From 1755674d609c4cb8f19e91d363382b626812f3e8 Mon Sep 17 00:00:00 2001 From: rdmorin Date: Tue, 26 Nov 2024 16:05:48 -0800 Subject: [PATCH] update DLBCL --- resources/curated/dlbcl_genes.tsv | 33 ++++++++++++++++--------------- 1 file changed, 17 insertions(+), 16 deletions(-) diff --git a/resources/curated/dlbcl_genes.tsv b/resources/curated/dlbcl_genes.tsv index d5a8af2c..4317e213 100644 --- a/resources/curated/dlbcl_genes.tsv +++ b/resources/curated/dlbcl_genes.tsv @@ -124,9 +124,11 @@ ZC3H12A 1 FALSE NA chapuyMolecularSubtypesDiffuse2018 29713087 LOF 19747262 ska ZFP36L1 1 TRUE NA morinFrequentMutationHistonemodifying2011 21796119 TRUE ZNF292 1 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 FALSE ZNF608 1 FALSE NA NA morinMutationalStructuralAnalysis2013 23699601 FALSE +LCOR 1 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 FALSE ARAP2 2 FALSE NA morinMutationalStructuralAnalysis2013 23699601 ADAMTSL3 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE AKAP8 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE +ALDH3A2 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 ANKLE2 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE HIST1H3A 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 BCL2L10 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE @@ -145,10 +147,10 @@ ANKRD17 2 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE ARID5B 2 FALSE PASS 4 reddyGeneticFunctionalDrivers2017 28985567 FALSE ASXL3 2 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017 28327945 FALSE ATR 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE +BAI1 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 BCL11A 2 TRUE NA chapuyMolecularSubtypesDiffuse2018 29713087 FALSE BCR 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE BIRC3 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE -BLK 2 TRUE NA NA NA NA FALSE BRINP3 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE BTBD3 2 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE CADPS2 2 FALSE PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 FALSE @@ -164,12 +166,14 @@ CDH9 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE CEP164 2 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017 28327945 FALSE CNOT2 2 FALSE PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 FALSE CNTNAP5 2 FALSE PASS 4 morinMutationalStructuralAnalysis2013 23699601 FALSE +COL12A1 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 COQ7 2 FALSE PASS 3 chapuyMolecularSubtypesDiffuse2018 29713087 FALSE CPS1 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE CRIP1 2 FALSE PASS 3 chapuyMolecularSubtypesDiffuse2018 29713087 FALSE CXCR5 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE DAZAP1 2 FALSE NA pararajalingamCodingNoncodingDrivers2020 32160292 FALSE DDX10 2 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE +DIAPH2 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 DHX16 2 FALSE PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 FALSE DNAH5 2 FALSE PASS 4 morinMutationalStructuralAnalysis2013 23699601 FALSE DNM2 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE @@ -181,13 +185,9 @@ EIF2AK3 2 TRUE NA NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE DSC3 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE DSEL 2 FALSE NA morinMutationalStructuralAnalysis2013 23699601 ERAP2 2 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017 28327945 FALSE -EZR 2 TRUE NA NA NA NA FALSE -FAM102A 2 TRUE NA NA NA NA FALSE -FANK1 2 TRUE NA NA NA NA FALSE FAT2 2 FALSE NA morinFrequentMutationHistonemodifying2011 21796119 FALSE FAT4 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE -FCRL3 2 TRUE NA NA NA NA FALSE -FNBP1 2 TRUE NA NA NA NA FALSE +FBLN2 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 DUSP27 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE DUSP9 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE FOXC1 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 TRUE @@ -200,6 +200,7 @@ GPC5 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE GSG2 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE H1FOO 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE HDAC7 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE +HEPH 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 HIST1H2AG 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE HIST1H2AL 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE HIST1H2BO 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE @@ -219,12 +220,12 @@ IRF1 2 TRUE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE JAK1 2 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 FALSE JAK3 2 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 FALSE KCMF1 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE +KIAA1614 2 FALSE novakWholeexomeAnalysisReveals2015 26314988 KLHL21 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE KRTAP5-5 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE LAMA5 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE FBXO31 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE LAPTM5 2 TRUE PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 FALSE -LCOR 1 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 FALSE LPP 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE LRP12 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE LYN 2 FALSE PASS 4 chapuyMolecularSubtypesDiffuse2018 29713087 FALSE @@ -234,17 +235,17 @@ MAP2K1 2 FALSE NA shinBRAFV600EMAP2K12015 25729732 FALSE MCL1 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE MECOM 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE MET 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE -MIR155HG 2 TRUE NA NA NA NA FALSE MPDZ 2 FALSE PASS 4 morinMutationalStructuralAnalysis2013 23699601 FALSE MSH6 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE MYBPC2 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE +MYO19 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 MYOM2 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE NAV1 2 FALSE NA chapuyMolecularSubtypesDiffuse2018 29713087 FALSE -NCOA3 2 TRUE NA NA NA NA FALSE NEAT1 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE NF1 2 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE NLRP5 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE ODZ2 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE +ODZ3 2 FALSE NA novakWholeexomeAnalysisReveals2015 26314988 OR6K3 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE P2RX5 2 TRUE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE PAPOLG 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE @@ -262,19 +263,18 @@ PNPO 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE PRKCB 2 FALSE PASS 4 morinMutationalStructuralAnalysis2013 23699601 FALSE PRKDC 2 FALSE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 TRUE PRPS1 2 FALSE PASS 4 chapuyMolecularSubtypesDiffuse2018 29713087 FALSE -PTPRD 2 FALSE NA NA drevalGeneticSubdivisionsFollicular2023 NA FALSE +PTPRD 2 FALSE NA NA drevalGeneticSubdivisionsFollicular2023 37084389 FALSE RAC2 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE RAPGEF1 2 FALSE NA morinFrequentMutationHistonemodifying2011 21796119 FALSE -RCC 2 TRUE NA NA NA NA FALSE RFTN1 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE -RFXAP 2 FALSE NA NA NA NA FALSE RHEX 2 TRUE NA NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE RHOH 2 TRUE NA pasqualucciHypermutationMultipleProtooncogenes2001 11460166 FALSE -RUBCNL 2 TRUE NA NA NA NA FALSE S1PR1 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE SAMD9L 2 FALSE PASS 3 morinMutationalStructuralAnalysis2013 23699601 FALSE +HERC2 2 FALSE NA novakWholeexomeAnalysisReveals2015 +SDK2 2 FALSE NA novakWholeexomeAnalysisReveals2015 +SEC14L5 2 FALSE NA novakWholeexomeAnalysisReveals2015 SEL1L3 2 TRUE NA NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE -SEPTIN9 2 TRUE NA NA NA NA FALSE SERPINA9 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE SETD2 2 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE SETD5 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE @@ -300,7 +300,7 @@ TMSL3 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE TNF 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE TRAF3 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE TRAF6 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE -TRIP12 2 FALSE NA NA NA NA FALSE +TRIM2 2 FALSE NA novakWholeexomeAnalysisReveals2015 UBE2J1 2 TRUE NA schmitzGeneticsPathogenesisDiffuse2018 29641966 FALSE UBR5 2 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017 28327945 FALSE UHRF1BP1 2 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017 28327945 FALSE @@ -310,7 +310,6 @@ UNC5D 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 FALSE USP7 2 FALSE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE WDFY3 2 FALSE PASS 4 morinMutationalStructuralAnalysis2013 23699601 FALSE WNK1 2 FALSE PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 FALSE -XBP1 2 TRUE NA NA NA FALSE YY1 2 FALSE PASS 3 reddyGeneticFunctionalDrivers2017 28985567 FALSE ZCCHC7 2 TRUE NA arthurGenomewideDiscoverySomatic2018 30275490 FALSE ZEB2 2 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 FALSE @@ -334,6 +333,8 @@ TSC22D1 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE ZNF385B 2 FALSE NA lohrDiscoveryPrioritizationSomatic2012 22343534 ZNF521 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE ZWILCH 2 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 FALSE +FGFRL1 2 FALSE NA novakWholeexomeAnalysisReveals2015 +KIF1C 2 FALSE NA novakWholeexomeAnalysisReveals2015 CDH1 3 FALSE NA fanComprehensiveCharacterizationDriver2020 32565964 ABCA3 3 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE ABCA4 3 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 FALSE