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Merge pull request #8 from morinlab/krysta_genes
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removed non-functional refs from LOF/GOF columns
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@rdmorin
rdmorin authored Sep 3, 2024
2 parents ef98abe + 2abfa35 commit 4bdcb65
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Showing 3 changed files with 10 additions and 10 deletions.
6 changes: 3 additions & 3 deletions resources/curated/bl_genes.tsv
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Expand Up @@ -11,10 +11,10 @@ DDX3X 1 schmitzBurkittLymphomaPathogenesis2012 22885699 LOF 34437837
FBXO11 1 richterRecurrentMutationID32012a 23143595 LOF 22113614
FOXO1 1 schmitzBurkittLymphomaPathogenesis2012 22885699 GOF 23460611
GNA13 1 loveGeneticLandscapeMutations2012 23143597 LOF 26616858
GNAI2 1 grandeGenomewideDiscoverySomatic2019 30617194 GOF 23699601
GNAI2 1 grandeGenomewideDiscoverySomatic2019 30617194
HIST1H1E 1 TRUE grandeGenomewideDiscoverySomatic2019 31558468
HNRNPU 1 TRUE paneaWholeGenomeLandscape2019 31558468 LOF 36201743
ID3 1 richterRecurrentMutationID32012a 23143595 LOF 23143595
HNRNPU 1 TRUE paneaWholeGenomeLandscape2019 31558468
ID3 1 richterRecurrentMutationID32012a 23143595
KMT2D 1 grandeGenomewideDiscoverySomatic2019 30617194 LOF 26366712
MYC 1 TRUE johnstonCmycHypermutationBurkitt1992 1297477 GOF 38565249
P2RY8 1 muppidiLossSignalingGa132014b 25274307 LOF 25274307
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8 changes: 4 additions & 4 deletions resources/curated/dlbcl_genes.tsv
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Expand Up @@ -24,7 +24,7 @@ CIITA 1 TRUE NA morinFrequentMutationHistonemodifying2011 21796119 LOF 26549456
CREBBP 1 FALSE NA pasqualucciInactivatingMutationsAcetyltransferase2011a 21390126 LOF 21390126 pasqualucciInactivatingMutationsAcetyltransferase2011 TRUE
CXCR4 1 TRUE NA khodabakhshiRecurrentTargetsAberrant2012 23131835 LOF 36089616 zmajkovicovaGenotypephenotypeCorrelationsWHIM2022 FALSE
DDX3X 1 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 LOF 34437837 gongSequentialInverseDysregulation2021 TRUE
DTX1 1 TRUE NA zhangGeneticHeterogeneityDiffuse2013 23292937 LOF 28183850 merirantaDeltex1MutationsPredict2017 TRUE
DTX1 1 TRUE NA zhangGeneticHeterogeneityDiffuse2013 23292937 TRUE
DUSP2 1 TRUE NA lohrDiscoveryPrioritizationSomatic2012a 22343534 TRUE
EBF1 1 TRUE NA bohleRoleEarlyBcell2013 23174882 LOF 28692033 ramirez-komoSpontaneousLossLineage2017 FALSE
EEF1A1 1 FALSE NA chapuyMolecularSubtypesDiffuse2018b 29713087 FALSE
Expand Down Expand Up @@ -53,7 +53,7 @@ HIST2H2BE 1 TRUE NA chapuyMolecularSubtypesDiffuse2018b 29713087 FALSE
HLA-A 1 FALSE NA lohrDiscoveryPrioritizationSomatic2012a 22343534 LOF 34050029 fangazioGeneticMechanismsHLAI2021 TRUE
HLA-B 1 FALSE NA lohrDiscoveryPrioritizationSomatic2012a 22343534 LOF 34050029 fangazioGeneticMechanismsHLAI2021 TRUE
HLA-C 1 FALSE NA chapuyMolecularSubtypesDiffuse2018b 29713087 LOF 34050029 fangazioGeneticMechanismsHLAI2021 FALSE
HLA-DMB 1 FALSE NA hubschmannMutationalMechanismsShaping2021b 33953289 LOF 7528727 shamanAnalysisHLADMBMutants1995 FALSE
HLA-DMB 1 FALSE NA hubschmannMutationalMechanismsShaping2021b 33953289 FALSE
HNRNPU 1 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 FALSE
HVCN1 1 FALSE NA chapuyMolecularSubtypesDiffuse2018b 29713087 FALSE
IKZF3 1 FALSE NA morinFrequentMutationHistonemodifying2011 21796119 GOF 33689703 lazarianHotspotMutationTranscription2021 FALSE
Expand Down Expand Up @@ -81,7 +81,7 @@ MYC 1 TRUE NA pasqualucciHypermutationMultipleProtooncogenes2001a 11460166 GOF
MYD88 1 FALSE NA ngoOncogenicallyActiveMYD882011a 21179087 GOF 21179087 ngoOncogenicallyActiveMYD882011 TRUE
NFKBIA 1 FALSE NA thomasMutationalAnalysisIkappaBalpha2004 15198731 LOF 10637284 jungnickelClonalDeleteriousMutations2000 TRUE
NFKBIE 1 FALSE NA morinGeneticLandscapesRelapsed2016 26647218 LOF 25987724 mansouriFunctionalLossIkBe2015 FALSE
NFKBIZ 1 TRUE NA morinGeneticLandscapesRelapsed2016 26647218 GOF 30275490 arthurGenomewideDiscoverySomatic2018 FALSE
NFKBIZ 1 TRUE NA morinGeneticLandscapesRelapsed2016 26647218 GOF 302754900 arthurGenomewideDiscoverySomatic2018 FALSE
NOL9 1 FALSE NA schmitzGeneticsPathogenesisDiffuse2018a 29641966 TRUE
NOTCH1 1 FALSE NA pasqualucciAnalysisCodingGenome2011 21804550 GOF 29045844 ryanCellRegulomeLinks2017 TRUE
NOTCH2 1 FALSE NA zhangGeneticHeterogeneityDiffuse2013 23292937 GOF 19445024 leeGainoffunctionMutationsCopy2009 TRUE
Expand All @@ -106,7 +106,7 @@ SIN3A 1 FALSE NA chapuyMolecularSubtypesDiffuse2018b 29713087 FALSE
SMARCA4 1 FALSE NA reddyGeneticFunctionalDrivers2017 28985567 LOF 33144586 fernandoFunctionalCharacterizationSMARCA42020 FALSE
SOCS1 1 TRUE NA morinFrequentMutationHistonemodifying2011 21796119 LOF 15572583 melznerBiallelicMutationSOCS12005 TRUE
SPEN 1 FALSE NA albuquerqueEnhancingKnowledgeDiscovery2017a 28327945 TRUE
STAT3 1 FALSE NA morinFrequentMutationHistonemodifying2011 21796119 GOF 31861597 zhuSTAT3ActivationOncogenesis2019 TRUE
STAT3 1 FALSE NA morinFrequentMutationHistonemodifying2011 21796119 GOF 23861822 huNovelMissenseM206K2013a TRUE
STAT6 1 FALSE NA yildizActivatingSTAT6Mutations2015c 25428220 GOF 35851155 mentzPARP14NovelTarget2022 TRUE
TAF1 1 FALSE NA morinMutationalStructuralAnalysis2013 23699601 FALSE
TBL1XR1 1 FALSE NA lohrDiscoveryPrioritizationSomatic2012a 22343534 LOF 32619424 venturuttiTBL1XR1MutationsDrive2020 TRUE
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6 changes: 3 additions & 3 deletions resources/curated/fl_genes.tsv
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Expand Up @@ -21,7 +21,7 @@ EZH2 1 morinSomaticMutationsAltering2010a 20081860 GOF 21078963
FAS 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 20935634
FOXO1 1 morinFrequentMutationHistonemodifying2011 21796119 GOF 23460611
GNA13 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 26616858
GNAI2 1 drevalGeneticSubdivisionsFollicular2023 37084389 GOF 23699601
GNAI2 1 drevalGeneticSubdivisionsFollicular2023 37084389
HIST1H1B 1 TRUE krysiakRecurrentSomaticMutations2017b 28064239
HIST1H1C 1 TRUE morinFrequentMutationHistonemodifying2011 21796119
HIST1H1D 1 TRUE krysiakRecurrentSomaticMutations2017b 28064239
Expand All @@ -40,7 +40,7 @@ MAP2K1 1 louissaintPediatrictypeNodalFollicular2016a 27325104 GOF 28533310
MEF2B 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 NEO 23974956; 26245647
MYC 1 TRUE NA NA GOF 38565249
PIM1 1 TRUE drevalGeneticSubdivisionsFollicular2023 NA GOF 27904766
POU2AF1 1 krysiakRecurrentSomaticMutations2017b 28064239 LOF 30802265
POU2AF1 1 krysiakRecurrentSomaticMutations2017b 28064239
POU2F2 1 krysiakRecurrentSomaticMutations2017b 28064239 LOF 26993806
RRAGC 1 okosunRecurrentMTORC1activatingRRAGC2016a NA GOF 26691987
SGK1 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 GOF 33988691
Expand All @@ -50,7 +50,7 @@ STAT6 1 yildizActivatingSTAT6Mutations2015c 25428220 GOF 35851155
TBL1XR1 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 32619424
TMSB4X 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389
TNFAIP3 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 19412164
TNFRSF14 1 cheungAcquiredTNFRSF14Mutations2010a 21796119 LOF 21796119
TNFRSF14 1 cheungAcquiredTNFRSF14Mutations2010a 21796119
TP53 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 12826609
VMA21 1 hubschmannMutationalMechanismsShaping2021b 33953289 LOF 35287545
ABL2 2 russler-germainMutationsAssociatedProgression2023b 37563306
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