0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200822_FKO15_IgG_A_vs_B_70m1uL.pdResult 3517 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_IgG_70m1uL.msf 3515 CompletedWithoutWarningsOrErrors 78fe666d-df61-43fe-806c-79791aa32fe6 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_IgG_70m1uL.msf 3516 CompletedWithoutWarningsOrErrors db64a25d-35c5-4149-b5bc-14818238e473 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200822_FKO15_Klac_A_vs_B_70m1uL.pdResult 3520 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_Klac_70m1uL.msf 3518 CompletedWithoutWarningsOrErrors 6a3a9f44-ddbe-4d05-8833-35ae8c29535e Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_Klac_70m1uL.msf 3519 CompletedWithoutWarningsOrErrors 987c21b5-8a87-4670-b272-a3d544ff0513 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200822_FKO15_70m1uL.pdResult 3561 CompletedWithWarnings Consensus 20190927_CWF_Basic_DoNotMerge Result filtered for high confident peptides. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_2_IgG_70m1uL.msf 3521 CompletedWithoutWarningsOrErrors 2c63564f-e008-470d-9564-8a41c5c6f1fd Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_3_IgG_70m1uL.msf 3522 CompletedWithoutWarningsOrErrors f1fdacf6-ae31-4628-93b5-468107e55d83 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 3 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_4_IgG_70m1uL.msf 3523 CompletedWithoutWarningsOrErrors a9ba7672-6325-4bab-ae85-5f6df565d1a1 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 4 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_5_IgG_70m1uL.msf 3524 CompletedWithoutWarningsOrErrors 8665217c-5762-4b51-9963-dd60d41d163c Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 5 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_9_IgG_70m1uL.msf 3525 CompletedWithoutWarningsOrErrors e6a79d31-b17c-40a3-a0e3-c80c4c81e726 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 6 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_10_IgG_70m1uL.msf 3526 CompletedWithoutWarningsOrErrors aa03c429-89bd-4d6d-acce-05f63e8226f7 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 7 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_11_IgG_70m1uL.msf 3527 CompletedWithoutWarningsOrErrors 5ab392aa-1e17-4e48-a286-5f4d9130e8ac Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 8 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_15_IgG_70m1uL.msf 3528 CompletedWithoutWarningsOrErrors 3fc3bb3d-f3d7-4c93-b798-66402fc7eee7 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 9 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_16_IgG_70m1uL.msf 3529 CompletedWithoutWarningsOrErrors 29193deb-4455-4127-853d-0a8fdc0acb08 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 10 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_17_IgG_70m1uL.msf 3530 CompletedWithoutWarningsOrErrors d080e7d7-7bc6-4898-bf45-7ec9e84e7cc2 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 11 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_1_IgG_70m1uL.msf 3531 CompletedWithoutWarningsOrErrors c371e912-ff88-47b0-b63f-14ff0839e054 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 12 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_6_IgG_70m1uL.msf 3532 CompletedWithoutWarningsOrErrors 4070e2e4-7a05-4bb0-9ce6-9e7ca3cea21f Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 13 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_7_IgG_70m1uL.msf 3533 CompletedWithoutWarningsOrErrors 9d96b023-3bc4-44f0-bae1-bcb0e5c137a8 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 14 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_8_IgG_70m1uL.msf 3534 CompletedWithoutWarningsOrErrors d578f7e8-3d60-4e5c-89cb-e781145511a6 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 15 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_12_IgG_70m1uL.msf 3535 CompletedWithoutWarningsOrErrors d6c7b06a-08b2-4aae-8365-d2c8677317eb Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 16 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_13_IgG_70m1uL.msf 3536 CompletedWithoutWarningsOrErrors 66452b2f-267a-4547-a9b2-f0b334c9c0ff Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 17 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_14_IgG_70m1uL.msf 3537 CompletedWithoutWarningsOrErrors ad8c8b48-bd7a-49a4-91a2-7c7e204c56cc Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 18 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_18_IgG_70m1uL.msf 3538 CompletedWithoutWarningsOrErrors 70ce7948-d1ce-4a8e-9404-583f6bd5f397 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 19 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_19_IgG_70m1uL.msf 3539 CompletedWithoutWarningsOrErrors 2328c432-5a6a-4d98-b8d0-642225d95d30 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 20 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_20_IgG_70m1uL.msf 3540 CompletedWithoutWarningsOrErrors 3037f44a-a3fb-4a28-ac0e-75096ec33487 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 21 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_2_Klac_70m1uL.msf 3541 CompletedWithoutWarningsOrErrors 3d5bf63b-c94d-40f7-8a51-374233c1ceb6 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 22 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_3_Klac_70m1uL.msf 3542 CompletedWithoutWarningsOrErrors 1133f4a8-3b07-4b01-9a39-4e343bc15eee Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 23 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_4_Klac_70m1uL.msf 3543 CompletedWithoutWarningsOrErrors 9d739e7c-1ea9-4073-a312-e058f01ba12e Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 24 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_5_Klac_70m1uL.msf 3544 CompletedWithoutWarningsOrErrors cca8cb6f-bb02-41ff-af5a-1521c9c17c4c Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 25 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_9_Klac_70m1uL.msf 3545 CompletedWithoutWarningsOrErrors 6ad4f90c-6a67-48fc-a089-9d35c07bd58a Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 26 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_10_Klac_70m1uL.msf 3546 CompletedWithoutWarningsOrErrors 0b6231d3-d52b-44a1-bff3-6c2ee64636a8 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 27 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_11_Klac_70m1uL.msf 3547 CompletedWithoutWarningsOrErrors 9105aa88-69d3-4296-b887-b42d3cdc2fd0 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 28 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_15_Klac_70m1uL.msf 3548 CompletedWithoutWarningsOrErrors c23f8668-8b77-47d0-8c64-ad925f08af45 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 29 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_16_Klac_70m1uL.msf 3549 CompletedWithoutWarningsOrErrors 6e28b7f3-4a83-4298-b8d4-c12f704ef0c4 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 30 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_17_Klac_70m1uL.msf 3550 CompletedWithoutWarningsOrErrors 5985ec3f-c154-44b2-9e11-b7ec6af8fdad Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 31 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_1_Klac_70m1uL.msf 3551 CompletedWithoutWarningsOrErrors 8cb062eb-0315-4f6c-a861-a0b2a629ac4d Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 32 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_6_Klac_70m1uL.msf 3552 CompletedWithoutWarningsOrErrors 541f79f2-181b-4d33-9702-54a93e44421d Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 33 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_7_Klac_70m1uL.msf 3553 CompletedWithoutWarningsOrErrors 65abbd77-3311-43bc-a92c-b4f259914128 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 34 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_8_Klac_70m1uL.msf 3554 CompletedWithoutWarningsOrErrors 2f6c0432-14a8-4fe9-9712-fb4f3b7ece19 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 35 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_12_Klac_70m1uL.msf 3555 CompletedWithoutWarningsOrErrors 07f4f05f-f3ef-4a0b-b013-109c0e30c25c Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 36 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_13_Klac_70m1uL.msf 3556 CompletedWithoutWarningsOrErrors 34553b08-7b01-4c5f-96fd-7097022ae68d Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 37 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_14_Klac_70m1uL.msf 3557 CompletedWithoutWarningsOrErrors 681480e2-cff6-48ae-ab6d-83f437b698d6 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 38 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_18_Klac_70m1uL.msf 3558 CompletedWithoutWarningsOrErrors 6bcdc8db-a39b-4fa6-a12b-087257991590 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 39 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_19_Klac_70m1uL.msf 3559 CompletedWithoutWarningsOrErrors 55b34fa9-83e9-4b9b-99a9-a38db1987138 Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 40 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_20_Klac_70m1uL.msf 3560 CompletedWithoutWarningsOrErrors f1b7f899-7b39-4194-9b18-3c2a1341d9ff Processing 20191125_Mouse_ITMS_Carbamidomethyl_PWF_Fusion_Basic_Mascot Basic processing workflow with score threshold validation to be used for searches of low complexity samples or employing a small FASTA database. Specify the FASTA database and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="M" Name="Oxidation" Abbreviation="Oxidation" ID="45" UnimodAccession="35" DeltaMass="15.99492" DeltaAverageMass="15.99940" IsSubstitution="False" LeavingGroup="" Substitution="O" PositionType="Any" /><Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysESI-TRAP0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05False 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200822_FKO15_GroupA_IgG_vs_Klac_70m1uL.pdResult 3568 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_IgG_70m1uL_2.msf 3566 CompletedWithoutWarningsOrErrors a2ad5c44-75ea-425c-bfd9-6481326e5ae8 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_A_Klac_70m1uL_2.msf 3567 CompletedWithoutWarningsOrErrors ecc4d71e-f9ce-4ce1-b02e-d9f7f9727e93 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200822_FKO15_GroupB_IgG_vs_Klac_70m1uL.pdResult 3571 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_IgG_70m1uL_2.msf 3569 CompletedWithoutWarningsOrErrors 27927765-4da0-46c1-83d8-85e1a58211bf Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_B_Klac_70m1uL_2.msf 3570 CompletedWithoutWarningsOrErrors 72706357-19c7-4824-b087-cf44bf49bd93 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200828_FKO15_AB_IgG_vs_Klac_70m1uL.pdResult 3580 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_IgG_AB_70m1uL.msf 3578 CompletedWithoutWarningsOrErrors b0afeca9-cfdd-4989-9e6a-378dee37d818 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Klac_AB_70m1uL.msf 3579 CompletedWithoutWarningsOrErrors ae7f7681-74be-4708-aae5-47a19efebb10 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200828_FKO15_Klac_Con9_vs_Sus4_70m1uL.pdResult 3583 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_Klac_70m1uL.msf 3581 CompletedWithoutWarningsOrErrors db526247-105a-4d78-8756-ce5034fa334d Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus4_Klac_70m1uL.msf 3582 CompletedWithoutWarningsOrErrors 3df83135-6150-4a27-aad0-64810a7aa152 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200828_FKO15_Klac_Con9_vs_Sus6_70m1uL.pdResult 3586 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_Klac_70m1uL-(1).msf 3584 CompletedWithoutWarningsOrErrors aa585ebf-24f0-4a78-be83-9e7f36169161 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus6_Klac_70m1uL.msf 3585 CompletedWithoutWarningsOrErrors a33814f3-2c9e-41e2-a126-08fcd65cce4b Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200828_FKO15_IgG18_vs_Klac18_70m1uL.pdResult 3589 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_IgG18_AB_70m1uL.msf 3587 CompletedWithoutWarningsOrErrors c1a52801-f602-4c17-a01d-08b9bc27636c Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Klac18_AB_70m1uL.msf 3588 CompletedWithoutWarningsOrErrors da35f003-930d-413f-8e64-6199f604fa5b Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200903_FKO15_Con9_IgG_vs_Klac_70m1uL.pdResult 3608 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_Klac_70m1uL.msf 3581 CompletedWithoutWarningsOrErrors db526247-105a-4d78-8756-ce5034fa334d Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_IgG_70m1uL.msf 3607 CompletedWithoutWarningsOrErrors 27064b40-b8dc-4fb4-872e-01a629bf7f62 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200903_FKO15_SDS9_IgG_vs_Klac_70m1uL.pdResult 3611 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_SDS9_IgG_70m1uL.msf 3609 CompletedWithoutWarningsOrErrors 0633d3bc-76b0-4730-85da-4e43ee97433a Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_SDS9_Klac_70m1uL.msf 3610 CompletedWithoutWarningsOrErrors 32ade8fa-c47c-48b4-b3a5-c4d022830d31 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200903_FKO15_Sus6_IgG_vs_Klac_70m1uL.pdResult 3613 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus6_Klac_70m1uL.msf 3585 CompletedWithoutWarningsOrErrors a33814f3-2c9e-41e2-a126-08fcd65cce4b Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus6_IgG_70m1uL.msf 3612 CompletedWithoutWarningsOrErrors 0702db47-bd8c-40c2-b9dc-52a550c3d11c Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200903_FKO15_Sus4_IgG_vs_Klac_70m1uL.pdResult 3615 CompletedWithoutWarningsOrErrors Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysIdentified or QuantifiedAllDo Not Merge100.0500 ppm0000000000Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda ScoreBest matchstandard75http://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/WithDecoysAutomatic (Control peptide level error rate if possible)0.010.050.010.05q-ValueFalseFalsehttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredHighFalse6False1FalseFalsehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScoreTruehttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/ValidatedTrue175Only for Master ProteinsAll And SpecificHighTrueOnly for Master Proteinshttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/Validated0.010.05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/FilteredFalseFalsehttp://thermo.magellan.com/owl/DataTypes/FilteredTrue1010 ppmCoarse00 ppm05http://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Filteredhttp://thermo.magellan.com/owl/DataTypes/Validatedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/Quantifiedhttp://thermo.magellan.com/owl/DataTypes/QuantifiedIntensityTrue0Unique + RazorTrueFalseTotal Peptide AmountOn All AveragePairwise Ratio Based100NoneANOVA (Background Based)246810### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein'Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus4_Klac_70m1uL.msf 3582 CompletedWithoutWarningsOrErrors 3df83135-6150-4a27-aad0-64810a7aa152 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Sus4_IgG_70m1uL.msf 3614 CompletedWithoutWarningsOrErrors 9c4e87e4-38e5-427f-ae55-4a80a90e0233 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200915_FKO15_Klac_Con9_vs_SDS9_70m1uL.pdResult 3661 Running Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/WithDecoys Identified or Quantified All Do Not Merge 10 0.05 0 0 ppm 0 0 0 0 0 0 0 0 0 0 Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda Score Best match standard 75 http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/ScoredWithPEP http://thermo.magellan.com/owl/DataTypes/ScoredWithQValue http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/ScoredWithPEP http://thermo.magellan.com/owl/DataTypes/ScoredWithQValue http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/WithDecoys Automatic (Control peptide level error rate if possible) 0.01 0.05 0.01 0.05 q-Value False False http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered High False 6 False 1 False False http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore True http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated True 1 75 Only for Master Proteins All And Specific High True Only for Master Proteins http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore http://thermo.magellan.com/owl/DataTypes/Validated 0.01 0.05 http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered False False http://thermo.magellan.com/owl/DataTypes/Filtered True 10 10 ppm Coarse 0 0 ppm 0 5 http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified Intensity True 0 Unique + Razor True False Total Peptide Amount On All Average Pairwise Ratio Based 100 None ANOVA (Background Based) 2 4 6 8 10 ### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' ### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_Klac_70m1uL-(1).msf 3584 CompletedWithoutWarningsOrErrors aa585ebf-24f0-4a78-be83-9e7f36169161 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_SDS9_Klac_70m1uL.msf 3610 CompletedWithoutWarningsOrErrors 32ade8fa-c47c-48b4-b3a5-c4d022830d31 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 0 NextStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200915_FKO15_Klac_Con9_vs_Res3_70m1uL.pdResult 3663 Undefined Consensus 20200807_CWF_Comprehensive_Enhanced Annotation_LFQ_and_Precursor_Quan_ContrastHigh Result filtered for high confident peptides, with enhanced peptide and protein annotations. Add FASTA file with common contaminants to the Protein Marker node. Quan abunaces are normalized to the same total peptide amount per channel and scaled, so that the average abunce per protein and peptide is 100. http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/WithDecoys Identified or Quantified All Do Not Merge 10 0.05 0 0 ppm 0 0 0 0 0 0 0 0 0 0 Mascot: Ions Score; Sequest HT: XCorr; SEQUEST: XCorr; MSPepSearch: dot Score; MSPepSearch: rev-dot Score; MSPepSearch: MSPepSearch Score; PMI-Byonic: |Log Prob|; PMI-Byonic: Byonic Score; MS Amanda: Amanda Score Best match standard 75 http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/ScoredWithPEP http://thermo.magellan.com/owl/DataTypes/ScoredWithQValue http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/ScoredWithPEP http://thermo.magellan.com/owl/DataTypes/ScoredWithQValue http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/WithDecoys Automatic (Control peptide level error rate if possible) 0.01 0.05 0.01 0.05 q-Value False False http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered High False 6 False 1 False False http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore True http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated True 1 75 Only for Master Proteins All And Specific High True Only for Master Proteins http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore http://thermo.magellan.com/owl/DataTypes/Validated 0.01 0.05 http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Filtered False False http://thermo.magellan.com/owl/DataTypes/Filtered True 10 10 ppm Coarse 0 0 ppm 0 5 http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Filtered http://thermo.magellan.com/owl/DataTypes/Validated http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified http://thermo.magellan.com/owl/DataTypes/Quantified Intensity True 0 Unique + Razor True False Total Peptide Amount On All Average Pairwise Ratio Based 100 None ANOVA (Background Based) 2 4 6 8 10 ### Master Proteins Default Filter:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterFilter.filterset' Filter 'TargetProtein' FilterProperties 1 'FilterConditionProperties/FilterScope' 'FilterConditionProperties/FilterScopeValueMainGrid' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' ### Filter Set MasterProteinFilter.filterset contains the following filters:; ### Row Filter for TargetProtein:; ### Master is equal to Master; ###; ; 'magellan filter set' 1 'MasterProteinFilter.filterset' FiltersetProperties 1 'LastFileName' 'C:\Users\frank.berg\Desktop\MasterProteinFilter.filterset' Filter 'TargetProtein' 1 NARY_AND 1 = FilterConditionProperties 1 'NamedComparableFilterCondition/DisplayPropertyHint' 'Master' property 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' constant 'Thermo.PD.EntityDataFramework.MasterProteinAssessment, Thermo.Magellan.EntityDataFramework' 'IsMasterProtein' Only unique peptides based on protein groups 1 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Con9_Klac_70m1uL.msf 3581 CompletedWithoutWarningsOrErrors db526247-105a-4d78-8756-ce5034fa334d Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25)<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />20 ppm0.5 DaCID: by; HCD: by; ECD: cyz; ETD: cyz<Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" />Non-linear RegressionCoarseUse MS1 PrecursorTrueTrueTrue000000350 Da5000 Da01(Not specified)Is Not MS1(Not specified)01000Is Full(Not specified)1.5AutomaticITMSMS2CID+60000300002.5 Da5.5 Dahttp://thermo.magellan.com/owl/DataTypes/ScoredWithEValuehttp://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScorehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/WithDecoysDefault0.6 DaTrueTrueTrueFalseFalseTrueFalseFalseFalseFalseFalseTrueFalse0.010.053020ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7E6E22773-E9A6-4a26-9694-1CA77A7970995009020http://192.168.100.102/mascot/0SwissProtTrypsin<Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" />2. . . . . . . . . . . . . . . . . . Mus musculus (house mouse)False10 ppmFalseFalseOxidation (M)Acetyl (Protein N-term)Carbamidomethyl (C)TrueFalsehttp://thermo.magellan.com/owl/DataTypes/WithDecoyshttp://thermo.magellan.com/owl/DataTypes/ScoredWithPEPhttp://thermo.magellan.com/owl/DataTypes/ScoredWithQValuehttp://thermo.magellan.com/owl/DataTypes/Validated0.050True0.010.05q-ValueD0E5CE92-ABF5-43F1-8D0F-C17FC9194D99http://thermo.magellan.com/owl/DataTypes/Validated52 Peaks0.23High0<unknown>Untargeted 2 InitialStep D:\2ndPC_User_Data\2020\2020_Kyori_Tanaka\2020_Tanaka_PD22\20200822_FKO15_PD22\20200817_FKO15_Res3_Klac_70m1uL.msf 3662 Undefined 2be03e95-2022-4f84-85cd-036722f8e3f0 Processing 20200807_Mouse_PWF_Fusion_Precursor_Quan_and_LFQ_ITCID_Mascot_Percolator Processing workflow for precursor-based quantification. Ion trap-detected HCD spectra using SequestHT with Percolator validation. Specify the FASTA database, labels used, and any additional modifications. Mus musculus (SwissProt TaxID=10090_and_subtaxonomies) (v2017-10-25) <Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" /> 20 ppm 0.5 Da CID: by; HCD: by; ECD: cyz; ETD: cyz <Modification Version="2" AminoAcids="C" Name="Carbamidomethyl" Abbreviation="Carbamidomethyl" ID="8" UnimodAccession="4" DeltaMass="57.02146" DeltaAverageMass="57.05130" IsSubstitution="False" LeavingGroup="" Substitution="H(3) C(2) N O" PositionType="Any" /> Non-linear Regression Coarse Use MS1 Precursor True True True 0 0 0 0 0 0 350 Da 5000 Da 0 1 (Not specified) Is Not MS1 (Not specified) 0 1000 Is Full (Not specified) 1.5 Automatic ITMS MS2 CID + 60000 30000 2.5 Da 5.5 Da http://thermo.magellan.com/owl/DataTypes/ScoredWithEValue http://thermo.magellan.com/owl/DataTypes/ScoredWithNativeScore http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/WithDecoys Default 0.6 Da True True True False False True False False False False False True False 0.01 0.05 30 20 ECD78FF9-3CF5-4AF6-A7D1-250925C55BA7 E6E22773-E9A6-4a26-9694-1CA77A797099 500 90 20 http://192.168.100.102/mascot/ 0 SwissProt Trypsin <Enzyme Version="1" Name="Trypsin" CleavageSites="KR" CleavageInhibitors="P" Offset="1" CleavageSpecificity="SpecificAtBothEnds" /> 2 . . . . . . . . . . . . . . . . . . Mus musculus (house mouse) False 10 ppm False False Oxidation (M) Acetyl (Protein N-term) Carbamidomethyl (C) True False http://thermo.magellan.com/owl/DataTypes/WithDecoys http://thermo.magellan.com/owl/DataTypes/ScoredWithPEP http://thermo.magellan.com/owl/DataTypes/ScoredWithQValue http://thermo.magellan.com/owl/DataTypes/Validated 0.05 0 True 0.01 0.05 q-Value D0E5CE92-ABF5-43F1-8D0F-C17FC9194D99 http://thermo.magellan.com/owl/DataTypes/Validated 5 2 Peaks 0.2 3 High 0 <unknown> Untargeted