum representation: Way in which the spectrum is represented, either with regularly spaced data ...
UNIMOD_dHex_1_Hex_1_HexNAc_4_
dHex(1)Hex(1)HexNAc(4): DHex Hex HexNAc(4).
MS_protXML_format
protXML format: Source file for this mzIdentML was in protXML file format.
MS_ionization_type
ionization type: The method by which gas phase ions are generated from the sample.
MS_Phenyx_Trust_Parent_Charge
Phenyx:Trust Parent Charge: The parameter in Phenyx that specifies if the experimental charge state i...
UNIMOD_thioacylPA
thioacylPA: Membrane protein extraction.
MS_surface_assisted_laser_desorption_ionization
surface-assisted laser desorption ionization: The formation of gas-phase ions from molecules that are...
UNIMOD_Hex_5_HexNAc_2_Phos_1_
Hex(5)HexNAc(2)Phos(1): Hex(5) HexNAc(2) Phos.
UNIMOD_dHex_3_Hex_1_HexNAc_2_Kdn_1_
dHex(3)Hex(1)HexNAc(2)Kdn(1): DHex(3) Hex HexNAc(2) Kdn.
MS_first_column_elution_time
first column elution time: The time of elution from the first chromatographic column in the chromatog...
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_
Hex(1)HexNAc(1)NeuAc(1): Hex1HexNAc1NeuAc1.
MS_ProteinExtractor_Methodname
ProteinExtractor:Methodname: Name of the used method in the ProteinExtractor algorithm.
MS_spControl
spControl: Bruker software for data acquisition.
UO_volume_per_unit_volume
volume per unit volume: A dimensionless concentration unit which denotes the given volume of the solu...
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...
UO_ratio
ratio: A dimensionless unit which denotes an amount or magnitude of one quantity relative to another...
UNIMOD_Hex_4_HexNAc_3_Pent_1_
Hex(4)HexNAc(3)Pent(1): Hex(4) HexNAc(3) Pent.
UNIMOD_Quinone
Quinone: Quinone.
UO_radiance_unit
radiance unit: A unit which is a standard measure of the power of electromagnetic radiation through s...
UNIMOD_Val__Ala
Val->Ala: Val->Ala substitution.
MS_Da_OBSOLETE
Da (dalton): A non-SI unit of mass (symbol Da) that is equal to the unified atomic mass unit: 1...
MS_photodiode_array_detector
photodiode array detector: An array detector used to record spectra in the ultraviolet and visible re...
MS_laser_attribute
laser attribute: Laser properties that are associated with a value.
MS_WIFF_nativeID_format__combined_spectra
WIFF nativeID format, combined spectra: WIFF comma separated list of spectra that have been combined ...
MS_spectrum_attribute
spectrum attribute: Spectrum properties that are associated with a value.
UNIMOD_Hex_4_HexNAc_4_NeuAc_1_
Hex(4)HexNAc(4)NeuAc(1): Hex(4) HexNAc(4) NeuAc.
MS_ProteinLynx_Global_Server_mass_spectrum_XML_format
ProteinLynx Global Server mass spectrum XML format: Peak list file format used by ProteinLynx Global ...
MS_assay_attribute
assay attribute: Attribute describing an assay.
UNIMOD_Hex_1_HexNAc_2_NeuAc_1_Sulf_1_
Hex(1)HexNAc(2)NeuAc(1)Sulf(1): Hex HexNAc(2) NeuAc Sulf.
UNIMOD_Phe__Gln
Phe->Gln: Phe->Gln substitution.
MS_Mascot_Integra
Mascot Integra: Mascot Integra.
MS_SEQUEST_sort_by_PreviousAminoAcid
SEQUEST:sort by PreviousAminoAcid: Sort order of SEQUEST search results given by the previous amino a...
MS_isolation_window_attribute
isolation window attribute: Isolation window parameter.
MS_cross_link_donor
cross-link donor: The Cross-linking donor, assigned according to the following rules: the export soft...
MS_peak
peak: A localized region of relatively large ion signal in a mass spectrum. Although peaks are often ...
UNIMOD_LG_pyrrole
LG-pyrrole: Levuglandinyl-lysine pyrrole adduct.
UNIMOD_Crotonaldehyde
Crotonaldehyde: Crotonaldehyde.
MS_DB_MW_filter_maximum
DB MW filter maximum: Maximum value of molecular weight filter.
UNIMOD_ICPL_13C_6_
ICPL:13C(6): Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, heavy form.
MS_API_300
API 300: Applied Biosystems/MDS SCIEX API 300 MS.
MS_Paragon__search_effort
Paragon: search effort: The Paragon method setting that controls the two major modes of search effort...
UNIMOD_Xle__Gly
Xle->Gly: Leu/Ile->Gly substitution.
MS_error_on_peptide_area
error on peptide area: Error on peptide area.
MS_database_file_formats
database file formats: The children of this term define file formats of the sequence database used...
UNIMOD_Chlorpyrifos
Chlorpyrifos: O,O-diethyl o-3,5,6-trichloro-2-pyridyl phosphorothioate.
MS_MS_GF_
MS-GF+: MS-GF+ software used to analyze the spectra.
MS_search_result_details_OBSOLETE
search result details: OBSOLETE: Scores and global result characteristics.
MS_MS1_spectrum
MS1 spectrum: Mass spectrum created by a single-stage MS experiment or the first stage of a multi-sta...
MS_spectrum_quality_descriptions
spectrum quality descriptions: Description of the quality of the input spectrum.
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_PyridoxalPhosphateH2
PyridoxalPhosphateH2: PLP bound to lysine reduced by sodium borohydride (NaBH4) to create amine linka...
MS_ProLuCID_deltacn
ProLuCID:deltacn: The ProLuCID result 'DeltaCn'.
MS_TOPP_SpectraFilterScaler
TOPP SpectraFilterScaler: Applies a filter to peak spectra after intensity scaling according to rank...
UNIMOD_EGCG1
EGCG1: (-)-epigallocatechin-3-gallate.
MS_acquisition_parameter
acquisition parameter: Parameters used in the mass spectrometry acquisition.
MS_matrix_application_type
matrix application type: Describes the technique how the matrix is put on the sample target...
UNIMOD_ICDID_2H_6_
ICDID:2H(6): Isotope-Coded Dimedone heavy form.
MS_protein_group_level_combined_FDRScore
protein group-level combined FDRScore: mzidLibrary Combined FDRScore for proteins specifically obtain...
UNIMOD_Cys__Dha
Cys->Dha: Dehydroalanine (from Cysteine).
UNIMOD_dHex_1_Hex_5_HexNAc_3_NeuAc_1_
dHex(1)Hex(5)HexNAc(3)NeuAc(1): DHex Hex(5) HexNAc(3) NeuAc.
UNIMOD_Hex_5_HexNAc_5_
Hex(5)HexNAc(5): Hex(5) HexNAc(5).
MS_mzidLib_Thresholder
mzidLib:Thresholder: A routine for keeping only identifications passing a given threshold or setting ...
UNIMOD_Trp__Kynurenin
Trp->Kynurenin: Tryptophan oxidation to kynurenin.
UNIMOD_Crotonyl
Crotonyl: Crotonylation.
MS_TOPP_Decharger
TOPP Decharger: Decharges and merges different feature charge variants of the same chemical entity...
UNIMOD_LG_Hlactam_R
LG-Hlactam-R: Levuglandinyl - arginine hydroxylactam adduct.
MS_transmission
transmission: The ratio of the number of ions leaving a region of a mass spectrometer to the number e...
UNIMOD_QTGG
QTGG: SUMOylation leaving GlnThrGlyGly.
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_quantification_data_processing
quantification data processing: Terms used to describe types of quantification data processing...
MS_ACQUITY_UPLC_Systems_with_2D_Technology
ACQUITY UPLC Systems with 2D Technology: Waters LC-system ACQUITY UPLC Systems with 2D Technology...
MS_MzWiff
MzWiff: A software program for converting Applied Biosystems wiff file format to the mzXML or mzML fo...
UNIMOD_dHex_3_Hex_3_HexNAc_4_
dHex(3)Hex(3)HexNAc(4): DHex(3) Hex(3) HexNAc(4).
UNIMOD_Thr__Glu
Thr->Glu: Thr->Glu substitution.
UNIMOD_Lys__Xle
Lys->Xle: Lys->Leu/Ile substitution.
MS_MassHunter_Qualitative_Analysis
MassHunter Qualitative Analysis: Software for data analysis of data from 6000 series instruments...
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.
MS_64_bit_integer
64-bit integer: Signed 64-bit little-endian integer.
MS_selected_reaction_monitoring_spectrum
selected reaction monitoring spectrum (SRM spectrum): Spectrum obtained when data are acquired from s...
MS_reservoir
reservoir: A sample inlet method involving a reservoir.
MS_chromatography_separation
chromatography separation: A technique by which molecules are separated by chemical and physical prop...
UNIMOD_dHex_1_Hex_3_
dHex(1)Hex(3): Hex3dHex1.
MS_mass_difference
mass difference (delta M): The difference between a theoretically calculated molecular mass M and the...
UNIMOD_dHex_2_HexNAc_5_
dHex(2)HexNAc(5): DHex(2) HexNAc(5).
MS_sequential_m_z_separation_method_OBSOLETE
sequential m/z separation method: Sequential m/z separation method.
MS_SSMS_OBSOLETE
SSMS (Spark Source Mass Spectrometry): Mass spectrometry using spark ionization.
MS_unlabeled_peptide
unlabeled peptide: A peptide that has not been labelled with heavier-than-usual isotopes. This is often referred to as "light" to distinguish from "heavy".
MS_frag__d_ion
frag: d ion: Fragmentation information, type of product: d ion.
MS_isotope_dilution_mass_spectrometry_OBSOLETE
isotope dilution mass spectrometry: A quantitative mass spectrometry technique in which an isotopical...
UNIMOD_Gln__Ser
Gln->Ser: Gln->Ser substitution.
UNIMOD_PS_Hapten
PS_Hapten: Reaction with phenyl salicylate (PS).
MS_combined_FDRScore_for_proteins
combined FDRScore for proteins: mzidLibrary Combined FDRScore for proteins.
MS_Auto_Spec_Ultima_NT
Auto Spec Ultima NT: Waters AutoSpec Ultima NT MS.
MS_liquid_sample_state
liquid sample state: State if the sample is in liquid form.
MS_mean_charge_array
mean charge array: Array of mean charge values where the mean charge is calculated as a weighted mean...
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...
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_first_author
first author: The first of a set of authors associated with a publication or release. There may be more than one first author in cases where several authors share primary attribution.
UO_radiant_intensity_unit
radiant intensity unit: A unit which is a standard measure of the intensity of electromagnetic radiat...
MS_product_ion_scan_OBSOLETE
product ion scan: The specific scan function or process that records product ion spectrum.
MS_TOPP_SpectraFilterWindowMower
TOPP SpectraFilterWindowMower: Applies a filter of the largest peaks in a sliding window over a peak ...
MS_Shimadzu_Corporation_software
Shimadzu Corporation software: Shimadzu Corporation software.
UO_electric_charge
electric charge: A unit which is a standard measure of the quantity of unbalanced electricity in a bo...
MS_measurement_method
measurement method: An attribute of resolution when recording the detector response in absence of the...
MS_electron_ionization
electron ionization: The ionization of an atom or molecule by electrons that are typically accelerate...
UNIMOD_NEIAA
NEIAA: N-ethyl iodoacetamide-d0.
MS_MALDI_Solutions_LC_MALDI
MALDI Solutions LC-MALDI: Software for automated LC-MALDI analysis and reporting. ...
MS_ASN_1
ASN.1: The sequence database was stored in the Abstract Syntax Notation 1 format. ...
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...
MS_product_background
product background: The background area for the quantified transition.
UO_becquerel
becquerel: An activity (of a radionuclide) unit which is equal to the activity of a quantity of radio...
UNIMOD_Tyr__Arg
Tyr->Arg: Tyr->Arg substitution.
std::string URI
the URI for the resource.
UNIMOD_Phe__CamCys
Phe->CamCys: Phe->Cys substitution and carbamidomethylation.
UNIMOD_Saligenin
Saligenin: O-toluene.
UNIMOD_Phytochromobilin
Phytochromobilin: Phytochromobilin.
MS_source_interface_manufacturer
source interface manufacturer: The source interface manufacturer.
MS_time_of_flight
time-of-flight: Instrument that separates ions by m/z in a field-free region after acceleration to a ...
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_PeptideShaker_protein_group_score
PeptideShaker protein group score: The probability based PeptideShaker protein group score...
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...
UO_month
month: A time unit which is approximately equal to the length of time of one of cycle of the moon's p...
UNIMOD_HexNAc_1_NeuAc_1_
HexNAc(1)NeuAc(1): HexNAc NeuAc.
MS_LC_MS_label_free_quantitation_analysis
LC-MS label-free quantitation analysis: LC-MS label-free workflow (RT m/z map).
UNIMOD_Benzoyl
Benzoyl: Labeling reagent light form (N-term & K).
UO_lumen
lumen: A luminous flux unit which is equal to the luminous flux emitted into 1 steradian by a point s...
MS_chromosome_strand
chromosome strand: The strand (+ or -) to which the peptide has been mapped.
MS_PTM_localization_distinct_peptide_level_statistic
PTM localization distinct peptide-level statistic: Statistic to convey the confidence of the localiza...
MS_ProteinExtractor_PhenyxPeptideScoreThreshold
ProteinExtractor:PhenyxPeptideScoreThreshold: Only peptides with scores higher than that threshold ar...
MS_Phenyx_Score
Phenyx:Score: The protein score of a protein match in Phenyx.
UNIMOD_Glu__Val
Glu->Val: Glu->Val substitution.
MS_ProteinExtractor_SequestWeighting
ProteinExtractor:SequestWeighting: Influence of SEQUEST search engine in the process of merging the s...
UO_watt_per_steradian
watt per steradian: A radiant intensity unit which is equal to one kilogram meter squared per second ...
MS_sample_volume
sample volume: Total volume of solution used.
UNIMOD_Hex_1_HexNAc_2_Pent_1_
Hex(1)HexNAc(2)Pent(1): Hex1HexNAc2Pent1.
UNIMOD_dHex_4_HexNAc_3_Kdn_1_
dHex(4)HexNAc(3)Kdn(1): DHex(4) HexNAc(3) Kdn.
UNIMOD_Thiophospho
Thiophospho: Thiophosphorylation.
UO_confluence_percentage
confluence percentage: A dimensionless percent unit which denotes the density of an attached or monol...
MS_modification_motif
modification motif: The regular expression describing the sequence motif for a modification.
MS_param__x_ion
param: x ion: Parameter information, type of product: x ion with charge on the C-terminal side...
MS_scan_window_lower_limit
scan window lower limit: The upper m/z bound of a mass spectrometer scan window.
UNIMOD_dHex_3_Hex_2_HexNAc_4_
dHex(3)Hex(2)HexNAc(4): DHex(3) Hex(2) HexNAc(4).
MS_peptide_attribute
peptide attribute: A nonphysical attribute that can be used to describe a peptide.
UO_half_life
half life: A time unit which represents the period over which the activity or concentration of a spec...
UNIMOD_Delta_H_4_C_6_
Delta:H(4)C(6): Acrolein addition +76.
MS_conversion_dynode_photomultiplier
conversion dynode photomultiplier: A detector in which ions strike a conversion dynode to produce ele...
UNIMOD_Gln__Tyr
Gln->Tyr: Gln->Tyr substitution.
MS_amaZon_Speed_ETD
amaZon Speed ETD: Bruker Daltonics' amaZon Speed ETD: ESI quadrupole ion trap, Nanospray, APCI, APPI, ETD, PTR, GC-APCI, CaptiveSpray.
UNIMOD_Xle__Lys
Xle->Lys: Leu/Ile->Lys substitution.
MS_param__a_ion
param: a ion: Parameter information, type of product: a ion with charge on the N-terminal side...
UO_microampere
microampere: An electric current unit current which is equal to one millionth of an ampere or 10^[-6]...
UNIMOD_dHex_3_Hex_3_HexNAc_3_
dHex(3)Hex(3)HexNAc(3): DHex(3) Hex(3) HexNAc(3).
MS_peptide_sequence_level_e_value
peptide sequence-level e-value: Estimation of the e-value for distinct peptides once redundant identi...
UNIMOD_NeuAc
NeuAc: N-acetyl neuraminic acid.
UNIMOD_Tyr__Trp
Tyr->Trp: Tyr->Trp substitution.
MS_supplemental_collision_energy
supplemental collision energy: Energy for an ion experiencing supplemental collision with a stationar...
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).
UNIMOD_Xlink_SMCC
Xlink:SMCC: Monolink of sulfoSMCC/SMCC crosslinker to Cys.
MS_Phenyx_Instrument_Type
Phenyx:Instrument Type: The instrument type parameter value in Phenyx.
MS______BDEZ_____P_
(?<=[BDEZ])(?!P): Regular expression for V8-DE.
UNIMOD_dHex_1_Hex_4_HexNAc_1_Pent_1_
dHex(1)Hex(4)HexNAc(1)Pent(1): DHex Hex(4) HexNAc Pent.
MS_conversion_dynode_electron_multiplier
conversion dynode electron multiplier: A surface that is held at high potential so that ions striking...
UNIMOD_Xle__Phe
Xle->Phe: Leu/Ile->Phe substitution.
MS_ProteomeDiscoverer_Absolute_XCorr_Threshold
ProteomeDiscoverer:Absolute XCorr Threshold: Minimum cross-correlation threshold that determines whet...
MS_UIMF_nativeID_format
UIMF nativeID format: Native format defined by frame=xsd:nonNegativeInteger scan=xsd:nonNegativeInteg...
MS_label_free_proteingroup_level_quantitation
label-free proteingroup level quantitation: Label-free proteingroup level quantitation.
MS_MaxQuant_PTM_Delta_Score_threshold
MaxQuant:PTM Delta Score threshold: Threshold for MaxQuant:PTM Delta Score.
MS_PROTEINEER
PROTEINEER: Bruker PROTEINEER software.
UNIMOD_dHex_2_Hex_3_HexNAc_1_Sulf_1_
dHex(2)Hex(3)HexNAc(1)Sulf(1): DHex(2) Hex(3) HexNAc Sulf.
UNIMOD_BITC
BITC: Benzyl isothiocyanate.
MS_Anubis
Anubis: Anubis software for selected reaction monitoring data.
MS_IMS_OBSOLETE
IMS (ion mobility spectrometry): The separation of ions according to their velocity through a buffer ...
MS_ETD
ETD (electron transfer dissociation): A process to fragment ions in a mass spectrometer by inducing f...
MS_ProteinExtractor_UsePhenyx
ProteinExtractor:UsePhenyx: Flag indicating to include Phenyx scoring for calculation of the ProteinE...
MS_SEQUEST_Uniq
SEQUEST:Uniq:
MS_Velos_Plus
Velos Plus: Thermo Scientific second generation Velos.
MS_thermal_ionization
thermal ionization: The ionization of a neutral species through contact with a high temperature surfa...
UNIMOD_DEDGFLYMVYASQETFG
DEDGFLYMVYASQETFG: Addition of DEDGFLYMVYASQETFG.
MS_ProteomeDiscoverer_SEQUEST_Low_resolution_spectra_contained
ProteomeDiscoverer:SEQUEST:Low resolution spectra contained: Flag indicating if low-resolution spectr...
MS_glow_discharge_ionization
glow discharge ionization: The formation of ions in the gas phase and from solid samples at the catho...
UNIMOD_Hex_3_Phos_1_
Hex(3)Phos(1): Hex(3) Phos.
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 ...
UO_milligram
milligram: A mass unit which is equal to one thousandth of a gram or 10^[-3] g.
MS_ProteomeDiscoverer_Mascot_Significance_High
ProteomeDiscoverer:Mascot:Significance High: Calculated relaxed significance when performing a decoy ...
UNIMOD_Hex_1_HexNAc_2_dHex_1_Pent_1_
Hex(1)HexNAc(2)dHex(1)Pent(1): Hex1HexNAc2dHex1Pent1.
UO_picosecond
picosecond: A time unit which is equal to 10^[-12] s.
MS_small_molecule_modification_attribute
small molecule modification attribute: Attribute describing a small molecule modification.
UO_parts_per_thousand
parts per thousand: A dimensionless concentration notation which denotes the amount of a given substa...
MS_search_engine_specific_input_parameter
search engine specific input parameter: Search engine specific input parameters.
MS_polarity_OBSOLETE
polarity: Terms to describe the polarity setting of the instrument.
UNIMOD_dHex_2_Hex_4_HexNAc_3_Pent_1_
dHex(2)Hex(4)HexNAc(3)Pent(1): DHex(2) Hex(4) HexNAc(3) Pent.
MS_search_engine_specific_input_metadata
search engine specific input metadata: Search engine specific metadata that are not user-controlled s...
UNIMOD_Hex_7_HexNAc_2_Phos_1_
Hex(7)HexNAc(2)Phos(1): Hex(7) HexNAc(2) Phos.
UNIMOD_Ethanolyl
Ethanolyl: Ethanolation.
UNIMOD_Pro__Tyr
Pro->Tyr: Pro->Tyr substitution.
MS_frag__precursor_ion___NH3
frag: precursor ion - NH3: Fragmentation information, type of product: precursor ion without ammonia...
MS_ProteomeDiscoverer_Organism_OBSOLETE
ProteomeDiscoverer:Organism: Sample organism (used for annotation purposes).
UO_degree_fahrenheit
degree fahrenheit: A temperature unit which is equal to 5/9ths of a kelvin. Negative 40 degrees Fahre...
UNIMOD_Ser__Asp
Ser->Asp: Ser->Asp substitution.
MS_reporter_ion_intensity
reporter ion intensity: Intensity of MS2 reporter ion (e.g. iTraq).
MS_PeptideShaker
PeptideShaker: PeptideShaker is a software for the interpretation of proteomics identification result...
UNIMOD_dHex_1_Hex_7_HexNAc_3_Sulf_1_
dHex(1)Hex(7)HexNAc(3)Sulf(1): DHex Hex(7) HexNAc(3) Sulf.
MS_Calculate_Probability_Scores
Calculate Probability Scores: Flag indicating that a probability score for the assessment that a repo...
MS_autoflex_III_smartbeam
autoflex III smartbeam: Bruker Daltonics' autoflex III smartbeam: MALDI TOF.
MS_sequence_coverage
sequence coverage: The percent coverage for the protein based upon the matched peptide sequences (can...
UNIMOD_Asn__Val
Asn->Val: Asn->Val substitution.
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge2: FT high confidence XCorr parameter for c...
UNIMOD_Hex_1_HexNAc_3_
Hex(1)HexNAc(3): Hex HexNAc(3).
MS_unmodified_peptide_sequence
unmodified peptide sequence: A sequence of letter symbols denoting the order of amino acids that comp...
UNIMOD_Cys__Asn
Cys->Asn: Cys->Asn substitution.
UNIMOD_Gly__Trp
Gly->Trp: Gly->Trp substitution.
MS_Shimadzu_Scientific_Instruments_instrument_model
Shimadzu Scientific Instruments instrument model: Shimadzu Scientific Instruments instrument model...
MS_IKES_OBSOLETE
IKES (ion kinetic energy spectrometry): A method of analysis in which a beam of ions is separated acc...
MS_SpectraST_discriminant_score_F
SpectraST:discriminant score F: SpectraST spectrum score.
UNIMOD_Hex_1_HexNAc_2_
Hex(1)HexNAc(2): Hex1HexNAc2.
MS_Andromeda_result_file
Andromeda result file: Andromeda result file output format.
MS_ProLuCID_xcorr
ProLuCID:xcorr: The ProLuCID result 'XCorr'.
UNIMOD_ICPL
ICPL: Bruker Daltonics SERVA-ICPL(TM) quantification chemistry, light form.
UO_femtogram
femtogram: A mass unit which is equal to 10^[-15] g.
UNIMOD_Thr__Ser
Thr->Ser: Thr->Ser substitution.
MS_TagRecon_MVH
TagRecon:MVH (MyriMatch:MVH): Using the multivariate hypergeometric distribution and a peak list divi...
UNIMOD_Tyr__Gly
Tyr->Gly: Tyr->Gly substitution.
UO_year
year: A time unit which is equal to 12 months which is science is taken to be equal to 365...
MS_emission_spectrum
emission spectrum: A plot of the relative intensity of electromagnetic radiation emitted by atoms or ...
MS_CRM_chromatogram_OBSOLETE
CRM chromatogram (consecutive reaction monitoring chromatogram): Chromatogram created by creating an ...
MS_TOPP_OpenSwathDecoyGenerator
TOPP OpenSwathDecoyGenerator: Generates decoys according to different models for a specific TraML...
MS_TMT_reagent_128
TMT reagent 128: The name of the sample labelled with the TMT reagent 128.
MS_source_potential
source potential: Potential difference at the MS source in volts.
UO_volume_unit
volume unit: A unit which is a standard measure of the amount of space occupied by any substance...
MS_convex_hull_baseline_reduction
convex hull baseline reduction: Constructs the baseline by fitting multiple parabolas to the spectrum...
MS_protein_group_passes_threshold
protein group passes threshold: A Boolean attribute to determine whether the protein group has passed...
MS_electron_affinity_OBSOLETE
electron affinity: The electron affinity of M is the minimum energy required for the process M- ...
MS_database_UniProtKB
database UniProtKB: The name of the UniProtKB knowledgebase.
UNIMOD_Hex_1_HexNAc_1_dHex_1_
Hex(1)HexNAc(1)dHex(1): Hex1HexNAc1dHex1.
MS_SRM_quantitation_analysis
SRM quantitation analysis: Selected Reaction Monitoring workflow (XIC quantitation of precursor / fra...
MS_____K____P_
(?<=K)(?!P): Regular expression for Lys-C.
MS_ion_neutral_complex_OBSOLETE
ion/neutral complex: A particular type of transition state that lies between precursor and product io...
UO_millicurie
millicurie: An activity (of a radionuclide) unit which is equal to one thousandth of a curie or 10^[-...
UNIMOD_Hex_5_HexNAc_4_NeuAc_1_
Hex(5)HexNAc(4)NeuAc(1): Hex(5) HexNAc(4) NeuAc.
MS_Andi_MS_format
Andi-MS format: AIA Analytical Data Interchange file format for mass spectrometry data...
MS_MS2_tag_based_proteingroup_level_quantitation
MS2 tag-based proteingroup level quantitation: MS2 tag-based proteingroup level quantitation.
UNIMOD_Biotin_Thermo_21360
Biotin:Thermo-21360: Was Biotin-PEO4-hydrazide.
UNIMOD_His__Cys
His->Cys: His->Cys substitution.
MS_TSQ_Endura
TSQ Endura: Thermo Scientific TSQ Endura MS.
UNIMOD_EEEDVIEVYQEQTGG
EEEDVIEVYQEQTGG: Sumoylation by SUMO-1 after Cyanogen bromide (CNBr) cleavage.
std::vector< std::string > exactSynonyms
MS_count_of_identified_proteins
count of identified proteins: The number of proteins that have been identified, which must match the ...
UNIMOD_Hex_3_HexNAc_3_NeuAc_1_
Hex(3)HexNAc(3)NeuAc(1): Hex(3) HexNAc(3) NeuAc.
MS_SymBiot_XVI
SymBiot XVI: Applied Biosystems/MDS SCIEX SymBiot XVI MS.
MS_Scaffold_input_parameter
Scaffold input parameter: Search engine input parameters specific to Scaffold.
MS_ProteomeDiscoverer_Activation_Type_OBSOLETE
ProteomeDiscoverer:Activation Type: Fragmentation method used (CID, MPD, ECD, PQD, ETD, HCD, Any).
MS_mass_table_source
mass table source: Children of this term specify the source of the mass table used.
MS_database_EST
database EST: Expressed sequence tag nucleotide sequence database.
MS_BioTOF_II
BioTOF II: Bruker Daltonics' BioTOF II: ESI TOF.
MS_energy_unit_OBSOLETE
energy unit: Energy units are represented in either eV or Joules.
UNIMOD_Hex_2_HexNAc_2_
Hex(2)HexNAc(2): Hex2HexNAc2.
MS_MaRiMba_OBSOLETE
MaRiMba: Software used to predict transitions for selected reaction monitoring experiments based on o...
UNIMOD_Arg__His
Arg->His: Arg->His substitution.
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.
MS_PAnalyzer_non_conclusive_protein
PAnalyzer:non-conclusive protein: A protein sharing all its matched peptides with either conclusive o...
MS_local_FLR_at_threshold
local FLR at threshold: Local false localization rate for the bottom item in list of localizations so...
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_spectrum_same_set_protein
spectrum same-set protein: A protein which is indistinguishable or equivalent to another protein...
MS_SpectraFilter_OBSOLETE
SpectraFilter: Applies a filter to peak spectra.
MS_TOPP_feature_linker
TOPP feature linker: Feature linker component of the TOPP software.
MS_ratio_calculation_method
ratio calculation method: Method used to calculate the ratio.
UNIMOD_Iodoacetanilide_13C_6_
Iodoacetanilide:13C(6): 13C labelled iodoacetanilide derivative.
MS_ASAPRatio
ASAPRatio: A program in the TPP that calculates PSM, peptide, and protein-level abundances based on 2...
MS_number_of_unmatched_peaks
number of unmatched peaks: The number of unmatched peaks.
UNIMOD_Microcin
Microcin: Microcin E492 siderophore ester from serine.
MS_Micromass_PKL_format
Micromass PKL format: Micromass PKL file format.
UNIMOD_dHex_1_Hex_4_HexNAc_3_
dHex(1)Hex(4)HexNAc(3): DHex Hex(4) HexNAc(3).
UNIMOD_Phosphoguanosine
Phosphoguanosine: Phospho-guanosine.
MS_search_input_details
search input details: Details describing the search input.
UNIMOD_Gln__Gly
Gln->Gly: Gln->Gly substitution.
MS______FL__
(?<=[FL]): Regular expression for PepsinA.
MS_gene_name
gene name: Name of the gene from which the protein is translated.
MS_sample_state
sample state: The chemical phase of a pure sample, or the state of a mixed sample.
MS_inlet_temperature
inlet temperature: The temperature of the inlet of a mass spectrometer.
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).
MS_ProteomeDiscoverer_SEQUEST_NTerminal_Modification
ProteomeDiscoverer:SEQUEST:NTerminal Modification: Dynamic N-terminal modification that is used durin...
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_Thr__Asn
Thr->Asn: Thr->Asn substitution.
MS_PepFinder
PepFinder: Thermo Scientific PepFinder BioPharma analysis software.
UNIMOD_Bodipy
Bodipy: Bodipy modifications onto cysteine.
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_quantile_normalization__proteins
quantile normalization, proteins: Normalization of protein values to approach the same distribution...
MS_peptide_phosphoRS_score
peptide:phosphoRS score: phosphoRS score for PTM site location at the peptide-level.
MS_eight_sample_run
eight sample run: The raw file contains the run of eight samples (e.g. 8-plex iTraq).
UO_millimetres_of_mercury
millimetres of mercury: A unit of pressure equal to the amount of fluid pressure one millimeter deep ...
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_Discoverer_MSF_format
Discoverer MSF format: Source file for this mzIdentML was in Thermo Scientific Discoverer MSF format...
MS_Comet_sprank
Comet:sprank: The Comet result 'SpRank'.
UO_derived_unit_OBSOLETE
derived unit: A unit which is derived from base units.
MS_PSM_level_e_value
PSM-level e-value: Estimation of the e-value for peptide spectrum matches.
MS_DataAnalysis
DataAnalysis: Bruker software for data analysis.
MS_SEQUEST_PeptideNumber
SEQUEST:PeptideNumber: The SEQUEST result '#' in out file (peptide).
UNIMOD_DMPO
DMPO: DMPO spin-trap nitrone adduct.
MS_ICPL_reagent_10
ICPL reagent 10: The name of the sample labelled with the ICPL reagent 10.
UNIMOD_Hex_6_HexNAc_3_Phos_1_
Hex(6)HexNAc(3)Phos(1): Hex(6) HexNAc(3) Phos.
MS_esquire_4000
esquire 4000: Bruker Daltonics' esquire 4000: linear ion trap, ESI, MALDI, Nanospray, APCI, APPI.
UNIMOD_Sulfo_NHS_LC_LC_Biotin
Sulfo-NHS-LC-LC-Biotin: Biot_LC_LC.
MS_FASTA_format
FASTA format: The sequence database was stored in the FASTA format.
MS_decoy_DB_from_nr_OBSOLETE
decoy DB from nr: Decoy database from a non-redundant GenBank sequence database.
UO_lux
lux: An illuminance unit which is equal to the illuminance produced by 1 lumen evenly spread over an ...
MS_isolation_window_target_m_z
isolation window target m/z: The primary or reference m/z about which the isolation window is defined...
UO_katal_per_cubic_meter
katal per cubic meter: A catalytic (activity) concentration unit which is equal to 1 katal activity o...
UNIMOD_Cation_Na
Cation:Na: Sodium adduct.
MS_LCQ_Advantage
LCQ Advantage: ThermoFinnigan LCQ Advantage MS.
UNIMOD_Succinyl_13C_4_
Succinyl:13C(4): Succinic anhydride labeling reagent, heavy form (+4amu, 4C13), N-term & K...
MS_moving_belt
moving belt: Continuous moving surface in the form of a belt which passes through an ion source carry...
UNIMOD_NEM_2H_5__H2O
NEM:2H(5)+H2O: D5 N-ethylmaleimide+water on cysteines.
MS_mzIdentML_format
mzIdentML format: The mzIdentML format for peptide and protein identification data from the PSI...
MS_label_free_peptide_level_quantitation
label-free peptide level quantitation: Label-free peptide level quantitation.
UNIMOD_BADGE
BADGE: Bisphenol A diglycidyl ether derivative.
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 ...
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_common_search_engine_input_parameter
common search engine input parameter: Search engine input parameter that is shared by more than one s...
UNIMOD_Gly__Glu
Gly->Glu: Gly->Glu substitution.
UNIMOD_Thiadiazole
Thiadiazole: Thiadiazolydation of Cys.
MS_Progenesis_normalization
Progenesis normalization: Normalization as performed by Progenesis LC-MS.
UNIMOD_Hex_2_HexNAc_3_NeuGc_1_
Hex(2)HexNAc(3)NeuGc(1): Hex(2) HexNAc(3) NeuGc.
UNIMOD_Hex_2_HexNAc_2_NeuAc_1_Sulf_1_
Hex(2)HexNAc(2)NeuAc(1)Sulf(1): Hex(2) HexNAc(2) NeuAc Sulf.
UNIMOD_Asn__Ser
Asn->Ser: Asn->Ser substitution.
MS_decoy_DB_from_UniProtKB_TrEMBL_OBSOLETE
decoy DB from UniProtKB/TrEMBL: Decoy database from a TrEMBL protein sequence database.
MS_BioTOF_III
BioTOF III: Bruker Daltonics' BioTOF III: ESI TOF.
UNIMOD_Ala__Met
Ala->Met: Ala->Met substitution.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Precursor_Overtones
ProteomeDiscoverer:Non-Fragment Filter:Remove Precursor Overtones: Determines whether precursor overt...
MS_paul_ion_trap_OBSOLETE
paul ion trap: A device that permits the trapping of ions by means of an alternating current voltage...
MS______FYWLKR_____P_
(?<=[FYWLKR])(?!P): Regular expression for TrypChymo.
MS_frag__x_ion
frag: x ion: Fragmentation information, type of product: x ion.
MS_suface_ionization_OBSOLETE
suface ionization: The ionization of a neutral species when it interacts with a solid surface with an...
MS_Laser_Ionization_MERGE_OBSOLETE
Laser Ionization MERGE (Laser Desorption): The formation of ions through the interaction of a laser w...
UO_electric_current_unit
electric current unit: A unit which is a standard measure of the flow of electric charge...
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_HCT
HCT: Bruker Daltonics' HCT: ESI Q-TOF, Nanospray, APCI, APPI.
MS_ProteomeDiscoverer_ion_settings
ProteomeDiscoverer:ion settings: Specifies the fragment ions and neutral losses that are calculated...
UNIMOD_Trp__Tyr
Trp->Tyr: Trp->Tyr substitution.
MS_SRM_proteingroup_level_quantitation
SRM proteingroup level quantitation: Selected Reaction Monitoring proteingroup level quantitation...
UNIMOD_Trp__Glu
Trp->Glu: Trp->Glu substitution.
MS_consecutive_reaction_monitoring_chromatogram_OBSOLETE
consecutive reaction monitoring chromatogram: Chromatogram created by creating an array of the measur...
MS_AutoSpec_Premier
AutoSpec Premier: Waters AutoSpec Premier.
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...
UNIMOD_dHex_1_Hex_5_
dHex(1)Hex(5): Hex5dHex1.
UNIMOD_Asn__Tyr
Asn->Tyr: Asn->Tyr substitution.
MS_PubMed_identifier
PubMed identifier: A unique identifier for a publication in the PubMed database (MIR:00000015).
MS_n_terminal_flanking_residue
n-terminal flanking residue: The residue preceding the first amino acid in the peptide sequence as it...
UNIMOD_Label_2H_4_
Label:2H(4): 4,4,5,5-D4 Lysine.
UNIMOD_Thr__Gln
Thr->Gln: Thr->Gln substitution.
MS_regular_expression_for_interaction_scores_derived_from_cross_linking
))
MS_Voyager_Biospectrometry_Workstation_System
Voyager Biospectrometry Workstation System: Applied Biosystems MALDI-TOF data acquisition and analysi...
MS_TOPP_OpenSwathAnalyzer
TOPP OpenSwathAnalyzer: Picks peaks and finds features in an SRM experiment.
MS_PolarisQ
PolarisQ: ThermoFinnigan PolarisQ MS.
MS_Trypsin_P
Trypsin/P: Cleavage agent Trypsin/P.
UNIMOD_Cys__ethylaminoAla
Cys->ethylaminoAla: Carbamidomethylated Cys that undergoes beta-elimination and Michael addition of e...
MS_file_format_conversion
file format conversion: Conversion of one file format to another.
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...
UNIMOD_Xlink_DMP
Xlink:DMP: Both ends of crosslink attached to same peptide.
MS_MS_GF_QValue
MS-GF:QValue: MS-GF Q-value.
MS_TODOscoring_model_OBSOLETE
TODOscoring model: OBSOLETE: There is Phenyx:ScoringModel for Phenyx! Scoring model (more detailed gr...
MS_param__c_ion
param: c ion: Parameter information, type of product: c ion with charge on the N-terminal side...
MS_param__internal_ya_ion
param: internal ya ion: Parameter information, type of product: internal ya ion.
MS_chromatogram_title
chromatogram title: A free-form text title describing a chromatogram.
UO_nanogram
nanogram: A mass unit which is equal to one thousandth of one millionth of a gram or 10^[-9] g...
MS_Bruker_Daltonics_apex_series
Bruker Daltonics apex series: Bruker Daltonics' apex series.
MS_FA
FA (flowing afterglow): An ion source immersed in a flow of helium or other inert buffer gas that car...
MS_selected_ion_monitoring_spectrum
selected ion monitoring spectrum (SIM spectrum): Spectrum obtained with the operation of a mass spect...
UNIMOD_Met__Lys
Met->Lys: Met->Lys substitution.
MS_ProteomeDiscoverer_Relaxed_Score_Threshold
ProteomeDiscoverer:Relaxed Score Threshold: Specifies the threshold value for relaxed scoring...
MS_preprocessing_software
preprocessing software: Preprocessing software.
UNIMOD_EGCG2
EGCG2: (-)-dehydroepigallocatechin.
MS_Phenyx_input_parameter
Phenyx input parameter: Search engine input parameters specific to Phenyx.
UNIMOD_Hex_2_HexNAc_3_NeuAc_1_Sulf_1_
Hex(2)HexNAc(3)NeuAc(1)Sulf(1): Hex(2) HexNAc(3) NeuAc Sulf.
UNIMOD_Met__His
Met->His: Met->His substitution.
MS_Paul_Ion_trap
Paul Ion trap (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three d...
MS_ProteomeDiscoverer_Xtract_Lowest_Charge
ProteomeDiscoverer:Xtract:Lowest Charge: Lowest charge state that is allowed for the deconvolution of...
MS_ten_percent_valley
ten percent valley: An attribute of resolution when the ratio between adjacent signals is 10% of the ...
UNIMOD_dHex_1_Hex_5_HexNAc_4_
dHex(1)Hex(5)HexNAc(4): Fucosylated biantennary.
UNIMOD_Phe__Ala
Phe->Ala: Phe->Ala substitution.
MS_Byonic_Score
Byonic:Score: The Byonic score is the primary indicator of PSM correctness. The Byonic score reflects...
UNIMOD_Menadione
Menadione: Menadione quinone derivative.
UNIMOD_Hex_2_HexNAc_3_NeuAc_3_
Hex(2)HexNAc(3)NeuAc(3): Hex(2) HexNAc(3) NeuAc(3).
MS_PSM_level_result_list_statistic
PSM-level result list statistic: Statistic pertaining to the full list of all PSMs.
UNIMOD_Met__Xle
Met->Xle: Met->Leu/Ile substitution.
MS_source_sprayer_manufacturer
source sprayer manufacturer: The source sprayer manufacturer.
UO_effective_dose_unit
effective dose unit: A unit which is a standard measure of the estimate of the stochastic effect that...
MS_Byonic_Best_Score
Byonic:Best Score: Best (largest) Byonic score of a PSM.
MS_sum_peak_picking
sum peak picking (area peak picking): Spectral peak processing conducted on the acquired data to conv...
MS_PASSEL_experiment_URI
PASSEL experiment URI: URI that allows access to a PASSEL experiment.
MS_SRM_software
SRM software: Software used to predict, select, or optimize transitions or analyze the results of sel...
MS_wavelet_transformation_smoothing
wavelet transformation smoothing: The random noise is removed by using the undecimated wavelet transf...
MS_S_lens_voltage
S-lens voltage: Potential difference setting of the Thermo Scientific S-lens stacked-ring ion guide i...
MS_param__w_ion
param: w ion: Parameter information, type of product: side chain loss w ion.
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_Ascore_software
Ascore software: Ascore software.
UNIMOD_Ser__Asn
Ser->Asn: Ser->Asn substitution.
UNIMOD_Hex_4_HexNAc_4_
Hex(4)HexNAc(4): Biantennary (-1 galactose).
MS_original_nucleic_acid_sequence
original nucleic acid sequence: Specification of the original nucleic acid sequence, prior to a modification. The value slot should hold the DNA or RNA sequence.
UNIMOD_Delta_Hg_1_
Delta:Hg(1): Mercury Mercaptan.
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...
UNIMOD_CyDye_Cy3
CyDye-Cy3: Cy3 CyDye DIGE Fluor saturation dye.
MS_MassHunter_Mass_Profiler
MassHunter Mass Profiler: Software for quantitation and statistical analysis of TOF and Q-TOF LC/MS d...
UNIMOD_Trp__Thr
Trp->Thr: Trp->Thr substitution.
MS_PTM_localization_single_result_statistic
PTM localization single result statistic: Statistic for a single item derived from a post-translation...
MS_BIRD
BIRD (blackbody infrared radiative dissociation): A special case of infrared multiphoton dissociation...
UNIMOD_Arg__Thr
Arg->Thr: Arg->Thr substitution.
MS_precursor_neutral_loss
precursor neutral loss: This term can describe a neutral loss m/z value that is lost from an ion...
MS_single_reaction_monitoring_OBSOLETE
single reaction monitoring: This term is not recommended. See Selected Reaction Monitoring.
MS_data_file_checksum_type
data file checksum type: Checksum is a form of redundancy check, a simple way to protect the integrit...
UNIMOD_Hex_1_HexNAc_1_dHex_1_Me_2_
Hex(1)HexNAc(1)dHex(1)Me(2): Hex HexNAc dHex Me(2).
MS_dye_laser
dye-laser: Dye lasers use an organic dye as the gain medium.
UNIMOD_dHex_2_Hex_4_HexNAc_4_
dHex(2)Hex(4)HexNAc(4): DHex(2) Hex(4) HexNAc(4).
UNIMOD_Hex_1_HexNAc_1_NeuAc_1_Sulf_1_
Hex(1)HexNAc(1)NeuAc(1)Sulf(1): Hex HexNAc NeuAc Sulf.
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. ...
MS_frag__z_ion___H2O
frag: z ion - H2O: Fragmentation information, type of product: z ion without water.
UNIMOD_dHex_2_Hex_4_HexNAc_4_Sulf_1_
dHex(2)Hex(4)HexNAc(4)Sulf(1): DHex(2) Hex(4) HexNAc(4) Sulf.
UO_concentration_unit
concentration unit: A unit which represents a standard measurement of how much of a given substance t...
MS_amaZon_X
amaZon X: Bruker Daltonics' amaZon X: ESI quadrupole ion trap, APCI, APPI, ETD, PTR.
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...
MS_____R____P_
(?<=R)(?!P): Regular expression for Arg-C.
MS_LTQ_XL_ETD
LTQ XL ETD: Thermo Scientific LTQ XL MS with ETD.
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_proteogenomics_search
proteogenomics search: Proteogenomics search performed.
MS_jPOST_dataset_identifier
jPOST dataset identifier: Dataset identifier issued by the jPOST repository. A dataset can refer to e...
MS_Byonic__Peptide_AbsLogProb
Byonic: Peptide AbsLogProb: The absolute value of the log-base10 of the Byonic posterior error probab...
UNIMOD_Hex_8_HexNAc_2_
Hex(8)HexNAc(2): Hex(8) HexNAc(2).
MS_peptide_Ascore
peptide:Ascore: A-score for PTM site location at the peptide-level.
MS_kinetic_energy_release_distribution_OBSOLETE
kinetic energy release distribution: Distribution of values of translational kinetic energy release f...
UNIMOD_Dap_DSP
Dap-DSP: Diaminopimelic acid-DSP monolinked.
MS_maXis
maXis: Bruker Daltonics' maXis: ESI Q-TOF, Nanospray, APCI, APPI.
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_dHex_1_Hex_6_HexNAc_2_
dHex(1)Hex(6)HexNAc(2): DHex Hex(6) HexNAc(2).
MS_Bruker_Container_format
Bruker Container format: Bruker Container raw file format.
UNIMOD_Hex_3_HexNAc_6_
Hex(3)HexNAc(6): Hex(3) HexNAc(6).
UNIMOD_DiLeu4plex118
DiLeu4plex118: Accurate mass for DiLeu 118 isobaric tag.
UNIMOD_Diacylglycerol
Diacylglycerol: Diacylglycerol.
MS_ProteoWizard_SeeMS
ProteoWizard SeeMS: An interactive GUI application to view and filter mass spectrometry data in a var...
MS_DTASelect_format
DTASelect format: DTASelect file format.
MS_MassIVE_dataset_URI
MassIVE dataset URI: URI that allows the access to one dataset in the MassIVE repository. A dataset can refer to either a single sample as part of a study, or all samples that are part of the study corresponding to a publication.
MS_database_IPI_cow
database IPI_cow: International Protein Index database for Bos taurus sequences.
UNIMOD_Cys__Thr
Cys->Thr: Cys->Thr substitution.
MS_TOPP_OpenSwathChromatogramExtractor
TOPP OpenSwathChromatogramExtractor: Extract chromatograms (XIC) from a MS2 map file.
MS_intensity_unit
intensity unit: Intensity units are commonly arbitrary. Detected in counts per second (cps) when usin...
MS_accelerator_mass_spectrometry_OBSOLETE
accelerator mass spectrometry: A mass spectrometry technique in which atoms extracted from a sample a...
MS_ProteomeDiscoverer_Polarity_Mode_OBSOLETE
ProteomeDiscoverer:Polarity Mode: Polarity mode (positive or negative).
MS_prolate_traochoidal_mass_spectrometer_OBSOLETE
prolate traochoidal mass spectrometer: A mass spectrometer in which the ions of different m/z are sep...
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.
UO_dalton
dalton: An independently to the base SI units defined mass unit which is equal to one twelfth of the ...
UNIMOD_Thr__Arg
Thr->Arg: Thr->Arg substitution.
UO_millisievert
millisievert: A dose equivalent unit which is equal to one thousandth of a sievert or 10^[-3] Sv...
UNIMOD_Hex_6_HexNAc_4_Me_3_
Hex(6)HexNAc(4)Me(3): Hex(6) HexNAc(4) Me(3).
UNIMOD_Val__His
Val->His: Val->His substitution.
UNIMOD_His__Gln
His->Gln: His->Gln substitution.
MS_ProteomeDiscoverer_SEQUEST_Peptide_Relevance_Factor
ProteomeDiscoverer:SEQUEST:Peptide Relevance Factor: Specifies a factor to apply to the protein score...
MS_Q_TRAP
Q TRAP: Applied Biosystems/MDS SCIEX Q TRAP MS.
MS_LTQ_FT
LTQ FT: Finnigan LTQ FT MS.
UNIMOD_Label_13C_6_15N_2__Dimethyl
Label:13C(6)15N(2)+Dimethyl: Dimethyl 13C(6)15N(2) Silac label.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Polarity_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Polarity Replacements: Specifies the polarity of th...
MS_SEQUEST_TopPercentMostIntense
SEQUEST:TopPercentMostIntense: Specify "percentage" as value of the CVParam.
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...
UNIMOD_dHex_3_Hex_2_HexNAc_3_Kdn_1_
dHex(3)Hex(2)HexNAc(3)Kdn(1): DHex(3) Hex(2) HexNAc(3) Kdn.
UO_purity_percentage
purity percentage: A dimensionless percent unit which denotes the homogeneity of a biomaterial...
MS_MS_GF_PepQValue
MS-GF:PepQValue: MS-GF peptide-level Q-value.
MS_spectrum_generation_information
spectrum generation information: Vocabularies describing the spectrum generation information.
MS_average_product_ion_intensity
average product ion intensity: Average value of product ion intensity in a collection of identified s...
MS_normalized_spectral_abundance_factor
normalized spectral abundance factor: A normalized spectral abundance factor (NSAF).
MS_basepeak_chromatogram
basepeak chromatogram: Chromatogram created by creating an array of the most intense peaks at each ti...
MS_ProteomeXchange_project_tag
ProteomeXchange project tag: Tag that can be added to a ProteomeXchange dataset, to enable the groupi...
MS_TOPP_EICExtractor
TOPP EICExtractor: Quantifies signals at given positions in (raw or picked) LC/MS maps...
MS_mass_type_settings
mass type settings: The type of mass difference value to be considered by the search engine (monoisot...
MS_Bruker_Container_nativeID_format
Bruker Container nativeID format: Native identifier (UUID).
MS_peptide_level_score_OBSOLETE
peptide level score: Peptide level score.
MS_peptide_sharing_details
peptide sharing details: Accessions Containing Sequence - Accessions for each protein containing this...
UNIMOD_dHex_1_Hex_3_HexNAc_1_
dHex(1)Hex(3)HexNAc(1): DHex Hex(3) HexNAc.
UNIMOD_Cys__Gly
Cys->Gly: Cys->Gly substitution.
MS_nitrogen_rule_OBSOLETE
nitrogen rule: An organic molecule containing the elements C, H, O, S, P, or halogen has an odd nomin...
MS_Lys_C
Lys-C: Endoproteinase Lys-C.
UNIMOD_Gly__Gln
Gly->Gln: Gly->Gln substitution.
UNIMOD_Hex_2_HexNAc_3_NeuAc_2_
Hex(2)HexNAc(3)NeuAc(2): Hex(2) HexNAc(3) NeuAc(2).
MS_secondary_isotope_peak
secondary isotope peak: Fragment ion is an isotopic peak other than that monoisotopic peak...
UNIMOD_Hex_2_HexNAc_2_NeuAc_1_
Hex(2)HexNAc(2)NeuAc(1): Hex(2) HexNAc(2) NeuAc.
MS_retention_time_window_lower_offset
retention time window lower offset: The extent of the retention time window in time units below the t...
UNIMOD_dHex_1_Hex_3_HexA_1_HexNAc_1_
dHex(1)Hex(3)HexA(1)HexNAc(1): DHex Hex(3) HexA HexNAc.
MS_nth_generation_product_ion_spectrum
nth generation product ion spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments designe...
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_TOPP_FeatureFinderCentroided
TOPP FeatureFinderCentroided: Detects two-dimensional features in centroided LC-MS data...
MS_microflex_LRF
microflex LRF: Bruker Daltonics' microflex LRF: MALDI TOF.
MS_parameter_file
parameter file: Parameter file used to configure the acquisition of raw data on the instrument...
UO_percent
percent: A dimensionless ratio unit which denotes numbers as fractions of 100.
UNIMOD_Gln__Glu
Gln->Glu: Gln->Glu substitution.
UNIMOD_Hex_8_Phos_3_
Hex(8)Phos(3): Hex(8) Phos(3).
UNIMOD_Asp__Glu
Asp->Glu: Asp->Glu substitution.
UNIMOD_Dimethyl
Dimethyl: Di-Methylation.
MS_ion_role_OBSOLETE
ion role: Ion Role.
UNIMOD_mTRAQ
mTRAQ: MTRAQ light.
UO_disintegrations_per_minute
disintegrations per minute: An activity (of a radionuclide) unit which is equal to the activity of a ...
UNIMOD_HN2_mustard
HN2_mustard: Modification by hydroxylated mechloroethamine (HN-2).
UNIMOD_Hex_2_HexNAc_4_
Hex(2)HexNAc(4): Hex(2) HexNAc(4).
UNIMOD_dHex_2_Hex_4_
dHex(2)Hex(4): DHex(2) Hex(4).
MS_electron_multiplier_tube
electron multiplier tube: A device to amplify the current of a beam or packet of charged particles or...
MS_overlayer_MALDI_sample_preparation
overlayer MALDI sample preparation: Overlayer method combining features of the crushed-crystal method...
MS_neutral_loss
neutral loss: The loss of an uncharged species during a rearrangement process. The value slot holds t...
MS_ProteomeDiscoverer_SEQUEST_Weight_of_x_Ions
ProteomeDiscoverer:SEQUEST:Weight of x Ions: Uses x ions for spectrum matching with this relative fac...
MS_Bruker_Daltonics_micrOTOF_series
Bruker Daltonics micrOTOF series: Bruker Daltonics' micrOTOF series.
MS_translation_table
translation table: The translation table used to translate the nucleotides to amino acids...
MS_LTQ_Orbitrap_XL
LTQ Orbitrap XL: LTQ Orbitrap XL.
MS_spectrum_from_database_integer_nativeID_format
spectrum from database integer nativeID format: Native format defined by databasekey=xsd:long.
UNIMOD_Arg__Xle
Arg->Xle: Arg->Leu/Ile substitution.
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge1: Standard high confidence XCorr paramete...
MS_taxonomy__NCBI_TaxID
taxonomy: NCBI TaxID: This term is used if a NCBI TaxID is specified, e.g. 9606 for Homo sapiens...
UNIMOD_dHex_2_Hex_1_HexNAc_2_Kdn_1_
dHex(2)Hex(1)HexNAc(2)Kdn(1): DHex(2) Hex HexNAc(2) Kdn.
MS_ProteomeDiscoverer_Spectrum_Exporter_Export_Format_OBSOLETE
ProteomeDiscoverer:Spectrum Exporter:Export Format: Format of the exported spectra (dta...
MS_SRM_transition_attribute
SRM transition attribute: Attribute associated with a SRM transition.
UO_microgram_per_milliliter
microgram per milliliter: A mass unit density which is equal to mass of an object in micrograms divid...
UNIMOD_Cation_K
Cation:K: Replacement of proton by potassium.
MS_DeBunker_score_threshold
DeBunker:score threshold: Threshold for DeBunker PTM site location score.
MS_Synapt_G2_S_MS
Synapt G2-S MS: Waters oa-ToF based Synapt G2-S MS.
UNIMOD_Label_13C_9__Phospho
Label:13C(9)+Phospho: C13 label (Phosphotyrosine).
UNIMOD_ICAT_H_13C_6_
ICAT-H:13C(6): N-iodoacetyl, p-chlorobenzyl-13C6-glucamine.
MS_search_tolerance_plus_value
search tolerance plus value:
MS_ProteomeDiscoverer_Spectrum_Selector_Ionization_Source_OBSOLETE
ProteomeDiscoverer:Spectrum Selector:Ionization Source: Ionization source (electro-, nano-, thermospray, electron impact, APCI, MALDI, FAB etc).
UNIMOD_PyMIC
PyMIC: 3-methyl-2-pyridyl isocyanate.
MS_instrument_model
instrument model: Instrument model name not including the vendor's name.
UNIMOD_Delta_H_4_C_3_
Delta:H(4)C(3): Propionaldehyde +40.
MS_resonance_ion_ejection_OBSOLETE
resonance ion ejection: A mode of ion ejection in a quadrupole ion trap that relies on a auxiliary ra...
MS_one_sample_run
one sample run: The raw file contains the run of one sample (e.g. spectral counting, LC-MS label-free).
MS_reflectron_on
reflectron on: Reflectron is on.
UNIMOD_dHex_1_Hex_6_HexNAc_4_
dHex(1)Hex(6)HexNAc(4): DHex Hex(6) HexNAc(4).
UO_magnetic_flux_unit
magnetic flux unit: A unit which is a standard measure of quantity of magnetism, taking account of th...
MS_protein_rank
protein rank: The rank of the protein in a list sorted by the search engine.
MS_SID
SID (surface-induced dissociation): Fragmentation that results from the collision of an ion with 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_instrument_configuration
instrument configuration (instrument): Description of the instrument or the mass spectrometer.
MS_positive_ion_mode_OBSOLETE
positive ion mode: OBSOLETE.
UNIMOD_Pro__Thr
Pro->Thr: Pro->Thr substitution.
UO_unit
unit: A unit of measurement is a standardized quantity of a physical quality.
MS_H2O_neutral_loss_OBSOLETE
H2O neutral loss: Neutral loss of water.
UNIMOD_Biotin_Thermo_88310
Biotin:Thermo-88310: Desthiobiotin modification of lysine.
MS_alternating_OBSOLETE
alternating: Alternating.
UNIMOD_Atto495Maleimide
Atto495Maleimide: High molecular absorption maleimide label for proteins.
UNIMOD_PEITC
PEITC: Phenethyl isothiocyanate.
UNIMOD_Diisopropylphosphate
Diisopropylphosphate: O-Diisopropylphosphorylation.
MS_MS2_tag_based_protein_level_quantitation
MS2 tag-based protein level quantitation: MS2 tag-based protein level quantitation.
UNIMOD_Diiodo
Diiodo: Di-Iodination.
MS_modification_specificity_rule
modification specificity rule: The specificity rules for the modifications applied by the search engi...
UNIMOD_dHex_1_Hex_3_HexNAc_3_Pent_3_
dHex(1)Hex(3)HexNAc(3)Pent(3): DHex Hex(3) HexNAc(3) Pent(3).
UNIMOD_Asp__Pro
Asp->Pro: Asp->Pro substitution.
UNIMOD_Glu__Xle
Glu->Xle: Glu->Leu/Ile substitution.
MS_micrOTOF_Q
micrOTOF-Q: Bruker Daltonics' micrOTOF-Q: ESI Q-TOF, Nanospray, APCI, APPI.
MS_peptide_consensus_RT
peptide consensus RT: Peptide consensus retention time.
MS_ProteomeDiscoverer_input_parameter
ProteomeDiscoverer input parameter: Search engine input parameters specific to ProteomeDiscoverer.
UNIMOD_dHex_1_Hex_4_HexNAc_4_Sulf_1_
dHex(1)Hex(4)HexNAc(4)Sulf(1): DHex Hex(4) HexNAc(4) Sulf.
UNIMOD_Delta_H_2_C_3_
Delta:H(2)C(3): Acrolein addition +38.
UNIMOD_Hex_3_HexNAc_6_Sulf_1_
Hex(3)HexNAc(6)Sulf(1): Hex(3) HexNAc(6) Sulf.
MS_offset_voltage
offset voltage: The potential difference between two adjacent interface voltages affecting in-source ...
MS_greylag
greylag: Greylag identification software.
UNIMOD_HexN
HexN: Hexosamine.
UNIMOD_ICAT_H
ICAT-H: N-iodoacetyl, p-chlorobenzyl-12C6-glucamine.
MS_quantification_information
quantification information: Quantification information.
MS_source_interface
source interface: The source interface.
MS_secondary_ionization
secondary ionization: The process in which ions are ejected from a sample surface as a result of bomb...
UNIMOD_Carboxymethyl
Carboxymethyl: Iodoacetic acid derivative.
MS_ProteomeDiscoverer_Spectrum_Score_Filter_Let_Pass_Above_Scores
ProteomeDiscoverer:Spectrum Score Filter:Let Pass Above Scores: Determines whether spectra with score...
UNIMOD_Hex_3_HexNAc_6_NeuAc_1_
Hex(3)HexNAc(6)NeuAc(1): Hex(3) HexNAc(6) NeuAc.
MS_Comet_spscore
Comet:spscore: The Comet result 'SpScore'.
UO_kilobyte
kilobyte: An information unit which is equal to 1000 bytes.
MS_ICAT_heavy_reagent
ICAT heavy reagent: The name of the sample labelled with the heavy ICAT label.
MS_Mascot_query_number
Mascot query number: Native format defined by query=xsd:nonNegativeInteger.
MS_DB_filter_on_sequence_pattern
DB filter on sequence pattern: Filtering applied specifically by amino acid sequence pattern...
UO_femtomolar
femtomolar: A unit of molarity which is equal to 10^[-15] M.
MS_DTASelect
DTASelect: Analysis software designed to reassemble the SEQUEST peptide identifications and to highli...
MS_Bruker_Daltonics_amaZon_series
Bruker Daltonics amaZon series: Bruker Daltonics' amaZon series.
UNIMOD_Pro__Cys
Pro->Cys: Pro->Cys substitution.
UO_cubic_centimeter_per_mole
cubic centimeter per mole: A molar volume unit which is equal to 1 cubic centimeter occupied by one m...
UNIMOD_Label_2H_4__Acetyl
Label:2H(4)+Acetyl: Acetyl 4,4,5,5-D4 Lysine.
UNIMOD_Gly__Phe
Gly->Phe: Gly->Phe substitution.
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Integration_Window_Tolerance
ProteomeDiscoverer:Reporter Ions Quantizer:Integration Window Tolerance: Specifies the mass-to-charge...
MS_Phenyx_MinPepLength
Phenyx:MinPepLength: The minimal number of residues for a peptide to be considered for a valid identi...
MS_DTA_format
DTA format: SEQUEST DTA file format.
MS_TOPP_map_aligner
TOPP map aligner: Map aligner component of the TOPP software.
UNIMOD_RNPXL
RNPXL: Simulate peptide-RNA conjugates.
UNIMOD_dHex_1_Hex_3_HexNAc_6_
dHex(1)Hex(3)HexNAc(6): DHex Hex(3) HexNAc(6).
UNIMOD_Hex_3_HexNAc_3_Sulf_1_
Hex(3)HexNAc(3)Sulf(1): Hex(3) HexNAc(3) Sulf.
UNIMOD_dHex_1_Hex_4_HexNAc_4_
dHex(1)Hex(4)HexNAc(4): Fucosylated biantennary (-1 galactose).
MS_Scaffold_Protein_Probability
Scaffold:Protein Probability: Scaffold protein probability score.
UNIMOD_TMT2plex
TMT2plex: Duplex Tandem Mass Tag®.
MS_Bruker_Daltonics_HCT_Series
Bruker Daltonics HCT Series: Bruker Daltonics' HCT Series.
MS_TOPP_SpectraFilterBernNorm
TOPP SpectraFilterBernNorm: Applies a Bern et al normalization to peak spectra.
UNIMOD_Myristoyl
Myristoyl: Myristoylation.
UNIMOD_Label_13C_4_15N_2__GG
Label:13C(4)15N(2)+GG: 13C(4) 15N(2) Lysine glygly.
MS_PeptideShaker_peptide_confidence
PeptideShaker peptide confidence: The probability based PeptideShaker peptide confidence.
MS_DB_filter_taxonomy
DB filter taxonomy: A taxonomy filter was to the database search.
UNIMOD_IED_Biotin
IED-Biotin: Biotinoyl-iodoacetyl-ethylenediamine.
MS_laser_type
laser type: Type of laser used for desorption purpose.
UNIMOD_Methyl_2H_3_13C_1_
Methyl:2H(3)13C(1): Monomethylation.
UNIMOD_dHex_1_Hex_5_HexNAc_2_
dHex(1)Hex(5)HexNAc(2): DHex Hex(5) HexNAc(2).
MS_regular_expression_for_a_digital_object_identifier__DOI_
(?:[.][0-9]+)*/(?:(?!["&\'<>])[^ \r \v\f])+)
MS_Paragon__ID_focus
Paragon: ID focus: A Paragon method setting that allows the inclusion of large sets of features such ...
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...
MS_H_Score_threshold
H-Score threshold: Threshold for H-score PTM site location score.
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.
UNIMOD_AccQTag
AccQTag: 6-aminoquinolyl-N-hydroxysuccinimidyl carbamate.
UNIMOD_Hex_6_Phos_1_
Hex(6)Phos(1): Hex(6) Phos.
UNIMOD_DiART6plex118
DiART6plex118: Accurate mass for DiART6plex 118.
MS_accelerating_voltage
accelerating voltage: The electrical potential used to impart kinetic energy to ions in a mass spectr...
MS_flowing_afterglow
flowing afterglow: An ion source immersed in a flow of helium or other inert buffer gas that carries ...
MS_DB_PI_filter_minimum
DB PI filter minimum: Minimum value of isoelectric point filter.
MS_channeltron
channeltron: A horn-shaped (or cone-shaped) continuous dynode particle multiplier. The ion strikes the inner surface of the device and induces the production of secondary electrons that in turn impinge on the inner surfaces to produce more secondary electrons. This avalanche effect produces an increase in signal in the final measured current pulse.
UO_milliampere
milliampere: An electric current unit current which is equal to one thousandth of an ampere or 10^[-3...
UO_base_pair
base pair: A count unit which contains one nucleotide.
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_isolation_window_upper_limit_OBSOLETE
isolation window upper limit: The highest m/z being isolated in an isolation window.
UNIMOD_Ser__LacticAcid
Ser->LacticAcid: Lactic acid from N-term Ser.
MS_interchannel_delay
interchannel delay: The duration of intervals between scanning, during which the instrument configura...
UO_degree
degree: A plane angle unit which is equal to 1/360 of a full rotation or 1.7453310^[-2] rad...
MS_Mascot_homology_threshold
Mascot:homology threshold: The Mascot result 'homology threshold'.
MS_FileFilter
FileFilter: Extracts or manipulates portions of data from peak, feature or consensus feature files...
UO_rate_unit
rate unit: A unit which represents a standard measurement occurrence of a process per unit time...
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.
UNIMOD_Label_13C_3_
Label:13C(3): 13C3 label for SILAC.
MS_time_digital_converter
time-digital converter: A device for converting a signal of sporadic pluses into a digital representa...
UNIMOD_Thr__Gly
Thr->Gly: Thr->Gly substitution.
UNIMOD_Hex_3_HexNAc_4_NeuAc_1_
Hex(3)HexNAc(4)NeuAc(1): Hex(3) HexNAc(4) NeuAc.
UNIMOD_Met__Aha
Met->Aha: Methionine replacement by azido homoalanine.
MS_experimental_condition__healthy_
experimental condition 'healthy': The experimental condition is 'healthy' in contrast to 'disease'...
MS_postacceleration_detector
postacceleration detector: A detector in which the charged particles are accelerated to a high veloci...
UNIMOD_Hex_5_HexNAc_2_
Hex(5)HexNAc(2): N-linked glycan core.
MS_TOPP_IDConflictResolver
TOPP IDConflictResolver: Resolves ambiguous annotations of features with peptide identifications.
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_Pro__Ala
Pro->Ala: Pro->Ala substitution.
UO_dyne_per_cm
dyne per cm: A surface tension unit which is equal to one dyne per centimeter.
UNIMOD_dHex_2_HexNAc_7_
dHex(2)HexNAc(7): DHex(2) HexNAc(7).
UNIMOD_NIC
NIC: Nicotinic Acid.
UNIMOD_biotinAcrolein298
biotinAcrolein298: Biotin hydrazide labeled acrolein addition +298.
UNIMOD_Cys__Met
Cys->Met: Cys->Met substitution.
MS_TripleTOF_5600_
TripleTOF 5600+: SCIEX TripleTOF 5600+ time-of-flight mass spectrometer.
MS_multiple_ion_monitoring_OBSOLETE
multiple ion monitoring: Data acquired when monitoring the ion current of a few specific m/z values...
MS_ProteomeDiscoverer_Use_Average_Precursor_Mass_OBSOLETE
ProteomeDiscoverer:Use Average Precursor Mass: Use average mass for the precursor.
MS_CS
CS (charge stripping): The reaction of a positive ion with an atom or molecule that results in the re...
MS_explorer
explorer: IonSpec Explorer MS.
MS_MaxQuant_Phospho__STY__Score_Diffs
MaxQuant:Phospho (STY) Score Diffs: The Phospho (STY) Score Diffs from MaxQuant software.
UNIMOD_Xle__Gln
Xle->Gln: Leu/Ile->Gln substitution.
MS_SEQUEST_xcorr
SEQUEST:xcorr: The SEQUEST result 'XCorr'.
UNIMOD_Met__Hse
Met->Hse: Homoserine.
UNIMOD_Delta_H_2_C_3_O_1_
Delta:H(2)C(3)O(1): MDA adduct +54.
MS_Tranche_project_hash
Tranche project hash: Hash assigned by the Tranche resource to a whole project.
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_distributed_normalized_spectral_abundance_factor
distributed normalized spectral abundance factor: A distributed normalized spectral abundance factor ...
MS_TMT_reagent_126
TMT reagent 126: The name of the sample labelled with the TMT reagent 126.
MS_sample_number
sample number: A reference number relevant to the sample under study.
UO_micromolar
micromolar: A unit of molarity which is equal to one millionth of a molar or 10^[-6] M...
UNIMOD_dHex_1_Hex_5_HexNAc_4_Pent_1_
dHex(1)Hex(5)HexNAc(4)Pent(1): DHex Hex(5) HexNAc(4) Pent.
MS_Applied_Biosystems_software
Applied Biosystems software: Applied Biosystems|MDS SCIEX software for data acquisition and analysis...
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_PTMProphet
PTMProphet: A program in the TPP that calculates PTM localization probabilities by re-analyzing the p...
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_m_z_Separation_Method_OBSOLETE
m/z Separation Method: Mass/charge separation Method.
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_Mass_Analyzer_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized Mass Analyzer Replacements: Specifies the mass spec...
UO_parts_per_trillion
parts per trillion: A dimensionless concentration notation which denotes the amount of a given substa...
UNIMOD_Ser__His
Ser->His: Ser->His substitution.
MS_database_IPI_mouse
database IPI_mouse: International Protein Index database for Mus musculus sequences.
MS_EA_OBSOLETE
EA (electron affinity): The electron affinity of M is the minimum energy required for the process M- ...
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge3: Standard medium confidence XCorr para...
MS_MassHunter_Easy_Access
MassHunter Easy Access: Software for open access data acquisition.
MS_EMT
EMT (electron multiplier tube): A device to amplify the current of a beam or packet of charged partic...
UNIMOD_PhosphoHexNAc
PhosphoHexNAc: N-acetylglucosamine-1-phosphoryl.
MS_TOPP_MRMMapper
TOPP MRMMapper: MRMMapper maps measured chromatograms (mzML) and the transitions used (TraML)...
MS_16_bit_float_OBSOLETE
16-bit float: Signed 16-bit float.
UNIMOD_Lys__MetOx
Lys->MetOx: Lys->Met substitution and sulfoxidation.
UNIMOD_Xle__His
Xle->His: Leu/Ile->His substitution.
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_Gly_loss_Amide
Gly-loss+Amide: Enzymatic glycine removal leaving an amidated C-terminus.
MS_DB_composition_only_decoy
DB composition only decoy: Decoy database composition: database contains only decoy entries...
MS_text_format
text format: Simple text file format of "m/z [intensity]" values for a PMF (or single MS2) search...
MS_fast_ion_bombardment
fast ion bombardment: The ionization of any species by the interaction of a focused beam of ions havi...
UO_bit
bit: An information unit which refers to a digit in the binary numeral system, which consists of base...
MS_Trans_Proteomic_Pipeline
Trans-Proteomic Pipeline: A suite of open source tools for the processing of MS2 proteomics data deve...
MS_Electronic_Ionization_OBSOLETE
Electronic Ionization: The ionization of an atom or molecule by electrons that are typically accelera...
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_TIQAM
TIQAM: Software used to predict, select, and optimize transitions for selected reaction monitoring ex...
UNIMOD_Phe__Cys
Phe->Cys: Phe->Cys substitution.
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_QTRAP_5500
QTRAP 5500: Applied Biosystems|MDS SCIEX QTRAP 5500.
UNIMOD_Label_13C_6_
Label:13C(6): 13C(6) Silac label.
MS_charge_array
charge array: A data array of charge values.
MS_decoy_SRM_transition
decoy SRM transition: A transition not expected to be present in the sample and used to calculate sta...
UNIMOD_dHex_2_Hex_2_HexNAc_2_NeuAc_1_
dHex(2)Hex(2)HexNAc(2)NeuAc(1): DHex(2) Hex(2) HexNAc(2) NeuAc.
MS_TOF_MS_OBSOLETE
TOF-MS (time-of-flight mass spectrometer): An instrument that separates ions by m/z in a field-free r...
UO_nanogray
nanogray: An absorbed dose unit which is equal to one thousandth of a millionth of a gray or 10^[-9] ...
UNIMOD_dHex_1_Hex_3_HexNAc_5_
dHex(1)Hex(3)HexNAc(5): DHex Hex(3) HexNAc(5).
MS_peptide_sequence_level_local_FDR
peptide sequence-level local FDR: Estimation of the local false discovery rate for distinct peptides ...
MS_Q_Exactive_HF
Q Exactive HF: Thermo Scientific Q Exactive.
MS_data_processing_action
data processing action: Data processing attribute used to describe the type of data processing perfor...
MS_spectrum_type
spectrum type: Spectrum type.
MS_ANOVA_test
ANOVA-test: Perform an ANOVA-test (more than two groups). Specify in string value, which version is performed.
MS_median_baseline_reduction
median baseline reduction: The spectrum that will be baseline subtracted is divided into a number of ...
MS_preset_scan_configuration
preset scan configuration: A user-defined scan configuration that specifies the instrumental settings...
UO_enzyme_unit
enzyme unit: A catalytic unit activity which is equal to the amount of the enzyme that catalyzes the ...
UO_angstrom
angstrom: A length unit which is equal to 10 [-10] m.
UNIMOD_DimethylArsino
DimethylArsino: Reaction with dimethylarsinous (AsIII) acid.
MS_DB_source_EBI
DB source EBI: Database source EBI.
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.
MS_proline_endopeptidase
proline endopeptidase: Enzyme proline endopeptidase (EC 3.4.21.26).
MS_ultraflex_TOF_TOF
ultraflex TOF/TOF: Bruker Daltonics' ultraflex TOF/TOF: MALDI TOF.
UNIMOD_Hex_2_HexNAc_1_NeuGc_1_
Hex(2)HexNAc(1)NeuGc(1): Hex(2) HexNAc NeuGc.
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.
MS_ProteomeDiscoverer_Xtract_Highest_MZ_OBSOLETE
ProteomeDiscoverer:Xtract:Highest MZ: Highest mass-to-charge (mz) value for spectral peaks in the mea...
MS_ProteomeDiscoverer_Max_Modifications_Per_Peptide
ProteomeDiscoverer:Max Modifications Per Peptide: Maximum number of different modifications that a pe...
MS_SCION_TQ
SCION TQ: Bruker Daltonics' SCION TQ: GC-triple quadrupole.
MS_isotopic_pattern_area
isotopic pattern area: Area of all peaks belonging to the isotopic pattern of light or heavy peak (e...
UNIMOD_dHex_1_Hex_2_HexNAc_2_NeuAc_2_
dHex(1)Hex(2)HexNAc(2)NeuAc(2): DHex Hex(2) HexNAc(2) NeuAc(2).
MS_Discrete_Mass_Spectrum
Discrete Mass Spectrum (centroid spectrum): Processing of profile data to produce spectra that contai...
MS_Savitzky_Golay_smoothing
Savitzky-Golay smoothing: Reduces intensity spikes by applying local polynomial regression (of degree...
MS_DFS
DFS: Thermo Scientific DFS HR GC-MS.
UNIMOD_ICAT_G_2H_8_
ICAT-G:2H(8): Gygi ICAT(TM) d8.
MS_PIA_XML_format
PIA XML format: A compilation of search engine results in the PIA XML format.
MS_final_PSM_list
final PSM list: A flag on a list of PSMs (SpectrumIdentificationList) to indicate that this is the fi...
UO_cubic_decimeter
cubic decimeter: A volume unit which is equal to one thousand of a cubic meter or 10^[-3] m^[3]...
MS_protein_level_identification_attribute
protein-level identification attribute: Protein level information.
UNIMOD_CoenzymeA
CoenzymeA: Cysteine modified Coenzyme A.
MS_ProteomeDiscoverer_Spectrum_Selector_Lower_RT_Limit
ProteomeDiscoverer:Spectrum Selector:Lower RT Limit: Lower retention-time limit.
UNIMOD_CuSMo
CuSMo: Copper sulfido molybdopterin cytosine dinuncleotide.
UO_parts_per_billion
parts per billion: A dimensionless concentration notation which denotes the amount of a given substan...
UNIMOD_Hex_4_HexNAc_4_Pent_1_
Hex(4)HexNAc(4)Pent(1): Hex(4) HexNAc(4) Pent.
UNIMOD_Cys__Ala
Cys->Ala: Cys->Ala substitution.
MS_search_engine_specific_score
search engine specific score: Search engine specific scores.
UO_minute
minute: A time unit which is equal to 60 seconds.
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_BisANS
BisANS: 4,4\'-dianilino-1,1\'-binaphthyl-5,5\'-disulfonic acid.
UO_count_per_nanomolar
count per nanomolar: A rate unit which is equal to one over one nanomolar.
UNIMOD_Hypusine
Hypusine: Hypusine.
MS_daly_detector
daly detector: Detector consisting of a conversion dynode, scintillator and photomultiplier. The metal knob at high potential emits secondary electrons when ions impinge on the surface. The secondary electrons are accelerated onto the scintillator that produces light that is then detected by the photomultiplier detector.
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.
UNIMOD_Hex_5_HexNAc_4_NeuAc_2_
Hex(5)HexNAc(4)NeuAc(2): Hex(5) HexNAc(4) NeuAc(2).
MS_protein_attribute
protein attribute: An nonphysical attribute describing a specific protein.
UNIMOD_Hex_2_HexNAc_1_Sulf_1_
Hex(2)HexNAc(1)Sulf(1): Hex(2) HexNAc Sulf.
MS_atmospheric_pressure_chemical_ionization
atmospheric pressure chemical ionization: Chemical ionization that takes place at atmospheric pressur...
UNIMOD_Hex_7_HexNAc_4_
Hex(7)HexNAc(4): Hex(7) HexNAc(4).
MS_data_file_content
data file content: Describes the data content on the file.
UNIMOD_iTRAQ4plex114
iTRAQ4plex114: Accurate mass for 114.
MS_PEAKS_Online
PEAKS Online: PEAKS Online software for high throughput data analysis.
MS_neptune
neptune: ThermoFinnigan NEPTUNE MS.
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_error_on_absolute_quantity
error on absolute quantity: Error on absolute quantity.
MS_pI
pI (isoelectric point): The pH of a solution at which a charged molecule does not migrate in an elect...
MS_param__z_2_ion
param: z+2 ion: Parameter information, type of product: z+2 ion.
UNIMOD_Diethylphosphate
Diethylphosphate: O-Diethylphosphorylation.
MS_septum
septum: A disc composed of a flexible material that seals the entrance to the reservoir. Can also be entrance to the vacuum chamber.
UNIMOD_Palmitoyl
Palmitoyl: Palmitoylation.
UO_kelvin
kelvin: A thermodynamic temperature unit which is equal to the fraction 1/273.16 of the thermodynamic...
UNIMOD_Val__Lys
Val->Lys: Val->Lys substitution.
MS_spectra_combination
spectra combination: Method used to combine the mass spectra.
UNIMOD_Arg__Trp
Arg->Trp: Arg->Trp substitution.
MS_Mascot_DAT_format
Mascot DAT format: Source file for this mzIdentML was in Mascot DAT file format.
UNIMOD_Hex_5_HexNAc_4_NeuGc_1_
Hex(5)HexNAc(4)NeuGc(1): Hex(5) HexNAc(4) NeuGc.
MS_distinct_peptide_level_FDRScore
distinct peptide-level FDRScore: mzidLibrary FDRScore for distinct peptides once redundant identifica...
MS_Xevo_TQ_S
Xevo TQ-S: Waters quadrupole based Xevo TQ-S.
MS_MassHunter_Metabolite_ID
MassHunter Metabolite ID: Software for identification of metabolites.
UNIMOD_phenylsulfonylethyl
phenylsulfonylethyl: Reaction with phenyl vinyl sulfone.
MS_selected_precursor_m_z
selected precursor m/z: Mass-to-charge ratio of a precursor ion selected for fragmentation.
MS_number_of_sequences_searched
number of sequences searched: The number of sequences (proteins / nucleotides) from the database sear...
MS_ProteomeDiscoverer_Peptide_Without_Protein_XCorr_Threshold
ProteomeDiscoverer:Peptide Without Protein XCorr Threshold: XCorr threshold for storing peptides that...
MS_ACQUITY_UPLC_H_Class_Bio
ACQUITY UPLC H-Class Bio: Waters LC-system ACQUITY UPLC H-Class Bio.
MS_neutral_loss_OBSOLETE
neutral loss: OBSOLETE: replaced by MS:1000336 (neutral loss): Leave this to PSI-MOD.
UNIMOD_Hex_1_HexNAc_1_NeuGc_4_
Hex(1)HexNAc(1)NeuGc(4): Hex HexNAc NeuGc(4).
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_iTRAQ_reagent_113
iTRAQ reagent 113: The name of the sample labelled with the iTRAQ reagent 113.
UNIMOD_Ub_amide
Ub-amide: Ub amide probe addition.
MS_ionization_energy_OBSOLETE
ionization energy: The minimum energy required to remove an electron from an atom or molecule to prod...
UNIMOD_dHex_1_Hex_5_HexNAc_3_Sulf_1_
dHex(1)Hex(5)HexNAc(3)Sulf(1): DHex Hex(5) HexNAc(3) Sulf.
UNIMOD_Label_13C_6_15N_1_
Label:13C(6)15N(1): 13C(6) 15N(1) Silac label.
MS_peptide_consensus_list_attribute
peptide consensus list attribute: Attribute describing a peptide consensus list.
UO_millimole
millimole: A substance unit equal to a thousandth of a mol or 10^[-3] mol.
MS_MAT95XP_Trap
MAT95XP Trap: ThermoFinnigan MAT95XP Trap MS.
MS_Progenesis_manual_alignment
Progenesis manual alignment: RT alignment of Progenesis software using automatic and manual vectors...
MS_pymzML
pymzML: Python module to interface mzML Data.
UNIMOD_Met__Ser
Met->Ser: Met->Ser substitution.
MS_submitter_keyword
submitter keyword: Keyword assigned by the data submitter.
MS_ProteomeDiscoverer_Maximum_Delta_Cn
ProteomeDiscoverer:Maximum Delta Cn: Delta Cn threshold for filtering out PSM's.
MS_boxcar_smoothing
boxcar smoothing (moving average smoothing): Reduces intensity spikes by averaging each point with tw...
UNIMOD_HexNAc_5_
HexNAc(5): HexNAc(5).
UNIMOD_2_nitrobenzyl
2-nitrobenzyl: Tyrosine caged with 2-nitrobenzyl (ONB).
MS_TSQ
TSQ: ThermoFinnigan TSQ MS.
MS_molecule_taxonomy
molecule taxonomy: The taxonomy of the resultant molecule from the search.
MS_precursor_recalculation
precursor recalculation: A process that recalculates existing precursor selected ions with one or mor...
MS_EE_OBSOLETE
EE (even-electron ion): An ion containing no unpaired electrons in its ground electronic state...
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...
MS_Th_s
Th/s: Unit describing the scan rate of a spectrum in Thomson per second.
UNIMOD_Asn__Asp
Asn->Asp: Asn->Asp substitution.
UNIMOD_dHex_2_Hex_2_HexNAc_2_NeuGc_1_
dHex(2)Hex(2)HexNAc(2)NeuGc(1): DHex(2) Hex(2) HexNAc(2) NeuGc.
MS_QSTAR_Elite
QSTAR Elite: SCIEX or Applied Biosystems|MDS SCIEX QSTAR Elite.
UO_linear_density_unit
linear density unit: A density unit which is a standard measure of the mass exerting an influence on ...
UNIMOD_DTT_ST
DTT_ST: Dithiothreitol (DTT).
MS_MaxQuant_P_site_localization_probability_threshold
MaxQuant:P-site localization probability threshold: Threshold for MaxQuant:P-site localization probab...
MS_secondary_electron_OBSOLETE
secondary electron: Electrons that are ejected from a sample surface as a result of bombardment by a ...
MS_custom_unreleased_software_tool
custom unreleased software tool: A software tool that has not yet been released. The value should des...
MS_ProteomeDiscoverer_SEQUEST_FT_High_Confidence_XCorr_Charge3
ProteomeDiscoverer:SEQUEST:FT High Confidence XCorr Charge3: FT high confidence XCorr parameter for c...
MS_ProteomeDiscoverer_Non_Fragment_Filter_Maximum_Neutral_Loss_Mass
ProteomeDiscoverer:Non-Fragment Filter:Maximum Neutral Loss Mass: Maximum allowed mass of a neutral l...
UNIMOD_Thr__Phe
Thr->Phe: Thr->Phe substitution.
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_Pro_ICAT
Pro ICAT: Applied Biosystems|MDS SCIEX software for protein ID and quant by ICAT. ...
UNIMOD_Phe__Pro
Phe->Pro: Phe->Pro substitution.
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_spectrum_interpretation
spectrum interpretation: Collection of terms from the PSI Proteome Informatics standards describing t...
MS_ion_mobility_spectrometry_OBSOLETE
ion mobility spectrometry: The separation of ions according to their velocity through a buffer gas un...
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_TMT_reagent_129
TMT reagent 129: The name of the sample labelled with the TMT reagent 129.
UNIMOD_Met__Cys
Met->Cys: Met->Cys substitution.
UNIMOD_Thr__Asp
Thr->Asp: Thr->Asp substitution.
UNIMOD_Xle__Glu
Xle->Glu: Leu/Ile->Glu substitution.
MS_family_member_protein
family member protein: A protein with significant homology to another protein, but some distinguishin...
MS_ISB_mzXML_format
ISB mzXML format: Institute of Systems Biology mzXML file format.
UO_picomolal
picomolal: A molality unit which is equal to 10^[-12] m.
MS_ProteomeDiscoverer_Search_Modifications_Only_For_Identified_Proteins
ProteomeDiscoverer:Search Modifications Only For Identified Proteins: Influences the modifications se...
UNIMOD_dHex_2_Hex_3_HexNAc_2_Sulf_1_
dHex(2)Hex(3)HexNAc(2)Sulf(1): DHex(2) Hex(3) HexNAc(2) Sulf.
MS_exponential
exponential: The mass scan is done in exponential mode.
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...
MS_param__y_ion_H2O_DEPRECATED
param: y ion-H2O DEPRECATED:
MS_TLF
TLF (time lag focusing): Energy focusing in a time-of-flight mass spectrometer that is accomplished b...
MS_protein_level_local_FDR
protein-level local FDR: Estimation of the local false discovery rate of proteins.
MS_liquid_secondary_ionization
liquid secondary ionization: The ionization of any species by the interaction of a focused beam of io...
MS_file_format
file format: Format of data files.
UNIMOD_Hex_2_HexNAc_2_Sulf_1_
Hex(2)HexNAc(2)Sulf(1): Hex(2) HexNAc(2) Sulf.
MS_enhanced_resolution_scan_OBSOLETE
enhanced resolution scan: Scan with enhanced resolution.
MS_group_representative
group representative: An arbitrary and optional flag applied to exactly one protein per group to indi...
MS_Empower
Empower: Waters Empower software for liquid chromatography and mass spectrometry acquisition.
UNIMOD_VFQQQTGG
VFQQQTGG: SUMOylation by SUMO-2/3 (formic acid cleavage).
UNIMOD_dHex_1_Hex_3_HexA_2_HexNAc_2_
dHex(1)Hex(3)HexA(2)HexNAc(2): DHex Hex(3) HexA(2) HexNAc(2).
MS_DESI
DESI (desorption electrospray ionization): Combination of electrospray and desorption ionization meth...
UO_image_resolution_unit
image resolution unit: An information unit which is a standard measure of the detail an image holds...
UNIMOD_Didehydroretinylidene
Didehydroretinylidene: 3,4-didehydroretinylidene.
MS_ProteomeDiscoverer_Use_Neutral_Loss_a_Ions
ProteomeDiscoverer:Use Neutral Loss a Ions: Determines whether a ions with neutral loss are used for ...
MS_Paragon__background_correction
Paragon: background correction: The Paragon method setting that controls whether the 'Background Corr...
UNIMOD_Gln__Asp
Gln->Asp: Gln->Asp substitution.
MS_mass_analyzer_type
mass analyzer type: Mass analyzer separates the ions according to their mass-to-charge ratio...
MS_AXIMA_Assurance_Linear_MALDI_TOF
AXIMA Assurance Linear MALDI-TOF: Shimadzu Biotech AXIMA Assurance Linear MALDI-TOF MS...
UNIMOD_LG_anhyropyrrole
LG-anhyropyrrole: Levuglandinyl-lysine anhyropyrrole adduct.
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_acquisition_software
acquisition software: Acquisition software.
MS_charge_remote_fragmentation_OBSOLETE
charge-remote fragmentation: A fragmentation of an even-electron ion in which the cleaved bond is not...
UNIMOD_2_dimethylsuccinyl
2-dimethylsuccinyl: S-(2-dimethylsuccinyl) cysteine.
MS_Progenesis_protein_group_raw_abundance
Progenesis:protein group raw abundance: The data type raw abundance for protein groups produced by Pr...
MS_raw_files_group_attribute
raw files group attribute: Attribute describing, how raw files build a raw file group.
MS_MRM_spectrum
MRM spectrum (SRM spectrum): Spectrum obtained when data are acquired from specific product ions corr...
UNIMOD_NO_SMX_SEMD
NO_SMX_SEMD: Nitroso Sulfamethoxazole Sulphenamide thiol adduct.
MS_SEQUEST_deltacnstar
SEQUEST:deltacnstar: The SEQUEST result 'DeltaCnStar'.
UNIMOD_Pro__Pyrrolidone
Pro->Pyrrolidone: Pyrrolidone from Proline.
MS_MALDI_Synapt_G2_S_MS
MALDI Synapt G2-S MS: Waters oa-ToF based MALDI Synapt G2-S MS.
MS_completion_time
completion time: The time that a data processing action was finished.
MS_electrostatic_energy_analyzer
electrostatic energy analyzer: A device consisting of conducting parallel plates, concentric cylinder...
UO_micromole
micromole: A substance unit equal to a millionth of a mol or 10^[-6] mol.
MS_Variance_stabilizing_normalization
Variance stabilizing normalization: The model incorporates data calibration (normalization), a model for the dependence of the variance on the mean intensity, and a variance stabilizing data transformation.
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_PIA_used_top_identifications_for_FDR
PIA:used top identifications for FDR: The number of top identifications per spectrum used for the FDR...
MS_ProteinExtractor_MaxProteinMass
ProteinExtractor:MaxProteinMass: The maximum considered mass for a protein.
UNIMOD_Propargylamine
Propargylamine: Propargylamine.
UNIMOD_Phe__His
Phe->His: Phe->His substitution.
UNIMOD_OxArgBiotinRed
OxArgBiotinRed: Oxidized arginine biotinylated with biotin-LC-hydrazide, reduced. ...
MS_three_sample_run
three sample run: The raw file contains the run of three samples (e.g. 3-plex SILAC).
UNIMOD_Hex_4_HexNAc_4_Sulf_1_
Hex(4)HexNAc(4)Sulf(1): Hex(4) HexNAc(4) Sulf.
UNIMOD_Hex_1_HexNAc_1_NeuGc_5_
Hex(1)HexNAc(1)NeuGc(5): Hex HexNAc NeuGc(5).
UNIMOD_Biotin_Cayman_10141
Biotin:Cayman-10141: Was 15dB-biotin.
MS_ProteomeDiscoverer_Maximum_Protein_References_Per_Peptide
ProteomeDiscoverer:Maximum Protein References Per Peptide: Maximum number of proteins that a single i...
MS_NICI
NICI (Negative Ion chemical ionization): Chemical ionization that results in the formation of negativ...
MS_PDA
PDA (photodiode array detector): An array detector used to record spectra in the ultraviolet and visi...
MS_protein_level_statistical_threshold
protein-level statistical threshold: Estimated statistical threshold at protein-level.
UO_pressure_unit
pressure unit: A unit which is a standard measure of the force applied to a given area...
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.
MS_protein_group_attribute
protein group attribute: Attribute describing a protein group.
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.
MS_Mascot_PTM_site_assignment_confidence
Mascot:PTM site assignment confidence: Relative probability that PTM site assignment is correct...
UNIMOD_Xlink_EGS
Xlink:EGS: Monolink of EGS crosslinker to Lys or N-terminus.
MS_TOPP_FeatureFinderIsotopeWavelet
TOPP FeatureFinderIsotopeWavelet: Detects two-dimensional features in uncentroided LC-MS data with a ...
MS_decoy_DB_from_IPI_rat_OBSOLETE
decoy DB from IPI_rat: Decoy database from a International Protein Index database for Rattus norvegic...
MS_appearance_energy_OBSOLETE
appearance energy: The minimum energy that must be imparted to an atom or molecule to produce a speci...
MS_esquire_6000
esquire 6000: Bruker Daltonics' esquire 6000: linear ion trap, ESI, MALDI, Nanospray, APCI, APPI.
UNIMOD_Biotin_PEG_PRA
Biotin-PEG-PRA: Biotin polyethyleneoxide (n=3) alkyne.
MS_protein_level_p_value
protein-level p-value: Estimation of the p-value for proteins.
MS_Mascot_IncludeErrorTolerantMatches
Mascot:IncludeErrorTolerantMatches: If true, then the search results are error tolerant and peptide m...
MS_linear_OBSOLETE
linear: The mass scan is done in linear mode.
UNIMOD_DAET
DAET: Phosphorylation to amine thiol.
MS_peptide_raw_area_OBSOLETE
peptide raw area: Peptide raw area.
MS_MBMS_OBSOLETE
MBMS (molecular beam mass spectrometry): A mass spectrometry technique in which the sample is introdu...
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_PROTEINEER_dp
PROTEINEER dp: Bruker PROTEINEER dp software.
UNIMOD_Cys__Glu
Cys->Glu: Cys->Glu substitution.
MS_ANOVA_p_value
ANOVA p-value: Global datatype: p-value of ANOVA of group means (e.g. Progenesis).
UNIMOD_Pro__Pyrrolidinone
Pro->Pyrrolidinone: Proline oxidation to pyrrolidinone.
UNIMOD_HydroxymethylOP
HydroxymethylOP: 2-ammonio-6-[4-(hydroxymethyl)-3-oxidopyridinium-1-yl]- hexanoate.
UNIMOD_Ala__Pro
Ala->Pro: Ala->Pro substitution.
MS_photomultiplier
photomultiplier: A detector for conversion of the ion/electron signal into photon(s) which are then a...
MS_hydrogen_deuterium_exchange_OBSOLETE
hydrogen/deuterium exchange: Exchange of hydrogen atoms with deuterium atoms in a molecule or pre-for...
MS_ESI
ESI (electrospray ionization): A process in which ionized species in the gas phase are produced from ...
MS_PeptideShaker_peptide_score
PeptideShaker peptide score: The probability based PeptideShaker peptide score.
MS_charge_induced_fragmentation_OBSOLETE
charge-induced fragmentation: Fragmentation of an odd electron ion in which the cleaved bond is adjac...
UNIMOD_QEQTGG
QEQTGG: SUMOylation by SUMO-1.
MS_PTM_localization_result_list_statistic
PTM localization result list statistic: Statistic for all items derived from a post-translational mod...
MS_spectrum_title
spectrum title: A free-form text title describing a spectrum.
MS_Q_Exactive
Q Exactive: Thermo Scientific Q Exactive.
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...
UO_molar
molar: A unit of concentration which expresses a concentration of 1 mole of solute per liter of solut...
MS_MyriMatch
MyriMatch: Tabb Lab software for directly comparing peptides in a database to tandem mass spectra...
MS_ProteinExtractor_IncludeIdentified
ProteinExtractor:IncludeIdentified: Flag indicating if identified proteins should be included...
UO_unit_of_normality
unit of normality: A unit of concentration which highlights the chemical nature of salts...
MS_high_intensity_threshold
high intensity threshold: Threshold above which some action is taken.
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...
MS_number_of_molecular_hypothesis_considered
number of molecular hypothesis considered: Number of Molecular Hypothesis Considered - This is the nu...
UNIMOD_Hex_4_HexNAc_6_
Hex(4)HexNAc(6): Hex(4) HexNAc(6).
MS_ProteomeDiscoverer_2__Static_Modification_OBSOLETE
ProteomeDiscoverer:2. Static Modification: ProteomeDiscoverer's 2nd static post-translational modific...
MS_programmer
programmer: Programmer role.
MS_frag__iTRAQ_8plex_reporter_ion
frag: iTRAQ 8plex reporter ion: Standard reporter ion for iTRAQ 8Plex. The value slot holds the integ...
UNIMOD_Hex_4_HexNAc_5_
Hex(4)HexNAc(5): Hex(4) HexNAc(5).
std::multimap< std::string, CVID > otherRelations
UNIMOD_Trp__Ala
Trp->Ala: Trp->Ala 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...
MS_SCION_SQ
SCION SQ: Bruker Daltonics' SCION SQ: GC-single quadrupole.
UNIMOD_Hex_10_Phos_3_
Hex(10)Phos(3): Hex(10) Phos(3).
UNIMOD_CAF
CAF: Sulfonation of N-terminus.
UNIMOD_Trp__Phe
Trp->Phe: Trp->Phe substitution.
MS_protein_value__mean_of_peptide_ratios
protein value: mean of peptide ratios: Protein quantification value calculated as mean of peptide rat...
UO_nanosievert
nanosievert: A dose equivalent unit which is equal to one thousandth of a millionth of a sievert or 1...
MS_dried_droplet_MALDI_matrix_preparation
dried droplet MALDI matrix preparation: Dried droplet in MALDI matrix preparation.
UNIMOD_Hex_3_HexNAc_4_
Hex(3)HexNAc(4): Biantennary (-2 galactose).
UNIMOD_GIST_Quat_2H_9_
GIST-Quat:2H(9): Quaternary amine labeling reagent heavy form (+9amu), N-term & K.
UNIMOD_Cys__CamSec
Cys->CamSec: Sec Iodoacetamide derivative.
MS_Agilent_instrument_model
Agilent instrument model: Agilent instrument model.
MS_Acquity_UPLC_FLR
Acquity UPLC FLR: Acquity UPLC Fluorescence Detector.
MS_SEQUEST_TopNumber
SEQUEST:TopNumber: Specify "number" as value of the CVParam.
MS_translation_table_description
translation table description: A URL that describes the translation table used to translate the nucle...
MS_PTM_localization_confidence_metric
PTM localization confidence metric: Localization confidence metric for a post translational modificat...
UNIMOD_Malonyl
Malonyl: Malonylation of C and S residues.
MS_array_detector
array detector: Detector comprising several ion collection elements, arranged in a line or grid where...
MS_percolator_score
percolator:score: Percolator:score.
MS_PRIDE_experiment_URI
PRIDE experiment URI: URI that allows the access to one experiment in the PRIDE database.
MS_32_bit_integer
32-bit integer: Signed 32-bit little-endian integer.
MS_Dionex_instrument_model
Dionex instrument model: Dionex instrument model.
UNIMOD_dHex_2_Hex_3_HexNAc_3_NeuAc_1_
dHex(2)Hex(3)HexNAc(3)NeuAc(1): DHex(2) Hex(3) HexNAc(3) NeuAc.
MS_protein_level_e_value
protein-level e-value: Estimation of the e-value for proteins.
MS_non_identified_ion
non-identified ion: Non-identified ion.
MS_Trapper
Trapper: A software program for converting Agilent MassHunter format to mzXML or mzML. Trapper was originally developed at the Institute for Systems Biology.
MS_mass_analyzed_ion_kinetic_energy_spectrometry_OBSOLETE
mass analyzed ion kinetic energy spectrometry: Spectra that are obtained from a sector mass spectrome...
MS_impact_II
impact II: Bruker Daltonics' impact II.
UNIMOD_HexNAc_1_NeuGc_2_
HexNAc(1)NeuGc(2): HexNAc NeuGc(2).
UNIMOD_Gln__Xle
Gln->Xle: Gln->Leu/Ile substitution.
UNIMOD_Gln__Met
Gln->Met: Gln->Met substitution.
UNIMOD_His__Phe
His->Phe: His->Phe substitution.
UNIMOD_Nethylmaleimide_water
Nethylmaleimide+water: Nethylmaleimidehydrolysis.
UO_microvolt
microvolt: An electric potential difference unit which is equal to one millionth of a volt or 10^[-6]...
MS_SEQUEST_sf
SEQUEST:sf: The SEQUEST result 'Sf'.
MS_BioAnalyst
BioAnalyst: Applied Biosystems|MDS SCIEX software for bio-related data exploration.
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_zlib_compression
zlib compression: Zlib.
MS_molecular_beam_mass_spectrometry_OBSOLETE
molecular beam mass spectrometry: A mass spectrometry technique in which the sample is introduced int...
UNIMOD_Hex_2_HexA_1_Pent_1_Sulf_1_
Hex(2)HexA(1)Pent(1)Sulf(1): Hex(2) HexA Pent Sulf.
MS_proteomics_solution_1
proteomics solution 1: Applied Biosystems/MDS SCIEX Proteomics Solution 1 MS.
MS_Mascot_RequireBoldRed
Mascot:RequireBoldRed: Only used in Peptide Summary and Select Summary reports. If true...
MS_adiabatic_ionization
adiabatic ionization: A process whereby an electron is removed from an atom, ion, or molecule to prod...
MS_param__internal_yb_ion
param: internal yb ion: Parameter information, type of product: internal yb ion.
MS_consecutive_reaction_monitoring_OBSOLETE_1000244
consecutive reaction monitoring: MSn experiment with three or more stages of m/z separation and in wh...
UNIMOD_Biotin_Thermo_21901_H2O
Biotin:Thermo-21901+H2O: Maleimide-Biotin + Water.
MS_ProteoGrouper_PDH_score
ProteoGrouper:PDH score: A score assigned to a single protein accession (modelled as ProteinDetection...
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_beta_cleavage_OBSOLETE
beta-cleavage: A homolytic cleavage where the bond fission occurs between at an atom removed from the...
UO_cell_concentration_unit
cell concentration unit: A concentration unit which denotes the average cell number in a given volume...
MS_ProteomeDiscoverer_Amanda_high_confidence_threshold
ProteomeDiscoverer:Amanda:high confidence threshold: Strict confidence probability score...
MS_in_source_collision_induced_dissociation
in-source collision-induced dissociation: The dissociation of an ion as a result of collisional excit...
MS_ion_neutral_species_reaction_OBSOLETE
ion/neutral species reaction: A process wherein a charged species interacts with a neutral reactant t...
UNIMOD_IMID_2H_4_
IMID:2H(4): IMID d4.
MS_TripleTOF_6600
TripleTOF 6600: SCIEX TripleTOF 6600, a quadrupole - quadrupole - time-of-flight mass spectrometer...
MS_ProteomeDiscoverer_Dynamic_Modification
ProteomeDiscoverer:Dynamic Modification: Determine dynamic post-translational modifications (PTMs)...
MS_MassIVE_dataset_identifier
MassIVE dataset identifier: Dataset identifier issued by the MassIVE repository. A dataset can refer ...
UNIMOD_Glu__pyro_Glu_Methyl
Glu->pyro-Glu+Methyl: Pyro-Glu from E + Methylation.
UNIMOD_Met__Asn
Met->Asn: Met->Asn substitution.
MS_ProteomeDiscoverer_Xtract_Overlapping_Remainder
ProteomeDiscoverer:Xtract:Overlapping Remainder: Fraction of the more abundant peak that an overlappi...
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_
Hex(1)HexNAc(1)NeuAc(2): Hex1HexNAc1NeuAc2.
MS_CRM_spectrum
CRM spectrum: Spectrum generated from MSn experiment with three or more stages of m/z separation and ...
UNIMOD_Asn__Met
Asn->Met: Asn->Met substitution.
MS_focal_plane_collector
focal plane collector: A detector for spatially disperse ion beams in which all ions simultaneously i...
UNIMOD_Iminobiotin
Iminobiotin: Iminobiotinylation.
UNIMOD_Cation_Ag
Cation:Ag: Replacement of proton by silver.
MS_binary_data_array
binary data array: A data array of values.
UNIMOD_Hex_7_HexNAc_2_Phos_2_
Hex(7)HexNAc(2)Phos(2): Hex(7) HexNAc(2) Phos(2).
MS_ProteomeDiscoverer_Use_Neutral_Loss_z_Ions
ProteomeDiscoverer:Use Neutral Loss z Ions: Determines whether z ions with neutral loss are used for ...
UO_millivolt
millivolt: An electric potential difference unit which is equal to one thousandth of a volt or 10^[-3...
UNIMOD_Methyl_2H_3_
Methyl:2H(3): Deuterated methyl ester.
MS_microchannel_plate_detector
microchannel plate detector: A thin plate that contains a closely spaced array of channels that each ...
MS_surface_enhanced_laser_desorption_ionization
surface enhanced laser desorption ionization: The formation of ionized species in the gas phase from ...
UNIMOD_spermine
spermine: Spermine adduct.
UNIMOD_dHex_2_Hex_1_HexNAc_1_Kdn_1_
dHex(2)Hex(1)HexNAc(1)Kdn(1): DHex(2) Hex HexNAc Kdn.
MS_msPrefix_precursor_recalculation
msPrefix precursor recalculation: Recalculates one or more precursor selected ions by peak detection ...
UNIMOD_Can_FP_biotin
Can-FP-biotin: 6-N-biotinylaminohexyl isopropyl phosphate.
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...
MS_TPP
TPP (Trans-Proteomic Pipeline): A suite of open source tools for the processing of MS2 proteomics dat...
UNIMOD_Ala__Gln
Ala->Gln: Ala->Gln substitution.
UNIMOD_O_Isopropylmethylphosphonate
O-Isopropylmethylphosphonate: O-Isopropylmethylphosphonylation.
MS_scan_number_only_nativeID_format
scan number only nativeID format: Native format defined by scan=xsd:nonNegativeInteger.
MS_ProteoWizard_idconvert
ProteoWizard idconvert: Converts, filters, and processes identifications from shotgun proteomics expe...
MS_SEQUEST_OutputLines
SEQUEST:OutputLines: Number of peptide results to show.
MS_single_ion_monitoring_OBSOLETE
single ion monitoring: The operation of a mass spectrometer to monitor a single ion rather than scann...
UNIMOD_ZGB
ZGB: NHS ester linked Green Fluorescent Bodipy Dye.
UNIMOD_Hex_3_HexNAc_3_Pent_1_
Hex(3)HexNAc(3)Pent(1): Hex(3) HexNAc(3) Pent.
MS_SEQUEST_out_folder
SEQUEST out folder: Source file for this mzIdentML was a SEQUEST folder with its out files...
MS_PEAKS_proteinScore
PEAKS:proteinScore: The PEAKS protein '-10lgP Score'.
UNIMOD_Fluoro
Fluoro: Fluorination.
UO_chroma_sampling_unit
chroma sampling unit: An image resolution unit which is a standard measure of the amount of spatial d...
MS_detector_attribute
detector attribute: Detector attribute recognized as a value.
UNIMOD_Biotin_Thermo_33033_H
Biotin:Thermo-33033-H: Sulfo-SBED Label Photoreactive Biotin Crosslinker minus Hydrogen.
MS_frag__b_ion___NH3
frag: b ion - NH3: Ion b-NH3 fragmentation information, type of product: b ion without ammonia...
UNIMOD_Dimethyl_2H_6_
Dimethyl:2H(6): Dimethyl-Medium.
UNIMOD_Gln__Thr
Gln->Thr: Gln->Thr substitution.
MS______ALIV_____P_
(?<=[ALIV])(?!P): Regular expression for leukocyte elastase.
MS_collision_quadrupole
collision quadrupole: A transmission quadrupole to which an oscillating potential is applied so as to...
MS_jPOST_dataset_URI
jPOST dataset URI: URI that allows the access to one dataset in the jPOST repository. A dataset can refer to either a single sample as part of a study, or all samples that are part of the study corresponding to a publication.
MS_Pro_ID
Pro ID: Applied Biosystems|MDS SCIEX software for protein identification.
MS_cross_linking_search
cross-linking search: Cross-linking search performed.
MS_Mascot
Mascot: The name of the Mascot search engine.
MS_ProteomeDiscoverer_Number_of_Spectra_Processed_At_Once
ProteomeDiscoverer:Number of Spectra Processed At Once: Number of spectra processed at once in a Prot...
UNIMOD_Dimethyl_2H_4_13C_2_
Dimethyl:2H(4)13C(2): DiMethyl-C13HD2.
UNIMOD_His__Trp
His->Trp: His->Trp substitution.
UNIMOD_Met__Pro
Met->Pro: Met->Pro substitution.
MS_LOWESS_smoothing
LOWESS smoothing: Reduces intensity spikes by applying a modelling method known as locally weighted p...
MS_protein_group_level_local_FDR
protein group-level local FDR: Estimation of the local false discovery rate of protein groups...
MS_TripleTOF_4600
TripleTOF 4600: SCIEX TripleTOF 4600 time-of-flight mass spectrometer.
UNIMOD_MicrocinC7
MicrocinC7: (3-aminopropyl)(L-aspartyl-1-amino)phosphoryl-5-adenosine.
MS_ion_neutral_species_exchange_reaction_OBSOLETE
ion/neutral species exchange reaction: In this reaction an association reaction is accompanied by the...
UNIMOD_Ammonium
Ammonium: Replacement of proton with ammonium ion.
UNIMOD_HN3_mustard
HN3_mustard: Modification by hydroxylated tris-(2-chloroethyl)amine (HN-3).
MS_fragment_mass_type_mono
fragment mass type mono: Mass type setting for fragment mass was monoisotopic.
UNIMOD_Phycoerythrobilin
Phycoerythrobilin: Phycoerythrobilin.
UNIMOD_Pyridylacetyl
Pyridylacetyl: Pyridylacetyl.
MS_mass_defect_OBSOLETE
mass defect: The difference between the monoisotopic and nominal mass of a molecule or atom...
UO_energy_unit
energy unit: A unit which is a standard measure of the work done by a certain force (gravitational...
MS_spectrum_from_database_string_nativeID_format
spectrum from database string nativeID format: Native format defined by databasekey=xsd:string.
MS_no_modification_threshold
no modification threshold: No statistical threshold for accepting or rejecting that a modification po...
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...
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_Mascot_identity_threshold
Mascot:identity threshold: The Mascot result 'identity threshold'.
MS_Comet
Comet: Comet open-source sequence search engine developed at the University of Washington.
UNIMOD_GGQ
GGQ: SUMOylation leaving GlyGlyGln.
MS_TOPP_FeatureFinderMetabo
TOPP FeatureFinderMetabo: Detects two-dimensional features in centroided LC-MS data of metabolites...
UNIMOD_Phe__Tyr
Phe->Tyr: Phe->Tyr substitution.
MS_Bruker_BAF_nativeID_format__combined_spectra
Bruker BAF nativeID format, combined spectra: Bruker BAF comma separated list of spectra that have be...
UNIMOD_Ser__Arg
Ser->Arg: Ser->Arg substitution.
MS_ProteomeDiscoverer_Spectrum_Grouper_Allow_Mass_Analyzer_Mismatch
ProteomeDiscoverer:Spectrum Grouper:Allow Mass Analyzer Mismatch: Determines whether the fragment spe...
MS_quantitation_software_comment_or_customizations
quantitation software comment or customizations: Quantitation software comment or any customizations ...
MS_Sequence_database_filters
Sequence database filters: Sequence database filters which actually can contains values, e.g. to limit PI value of the sequences used to search.
MS_ultima
ultima: IonSpec Ultima MS.
MS_TOPP_NoiseFilterGaussian
TOPP NoiseFilterGaussian: Removes noise from profile spectra by using a gaussian smoothing.
MS_Gaussian_smoothing
Gaussian smoothing: Reduces intensity spikes by convolving the data with a one-dimensional Gaussian f...
MS_Bruker_FID_nativeID_format__combined_spectra
Bruker FID nativeID format, combined spectra: Bruker FID comma separated list of spectra that have be...
MS_chemical_compound_attribute
chemical compound attribute: A describable property of a chemical compound.
MS_LTQ_Orbitrap_Elite
LTQ Orbitrap Elite: Thermo Scientific second generation Velos and Orbitrap.
MS_Comet_expectation_value
Comet:expectation value: The Comet result 'Expectation value'.
MS_iTRAQ_reagent_116
iTRAQ reagent 116: The name of the sample labelled with the iTRAQ reagent 116.
MS_Shimadzu_MALDI_TOF_instrument_model
Shimadzu MALDI-TOF instrument model: Shimadzu MALDI-TOF instrument model.
UO_square_millimeter
square millimeter: An area unit which is equal to one millionth of a square meter or 10^[-6] m^[2]...
UNIMOD_dHex_2_Hex_5_HexNAc_3_Pent_1_
dHex(2)Hex(5)HexNAc(3)Pent(1): DHex(2) Hex(5) HexNAc(3) Pent.
MS_SpectrumMill_SPI
SpectrumMill:SPI: SpectrumMill SPI score (%).
UNIMOD_Biotin_Thermo_21330
Biotin:Thermo-21330: Biotin_PEG4.
MS_DB_accession_filter_string
DB accession filter string: DB accession filter string.
UNIMOD_Amino
Amino: Tyrosine oxidation to 2-aminotyrosine.
MS_source_sprayer_type
source sprayer type: The source sprayer type.
MS_decoy_DB_from_IPI_human_OBSOLETE
decoy DB from IPI_human: Decoy database from a International Protein Index database for Homo sapiens...
MS_high_intensity_data_point_removal
high intensity data point removal: The removal of very high intensity data points.
MS_sample_attribute
sample attribute: Sample properties that are associated with a value.
MS_ionization_cross_section_OBSOLETE
ionization cross section: A measure of the probability that a given ionization process will occur whe...
MS_ProteinScape_input_parameter
ProteinScape input parameter: Search engine input parameters specific to ProteinScape.
MS_FI
FI (field ionization): The removal of electrons from any species by interaction with a high electric ...
UNIMOD_Val__Met
Val->Met: Val->Met substitution.
MS_ultraflex
ultraflex: Bruker Daltonics' ultraflex: MALDI TOF.
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_Hex_1_HexNAc_2_dHex_2_
Hex(1)HexNAc(2)dHex(2): Hex1HexNAc2dHex2.
MS_SILAC_reagent
SILAC reagent: Stable isotope labeling with amino acids in cell culture reagent.
MS_denominator_data_type_attribute
denominator data type attribute: Attribute describing the data type of the denominator of a ratio...
UNIMOD_His__Ala
His->Ala: His->Ala substitution.
MS_ProteinScape_Gel
ProteinScape Gel: Source data for this mzIdentML was a ProteinScape Gel.
MS_sample
sample: Terms to describe the sample.
MS_two_dimensional_gas_chromatography_with_fixed_modulation_time
two-dimensional gas chromatography with fixed modulation time: Two-dimensional gas chromatography whe...
UNIMOD_Biotin_HPDP
Biotin-HPDP: Pierce EZ-Link Biotin-HPDP.
MS_max_peak_picking
max peak picking (height peak picking): Spectral peak processing conducted on the acquired data to co...
MS_modification_specificity_peptide_N_term
modification specificity peptide N-term: As parameter for search engine: apply the modification only ...
MS_micrOTOF_II
micrOTOF II: Bruker Daltonics' micrOTOF II: ESI TOF, Nanospray, APCI, APPI.
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_PIA_PSM_sets_created
PIA:PSM sets created: Indicates whether PSM sets were created.
MS_minute_OBSOLETE
minute: Acquisition time in minutes.
UNIMOD_GluGluGluGlu
GluGluGluGlu: Tetraglutamyl.
MS_ProteinExtractor_UseMascot
ProteinExtractor:UseMascot: Flag indicating to include Mascot scoring for calculation of the ProteinE...
MS_centroid_spectrum
centroid spectrum: Processing of profile data to produce spectra that contains discrete peaks of zero...
MS_focal_plane_array
focal plane array: An array of detectors for spatially disperse ion beams in which all ions simultane...
UNIMOD_Pro__pyro_Glu
Pro->pyro-Glu: Proline oxidation to pyroglutamic acid.
MS_linear_ion_trap
linear ion trap: A two dimensional Paul ion trap in which ions are confined in the axial dimension by...
UNIMOD_BHT
BHT: Michael addition of BHT quinone methide to Cysteine and Lysine.
MS_manual_validation
manual validation: Result of quality estimation: decision of a manual validation. ...
MS_database_nr
database nr: Non-redundant GenBank sequence database.
MS_SEQUEST_modeCV
SEQUEST:modeCV: SEQUEST Mode Input Parameters.
MS_MRM_transition_type
MRM transition type (SRM transition type): The type of the transitions, e.g. target or decoy...
UNIMOD_His__Pro
His->Pro: His->Pro substitution.
MS_TOPP_MapAlignerPoseClustering
TOPP MapAlignerPoseClustering: Corrects retention time distortions between maps using a pose clusteri...
MS_signal_to_noise_ratio
signal-to-noise ratio: Unitless number providing the ratio of the total measured intensity of a signa...
UNIMOD_Xle__Arg
Xle->Arg: Leu/Ile->Arg substitution.
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...
UO_kilogram_per_square_meter
kilogram per square meter: An area density unit which is equal to the mass of an object in kilograms ...
UNIMOD_Arg__Met
Arg->Met: Arg->Met substitution.
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.
MS_SORI
SORI (sustained off-resonance irradiation): A technique associated with Fourier transform ion cyclotr...
MS_regular_expression_for_modification_localization_scoring
)
UNIMOD_Gln__Val
Gln->Val: Gln->Val substitution.
UNIMOD_NO_SMX_SIMD
NO_SMX_SIMD: Nitroso Sulfamethoxazole Sulfinamide thiol adduct.
UNIMOD_Dihydroxyimidazolidine
Dihydroxyimidazolidine: Dihydroxy methylglyoxal adduct.
UNIMOD_dHex_1_Hex_3_HexNAc_4_Pent_1_
dHex(1)Hex(3)HexNAc(4)Pent(1): DHex Hex(3) HexNAc(4) Pent.
MS_3200_QTRAP
3200 QTRAP: SCIEX or Applied Biosystems|MDS SCIEX QTRAP 3200.
UNIMOD_Pentose
Pentose: Pentose.
MS_TOPP_PeptideIndexer
TOPP PeptideIndexer: Refreshes the protein references for all peptide hits.
MS_ProteomeDiscoverer_Minimal_peptide_probability
ProteomeDiscoverer:Minimal peptide probability: Minimum adjusted peptide probability contributing to ...
UNIMOD_dHex_2_Hex_4_HexNAc_2_
dHex(2)Hex(4)HexNAc(2): DHex(2) Hex(4) HexNAc(2).
MS_inlet_attribute
inlet attribute: Inlet properties that are associated with a value.
UNIMOD_HexNAc_1_dHex_1_
HexNAc(1)dHex(1): HexNAc1dHex1.
MS_SMILES_string
SMILES string: The simplified molecular input line entry specification or SMILES is a specification f...
MS_penning_ionization
penning ionization: Ionization that occurs through the interaction of two or more neutral gaseous spe...
UNIMOD_Difuran
Difuran: Chemical modification of the diiodinated sites of thyroglobulin by Suzuki reaction...
MS_SEQUEST_total_ions
SEQUEST:total ions: The SEQUEST result 'Total Ions'.
MS_TOPP_feature_finder
TOPP feature finder: Feature finder component of the TOPP software.
MS_protein_cluster_identification_attribute
protein cluster identification attribute: An attribute of the protein cluster concept as used in mzId...
UO_momentum_unit
momentum unit: A unit which is a standard measure of the quantity of motion measured by the product o...
MS_enium_ion_OBSOLETE
enium ion: A positively charged lower-valency ion of the nonmetallic elements. The methenium ion is C...
MS_ICPL_reagent_0
ICPL reagent 0: The name of the sample labelled with the ICPL reagent 0.
MS_Mascot_Parser
Mascot Parser: Mascot Parser was used to analyze the spectra.
UNIMOD_Glu__Cys
Glu->Cys: Glu->Cys substitution.
UNIMOD_Ala__Trp
Ala->Trp: Ala->Trp substitution.
MS_scan_direction
scan direction: Direction in terms of m/z of the scan for scanning analyzers (low to high...
MS_mass_analyzer_attribute
mass analyzer attribute: Analyzer properties that are associated with a value.
UNIMOD_Hex_6_Phos_3_
Hex(6)Phos(3): Hex(6) Phos(3).
UNIMOD_DiLeu4plex
DiLeu4plex: Accurate mass for DiLeu 116 isobaric tag.
UNIMOD_Tyr__Cys
Tyr->Cys: Tyr->Cys substitution.
MS_trap_type_collision_induced_dissociation
trap-type collision-induced dissociation: A collision-induced dissociation process that occurs in a t...
MS_database_type_amino_acid
database type amino acid: Database contains amino acid sequences.
MS_Bruker_Daltonics_instrument_model
Bruker Daltonics instrument model: Bruker Daltonics' instrument model.
UNIMOD_Lys__Gly
Lys->Gly: Lys->Gly substitution.
MS_peptide_modification_details
peptide modification details: The children of this term can be used to describe modifications.
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge1: Standard medium confidence XCorr para...
MS_Amanda_AmandaScore
Amanda:AmandaScore: The Amanda score of the scoring function for a PSM.
MS_PeptideProphet
PeptideProphet: A program in the TPP that calculates PSM probabilities for MS2 proteomics data search...
UNIMOD_DeStreak
DeStreak: Cysteine mercaptoethanol.
MS_ProteinScape_second_round_Mascot
ProteinScape:second round Mascot: Flag indicating a second round search with Mascot.
MS_lab_personnel
lab personnel: Lab personnel role.
UNIMOD_Asp__Ser
Asp->Ser: Asp->Ser substitution.
UNIMOD_Bromo
Bromo: Bromination.
MS_mass_resolution
mass resolution: Smallest mass difference between two equal magnitude peaks so that the valley betwee...
UNIMOD_Cy3b_maleimide
Cy3b-maleimide: Fluorescent dye that labels cysteines.
MS_AXIMA_QIT
AXIMA-QIT: Shimadzu Biotech AXIMA-QIT MS.
MS_LCMS_2010EV
LCMS-2010EV: Shimadzu Scientific Instruments LCMS-2010EV MS.
MS_local_FDR
local FDR: Result of quality estimation: the local FDR at the current position of a sorted list...
UNIMOD_Tyr__Dha
Tyr->Dha: Dehydroalanine (from Tyrosine).
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_sequence_sub_set_protein
sequence sub-set protein: A protein with a sub-set of the peptide sequence matches for another protei...
UNIMOD_Ala__Asp
Ala->Asp: Ala->Asp substitution.
MS_MS_GF
MS-GF: MS-GF software used to re-score the peptide-spectrum matches.
MS_top_hat_baseline_reduction
top hat baseline reduction: Top-hat morphological filter based on the basic morphological operations ...
UNIMOD_HMVK
HMVK: Michael addition of hydroxymethylvinyl ketone to cysteine.
MS_Compass_Security_Pack
Compass Security Pack: Bruker compass Security Pack software.
UO_degree_celsius
degree celsius: A temperature unit which is equal to one Kelvin degree. However, they have their zero...
UO_meter_per_second_per_second
meter per second per second: An acceleration unit which is equal to the acceleration an object changi...
MS_ProteomeDiscoverer_Mascot_Weight_of_W_Ions
ProteomeDiscoverer:Mascot:Weight of W Ions: Determines if to use W ions for spectrum matching...
MS_iTRAQ_reagent_119
iTRAQ reagent 119: The name of the sample labelled with the iTRAQ reagent 119.
UO_microcurie
microcurie: An activity (of a radionuclide) unit which is equal to one millionth of a curie or 10^[-6...
UNIMOD_Gln__His
Gln->His: Gln->His substitution.
MS_percent_collision_energy_ramp_start
percent collision energy ramp start: Collision energy at the start of the collision energy ramp in pe...
MS_TOPP_PeakPickerHiRes
TOPP PeakPickerHiRes: Finds mass spectrometric peaks in high-resoluted profile mass spectra...
MS_SI_OBSOLETE
SI (suface ionization): The ionization of a neutral species when it interacts with a solid surface wi...
MS_XIC_area
XIC area: Area of the extracted ion chromatogram (e.g. of a transition in SRM).
UNIMOD_Thr__Val
Thr->Val: Thr->Val substitution.
MS_TOPP_OMSSAAdapter
TOPP OMSSAAdapter: Identifies MS2 spectra using the external program OMSSA.
MS_maldi_spot_identifier_OBSOLETE
maldi spot identifier: Maldi Spot Identifier.
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...
MS_role_type
role type: Role of a Person or Organization.
UO_molecule_count
molecule count: A dimensionless count unit which denotes the number of molecules. ...
MS_TSQ_Vantage
TSQ Vantage: TSQ Vantage.
UO_picogram
picogram: A mass unit which is equal to 10^[-12] g.
MS_LECO_software
LECO software: LECO software for data acquisition and analysis.
MS_direct_liquid_introduction
direct liquid introduction: The delivery of a liquid sample into a mass spectrometer for spray or des...
UNIMOD_Label_15N_4_
Label:15N(4): SILAC 15N(4).
UNIMOD_Label_13C_6__GG
Label:13C(6)+GG: 13C6 labeled ubiquitinylation residue.
UO_volt
volt: An electric potential difference unit which is equal to the work per unit charge. One volt is the potential difference required to move one coulomb of charge between two points in a circuit while using one joule of energy.
MS_mzQuantML_format
mzQuantML format: The mzQuantML format for quantification data from the PSI. File extension '...
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_impact
impact: Bruker Daltonics' impact: ESI Q-TOF, Nanospray, APCI, APPI, GC-APCI, CaptiveSpray.
MS_object_attribute
object attribute: Object Attribute.
UNIMOD_cGMP
cGMP: S-guanylation.
MS_PSM_level_local_FDR
PSM-level local FDR: Estimation of the local false discovery rate of peptide spectrum matches...
MS_ms_ms_search
ms-ms search: An MS2 search (with fragment ions).
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...
UO_electric_potential_difference_unit
electric potential difference unit: A unit which is a standard measure of the work done per unit char...
MS_Progenesis_peptide_normalised_abundance
Progenesis:peptide normalised abundance: The data type normalised abundance for peptides produced by ...
MS_MALDI_Synapt_HDMS
MALDI Synapt HDMS: Waters oa-ToF based MALDI Synapt HDMS.
MS_AA_sequence
AA sequence: The sequence is a amino acid sequence.
MS_MaxQuant_P_site_localization_probability
MaxQuant:P-site localization probability: The P-site localization probability value from MaxQuant sof...
MS_second_column_elution_time
second column elution time: The time of elution from the second chromatographic column in the chromat...
UNIMOD_dHex_1_Hex_5_HexNAc_4_Sulf_2_
dHex(1)Hex(5)HexNAc(4)Sulf(2): DHex Hex(5) HexNAc(4) Sulf(2).
MS_anchor_protein
anchor protein: A representative protein selected from a set of sequence same-set or spectrum same-se...
MS_Mascot_expectation_value
Mascot:expectation value: The Mascot result 'expectation value'.
UO_femtomole
femtomole: A substance unit equal to 10^[-15] mol.
UNIMOD_dHex_4_Hex_1_HexNAc_3_Kdn_1_
dHex(4)Hex(1)HexNAc(3)Kdn(1): DHex(4) Hex HexNAc(3) Kdn.
MS_Mascot_ShowHomologousProteinsWithSamePeptides
Mascot:ShowHomologousProteinsWithSamePeptides: If true, show (sequence or spectrum) same-set proteins...
MS_autoflex_TOF_TOF
autoflex TOF/TOF: Bruker Daltonics' autoflex TOF/TOF MS: MALDI TOF.
MS_Q_Tof_ultima
Q-Tof ultima: Waters oa-ToF based Q-Tof Ultima.
MS_pwiz
pwiz (ProteoWizard software): ProteoWizard software for data processing and analysis. Primarily developed by the labs of P. Malick and D. Tabb.
UNIMOD_Pro__Val
Pro->Val: Pro->Val substitution.
UNIMOD_Sulfide
Sulfide: Persulfide.
MS_distinct_peptide_level_q_value
distinct peptide-level q-value: Estimation of the q-value for distinct peptides once redundant identi...
MS_ProteinExtractor_PhenyxWeighting
ProteinExtractor:PhenyxWeighting: Influence of Phenyx search engine in the process of merging the sea...
MS_OpenXQuest_match_odds
OpenXQuest:match-odds: OpenXQuest's match-odds subscore.
MS_PIA_Combined_FDRScore_calculated
PIA:Combined FDRScore calculated: Indicates whether the combined FDR score was calculated for the PIA...
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_max_fold_change
max fold change: Global datatype: Maximum of all pair-wise fold changes of group means (e...
UNIMOD_O_Et_N_diMePhospho
O-Et-N-diMePhospho: O-ethyl, N-dimethyl phosphate.
UNIMOD_G_H1
G-H1: Glyoxal-derived hydroimiadazolone.
MS_Paragon_expression_change_p_value
Paragon:expression change p-value: The Paragon result 'Expression change P-value'.
MS_ProteomeDiscoverer_SEQUEST_Weight_of_z_Ions
ProteomeDiscoverer:SEQUEST:Weight of z Ions: Uses z ions for spectrum matching with this relative fac...
UO_speed_velocity_unit
speed/velocity unit: A unit which is a standard measure of the rate of movement. Speed is measured in...
MS_Xevo_G2_S_Tof
Xevo G2-S Tof: Waters oa-ToF based Xevo G2-S Tof.
MS_scan_polarity
scan polarity: An acquisition mode to which specifies weather polarity is negative, positive or alternating.
MS_Paragon__bias_correction
Paragon: bias correction: The Paragon method setting that controls whether 'Bias Correction' is invok...
MS_ProteomeDiscoverer_Spectrum_Selector_Unrecognized_MS_Order_Replacements
ProteomeDiscoverer:Spectrum Selector:Unrecognized MS Order Replacements: Specifies the MS scan order ...
MS_product_ion_m_z_error
product ion m/z error: The product ion m/z error.
UNIMOD_Gly__Lys
Gly->Lys: Gly->Lys substitution.
MS_MS2_tag_based_peptide_level_quantitation
MS2 tag-based peptide level quantitation: MS2 tag-based peptide level quantitation.
UNIMOD_a_type_ion
a-type-ion: ISD a-series (C-Term).
MS_ProteinScape_SearchEvent
ProteinScape SearchEvent: Source data for this mzIdentML was a ProteinScape SearchEvent.
MS_TSQ_Quantum_Ultra
TSQ Quantum Ultra: Thermo Scientific TSQ Quantum Ultra.
MS_clustal_aln
clustal aln: ClustalW ALN (multiple alignment) format.
MS_ProteomeDiscoverer_ZCore_Protein_Score_Cutoff
ProteomeDiscoverer:ZCore:Protein Score Cutoff: Sets a minimum protein score that each protein must ex...
MS_API_3000
API 3000: Applied Biosystems/MDS SCIEX API 3000 MS.
MS_SCIEX_TOF_TOF_database
SCIEX TOF/TOF database: Applied Biosystems/MDS Analytical Technologies TOF/TOF instrument database...
UNIMOD_SulfoGMBS
SulfoGMBS: High molecular absorption label for proteins.
MS_QTRAP_6500_
QTRAP 6500+: SCIEX QTRAP 6500+.
MS_data_processing
data processing (data transformation): Terms used to describe types of data processing.
UNIMOD_Hex_1_HexNAc_3_Sulf_1_
Hex(1)HexNAc(3)Sulf(1): Hex HexNAc(3) Sulf.
MS_ion_reaction_OBSOLETE
ion reaction: Chemical transformation involving an ion.
MS_Pepitome_MVH
Pepitome:MVH (MyriMatch:MVH): Using the multivariate hypergeometric distribution and a peak list divi...
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_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.
MS_ion_injection_time
ion injection time: The length of time spent filling an ion trapping device.
UNIMOD_Xle__Trp
Xle->Trp: Leu/Ile->Trp substitution.
MS_______E_E_
(?<=[^E]E): Regular expression for glutamyl endopeptidase.
MS_chromatography_OBSOLETE
chromatography: Chromatographic conditions used to obtain the sample.
UNIMOD_3sulfo
3sulfo: Derivatization by N-term modification using 3-Sulfobenzoic succinimidyl ester.
UNIMOD_PyridoxalPhosphate
PyridoxalPhosphate: Pyridoxal phosphate.
MS_____K_
(?<=K): Regular expression for Lys-C/P.
MS_confident_peptide_sequence_number
confident peptide sequence number: This counts the number of peptide sequences without regard to whet...
MS_Compass_OpenAccess
Compass OpenAccess: Bruker compass OpenAccess software.
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_ProteomeDiscoverer_Mascot_Max_MGF_File_Size
ProteomeDiscoverer:Mascot:Max MGF File Size: Maximum size of the .mgf (Mascot Generic Format) file in...
MS_chromatogram_type
chromatogram type: Broad category or type of a chromatogram.
MS_low_energy_collisions_OBSOLETE
low energy collisions: A collision between an ion and neutral species with translational energy appro...
MS_ProteomeDiscoverer_Peptide_CTerminus
ProteomeDiscoverer:Peptide CTerminus: Static modification for the C terminal of the peptide used duri...
MS_confidence_score
confidence score: Result of quality estimation: confidence score.
MS_unit_OBSOLETE
unit: Terms to describe units.
UNIMOD_dHex_2_Hex_2_HexNAc_3_
dHex(2)Hex(2)HexNAc(3): DHex(2) Hex(2) HexNAc(3).
UNIMOD_Label_2H_3__Oxidation
Label:2H(3)+Oxidation: Oxidised 2H(3) labelled Methionine.
UNIMOD_Delta_H_2_C_2_
Delta:H(2)C(2): Acetaldehyde +26.
UNIMOD_Met__Trp
Met->Trp: Met->Trp substitution.
MS_external_reference_identifier
external reference identifier: An identifier/accession number to an external reference database...
MS_multiple_ion_monitoring_spectrum
multiple ion monitoring spectrum (SIM spectrum): Spectrum obtained with the operation of a mass spect...
UNIMOD_Glu__Ala
Glu->Ala: Glu->Ala substitution.
UNIMOD_SUMO2135
SUMO2135: SUMOylation by SUMO-1 after tryptic cleavage.
MS_instrument_attribute
instrument attribute: Instrument properties that are associated with a value.
MS_peptide_exon_nucleotide_sizes
peptide exon nucleotide sizes: A comma separated list of the number of DNA bases within each exon to ...
UNIMOD_Arg__Gln
Arg->Gln: Arg->Gln substitution.
MS_gas_laser
gas laser: Laser which is powered by a gaseous medium.
MS_sum_of_MatchedFeature_values_OBSOLETE
sum of MatchedFeature values: Peptide quantification value calculated as sum of MatchedFeature quanti...
MS_staphylococcal_protease
staphylococcal protease (glutamyl endopeptidase): Enzyme glutamyl endopeptidase (EC 3...
MS_spectral_counting_quantitation_analysis
spectral counting quantitation analysis: Spectral counting workflow (number of identified MS2 spectra...
MS_matrix_solution_concentration
matrix solution concentration: Concentration of the chemical solution used as matrix.
MS_absolute_quantitation_analysis
absolute quantitation analysis: Absolute quantitation analysis.
UNIMOD_2HPG
2HPG: Bis(hydroxphenylglyoxal) arginine.
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.
MS_direct_insertion_probe
direct insertion probe: A device for introducing a solid or liquid sample into a mass spectrometer io...
UNIMOD_dHex_1_Hex_3_HexNAc_5_Sulf_1_
dHex(1)Hex(3)HexNAc(5)Sulf(1): DHex Hex(3) HexNAc(5) Sulf.
MS_PAnalyzer_indistinguishable_protein
PAnalyzer:indistinguishable protein: A member of a group of proteins sharing all peptides that are ex...
MS_MAT253
MAT253: ThermoFinnigan MAT253 MS.
MS_SIFT
SIFT (selected ion flow tube): A device in which m/z selected ions are entrained in an inert carrier ...
UNIMOD_Hydroxyfarnesyl
Hydroxyfarnesyl: Hydroxyfarnesyl.
MS_nanoACQUITY_UPLC_with_HDX_Technology
nanoACQUITY UPLC with HDX Technology: Waters LC-system nanoACQUITY UPLC with HDX Technology.
MS_frag__internal_ya_ion
frag: internal ya ion: Fragmentation information, type of product: internal ya ion.
MS_Xevo_Q_Tof
Xevo Q-Tof: Waters oa-ToF based Xevo Q-Tof.
UNIMOD_Val__Gly
Val->Gly: Val->Gly substitution.
MS_TOPP_MzTabExporter
TOPP MzTabExporter: Exports various XML formats to an mzTab file.
UNIMOD_Glucosylgalactosyl
Glucosylgalactosyl: Glucosylgalactosyl hydroxylysine.
UNIMOD_CarboxymethylDMAP
CarboxymethylDMAP: A fixed +1 charge tag attached to the N-terminus of peptides.
UNIMOD_dHex_2_Hex_2_HexNAc_2_Sulf_1_
dHex(2)Hex(2)HexNAc(2)Sulf(1): DHex(2) Hex(2) HexNAc(2) Sulf.
MS_number_of_peaks_used
number of peaks used: The number of peaks from the original peak list that are used to calculate the ...
MS_SEQUEST_sp
SEQUEST:sp: The SEQUEST result 'Sp' (protein).
UNIMOD_Phospho
Phospho: Phosphorylation.
MS_HCTultra_PTM
HCTultra PTM: Bruker Daltonics' HCTultra PTM: ESI TOF, Nanospray, APCI, APPI, PTR.
MS_TOPP_IDRTCalibration
TOPP IDRTCalibration: Calibrate Retention times of peptide hits to standards.
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.
UNIMOD_Met__Phe
Met->Phe: Met->Phe substitution.
MS_peptide_sequence_level_p_value
peptide sequence-level p-value: Estimation of the p-value for distinct peptides once redundant identi...
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_mz5_format
mz5 format: mz5 file format, modelled after mzML.
MS_6120_Quadrupole_LC_MS
6120 Quadrupole LC/MS: The 6120 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_source_sprayer_model
source sprayer model: The source sprayer model.
MS_ProteinExtractor_input_parameter
ProteinExtractor input parameter: Search engine input parameters specific to ProteinExtractor.
MS_SQID_score
SQID:score: The SQID result 'Score'.
MS_desorption_ionization
desorption ionization: The formation of ions from a solid or liquid material after the rapid vaporiza...
UNIMOD_Thyroxine
Thyroxine: Tetraiodo.
MS_charge_inversion_mass_spectrum
charge inversion mass spectrum: The measurement of the relative abundance of ions that result from a ...
UO_ug_disk
ug/disk: A unit which is equal to one microgram per disk, where a disk is some physical surface/conta...
MS_ChromaTOF_HRT_software
ChromaTOF HRT software: Software for acquisition, processing and analysis of data for LECO instrument...
MS_p_value__protein_diff_from_1_randomly__OBSOLETE
p-value (protein diff from 1 randomly): P-value (protein diff from 1 randomly).
MS_Shimadzu_Biotech_nativeID_format
Shimadzu Biotech nativeID format: Native format defined by source=xsd:string start=xsd:nonNegativeInt...
MS_SEQUEST_Full
SEQUEST:Full:
MS_Progenesis_protein_normalised_abundance
Progenesis:protein normalised abundance: The data type normalised abundance for proteins produced by ...
UNIMOD_dHex_1_Hex_2_HexNAc_2_Sulf_1_
dHex(1)Hex(2)HexNAc(2)Sulf(1): DHex Hex(2) HexNAc(2) Sulf.
UO_picometer
picometer: A length unit which is equal to 10^[-12] m.
UNIMOD_Hex_2_HexNAc_5_
Hex(2)HexNAc(5): Hex(2) HexNAc(5).
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_TOPP_PrecursorIonSelector
TOPP PrecursorIonSelector: A tool for precursor ion selection based on identification results...
MS_Expect_value
Expect value: Result of quality estimation: Expect value.
MS_multiple_peak_list_nativeID_format__combined_spectra
multiple peak list nativeID format, combined spectra: Comma separated list of spectra that have been ...
MS_TEMPUS_TOF
TEMPUS TOF: ThermoFinnigan TEMPUS TOF MS.
UNIMOD_Ser__Lys
Ser->Lys: Ser->Lys substitution.
MS_Bruker_Agilent_YEP_nativeID_format__combined_spectra
Bruker/Agilent YEP nativeID format, combined spectra: Bruker/Agilent comma separated list of spectra ...
MS_Pegasus_HRT
Pegasus HRT: LECO high resolution time-of-flight GC mass spectrometer.
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Selection
ProteomeDiscoverer:Spectrum Selector:Precursor Selection: Determines which precursor mass to use for ...
UO_mass_percentage
mass percentage: A dimensionless concentration unit which denotes the mass of a substance in a mixtur...
UNIMOD_Label_13C_9_
Label:13C(9): 13C(9) Silac label.
MS_ProteoGrouper_PAG_score
ProteoGrouper:PAG score: A score assigned to a protein group (modelled as ProteinAmbiguityGroup in mz...
MS_Paragon_special_factor
Paragon:special factor: The Paragon method setting indicating a list of one or more 'special factors'...
MS_report_only_spectra_assigned_to_identified_proteins
report only spectra assigned to identified proteins: Flag indicating to report only the spectra assig...
MS_micrOTOFcontrol
micrOTOFcontrol: Bruker software for data acquisition.
MS_ProteomeDiscoverer_SEQUEST_Std_Medium_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:Std Medium Confidence XCorr Charge2: Standard medium confidence XCorr para...
UNIMOD_Phe__Xle
Phe->Xle: Phe->Leu/Ile substitution.
UO_substance_unit
substance unit: A unit which is a standardised quantity of an element or compound with uniform compos...
UNIMOD_FMN
FMN: O3-(riboflavin phosphoryl).
PWIZ_API_DECL bool operator==(const TruncatedLorentzianParameters &t, const TruncatedLorentzianParameters &u)
UNIMOD_dHex_1_Hex_2_HexNAc_4_
dHex(1)Hex(2)HexNAc(4): DHex Hex(2) HexNAc(4).
UNIMOD_Dethiomethyl
Dethiomethyl: Prompt loss of side chain from oxidised Met.
MS_micrOTOF_Q_II
micrOTOF-Q II: Bruker Daltonics' micrOTOF-Q II: ESI Q-TOF, Nanospray, APCI, APPI. ...
MS_QIT
QIT (quadrupole ion trap): Quadrupole Ion Trap mass analyzer captures the ions in a three dimensional...
MS_ACQUITY_UPLC_H_Class
ACQUITY UPLC H-Class: Waters LC-system ACQUITY UPLC H-Class.
MS_PEFF_format
PEFF format: The sequence database was stored in the PEFF (PSI enhanced FastA file) format...
MS_PIA_protein_inference_used_PSMs
PIA:protein inference used PSMs: The method to determine the PSMs used for scoring by the protein inf...
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.
MS_autoflex_II
autoflex II: Bruker Daltonics' autoflex II: MALDI TOF.
MS_6410_Triple_Quadrupole_LC_MS
6410 Triple Quadrupole LC/MS: The 6410 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
UNIMOD_dHex_1_Hex_2_HexNAc_3_NeuAc_1_
dHex(1)Hex(2)HexNAc(3)NeuAc(1): DHex Hex(2) HexNAc(3) NeuAc.
MS_full_scan_OBSOLETE
full scan: Feature of the ion trap mass spectrometer where MS data is acquired over a mass range...
UO_meter
meter: A length unit which is equal to the length of the path traveled by light in vacuum during a ti...
UO_watt_hour
watt-hour: An energy unit which is equal to the amount of electrical energy equivalent to a one-watt ...
MS_product_ion_m_z
product ion m/z: The m/z of the product ion.
UNIMOD_Hex_1_HexNAc_2_NeuGc_1_
Hex(1)HexNAc(2)NeuGc(1): Hex HexNAc(2) NeuGc.
MS_SSQ_7000
SSQ 7000: ThermoFinnigan SSQ 7000 MS.
UNIMOD_Fluorescein_tyramine
Fluorescein-tyramine: Fluorescein-tyramine adduct by peroxidase activity.
UNIMOD_3_deoxyglucosone
3-deoxyglucosone: Condensation product of 3-deoxyglucosone.
MS_modification_parameters
modification parameters: Modification parameters for the search engine run.
MS_MaxQuant_PTM_Score
MaxQuant:PTM Score: The PTM score from MaxQuant software.
MS_software_specific_input_parameter
software specific input parameter: Software specific input parameter.
MS_4800_Plus_MALDI_TOF_TOF
4800 Plus MALDI TOF/TOF: SCIEX or Applied Biosystems|MDS SCIEX 4800 Plus MALDI TOF-TOF Analyzer...
MS_method_file_format
method file format: Attribute describing a method file format.
MS_spectrum_title_OBSOLETE
spectrum title: OBSOLETE: replaced by MS:1000796 (spectrum title): Holds the spectrum title from diff...
MS_protein_ratio
protein ratio: Protein ratio.
UNIMOD_Label_13C_4__Oxidation
Label:13C(4)+Oxidation: Oxidised 13C4 labelled Methionine.
MS_internal_peptide_reference_used
internal peptide reference used: States whether an internal peptide reference is used or not in absol...
MS_Pegasus
Pegasus: LECO GC time-of-flight mass spectrometer.
UNIMOD_Trp__Hydroxykynurenin
Trp->Hydroxykynurenin: Tryptophan oxidation to hydroxykynurenin.
MS_Thermo_nativeID_format
Thermo nativeID format: Native format defined by controllerType=xsd:nonNegativeInteger controllerNumb...
MS_decoy_MRM_transition
decoy MRM transition (decoy SRM transition): A transition not expected to be present in the sample an...
UNIMOD_Gln__Cys
Gln->Cys: Gln->Cys substitution.
UNIMOD_Tyr__Ala
Tyr->Ala: Tyr->Ala substitution.
MS_ProteomeDiscoverer_Mascot_Error_tolerant_Search
ProteomeDiscoverer:Mascot:Error tolerant Search: Determines whether to search error-tolerant.
UNIMOD_Val__Xle
Val->Xle: Val->Leu/Ile substitution.
MS_pulse_duration
pulse duration: Describes how long the laser beam was emitted from the laser device.
UNIMOD_dHex_1_Hex_2_HexNAc_3_Sulf_1_
dHex(1)Hex(2)HexNAc(3)Sulf(1): DHex Hex(2) HexNAc(3) Sulf.
UNIMOD_dHex_1_Hex_3_HexNAc_2_NeuGc_1_
dHex(1)Hex(3)HexNAc(2)NeuGc(1): DHex Hex(3) HexNAc(2) NeuGc.
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_adduct_ion_OBSOLETE
adduct ion: Ion formed by the interaction of an ion with one or more atoms or molecules to form an io...
UO_picomole
picomole: A substance unit equal to 10^[-12] mol.
MS_M_LDI_LR
M LR: Waters oa-ToF based MALDI LR.
UNIMOD_ISD_z_2_ion
ISD_z+2_ion: ISD (z+2)-series.
UO_frequency_unit
frequency unit: A unit which is a standard measure of the number of repetitive actions in a particula...
UNIMOD_Hex_2_
Hex(2): Lactosylation.
MS_PeptideShaker_PSM_score
PeptideShaker PSM score: The probability based PeptideShaker PSM score.
MS_MS_GF_RawScore
MS-GF:RawScore: MS-GF raw score.
MS_reporter_ion_raw_value
reporter ion raw value: Intensity (or area) of MS2 reporter ion (e.g. iTraq).
UO_unit_per_milliliter
unit per milliliter: A unit per milliliter unit which is equal to one unit of an agreed arbitrary amo...
MS_Proteinscape_spectra
Proteinscape spectra: Spectra from Bruker/Protagen Proteinscape database.
MS_sample_plate
sample plate: Plate where the sample solution is spotted in a MALDI or similar instrument.
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_Progenesis_feature_intensity
Progenesis:feature intensity: The data type feature intensity produced by Progenesis LC-MS...
MS_TOFCalibration
TOFCalibration: Applies time of flight calibration.
UNIMOD_Hex_5_HexNAc_1_
Hex(5)HexNAc(1): Hex(5) HexNAc.
UNIMOD_dHex_2_Hex_1_HexNAc_2_NeuGc_1_
dHex(2)Hex(1)HexNAc(2)NeuGc(1): DHex(2) Hex HexNAc(2) NeuGc.
MS_electron_energy_obsolete_OBSOLETE
electron energy obsolete: The potential difference through which electrons are accelerated before the...
UNIMOD_Cys__Asp
Cys->Asp: Cys->Asp substitution.
UNIMOD_His__Arg
His->Arg: His->Arg substitution.
MS_single_peak_list_nativeID_format
single peak list nativeID format: Native format defined by file=xsd:IDREF.
UNIMOD_Cys__Val
Cys->Val: Cys->Val substitution.
UNIMOD_Hex_1_HexNAc_2_Sulf_1_
Hex(1)HexNAc(2)Sulf(1): Hex HexNAc(2) Sulf.
MS_IDMS_OBSOLETE
IDMS (isotope dilution mass spectrometry): A quantitative mass spectrometry technique in which an iso...
UO_electric_field_strength_unit
electric field strength unit: The electric field strength is a unit which is a measure of the potenti...
UNIMOD_dHex_1_Hex_2_
dHex(1)Hex(2): Hex2dHex1.
UNIMOD_dHex_2_Hex_1_HexNAc_2_NeuAc_1_
dHex(2)Hex(1)HexNAc(2)NeuAc(1): DHex(2) Hex HexNAc(2) NeuAc.
MS_NCBI___p_
NCBI *.p*: The sequence database was stored in the NCBI formatdb (*.p*) format.
UNIMOD_His__Tyr
His->Tyr: His->Tyr substitution.
MS_translation_start_codons
translation start codons: The translation start codons used to translate the nucleotides to amino aci...
UNIMOD_Label_2H_6_15N_1_
Label:2H(6)15N(1): Label:2H(6)15N(1).
MS_MS_Numpress_linear_prediction_compression
MS-Numpress linear prediction compression: Compression using MS-Numpress linear prediction compressio...
MS_QTRAP_6500
QTRAP 6500: SCIEX QTRAP 6500.
MS_quadrupole_ion_trap
quadrupole ion trap: Quadrupole Ion Trap mass analyzer captures the ions in a three dimensional ion t...
MS_ion_desolvation_OBSOLETE
ion desolvation: The removal of solvent molecules clustered around a gas-phase ion by means of heatin...
MS_ultraflex_III_TOF_TOF
ultraflex III TOF/TOF: Bruker Daltonics' ultraflex III TOF/TOF: MALDI TOF.
MS_BioTools
BioTools: Bruker software for data analysis.
UNIMOD_dHex_1_Hex_1_HexNAc_2_Sulf_1_
dHex(1)Hex(1)HexNAc(2)Sulf(1): DHex Hex HexNAc(2) Sulf.
MS_MSFit_Mowse_score
MSFit:Mowse score: The MSFit Mowse score.
MS_SCiLS_Lab
SCiLS Lab: SCiLS Lab software.
UNIMOD_Hex_1_HexNAc_1_NeuAc_2_Ac_2_
Hex(1)HexNAc(1)NeuAc(2)Ac(2): Ac(2) Hex HexNAc NeuAc(2).
UNIMOD_Asp__Thr
Asp->Thr: Asp->Thr substitution.
MS_PSM_level_combined_FDRScore
PSM-level combined FDRScore: mzidLibrary Combined FDRScore for peptide spectrum matches specifically ...
MS_BaselineFilter
BaselineFilter: Removes the baseline from profile spectra using a top-hat filter. ...
MS_multiphoton_ionization
multiphoton ionization: Photoionization of an atom or molecule in which in two or more photons are ab...
MS_progeny_ion_OBSOLETE
progeny ion: A charged product of a series of consecutive reactions that includes product ions...
MS_NA_sequence
NA sequence: The sequence is a nucleic acid sequence.
MS_isolation_width_OBSOLETE
isolation width: The total width (i.e. not half for plus-or-minus) of the gate applied around a selec...
MS_conversion_software
conversion software: Computer software primarily designed to convert data represented in one format t...
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_lower_score_better
lower score better: Indicates that a lower score is better.
MS_ProteomeDiscoverer_Mascot_Please_Do_not_Touch_this
ProteomeDiscoverer:Mascot:Please Do not Touch this: Unknown Mascot parameter which ProteomeDiscoverer...
MS_microTOF_LC
microTOF LC: Bruker Daltonics' microTOF LC: ESI TOF, Nanospray, APCI, APPI.
MS_API_100LC
API 100LC: Applied Biosystems/MDS SCIEX API 100LC MS.
MS_ionization_mode_OBSOLETE
ionization mode: Whether positive or negative ions are selected for analysis by the spectrometer...
MS_probability_for_proteins
probability for proteins: Probability that a specific protein sequence has been correctly identified ...
MS_GENOLINK
GENOLINK: Bruker GENOLINK software.
UNIMOD_ExacTagThiol
ExacTagThiol: ExacTag Thiol label mass for 2-4-7-10 plex.
UNIMOD_UgiJoullieProGly
UgiJoullieProGly: Side reaction of PG with Side chain of aspartic or glutamic acid.
MS_Phenyx_MaxPepPvalue
Phenyx:MaxPepPvalue: The maximal peptide p-value for a peptide to be considered for a valid identific...
UNIMOD_Hex_3_HexNAc_6_Sulf_2_
Hex(3)HexNAc(6)Sulf(2): Hex(3) HexNAc(6) Sulf(2).
MS_TOPP_ConsensusID
TOPP ConsensusID: Computes a consensus identification from peptide identifications of several identif...
MS_LCMS_IT_TOF
LCMS-IT-TOF: Shimadzu Scientific Instruments LCMS-IT-TOF MS.
MS_intensity_normalization
intensity normalization: Normalization of data point intensities.
MS_SEQUEST_expectation_value
SEQUEST:expectation value: The SEQUEST result 'Expectation value'.
UO_luminous_intensity_unit
luminous intensity unit: A unit which is a standard measure of the wavelength-weighted power emitted ...
MS_ProteomeDiscoverer_Spectrum_Selector_Precursor_Clipping_Range_After
ProteomeDiscoverer:Spectrum Selector:Precursor Clipping Range After: Precursor clipping range after...
UNIMOD_spermidine
spermidine: Spermidine adduct.
MS_Exactive_Plus
Exactive Plus: Thermo Scientific Exactive Plus MS.
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. ...
MS_axial_ejection_linear_ion_trap
axial ejection linear ion trap: A linear ion trap mass spectrometer where ions are ejected along the ...
MS_detector_acquisition_mode
detector acquisition mode: Method by which detector signal is acquired by the data system...
MS_quadrupole
quadrupole: A mass spectrometer that consists of four parallel rods whose centers form the corners of...
UNIMOD_Gln__pyro_Glu
Gln->pyro-Glu: Pyro-glu from Q.
UNIMOD_Arg__Glu
Arg->Glu: Arg->Glu substitution.
UNIMOD_Cy3_maleimide
Cy3-maleimide: Cy3 Maleimide mono-Reactive dye.
UNIMOD_Formyl
Formyl: Formylation.
UNIMOD_Hex_3_HexNAc_1_Me_1_
Hex(3)HexNAc(1)Me(1): Hex(3) HexNAc Me.
UNIMOD_Ub_fluorescein
Ub-fluorescein: Ub Fluorescein probe addition.
MS_chemi_ionization
chemi-ionization: The reaction of a neutral molecule with an internally excited molecule to form an i...
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_includes_supersede_excludes
includes supersede excludes: A priority setting specifying that included targets have priority over t...
MS_PSM_level_FDRScore
PSM-level FDRScore: mzidLibrary FDRScore for peptide spectrum matches.
MS_Phenyx_Scoring_Model
Phenyx:Scoring Model: The selected scoring model in Phenyx.
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_1_Hex_1_HexNAc_2_Kdn_1_
dHex(1)Hex(1)HexNAc(2)Kdn(1): DHex Hex HexNAc(2) Kdn.
UNIMOD_dichlorination
dichlorination: Dichlorination.
UNIMOD_Bacillosamine
Bacillosamine: 2,4-diacetamido-2,4,6-trideoxyglucopyranose.
MS_numerator_data_type_attribute
numerator data type attribute: Attribute describing the data type of the numerator of a ratio...
UO_newton_per_meter
newton per meter: A surface tension unit which is equal to one newton per meter.
UO_catalytic__activity__concentration_unit
catalytic (activity) concentration unit: A concentration unit which is a standard measure of the amou...
MS_LTQ_Orbitrap_Velos
LTQ Orbitrap Velos: Finnigan LTQ Orbitrap Velos MS.
MS_ITQ_1100
ITQ 1100: Thermo Scientific ITQ 1100 GC-MS.
MS_cleavage_agent_details
cleavage agent details: Details of cleavage agent (enzyme).
UNIMOD_PhosphoHex_2_
PhosphoHex(2): H1O3P1Hex2.
MS_GPS_Explorer
GPS Explorer: SCIEX or Applied Biosystems software for data acquisition and analysis.
MS_multiple_peak_list_nativeID_format
multiple peak list nativeID format: Native format defined by index=xsd:nonNegativeInteger.
UNIMOD_IDEnT
IDEnT: Isotope Distribution Encoded Tag.
UNIMOD_Hex_5_HexNAc_3_
Hex(5)HexNAc(3): Hex(5) HexNAc(3).
UNIMOD_Trp__Cys
Trp->Cys: Trp->Cys substitution.
MS_Phenyx_AC
Phenyx:AC: The primary sequence database identifier of a protein in Phenyx.
UO_kilogram_per_meter
kilogram per meter: An area density unit which is equal to the mass of an object in kilograms divided...
MS_MSQuant
MSQuant: MSQuant software.
MS_retention_time_s__OBSOLETE
retention time(s): Retention time of the spectrum from the source file.
MS_DB_filter_on_accession_numbers
DB filter on accession numbers: Filtering applied specifically by accession number pattern...
UNIMOD_dHex_1_Hex_2_HexA_1_HexNAc_1_
dHex(1)Hex(2)HexA(1)HexNAc(1): DHex Hex(2) HexA HexNAc.
MS_Paragon__instrument_setting
Paragon: instrument setting: The Paragon method setting (translating to a large number of lower level...
MS_SEND
SEND (surface enhanced neat desorption): Matrix-assisted laser desorption ionization in which the mat...
MS_customization
customization: Free text description of a single customization made to the instrument; for several mo...
MS_molecular_formula
molecular formula: A chemical compound formula expressing the number of atoms of each element present...
MS_MS_GF_EValue
MS-GF:EValue: MS-GF E-value.
UNIMOD_Methyl_PEO12_Maleimide
Methyl-PEO12-Maleimide: Methyl-PEO12-Maleimide.
UNIMOD_LG_Hlactam_K
LG-Hlactam-K: Levuglandinyl - lysine hydroxylactam adduct.
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_XCMS
XCMS: Bioconductor package XCMS for preprocessing high-throughput, untargeted analyte profiling data...
MS_transition_optimized_on_specified_instrument
transition optimized on specified instrument: The transition has been optimized by direct injection o...
UO_electronvolt
electronvolt: A non-SI unit of energy (eV) defined as the energy acquired by a single unbound electro...
MS_native_spectrum_identifier_format__combined_spectra
native spectrum identifier format, combined spectra: Describes how the native spectrum identifiers th...
UNIMOD_SMCC_maleimide
SMCC-maleimide: Modified SMCC maleimide with 3-(dimethylamino)-1-propylamine.
MS_Electron_Transfer_Higher_Energy_Collision_Dissociation__EThcD_
Electron-Transfer/Higher-Energy Collision Dissociation (EThcD): A dissociation process combining elec...
MS_stable_ion_OBSOLETE
stable ion: An ion with internal energy sufficiently low that it does not rearrange or dissociate pri...
MS_protein_level_result_list_statistic
protein-level result list statistic: A statistical metric of an entire protein list.
UNIMOD_cGMP_RMP_loss
cGMP+RMP-loss: S-guanylation-2.
MS_peptide_passes_threshold
peptide passes threshold: A Boolean attribute to determine whether the peptide has passed the thresho...
MS_MIDAS_Workflow_Designer
MIDAS Workflow Designer: Applied Biosystems|MDS SCIEX software for MRM assay development.
MS_PIA_protein_inference_used_score
PIA:protein inference used score: The used base score for the protein inference using PIA...
UNIMOD_dHex_1_Hex_4_HexNAc_3_Sulf_1_
dHex(1)Hex(4)HexNAc(3)Sulf(1): DHex Hex(4) HexNAc(3) Sulf.
MS_MALDI_Synapt_G2_HDMS
MALDI Synapt G2 HDMS: Waters oa-ToF based MALDI Synapt G2 HDMS.
MS_Xcalibur
Xcalibur: Thermo Finnigan software for data acquisition and analysis.
UNIMOD_Propionamide
Propionamide: Acrylamide adduct.
MS_ClinProTools
ClinProTools: Bruker ClinProTools software.
UO_viscosity_unit
viscosity unit: A unit which is a standard measure of the internal resistance of fluids to flow...
UNIMOD_Xlink_DSS_NH2
Xlink:DSS-NH2: Ammonium-quenched monolink of DSS/BS3 crosslinker to Lys or N-terminus.
UNIMOD_Carboxy__Thiocarboxy
Carboxy->Thiocarboxy: Thiocarboxylic acid.
MS_Surveyor_MSQ
Surveyor MSQ: ThermoFinnigan Surveyor MSQ MS.
UNIMOD_Propyl
Propyl: Propyl.
MS_Paragon_expression_error_factor
Paragon:expression error factor: The Paragon result 'Expression Error Factor'.
MS_peak_area_OBSOLETE
peak area: Area of MS1 peak (e.g. SILAC, 15N).
UO_normal
normal: A unit of concentration which is one gram equivalent of a solute per liter of solution...
UNIMOD_Hex_1_HexNAc_2_dHex_1_
Hex(1)HexNAc(2)dHex(1): Hex1HexNAc2dHex1.
UNIMOD_PyruvicAcidIminyl
PyruvicAcidIminyl: N-pyruvic acid 2-iminyl.
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_ProteomeDiscoverer_Mascot_Weight_of_D_Ions
ProteomeDiscoverer:Mascot:Weight of D Ions: Determines if to use D ions for spectrum matching...
UNIMOD_Cys__Gln
Cys->Gln: Cys->Gln substitution.
MS_ProteomeDiscoverer_Mascot_Taxonomy_OBSOLETE
ProteomeDiscoverer:Mascot:Taxonomy: Limits searches to entries from a particular species or group of ...
MS_ProteinScape
ProteinScape: Bruker ProteinScape software.
MS_6130_Quadrupole_LC_MS
6130 Quadrupole LC/MS: The 6130 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_API_2000
API 2000: Applied Biosystems/MDS SCIEX API 2000 MS.
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_MS_Order_OBSOLETE
ProteomeDiscoverer:MS Order: Level of the mass spectrum (MS2 ... MS10).
UNIMOD_Label_18O_1_
Label:18O(1): O18 Labeling.
MS_charge_stripping_reaction_OBSOLETE
charge stripping reaction: Reaction of a positive ion with a neutral species in which the positive ch...
MS_dissociation_method
dissociation method: Fragmentation method used for dissociation or fragmentation. ...
UO_nanovolt
nanovolt: An electric potential difference unit which is equal to one billionth of a volt or 10^[-12]...
UO_ampere
ampere: An electric current unit which is equal to the constant current which, if maintained in two s...
MS_IdentityE_Score
IdentityE Score: Waters IdentityE peptide score.
MS_ABI_WIFF_format
ABI WIFF format: Applied Biosystems WIFF file format.
MS_ProteomeDiscoverer_Non_Fragment_Filter_Remove_Only_Known_Masses
ProteomeDiscoverer:Non-Fragment Filter:Remove Only Known Masses: Determines whether overtone peaks ar...
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_Methyl_2H_3__Acetyl_2H_3_
Methyl:2H(3)+Acetyl:2H(3): 3-fold methylated lysine labelled with Acetyl_heavy.
UNIMOD_Hex_3_HexNAc_1_
Hex(3)HexNAc(1): Hex(3) HexNAc.
UNIMOD_Diethyl
Diethyl: Diethylation, analogous to Dimethylation.
MS_ProteomeDiscoverer_SEQUEST_Calculate_Probability_Score
ProteomeDiscoverer:SEQUEST:Calculate Probability Score: Determines whether to calculate a probability...
UNIMOD_Val__Thr
Val->Thr: Val->Thr substitution.
MS_PSM_level_attribute
PSM-level attribute: Attribute of a single peptide-spectrum match.
UNIMOD_Asp__Lys
Asp->Lys: Asp->Lys substitution.
MS_phosphoRS_score
phosphoRS score: phosphoRS score for PTM site location at the PSM-level.
MS_EI_OBSOLETE
EI (Electronic Ionization): The ionization of an atom or molecule by electrons that are typically acc...
MS_PSD
PSD (post-source decay): A technique specific to reflectron time-of-flight mass spectrometers where p...
MS_collisional_excitation_OBSOLETE
collisional excitation: The reaction of an ion with a neutral species in which the translational ener...
MS_frag__z_ion___NH3
frag: z ion - NH3: Fragmentation information, type of product: z ion without ammonia.
UNIMOD_Ser__Cys
Ser->Cys: Ser->Cys substitution.
UNIMOD_Thr__Pro
Thr->Pro: Thr->Pro substitution.
UNIMOD_dHex_2_Hex_4_HexNAc_1_
dHex(2)Hex(4)HexNAc(1): DHex(2) Hex(4) HexNAc.
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_SEQUEST_sort_by_Sp
SEQUEST:sort by Sp: Sort order of SEQUEST search results by the Sp score.
UNIMOD_Xlink_SSD
Xlink:SSD: Covalent modification of lysine by cross-linking reagent.
MS_Paragon_total_protscore
Paragon:total protscore: The Paragon result 'Total ProtScore'.
MS_leukocyte_elastase
leukocyte elastase: Enzyme leukocyte elastase (EC 3.4.21.37).
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_ProteomeDiscoverer_Mass_Analyzer_OBSOLETE
ProteomeDiscoverer:Mass Analyzer: Type of mass spectrometer used (ITMS, FTMS, TOFMS, SQMS, TQMS, SectorMS).
MS_Mascot_total_ions
Mascot:total ions: The Mascot result 'Total ions'.
MS_CompassXtract
CompassXtract: Bruker software library for data access.
MS_peptide_PSM_count
peptide PSM count: The number of MS2 spectra identified for this peptide in spectral counting...
MS_static_supply_electrospray
static supply electrospray: The sprayer is loaded with sample once.
UNIMOD_Pro__Ser
Pro->Ser: Pro->Ser substitution.
MS_ProteomeDiscoverer_Mascot_Weight_of_Y_Ions
ProteomeDiscoverer:Mascot:Weight of Y Ions: Determines if to use Y ions for spectrum matching...
MS_precursor_activation
precursor activation: Terms to describe the precursor activation.
MS_electrospray_inlet
electrospray inlet: Inlet used for introducing the liquid sample into an electrospray ionization sour...
UNIMOD_Hex_7_Phos_3_
Hex(7)Phos(3): Hex(7) Phos(3).
MS_PEAKS_Studio
PEAKS Studio: PEAKS Studio software for data analysis.
MS_decoy_DB_from_IPI_zebrafish_OBSOLETE
decoy DB from IPI_zebrafish: Decoy database from a International Protein Index database for Danio rer...
UNIMOD_dHex_1_Hex_1_HexNAc_3_NeuGc_1_
dHex(1)Hex(1)HexNAc(3)NeuGc(1): DHex Hex HexNAc(3) NeuGc.
MS_flow_rate_array
flow rate array: A data array of flow rate measurements.
MS_negative_ion_OBSOLETE
negative ion: An atomic or molecular species having a net negative electric charge.
UNIMOD_dHex_4_Hex_2_HexNAc_2_Kdn_1_
dHex(4)Hex(2)HexNAc(2)Kdn(1): DHex(4) Hex(2) HexNAc(2) Kdn.
UNIMOD_Gly__Pro
Gly->Pro: Gly->Pro substitution.
MS_SILACAnalyzer
SILACAnalyzer: Software for SILAC workflow.
MS_TissueView_Software
TissueView Software: Applied Biosystems|MDS SCIEX software for tissue imaging.
MS_cross_link_spectrum_identification_item
cross-link spectrum identification item: Cross-linked spectrum identification item.
UO_watt_per_square_meter
watt per square meter: An irradiance unit which is equal to 1 watt of radiant power incident per one ...
MS_MGF_scans_OBSOLETE
MGF scans: OBSOLETE: replaced by MS:1000797 (peak list scans): This term can hold the scans attribute...
MS_selected_ion_monitoring_chromatogram
selected ion monitoring chromatogram: Chromatogram created by creating an array of the measurements o...
UNIMOD_dHex_1_Hex_4_HexNAc_5_
dHex(1)Hex(4)HexNAc(5): DHex Hex(4) HexNAc(5).
MS_6460_Triple_Quadrupole_LC_MS
6460 Triple Quadrupole LC/MS: The 6460 Quadrupole LC/MS system is a Agilent liquid chromatography ins...
MS_SIM_chromatogram
SIM chromatogram (selected ion monitoring chromatogram): Chromatogram created by creating an array of...
MS_ProteinExtractor_UseSequest
ProteinExtractor:UseSequest: Flag indicating to include SEQUEST scoring for calculation of the Protei...
MS_iTRAQ_reagent_118
iTRAQ reagent 118: The name of the sample labelled with the iTRAQ reagent 118.
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.
UNIMOD_dHex_1_Hex_3_HexNAc_4_
dHex(1)Hex(3)HexNAc(4): Fucosylated biantennary (-2 galactose).
MS_atmospheric_pressure_ionization
atmospheric pressure ionization: Any ionization process in which ions are formed in the gas phase at ...
UNIMOD_Phe__Asp
Phe->Asp: Phe->Asp substitution.
MS_DB_MW_filter_minimum
DB MW filter minimum: Minimum value of molecular weight filter.
MS_glutamyl_endopeptidase
glutamyl endopeptidase: Enzyme glutamyl endopeptidase (EC 3.4.21.19).
MS_spectral_count_feature
spectral count feature: Dummy decribing a spectral count feature.
MS_crushed_crystal_MALDI_sample_preparation
crushed crystal MALDI sample preparation: Crushed-crystal MALDI sample preparation method...
MS_analyzer_scan_offset
analyzer scan offset: Offset between two analyzers in a constant neutral loss or neutral gain scan...
MS_moving_average_smoothing
moving average smoothing: Reduces intensity spikes by averaging each point with two or more adjacent ...
UNIMOD_TMT6plex
TMT6plex: Sixplex Tandem Mass Tag®.
MS_PSM_level_probability
PSM-level probability: Probability that the reported peptide ion is truly responsible for some or all...
MS_protein_pair_level_global_FDR
protein-pair-level global FDR: Estimation of the global false discovery rate of proteins-pairs in cro...
MS_ProteomeDiscoverer_max_number_neutral_loss_modifications
ProteomeDiscoverer:max number neutral loss modifications: Max number of same neutral losses of modifi...
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...
UNIMOD_Gln__Trp
Gln->Trp: Gln->Trp substitution.
UNIMOD_Hex_1_HexNAc_1_dHex_1_Me_1_
Hex(1)HexNAc(1)dHex(1)Me(1): Hex HexNAc dHex Me.
UNIMOD_Pro__His
Pro->His: Pro->His substitution.
MS_Tide
Tide: Tide open-source sequence search program developed at the University of Washington.
MS_Synapt_G2_MS
Synapt G2 MS: Waters oa-ToF based Synapt G2 MS.
MS_ProteomeDiscoverer_Xtract_Required_Fitting_Accuracy
ProteomeDiscoverer:Xtract:Required Fitting Accuracy: Accuracy required for a pattern fit to be consid...
MS_ion_optics_attribute
ion optics attribute: Ion optics involves components that help focus ion streams in mass spectrometry...
MS_combined_FDRScore_OBSOLETE
combined FDRScore: FDRScore values specifically obtained for distinct combinations of single...
MS_MaxQuant_LFQ_intensity
MaxQuant:LFQ intensity: The data type LFQ intensity produced by MaxQuant.
MS_MS_OBSOLETE
MS (mass spectrometry): The branch of science that deals with all aspects of mass spectrometers and t...
MS_activation
activation (precursor activation): Terms to describe the precursor activation.
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge2
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge2: FT medium confidence XCorr parameter f...
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.
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.
MS_GC_Quantum
GC Quantum: GC Quantum.
UNIMOD_DTT_ST_2H_6_
DTT_ST:2H(6): Isotopically labeled Dithiothreitol (DTT) modification of serines or threonines...
MS_two_sample_run
two sample run: The raw file contains the run of two samples (e.g. SILAC, metabolic labelling)...
MS_ProteomeDiscoverer_max_equal_modifications
ProteomeDiscoverer:max equal modifications: Maximum equal modifications per PSM.
UNIMOD_Pro__Gln
Pro->Gln: Pro->Gln substitution.
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_Val__Asp
Val->Asp: Val->Asp substitution.
MS_MALDI_Solutions_Microbial_Identification
MALDI Solutions Microbial Identification: Shimadzu Biotech software for data acquisition, processing, and analysis.
MS_TOPP_MascotAdapterOnline
TOPP MascotAdapterOnline: Identifies MS2 spectra using the online version of the external program Mas...
MS_dalton_OBSOLETE
dalton: A non-SI unit of mass (symbol Da) that is equal to the unified atomic mass unit: 1...
UNIMOD_Delta_Se_1_
Delta:Se(1): Selenyl.
MS_PinPoint
PinPoint: Thermo Scientific PinPoint SRM analysis software.
MS_focus_diameter_y
focus diameter y: Describes the diameter of the laser beam in y direction.
MS_HyStar
HyStar: Bruker software for hyphenated experiments.
MS_TagRecon_mzFidelity
TagRecon:mzFidelity (MyriMatch:mzFidelity): The negative natural log probability that predicted peaks...
MS_Triple_Quad_6500
Triple Quad 6500: SCIEX Triple Quad 6500.
MS_TOF
TOF (time-of-flight): Instrument that separates ions by m/z in a field-free region after acceleration...
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_search_type
search type: Enumeration of type of search value (i.e. from PMF, sequence tag, MS2).
MS_reaction
reaction (transition): A set of two m/z values corresponding to the precursor m/z and a fragment m/z ...
UNIMOD_Amidino
Amidino: Amidino.
MS_xiFDR
xiFDR: Target/Decoy based FDR estimation for cross-linking peptide-identifications.
MS_Proteios
Proteios: Database application and analysis platform for proteomics.
UNIMOD_DTBP
DTBP: Dimethyl 3,3\'-dithiobispropionimidate.
MS_Comet_deltacn
Comet:deltacn: The Comet result 'DeltaCn'.
UNIMOD_Met__Gln
Met->Gln: Met->Gln substitution.
MS_TRACE_DSQ
TRACE DSQ: ThermoFinnigan TRACE DSQ MS.
MS_Multiple_Ion_Monitoring
Multiple Ion Monitoring (selected ion monitoring): The operation of a mass spectrometer in which the ...
UNIMOD_15N_oxobutanoic
15N-oxobutanoic: Loss of ammonia (15N).
UO_microgram
microgram: A mass unit which is equal to one millionth of a gram or 10^[-6] g.
MS_ProteomeDiscoverer_Mascot_Weight_of_X_Ions
ProteomeDiscoverer:Mascot:Weight of X Ions: Determines if to use X ions for spectrum matching...
MS_transient_recorder
transient recorder: A detector acquisition mode used for detecting transient signals.
UNIMOD_Propyl_2H_6_
Propyl:2H(6): Propyl:2H(6).
MS_reflectron_off
reflectron off: Reflectron is off.
UNIMOD_DyLight_maleimide
DyLight-maleimide: Thiol-reactive dye for fluorescence labelling of proteins.
MS_TOPP_FeatureLinkerUnlabeledQT
TOPP FeatureLinkerUnlabeledQT: Groups corresponding features from multiple maps using a quality thres...
MS_ITQ_900
ITQ 900: Thermo Scientific ITQ 900 GC-MS.
MS_charge_deconvolution
charge deconvolution: The determination of the mass of an ion based on the mass spectral peaks that r...
UNIMOD_Hex_1_HexNAc_1_NeuGc_3_
Hex(1)HexNAc(1)NeuGc(3): Hex HexNAc NeuGc(3).
MS_MRMPilot_Software
MRMPilot Software: Applied Biosystems|MDS SCIEX software for MRM assay development.
MS_scan_rate
scan rate: Rate in Th/sec for scanning analyzers.
UNIMOD_Delta_H_1_N__1_18O_1_
Delta:H(1)N(-1)18O(1): Glycosylated asparagine 18O labeling.
UNIMOD_Carbamidomethyl
Carbamidomethyl: Iodoacetamide derivative.
UNIMOD_ICAT_D
ICAT-D: Applied Biosystems original ICAT(TM) d0.
UO_deciliter
deciliter: A volume unit which is equal to one tenth of a liter or 10^[-1] L.
UNIMOD_Homocysteic_acid
Homocysteic_acid: Methionine oxidation to homocysteic acid.
UNIMOD_Tyr__Met
Tyr->Met: Tyr->Met substitution.
UO_millimolar
millimolar: A unit of molarity which is equal to one thousandth of a molar or 10^[-3] M...
MS_ProteinProspector_score
ProteinProspector:score: The ProteinProspector result 'Score'.
UNIMOD_Label_15N_2_
Label:15N(2): 15N(2).
MS_IPTL_quantitation_analysis
IPTL quantitation analysis: Quantification analysis using a labelling strategy where both peptide ter...
MS_AXIMA_Confidence_MALDI_TOF
AXIMA Confidence MALDI-TOF: Shimadzu Biotech AXIMA Confidence MALDI-TOF (curved field reflectron) MS...
MS_FAIMS_OBSOLETE
FAIMS (high-field asymmetric waveform ion mobility spectrometry): The separation of ions between two ...
MS_contact_name
contact name: Name of the contact person or organization.
MS_mzidLib_Perform_emPAI_on_mzid
mzidLib:Perform emPAI on mzid: A routine for adding emPAI quantitative values to an mzIdentML file...
MS_Mascot_matched_ions
Mascot:matched ions: The Mascot result 'Matched ions'.
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...
UNIMOD_Hex_3_HexNAc_5_
Hex(3)HexNAc(5): Hex(3) HexNAc(5).
MS_focus_diameter_x
focus diameter x: Describes the diameter of the laser beam in x direction.
MS_dynamic_mass_spectrometry_OBSOLETE
dynamic mass spectrometry: A mass spectrometer in which m/z separation using one or more electric fie...
MS_Compass_for_HCT_esquire
Compass for HCT/esquire: Bruker Compass for HCT/esquire software.
MS_laser_desorption_ionization
laser desorption ionization: The formation of gas-phase ions by the interaction of a pulsed laser wit...
MS_Percolator_features
Percolator:features: List of Percolator features that were used in processing the peptide matches...
MS_ITQ_700
ITQ 700: Thermo Scientific ITQ 700 GC-MS.
MS_SILAC_light_reagent
SILAC light reagent: The name of the sample labelled with the light SILAC label.
MS_SPS
SPS (synchronous prefilter selection): Synchronous prefilter selection.
MS_buffer_gas
buffer gas: An inert gas used for collisional deactivation of internally excited ions.
UNIMOD_Label_13C_6_15N_2__GG
Label:13C(6)15N(2)+GG: 13C(6) 15N(2) Lysine glygly.
MS_McLafferty_Rearrangement_OBSOLETE
McLafferty Rearrangement: A dissociation reaction triggered by transfer of a hydrogen atom via a 6-me...
UNIMOD_Gln__Phe
Gln->Phe: Gln->Phe substitution.
MS_ionizing_collision_OBSOLETE
ionizing collision: The reaction of an ion with a neutral species in which one or more electrons are ...
UNIMOD_Hex_4_
Hex(4): Hex(4).
MS_Synapt_HDMS
Synapt HDMS: Waters oa-ToF based Synapt HDMS.
UNIMOD_Hex_1_HexNAc_2_NeuAc_2_Sulf_1_
Hex(1)HexNAc(2)NeuAc(2)Sulf(1): Hex HexNAc(2) NeuAc(2) Sulf.
MS_ZCore_probScore
ZCore:probScore: The ZCore probability score.
MS_SIM
SIM (selected ion monitoring): The operation of a mass spectrometer in which the intensities of sever...
UNIMOD_FMNC
FMNC: S-(4a-FMN).
std::string version
the version of the CV from which the referred-to terms are drawn.
MS_ProteomeDiscoverer_SEQUEST_FT_Medium_Confidence_XCorr_Charge1
ProteomeDiscoverer:SEQUEST:FT Medium Confidence XCorr Charge1: FT medium confidence XCorr parameter f...
UNIMOD_IodoU_AMP
IodoU-AMP: Cross-link of (Iodo)-uracil MP with W,F,Y.
UNIMOD_Ala__Thr
Ala->Thr: Ala->Thr substitution.
MS_SEQUEST_Sequences
SEQUEST:Sequences:
MS_time_series__time_point_X
time series, time point X: The experimental design followed a time series design. The time point of t...
MS_frag__precursor_ion___H2O
frag: precursor ion - H2O: Fragmentation information, type of product: precursor ion without water...
MS_elution_time
elution time: The time of elution from all used chromatographic columns (one or more) in the chromato...
MS_multiple_stage_mass_spectrometry_spectrum
multiple-stage mass spectrometry spectrum (MSn spectrum): MSn refers to multi-stage MS2 experiments d...
UNIMOD_Pro__Phe
Pro->Phe: Pro->Phe substitution.
MS_spectrum_identifier_nativeID_format__combined_spectra
spectrum identifier nativeID format, combined spectra: Comma separated list of spectra that have been...
UNIMOD_Trp__Asn
Trp->Asn: Trp->Asn substitution.
UNIMOD_Hex_4_HexNAc_4_Sulf_2_
Hex(4)HexNAc(4)Sulf(2): Hex(4) HexNAc(4) Sulf(2).
MS_MSn_OBSOLETE
MSn (multiple stage mass spectrometry): Multiple stages of precursor ion m/z selection followed by pr...
MS_API_150EX
API 150EX: Applied Biosystems/MDS SCIEX API 150EX MS.
MS_PROTEINEER_fc
PROTEINEER fc: Bruker PROTEINEER fc software.
UNIMOD_Cytopiloyne_water
Cytopiloyne+water: Nucleophilic addition to cytopiloyne+H2O.
MS_MS_GF_DeNovoScore
MS-GF:DeNovoScore: MS-GF de novo score.
MS_Bruker_FID_format
Bruker FID format: Bruker FID file format.
MS_product_ion_spectrum_OBSOLETE
product ion spectrum: A mass spectrum recorded from any spectrometer in which the appropriate m/z sep...
MS_isotope_ratio_mass_spectrometry_OBSOLETE
isotope ratio mass spectrometry: The measurement of the relative quantity of the different isotopes o...
MS_quality_estimation_by_manual_validation
quality estimation by manual validation: The quality estimation was done manually.
MS_SEQUEST_spscore
SEQUEST:spscore: The SEQUEST result 'SpScore'.
UNIMOD_Hex_4_HexNAc_3_
Hex(4)HexNAc(3): Hex(4) HexNAc(3).
MS_DELTA_plusAdvantage
DELTA plusAdvantage: ThermoFinnigan DELTA plusAdvantage MS.
MS_search_engine_specific_score_for_protein_groups
search engine specific score for protein groups: Search engine specific protein group scores...
UNIMOD_Hex_2_HexNAc_1_NeuGc_3_
Hex(2)HexNAc(1)NeuGc(3): Hex(2) HexNAc NeuGc(3).
UNIMOD_Phe__Thr
Phe->Thr: Phe->Thr substitution.
MS_PSM_level_search_engine_specific_statistic
PSM-level search engine specific statistic: Search engine specific peptide spectrum match scores...
UNIMOD_Delta_H_6_C_3_O_1_
Delta:H(6)C(3)O(1): Reduced acrolein addition +58.
MS_search_engine_specific_score_for_proteins
search engine specific score for proteins: Search engine specific protein scores. ...
UO_sievert
sievert: A dose equivalent unit which is equal to the absorption of one joule of radiation energy by ...
MS_association_reaction_OBSOLETE
association reaction: The reaction of an ion with a neutral species in which the reactants combine to...
MS_protein_detection_statistical_threshold
protein detection statistical threshold: Estimated statistical threshold used for protein detection...
MS_SEQUEST_SequenceHeaderFilter
SEQUEST:SequenceHeaderFilter: String in the header of a sequence entry for that entry to be searched...
UO_microliters_per_minute
microliters per minute: A volumetric flow rate unit which is equal to one microliter volume through a...
UNIMOD_AHA_SS
AHA-SS: Azidohomoalanine coupled to reductively cleaved tag.
UNIMOD_Ala__Cys
Ala->Cys: Ala->Cys substitution.
MS_decoy_DB_from_IPI_mouse_OBSOLETE
decoy DB from IPI_mouse: Decoy database from a International Protein Index database for Mus musculus...
MS_ion_pair_formation_OBSOLETE
ion-pair formation: The reaction of a molecule to form both a positive ion and negative ion fragment ...
UNIMOD_Biotin_Invitrogen_M1602
Biotin:Invitrogen-M1602: Nalpha-(3-maleimidylpropionyl)biocytin.
MS_ProteinLynx_Log_Likelihood
ProteinLynx:Log Likelihood: ProteinLynx log likelihood score.
UNIMOD_Asn__Gly
Asn->Gly: Asn->Gly substitution.
MS_SEQUEST_CullTo
SEQUEST:CullTo: Specify cull string as value of the CVParam.
UNIMOD_Hex_4_Phos_1_
Hex(4)Phos(1): Hex(4) Phos.
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_Cytopiloyne
Cytopiloyne: Nucleophilic addtion to cytopiloyne.
MS_nanoACQUITY_UPLC
nanoACQUITY UPLC: Waters LC-system nanoACQUITY UPLC.
MS_einzel_lens
einzel lens: Three element charged particle lens in which the first and third elements are held at th...
MS_TSQ_8000_Evo
TSQ 8000 Evo: Thermo Scientific TSQ 8000 Evo MS.
UNIMOD_Decanoyl
Decanoyl: Lipid.
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...
UNIMOD_Arg__Lys
Arg->Lys: Arg->Lys substitution.
MS_D_Score
D-Score: D-Score for PTM site location at the PSM-level.
MS_database_original_uri
database original uri: URI, from where the search database was originally downloaded.
MS_Byonic_Protein_LogProb
Byonic:Protein LogProb: The log p-value of the protein.
MS_TOPP_OpenSwathFeatureXMLToTSV
TOPP OpenSwathFeatureXMLToTSV: Converts a featureXML to a mProphet tsv (tab separated values)...
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_LXQ
LXQ: Finnigan LXQ MS.
MS_ProteomeXchange_accession_number
ProteomeXchange accession number: Main identifier of a ProteomeXchange dataset.
MS_precursor_ion_spectrum
precursor ion spectrum: Spectrum generated by scanning precursor m/z while monitoring a fixed product...
UNIMOD_CLIP_TRAQ_4
CLIP_TRAQ_4: CLIP_TRAQ_4.
UO_kilogram
kilogram: A mass unit which is equal to the mass of the International Prototype Kilogram kept by the ...
MS_atmospheric_pressure_matrix_assisted_laser_desorption_ionization
atmospheric pressure matrix-assisted laser desorption ionization: Matrix-assisted laser desorption io...
MS_null_terminated_ASCII_string
null-terminated ASCII string: Sequence of zero or more non-zero ASCII characters terminated by a sing...
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.
UNIMOD_Biotin_Thermo_33033
Biotin:Thermo-33033: Sulfo-SBED Label Photoreactive Biotin Crosslinker.
MS_ProteomeDiscoverer_perform_deisotoping
ProteomeDiscoverer:perform deisotoping: Defines whether a simple deisotoping shall be performed...
UNIMOD_Oxidation
Oxidation: Oxidation or Hydroxylation.
MS_mzidLib_Csv2Mzid
mzidLib:Csv2Mzid: A converter for CSV files (following OMSSA CSV style) to mzIdentML.
MS_MapAligner_OBSOLETE
MapAligner: Corrects retention time distortions between maps.
MS_autoflex_III_TOF_TOF_smartbeam
autoflex III TOF/TOF smartbeam: Bruker Daltonics' autoflex III TOF/TOF smartbeam: MALDI TOF...
MS_sample_plate_type
sample plate type: The sample plate type.
MS_MaxQuant_sequence_length
MaxQuant:sequence length: The data type sequence length produced by MaxQuant.
MS_isolation_window_upper_offset
isolation window upper offset: The extent of the isolation window in m/z above the isolation window t...
UO_kilovolt_hour
kilovolt-hour: A magnetic flux unit which is equal to one thousand volt-hours.
MS_SEQUEST_LimitTo
SEQUEST:LimitTo: Specify "number of dtas shown" as value of the CVParam.
MS_protein_group_level_FDRScore
protein group-level FDRScore: mzidLibrary FDRScore for protein groups.
MS_lowest_observed_m_z
lowest observed m/z: Lowest m/z value observed in the m/z array.
MS_iTRAQ_quantitation_analysis
iTRAQ quantitation analysis: Quantification analysis using the SCIEX iTRAQ isobaric labelling workflo...
MS_database_type_nucleotide
database type nucleotide: Database contains nucleic acid sequences.
MS_peak_intensity_OBSOLETE
peak intensity: The height or area of a peak in a mass spectrum.
MS_distinct_peptide_level_combined_FDRScore
distinct peptide-level combined FDRScore: Combined FDRScore for peptides once redundant identificatio...
UNIMOD_CLIP_TRAQ_2
CLIP_TRAQ_2: CLIP_TRAQ_2.
UNIMOD_MDCC
MDCC: Covalent linkage of maleimidyl coumarin probe (Molecular Probes D-10253).
UNIMOD_Asp__Gln
Asp->Gln: Asp->Gln substitution.
MS_delta_M
delta M: The difference between a theoretically calculated molecular mass M and the corresponding exp...
UNIMOD_Dansyl
Dansyl: 5-dimethylaminonaphthalene-1-sulfonyl.
UO_time_unit
time unit: A unit which is a standard measure of the dimension in which events occur in sequence...
MS_SEQUEST_sort_by_P
SEQUEST:sort by P: Sort order of SEQUEST search results given by the probability. ...
MS_electrospray_ionization
electrospray ionization: A process in which ionized species in the gas phase are produced from an ana...
MS_ProteomeDiscoverer_1__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:1. Dynamic Modification: ProteomeDiscoverer's 1st dynamic post-translational modif...
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...
MS_quality_estimation_with_implicite_decoy_sequences
quality estimation with implicite decoy sequences: Decoy entries are generated during the search...
UNIMOD_lapachenole
lapachenole: Lapachenole photochemically added to cysteine.
UNIMOD_Delta_H_8_C_6_O_2_
Delta:H(8)C(6)O(2): Acrolein addition +112.
MS_sequence_same_set_protein
sequence same-set protein: A protein which is indistinguishable or equivalent to another protein...
MS_second_OBSOLETE
second: Acquisition time in seconds.
UNIMOD_Phe__Trp
Phe->Trp: Phe->Trp substitution.
MS_PSM_level_result_list_attribute
PSM-level result list attribute: General property of the list of all PSMs.
UNIMOD_Label_13C_2_15N_2_
Label:13C(2)15N(2): 13C(2) 15N(2).
MS_suspension
suspension: State if the sample is in suspension form.
UNIMOD_HexNAc
HexNAc: N-Acetylhexosamine.
UNIMOD_AHA_Alkyne
AHA-Alkyne: Azidohomoalanine (AHA) bound to propargylglycine-NH2 (alkyne).
MS_error_on_peptide_ratio
error on peptide ratio: Error on peptide ratio.
UNIMOD_His__Met
His->Met: His->Met substitution.
MS_experimental_condition__case_
experimental condition 'case': The experimental condition is 'case' in contrast to 'control'...
MS_ProteomeDiscoverer_2__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:2. Dynamic Modification: ProteomeDiscoverer's 2nd dynamic post-translational modif...
MS_resolution_array
resolution array: A data array of resolution values.
UO_microliter
microliter: A volume unit which is equal to one millionth of a liter or 10^[-6] L.
MS_error_on_protein_ratio
error on protein ratio: Error on protein ratio.
MS_negative_ion_mode_OBSOLETE
negative ion mode: OBSOLETE.
UNIMOD_Bromobimane
Bromobimane: Monobromobimane derivative.
MS_DSQ_II
DSQ II: Thermo Scientific DSQ II GC-MS.
MS_sector_mass_spectrometer_OBSOLETE
sector mass spectrometer: A mass spectrometer consisting of one or more magnetic sectors for m/z sele...
MS_result_list_attribute
result list attribute: General property of an entire result list.
UO_nanomolal
nanomolal: A molality unit which is equal to one thousandth of one millionth of a molal or 10^[-9] m...
UNIMOD_Hex_4_HexNAc_5_Sulf_1_
Hex(4)HexNAc(5)Sulf(1): Hex(4) HexNAc(5) Sulf.
UO_megavolt
megavolt: An electric potential difference unit which is equal to one million volts or 10^[6] V...
UNIMOD_Arg__Cys
Arg->Cys: Arg->Cys substitution.
MS_smoothing
smoothing: A process of reducing spikes of intensity in order to reduce noise while preserving real p...
MS_TMT_quantitation_analysis
TMT quantitation analysis: Quantitation analysis using the Thermo Fisher tandem mass tag (TMT) labell...
UNIMOD_NEM_2H_5_
NEM:2H(5): D5 N-ethylmaleimide on cysteines.
UNIMOD_Label_13C_1_2H_3_
Label:13C(1)2H(3): SILAC.
MS_marginally_distinguished_protein
marginally distinguished protein: Assigned to a non-leading protein that has some independent evidenc...
MS_MS2_tag_based_feature_level_quantitation
MS2 tag-based feature level quantitation: MS2 tag-based feature level quantitation.
MS_REMPI
REMPI (resonance enhanced multiphoton ionization): Multiphoton ionization in which the ionization cro...
MS_no_peptide_level_threshold
no peptide-level threshold: Indicating that no peptide-level threshold was used.
MS_EMR_radiation_chromatogram
EMR radiation chromatogram (electromagnetic radiation chromatogram): The measurement of electromagnet...
MS_retention_time_window_attribute
retention time window attribute: An attribute of a window in time about which a peptide might elute f...
MS_OMSSA_xml_format
OMSSA xml format: Source file for this mzIdentML was in OMSSA xml file format.
MS_native_spectrum_identifier_format
native spectrum identifier format: Describes how the native spectrum identifiers are formated...
MS_TOPP_FeatureFinderMRM
TOPP FeatureFinderMRM: Quantifies features LC-MS/MS MRM data.
MS_ProteomeXchange_accession_number_version_number
ProteomeXchange accession number version number: Version number of a ProteomeXchange accession number...
MS_PIA_protein_inference_filter
PIA:protein inference filter: A filter used by PIA for the protein inference.
UO_nanogram_per_milliliter
nanogram per milliliter: A mass unit density which is equal to mass of an object in nanograms divided...
UNIMOD_Gln__Ala
Gln->Ala: Gln->Ala substitution.
MS_blackbody_infrared_radiative_dissociation
blackbody infrared radiative dissociation: A special case of infrared multiphoton dissociation wherei...
UNIMOD_Val__Tyr
Val->Tyr: Val->Tyr substitution.
MS_HCTplus
HCTplus: Bruker Daltonics' HCTplus: ESI Q-TOF, Nanospray, APCI, APPI.
MS_TOPP_PrecursorMassCorrector
TOPP PrecursorMassCorrector: Correct the precursor entries of tandem MS scans.
MS_Spark_Source_Mass_Spectrometry_OBSOLETE
Spark Source Mass Spectrometry: Mass spectrometry using spark ionization.
MS_inlet_type
inlet type: The nature of the sample inlet.
MS_DIP
DIP (direct insertion probe): A device for introducing a solid or liquid sample into a mass spectrome...
MS_Bruker_Daltonics_maXis_series
Bruker Daltonics maXis series: Bruker Daltonics' maXis series.
MS_e_2_mass_spectrum
e/2 mass spectrum: A mass spectrum obtained using a sector mass spectrometer in which the electric se...
UNIMOD_HexNAc_1_NeuGc_1_
HexNAc(1)NeuGc(1): HexNAc NeuGc.
UNIMOD_Xle__Tyr
Xle->Tyr: Leu/Ile->Tyr substitution.
UNIMOD_dHex_1_Hex_4_HexA_1_HexNAc_2_
dHex(1)Hex(4)HexA(1)HexNAc(2): DHex Hex(4) HexA HexNAc(2).
MS_MD_Score_threshold
MD-Score threshold: Threshold for MD-score PTM site location score.
MS_ProteomeDiscoverer_Spectrum_Selector_Upper_RT_Limit
ProteomeDiscoverer:Spectrum Selector:Upper RT Limit: Upper retention-time limit.
MS_TOPP_IDFileConverter
TOPP IDFileConverter: Converts identification engine file formats.
MS_sample_concentration
sample concentration: Concentration of sample in picomol/ul, femtomol/ul or attomol/ul solution used...
UNIMOD_Asn__Xle
Asn->Xle: Asn->Leu/Ile substitution.
MS_number_of_distinct_protein_sequences
number of distinct protein sequences: The number of protein clusters that have been identified...
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.
MS_TRIZAIC_UPLC_nanoTile
TRIZAIC UPLC nanoTile: Waters LC-system TRIZAIC UPLC nanoTile.
MS_X_Tandem_xml_format
X!Tandem xml format: Source file for this mzIdentML was in X!Tandem xml file format.
MS_vendor_OBSOLETE
vendor: Name of instrument vendor.
MS_unspecific_cleavage
unspecific cleavage: Unspecific cleavage.
UNIMOD_Myristoleyl
Myristoleyl: (cis-delta 5)-tetradecaenoyl.
UNIMOD_Tyr__Asn
Tyr->Asn: Tyr->Asn substitution.
UNIMOD_Delta_H_4_C_2_O__1_S_1_
Delta:H(4)C(2)O(-1)S(1): S-Ethylcystine from Serine.
MS_ProteinExtractor_UseProteinSolver
ProteinExtractor:UseProteinSolver: Flag indicating to include ProteinSolver scoring for calculation o...
MS_MultiQuant
MultiQuant: Applied Biosystems|MDS SCIEX software for MRM-based quantitation.
MS_field_desorption
field desorption: The formation of gas-phase ions from a material deposited on a solid surface in the...
UNIMOD_HNE_Delta_H_2_
HNE+Delta:H(2): Reduced 4-Hydroxynonenal.
MS_metabolic_labelling__heavy_N__mainly_15N_
metabolic labelling: heavy N (mainly 15N): Metabolic labelling: heavy N (mainly 15N).
UNIMOD_dHex_3_Hex_2_HexNAc_2_
dHex(3)Hex(2)HexNAc(2): DHex(3) Hex(2) HexNAc(2).
MS_pressure_array
pressure array: A data array of pressure measurements.
MS_open_split
open split: A division of flowing stream of liquid into two streams.
MS_ProteomeDiscoverer_Spectrum_Selector_Minimum_Peak_Count
ProteomeDiscoverer:Spectrum Selector:Minimum Peak Count: Minimum number of peaks in a tandem mass spe...
MS_product_ion_series_ordinal
product ion series ordinal: The ordinal of the fragment within a specified ion series. (e.g. 8 for a y8 ion).
MS_CLINPROT_robot
CLINPROT robot: Bruker CLINPROT robot software.
MS_4000_Series_Explorer_Software
4000 Series Explorer Software: SCIEX or Applied Biosystems software for data acquisition and analysis...
UNIMOD_FNEM
FNEM: Fluorescein-5-maleimide.
MS_Thermo_Finnigan_instrument_model
Thermo Finnigan instrument model: ThermoFinnigan from Thermo Electron Corporation instrument model...
UNIMOD_Arg__Pro
Arg->Pro: Arg->Pro substitution.
MS_AXIMA_CFR_plus
AXIMA-CFR plus: Shimadzu Biotech AXIMA-CFR plus MS.
MS_consensus_scoring
consensus scoring: Consensus multiple search engine approach performed.
MS_small_molecule_list_attribute
small molecule list attribute: Attribute describing a small molecule list.
MS_ProteinExtractor_MascotUseIdentityScore
ProteinExtractor:MascotUseIdentityScore:
MS_SEQUEST_selectCV
SEQUEST:selectCV: SEQUEST Select Input Parameters.
MS_CRF_OBSOLETE
CRF (charge-remote fragmentation): A fragmentation of an even-electron ion in which the cleaved bond ...
MS_TSQ_Quantum_Access
TSQ Quantum Access: Thermo Scientific TSQ Quantum Access MS.
UNIMOD_Hex_5_HexNAc_3_Pent_1_
Hex(5)HexNAc(3)Pent(1): Hex(5) HexNAc(3) Pent.
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.
MS_journal_article_keyword
journal article keyword: Keyword present in a scientific publication.
MS_database_sequence_details
database sequence details: Details about a single database sequence.
MS_transition_validation_attribute
transition validation attribute: Attributes of the quality of a transition that affect its selection ...
UNIMOD_Thr__Lys
Thr->Lys: Thr->Lys substitution.
MS_study_variable_attribute
study variable attribute: Attribute describing a study variable.
MS_raw_file_attribute
raw file attribute: Attribute describing a raw file.
MS_predicted_retention_time
predicted retention time: A time interval from the start of chromatography when an analyte exits a ch...
MS_CI
CI (chemical ionization): The formation of a new ion by the reaction of a neutral species with an ion...
UNIMOD_Lys__Ser
Lys->Ser: Lys->Ser substitution.
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_MolybdopterinGD
MolybdopterinGD: Molybdenum bis(molybdopterin guanine dinucleotide).
MS_param__d_ion
param: d ion: Parameter information, type of product: side chain loss d ion.
MS_laser
laser: Device that emits light (electromagnetic radiation) through a process called stimulated emissi...
MS_TOPP_SpectraFilterNLargest
TOPP SpectraFilterNLargest: Retains the n largest peaks of a peak spectra.
MS_ProteinExtractor_MascotUniqueScore
ProteinExtractor:MascotUniqueScore: In the final result each protein must have at least one peptide a...
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_Q_Exactive_Plus
Q Exactive Plus: Thermo Scientific Q Exactive Plus.
MS_experimental_condition__control_
experimental condition 'control': The experimental condition is 'control' in contrast to 'case'...
MS_taxonomy__scientific_name
taxonomy: scientific name: This term is used if a scientific name is specified, e.g. Homo sapiens. Recommend using MS:1001467 (taxonomy: NCBI TaxID) where possible.
MS_msmsEval_quality
msmsEval quality: This term reports the quality of the spectrum assigned by msmsEval.
MS_TRITON
TRITON: ThermoFinnigan TRITON MS.
MS_Mascot_use_MudPIT_scoring_OBSOLETE
Mascot:use MudPIT scoring: Determines whether to use MudPIT or normal scoring.
MS_peptide_sequence_level_identification_statistic
peptide sequence-level identification statistic: Identification confidence metric for a peptide...
UO_nmole_disk
nmole/disk: A unit which is equal to one nanomole per disk, where a disk is some physical surface/con...
MS_spectrum_sub_set_protein
spectrum sub-set protein: A protein with a sub-set of the matched spectra for another protein...
MS_PSM_level_q_value
PSM-level q-value: Estimation of the q-value for peptide spectrum matches.
UNIMOD_NHS_fluorescein
NHS-fluorescein: Fluorescein-hexanoate-NHS hydrolysis.
UNIMOD_NEIAA_2H_5_
NEIAA:2H(5): N-ethyl iodoacetamide-d5.
MS_Conversion_to_mzML
Conversion to mzML: Conversion of a file format to Proteomics Standards Initiative mzML file format...
MS_ProteoWizard_msaccess
ProteoWizard msaccess: Filters, processes, and displays mass spectrometry data in a variety of ways...
UNIMOD_dHex_2_HexNAc_2_Kdn_1_
dHex(2)HexNAc(2)Kdn(1): DHex(2) HexNAc(2) Kdn.
MS_fragment_mass_type_average
fragment mass type average: Mass type setting for fragment mass was average isotopic.
MS_Microsoft_Excel
Microsoft Excel: Microsoft Excel (can be used for spectral counting).
MS_TSQ_7000
TSQ 7000: ThermoFinnigan TSQ 7000 MS.
MS_quantification_file_format
quantification file format: File format containing quantification results.
UNIMOD_dHex_2_Hex_3_HexNAc_5_
dHex(2)Hex(3)HexNAc(5): DHex(2) Hex(3) HexNAc(5).
MS_command_line_parameters
command-line parameters: Parameters string passed to a command-line interface software application...
MS_MaxQuant
MaxQuant: MaxQuant is a quantitative proteomics software package designed for analyzing large mass sp...
MS_magnetic_deflection
magnetic deflection: The deflection of charged particles in a magnetic field due to a force equal to ...
UNIMOD_Deamidated_18O_1_
Deamidated:18O(1): Deamidation in presence of O18.
UNIMOD_dHex_1_Hex_5_HexNAc_3_
dHex(1)Hex(5)HexNAc(3): DHex Hex(5) HexNAc(3).
UNIMOD_dHex_2_Hex_2_
dHex(2)Hex(2): Hex2 dHex2.
UNIMOD_Hex_2_HexNAc_1_Me_1_
Hex(2)HexNAc(1)Me(1): Hex(2) HexNAc Me.
MS______D_______D__
((?<=D))|((?=D)): Regular expression for formic acid.
MS_SEQUEST_sort_by_Scan
SEQUEST:sort by Scan: Sort order of SEQUEST search results given by the scan number.
UNIMOD_Glu__Gly
Glu->Gly: Glu->Gly substitution.
MS_WARP_LC
WARP-LC: Bruker WARP-LC software.
MS_low_intensity_threshold
low intensity threshold: Threshold below which some action is taken.
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...
UNIMOD_Hex_4_HexNAc_4_NeuAc_1_Sulf_2_
Hex(4)HexNAc(4)NeuAc(1)Sulf(2): Hex(4) HexNAc(4) NeuAc Sulf(2).
MS_2_iodobenzoate
2-iodobenzoate: Chemical iodobenzoate. Cleaves after W.
UNIMOD_Asn__Trp
Asn->Trp: Asn->Trp substitution.
UNIMOD_dHex_1_Hex_4_HexNAc_4_Pent_1_
dHex(1)Hex(4)HexNAc(4)Pent(1): DHex Hex(4) HexNAc(4) Pent.
MS_API_150EX_Prep
API 150EX Prep: Applied Biosystems/MDS SCIEX API 150EX Prep MS.
UNIMOD_Galactosyl
Galactosyl: Gluconoylation.
MS_peptide_sequence_level_global_FNR
peptide sequence-level global FNR: Estimation of the global false negative rate for distinct peptides...
MS_FD
FD (field desorption): The formation of gas-phase ions from a material deposited on a solid surface i...
UNIMOD_Methylmalonylation
Methylmalonylation: Methylmalonylation on Serine.
MS_Q_Tof_micro
Q-Tof micro: Waters oa-ToF based Q-Tof micro.
MS_full_spectrum
full spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stag...
UNIMOD_dHex_1_Hex_6_HexNAc_3_Sulf_1_
dHex(1)Hex(6)HexNAc(3)Sulf(1): DHex Hex(6) HexNAc(3) Sulf.
MS_photoionization
photoionization: The ionization of an atom or molecule by a photon, written M + h? ? M^+ + e. The term photon impact is not recommended.
UNIMOD_Glycosyl
Glycosyl: Glycosyl-L-hydroxyproline.
UO_count_unit
count unit: A dimensionless unit which denotes a simple count of things.
MS_Triple_Quad_4500
Triple Quad 4500: SCIEX Triple Quad 4500.
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...
UNIMOD_DiLeu4plex117
DiLeu4plex117: Accurate mass for DiLeu 117 isobaric tag.
UNIMOD_Arg__Val
Arg->Val: Arg->Val substitution.
MS______KR__
(?<=[KR]): Regular expression for Trypsin/P.
UO_absorbed_dose_unit
absorbed dose unit: A unit which is a standard measure of the energy imparted by ionizing radiation t...
MS_synchronous_prefilter_selection
synchronous prefilter selection: Synchronous prefilter selection.
MS_PIA_filter
PIA:filter: A filter used for the report generation.
MS_SEQUEST_SelectAdvancedCV
SEQUEST:SelectAdvancedCV: SEQUEST Select Advanced Input Parameters.
MS_Agilent_MassHunter_nativeID_format
Agilent MassHunter nativeID format: Native format defined by scanId=xsd:nonNegativeInteger.
MS_parent_mass_type_average
parent mass type average: Mass type setting for parent mass was average isotopic. ...
MS_SIC_chromatogram
SIC chromatogram (selected ion current chromatogram): Chromatogram created by creating an array of th...
MS_MyriMatch_MVH
MyriMatch:MVH: Using the multivariate hypergeometric distribution and a peak list divided into severa...
MS_ProteomeDiscoverer_SEQUEST_Std_High_Confidence_XCorr_Charge4
ProteomeDiscoverer:SEQUEST:Std High Confidence XCorr Charge4: Standard high confidence XCorr paramete...
MS_NoEnzyme_OBSOLETE
NoEnzyme:
UNIMOD_Arg__Orn
Arg->Orn: Ornithine from Arginine.
MS_LTQ_Velos_ETD
LTQ Velos ETD: Thermo Scientific LTQ Velos MS with ETD.
UNIMOD_Cysteinyl
Cysteinyl: Cysteinylation.
UNIMOD_SPITC_13C_6_
SPITC:13C(6): 4-sulfophenyl isothiocyanate (Heavy C13).
UNIMOD_MM_diphenylpentanone
MM-diphenylpentanone: 3-methyl-5-(methylamino)-1,3-diphenylpentan-1-one.
UNIMOD_dHex_2_Hex_3_HexNAc_2_NeuGc_1_
dHex(2)Hex(3)HexNAc(2)NeuGc(1): DHex(2) Hex(3) HexNAc(2) NeuGc.
MS_ProteomeDiscoverer_Reporter_Ions_Quantizer_Integration_Method
ProteomeDiscoverer:Reporter Ions Quantizer:Integration Method: Specifies which peak to select if more...
MS_LTQ_Orbitrap_Discovery
LTQ Orbitrap Discovery: LTQ Orbitrap Discovery.
MS_modification_rescoring_false_localization_rate
modification rescoring:false localization rate: Mod position score: false localization rate...
MS_peak_picking
peak picking: Spectral peak processing conducted on the acquired data to convert profile data to cent...
MS_spectra_data_details
spectra data details: Child-terms contain information to map the results back to spectra.
MS_ProteomeDiscoverer_Number_of_input5_spectra
ProteomeDiscoverer:Number of input5 spectra: Number of spectra from 5+ precursor ions.
MS_solid_state_laser
solid-state laser: Solid state laser materials are commonly made by doping a crystalline solid host w...
UNIMOD_dHex_4_Hex_1_HexNAc_1_Kdn_2_
dHex(4)Hex(1)HexNAc(1)Kdn(2): DHex(4) Hex HexNAc Kdn(2).
MS_MD5
MD5: MD5 (Message-Digest algorithm 5) is a cryptographic hash function with a 128-bit hash value used...
MS_peptide_sequence_level_result_list_attribute
peptide sequence-level result list attribute: General property of all peptide sequences in the list...
MS_intermediate_analysis_format
intermediate analysis format: Type of the source file, the mzIdentML was created from.
MS_MIKES_OBSOLETE
MIKES (mass analyzed ion kinetic energy spectrometry): Spectra that are obtained from a sector mass s...
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_low_energy_collision_induced_dissociation
low-energy collision-induced dissociation: A collision-induced dissociation process wherein the precu...
UO_force_unit
force unit: A unit which is a standard measure of the force is applied when a mass is accelerated...
MS_ProteomeDiscoverer_use_flanking_ions
ProteomeDiscoverer:use flanking ions: Flag for usage of flanking ions.
UNIMOD_Biotin_Sigma_B1267
Biotin:Sigma-B1267: Was Biotin-maleimide.
MS_pulse_energy
pulse energy: Describes output energy of the laser system. May be attenuated by filters or other mean...
UNIMOD_Cation_Li
Cation:Li: Replacement of proton by lithium.
UNIMOD_Biotin_Cayman_10013
Biotin:Cayman-10013: Was PGA1-biotin.
MS_Chymotrypsin
Chymotrypsin: Enzyme chymotrypsin.
MS_cyclotron_motion_OBSOLETE
cyclotron motion: The circular motion of a charged particle moving at velocity v in a magnetic field ...
UO_century
century: A time unit which is equal to 100 years.
MS_multiple_reaction_monitoring_spectrum
multiple reaction monitoring spectrum (SRM spectrum): Spectrum obtained when data are acquired from s...
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_peptide_unique_to_one_protein
peptide unique to one protein: A peptide matching only one.
UNIMOD_2_monomethylsuccinyl
2-monomethylsuccinyl: S-(2-monomethylsuccinyl) cysteine.
MS_Phenyx_Turbo_Coverage
Phenyx:Turbo:Coverage: The minimal peptide sequence coverage value, expressed in percent, considered in the turbo mode of Phenyx.
UNIMOD_Pyro_carbamidomethyl
Pyro-carbamidomethyl: S-carbamoylmethylcysteine cyclization (N-terminus).
UNIMOD_HNE_BAHAH
HNE-BAHAH: 4-hydroxy-2-nonenal and biotinamidohexanoic acid hydrazide, reduced.
UO_light_unit
light unit: A unit which is a standard measure of the intensity of light.
MS_IE_OBSOLETE
IE (ionization energy): The minimum energy required to remove an electron from an atom or molecule to...
UNIMOD_DNPS
DNPS: 2,4-Dinitrobenzenesulfenyl.
MS_Q3_spectrum
Q3 spectrum (MS1 spectrum): Mass spectrum created by a single-stage MS experiment or the first stage ...
MS_decoy_peptide
decoy peptide: A putative identified peptide issued from a decoy sequence database.
MS_Progeny_Fragment_Ion_OBSOLETE
Progeny Fragment Ion (progeny ion): A charged product of a series of consecutive reactions that inclu...
MS_ProteomeDiscoverer_Protein_Database_OBSOLETE
ProteomeDiscoverer:Protein Database: Database to use in the search (configured on the Mascot server)...
UNIMOD_Lys__Ala
Lys->Ala: Lys->Ala substitution.
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_SCiLS_Lab_format
SCiLS Lab format: SCiLS Lab file format.
UO_katal_per_liter
katal per liter: A catalytic (activity) concentration unit which is equal to 1 katal activity of a ca...
MS_API_3200
API 3200: SCIEX or Applied Biosystems|MDS SCIEX API 3200 MS.
UNIMOD_Hydroxyheme
Hydroxyheme: Hydroxyheme.
UNIMOD_NA_LNO2
NA-LNO2: Nitroalkylation by Nitro Linoleic Acid.
MS_ProteinExtractor_ProteinSolverUniqueScore
ProteinExtractor:ProteinSolverUniqueScore: In the final result each protein must have at least one pe...
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...
MS_Andi_CHROM_format
Andi-CHROM format: AIA Analytical Data Interchange file format for chromatography data...
MS_Byonic_Best_LogProb
Byonic:Best LogProb: Best (most negative) log p-value of an individual PSM.
MS_MRMaid_peptide_score
MRMaid:peptide score: Score in MRMaid to indicate the expected performance of the peptide in SRM...
UNIMOD_EDT_iodoacetyl_PEO_biotin
EDT-iodoacetyl-PEO-biotin: EDT-iodo-PEO-biotin.
MS_chemical_ionization
chemical ionization: The formation of a new ion by the reaction of a neutral species with an ion...
UO_picoliter
picoliter: A volume unit which is equal to 10^[-12] L.
MS_Mascot_SigThreshold
Mascot:SigThreshold: Significance threshold below which the p-value of a peptide match must lie to be...
UNIMOD_Phe__Val
Phe->Val: Phe->Val substitution.
UO_colony_forming_unit_per_volume
colony forming unit per volume: A concentration unit which a measure of viable bacterial numbers in a...
MS_orbitrap
orbitrap: An ion trapping device that consists of an outer barrel-like electrode and a coaxial inner ...
MS_ProteomeDiscoverer_Precursor_Mass_Tolerance_OBSOLETE
ProteomeDiscoverer:Precursor Mass Tolerance: Mass window for which precursor ions are considered to b...
MS_chromosome_name
chromosome name: The name or number of the chromosome to which a given peptide has been mapped...
MS_impact_angle
impact angle: Describes the angle between the laser beam and the sample target.
UNIMOD_Tyr__Thr
Tyr->Thr: Tyr->Thr substitution.
MS_spectral_count_protein_level_quantitation
spectral count protein level quantitation: Spectral count protein level quantitation.
MS_ProteinExtractor_ProteinSolverWeighting
ProteinExtractor:ProteinSolverWeighting: Influence of ProteinSolver search engine in the process of m...
UNIMOD_Gln__Arg
Gln->Arg: Gln->Arg substitution.
UNIMOD_Piperidine
Piperidine: Piperidination.
MS_fragment_ion_OBSOLETE
fragment ion: A product ion that results from the dissociation of a precursor ion.
UNIMOD_Ser__Thr
Ser->Thr: Ser->Thr substitution.
MS_API_100
API 100: Applied Biosystems/MDS SCIEX API 100 MS.
MS_ProteinScape_PFFSolverExp
ProteinScape:PFFSolverExp: The ProteinSolver exp value stored by ProteinScape.
UO_kilogram_per_cubic_meter
kilogram per cubic meter: A mass unit density which is equal to mass of an object in kilograms divide...
MS_activation_energy
activation energy: Activation Energy.
MS_PD
PD (plasma desorption): The ionization of material in a solid sample by bombarding it with ionic or n...
MS_negative_scan
negative scan: Polarity of the scan is negative.
UNIMOD_Ala__Asn
Ala->Asn: Ala->Asn substitution.
MS_decoy_DB_generation_algorithm
decoy DB generation algorithm: Name of algorithm used for decoy generation.
MS_printed_MALDI_matrix_preparation
printed MALDI matrix preparation: Printed MALDI matrix preparation.
MS_exact_mass_OBSOLETE
exact mass: The calculated mass of an ion or molecule containing a single isotope of each atom...
MS_TOPP_OpenSwath_component
TOPP OpenSwath component: OpenSwath component of the TOPP software.
MS_No_variable_modifications_searched
No variable modifications searched: No variable modifications are included as a parameter for the sea...
UNIMOD_His__Thr
His->Thr: His->Thr substitution.
MS_amaZon_ETD
amaZon ETD: Bruker Daltonics' amaZon ETD: ESI quadrupole ion trap, Nanospray, APCI, APPI, ETD, PTR.
MS_constant_neutral_loss_spectrum
constant neutral loss spectrum: A spectrum formed of all product ions that have been produced with a ...
MS_ProteomeDiscoverer_Use_Neutral_Loss_y_Ions
ProteomeDiscoverer:Use Neutral Loss y Ions: Determines whether y ions with neutral loss are used for ...
MS_PIA_FDRScore_calculated
PIA:FDRScore calculated: Indicates whether the FDR score was calculated for the input file...
MS_4800_Proteomics_Analyzer
4800 Proteomics Analyzer: Applied Biosystems|MDS SCIEX 4800 Proteomics Analyzer.
MS_EVOQ_Qube
EVOQ Qube: Bruker Daltonics' EVOQ Qube: LC-triple quadrupole.
MS_median_of_spectra
median of spectra: Spectra is combined by calculating the median of the spectra.
MS_Pro_BLAST
Pro BLAST: Applied Biosystems|MDS SCIEX software for MS-BLAST identification.
MS_Scaffold_nativeID_format
Scaffold nativeID format: Scaffold native ID format.
UNIMOD_Glu__Ser
Glu->Ser: Glu->Ser substitution.
MS_MarkerView_Software
MarkerView Software: Applied Biosystems|MDS SCIEX software for metabolomics and biomarker profiling...
UO_specific_volume_unit
specific volume unit: A unit which is a standard measure of the volume of a given mass of substance (...
MS_MALDI_Synapt_G2_MS
MALDI Synapt G2 MS: Waters oa-ToF based MALDI Synapt G2 MS.
MS_autoionization
autoionization: The formation of an ion when an atom or molecule in a discrete state with an energy g...
MS_iRT_retention_time_normalization_standard
iRT retention time normalization standard: A de facto standard providing the retention times at which...
UO_picovolt
picovolt: An electric potential difference unit which is equal to one trillionth of a volt or 10^[-12...
MS_Element_2
Element 2: Thermo Scientific Element 2 HR-ICP-MS.
UO_nanomolar
nanomolar: A unit of molarity which is equal to one thousandth of one millionth of a molar or 10^[-9]...
UNIMOD_Pro__Glu
Pro->Glu: Pro->Glu substitution.
MS_PeptideAtlas_dataset_URI
PeptideAtlas dataset URI: URI that allows access to a PeptideAtlas dataset.
MS_protonated_molecule_OBSOLETE
protonated molecule: An ion formed by interaction of a neutral molecule with a proton and represented...
UNIMOD_Label_13C_4_
Label:13C(4): 13C4 Methionine label.
MS_peptide_D_Score
peptide:D-Score: D-Score for PTM site location at the peptide-level.
MS_two_dimensional_gas_chromatography_with_discrete_modulation_time_steps
two-dimensional gas chromatography with discrete modulation time steps: Two-dimensional gas chromatog...
MS_baseline
baseline: An attribute of resolution when recording the detector response in absence of the analyte...
MS_distonic_ion_OBSOLETE
distonic ion: A radical cation or anion in which the charge site and the unpaired electron spin canno...
PWIZ_API_DECL bool cvIsA(CVID child, CVID parent)
returns true iff child IsA parent in the CV
MS_protein_group_level_result_list_statistic
protein group-level result list statistic: Attrbiute of an entire list of protein groups...
MS_TOPP_software
TOPP software: TOPP (The OpenMS proteomics pipeline) software.
MS_MS_GFDB
MS-GFDB (MS-GF+): MS-GF+ software used to analyze the spectra.
MS_MaxQuant_MS_MS_count
MaxQuant:MS/MS count: The data type MS2 count produced by MaxQuant.
MS_detector_type
detector type: Type of detector used in the mass spectrometer.
MS_peptide_start_on_chromosome_OBSOLETE
peptide start on chromosome: The overall start position on the chromosome to which a peptide has been...
UO_area_unit
area unit: A unit which is a standard measure of the amount of a 2-dimensional flat surface...
MS_DB_source_NCBI
DB source NCBI: Database source NCBI.
MS_HCD
HCD (beam-type collision-induced dissociation): A collision-induced dissociation process that occurs ...
MS_DBImporter
DBImporter: Imports data to an OpenMS database.
MS_Waters_instrument_model
Waters instrument model: Waters Corporation instrument model.
MS_ProteomeDiscoverer_Number_of_predicted_correct_proteins
ProteomeDiscoverer:Number of predicted correct proteins: Total number of predicted correct protein id...
MS_3500_QTRAP
3500 QTRAP: SCIEX 3500 QTRAP.
MS_LECO_instrument_model
LECO instrument model: LECO instrument model.
MS_TMT_reagent_130
TMT reagent 130: The name of the sample labelled with the TMT reagent 130.
MS_Quattro_micro_GC
Quattro micro GC: Waters quadrupole based Quattro micro GC.
UNIMOD_Lys__Asn
Lys->Asn: Lys->Asn substitution.
UNIMOD_Trimethyl
Trimethyl: Tri-Methylation.
MS_electron_capture_dissociation
electron capture dissociation: A process in which a multiply protonated molecules interacts with a lo...
MS_supplemental_higher_energy_beam_type_collision_induced_dissociation
supplemental higher energy beam-type collision-induced dissociation: A supplemental collision-induced...
MS_PRIDE_XML
PRIDE XML: Internal data and submission format of the PRIDE database.
UNIMOD_Leu__MetOx
Leu->MetOx: Leu->Met substitution and sulfoxidation.
UNIMOD_Thr__Tyr
Thr->Tyr: Thr->Tyr substitution.
MS_PMT
PMT (photomultiplier): A detector for conversion of the ion/electron signal into photon(s) which are ...
MS_ProteomeDiscoverer_3__Dynamic_Modification_OBSOLETE
ProteomeDiscoverer:3. Dynamic Modification: ProteomeDiscoverer's 3rd dynamic post-translational modif...
MS_pmf_search
pmf search: A peptide mass fingerprint search.
UNIMOD_Acetylhypusine
Acetylhypusine: Acetylhypusine.
UNIMOD_Xle__Met
Xle->Met: Leu/Ile->Met substitution.
MS_apex_Q
apex Q: Bruker Daltonics' apex Q: ESI, MALDI, Nanospray, APCI, APPI, Qh-FT_ICR.
MS_structural_formula
structural formula: A chemical formula showing the number of atoms of each element in a molecule...
MS_HCTultra_ETD_II
HCTultra ETD II: Bruker Daltonics' HCTultra ETD II: ESI Q-TOF, Nanospray, APCI, APPI, ETD.
UNIMOD_Hex_8_HexNAc_1_
Hex(8)HexNAc(1): Hex(8) HexNAc.
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.
MS_RGA_OBSOLETE
RGA (residual gas analyzer): A mass spectrometer used to measure the composition and pressure of gass...
MS_TOPP_PepNovoAdapter
TOPP PepNovoAdapter: Identifies MS2 spectra using the external program PepNovo.
MS_analyzer
analyzer (mass analyzer): Terms used to describe the Analyzer.
MS_inclusive_high_intensity_threshold
inclusive high intensity threshold: Threshold at or above which some action is taken.
MS_genome_reference_version
genome reference version: The reference genome and versioning string as used for mapping. All coordinates are within this frame of reference.
MS_SEQUEST_sort_by_TIC
SEQUEST:sort by TIC: Sort order of SEQUEST search results given by the total ion current.
UNIMOD_CHDH
CHDH: Cis-14-hydroxy-10,13-dioxo-7-heptadecenoic ester.
MS_scan_m_z_range__OBSOLETE
scan m/z range?: The limit of m/z over which a mass spectrometer can detect ions. ...
MS_ICPL_reagent
ICPL reagent: Isotope coded protein labeling reagent.
MS_QSTAR_Pulsar
QSTAR Pulsar: Applied Biosystems|MDS SCIEX QSTAR Pulsar.
MS_OBSOLETE_charge_number_OBSOLETE
OBSOLETE charge number: The total charge on an ion divided by the electron charge e...
MS_6110_Quadrupole_LC_MS
6110 Quadrupole LC/MS: The 6110 Quadrupole LC/MS system is a Agilent liquid chromatography instrument...
MS_peptide_sequence_level_global_FDR
peptide sequence-level global FDR: Estimation of the global false discovery rate for distinct peptide...
MS_ProteomeDiscoverer_Lowest_Charge_State
ProteomeDiscoverer:Lowest Charge State: Minimum charge state below which peptides are filtered out...
MS_IT
IT (ion trap): A device for spatially confining ions using electric and magnetic fields alone or in c...
MS_PepsinA
PepsinA: PepsinA proteinase.
MS_SCIEX_TOF_TOF_T2D_nativeID_format
SCIEX TOF/TOF T2D nativeID format: Native format defined by file=xsd:IDREF.
MS_dimeric_ion_OBSOLETE
dimeric ion: An ion formed by ionization of a dimer or by the association of an ion with its neutral ...