diff --git a/resources/curated/fl_genes.tsv b/resources/curated/fl_genes.tsv index 499d6555..64dab84d 100644 --- a/resources/curated/fl_genes.tsv +++ b/resources/curated/fl_genes.tsv @@ -1,113 +1,113 @@ -Gene Tier aSHM QC Mean Variant Quality citekey PMID MutationEffect Mutation-PMID -ACTB 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 -ARID1A 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 38458187 -ATP6AP1 1 okosunRecurrentMTORC1activatingRRAGC2016 26691987 -ATP6V1B2 1 okosunRecurrentMTORC1activatingRRAGC2016 26691987 LOF 28064239 -B2M 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 22137796 -BCL10 1 russler-germainMutationsAssociatedProgression2023 37493986 GOF 35658124 -BCL2 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 -BCL6 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 LOF 12504096 -BCL7A 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 LOF 32576963 -BTK 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 33419778 -CARD11 1 morinFrequentMutationHistonemodifying2011 21796119 GOF 18323416 -CCND3 1 morinFrequentMutationHistonemodifying2011 21796119 GOF 22885699 -CD83 1 TRUE russler-germainMutationsAssociatedProgression2023 37493986 -CREBBP 1 pasqualucciInactivatingMutationsAcetyltransferase2011 21390126 LOF 21390126 -CTSS 1 barariaCathepsinAlterationsInduce2020 32330423 GOF 32330455 -EBF1 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 LOF 28692033 -EEF1A1 1 hubschmannMutationalMechanismsShaping2021 33953289 -EP300 1 pasqualucciInactivatingMutationsAcetyltransferase2011 21390126 LOF 21390126 -EZH2 1 morinSomaticMutationsAltering2010 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 -HIST1H1B 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H1C 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 -HIST1H1D 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H1E 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H2AC 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H2AG 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H2AM 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H2BC 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HIST1H2BG 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 -HVCN1 1 krysiakRecurrentSomaticMutations2017 28064239 -IRF4 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 -IRF8 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 LOF 38996030 -KLHL6 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 LOF 29695787 -KMT2D 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 26366712 -MAP2K1 1 louissaintPediatrictypeNodalFollicular2016 27325104 GOF 28533310 -MEF2B 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 NEO 23974956; 26245647 -MYC 1 TRUE rossiAberrantSomaticHypermutation2006 17018394 GOF 38565249 -PIM1 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 GOF 27904766 -POU2AF1 1 krysiakRecurrentSomaticMutations2017 28064239 -POU2F2 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 26993806 -RRAGC 1 okosunRecurrentMTORC1activatingRRAGC2016 26691987 GOF 26691987 -SGK1 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 GOF 33988691 -SMARCA4 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 33144586 -SOCS1 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 LOF 15572583 -STAT6 1 yildizActivatingSTAT6Mutations2015 25428220 GOF 35851155 -TBL1XR1 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 32619424 -TMSB4X 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 -TNFAIP3 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 19412164 -TNFRSF14 1 cheungAcquiredTNFRSF14Mutations2010 21796119 -TP53 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 12826609 -VMA21 1 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-KIR3DL1 2 russler-germainMutationsAssociatedProgression2023 37563306 -KLF2 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 -LAPTM5 2 PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 -LTB 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 -MAGEC1 2 russler-germainMutationsAssociatedProgression2023 37563306 -MAP7D1 2 russler-germainMutationsAssociatedProgression2023 37563306 -MEF2C 2 TRUE laurentFollicularLymphomaComprises2024 NA -MGEA5 2 PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 -MKI67 2 russler-germainMutationsAssociatedProgression2023 37493986 -MYCBP2 2 PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 -MYD88 2 drevalGeneticSubdivisionsFollicular2023 37084389 -NFKBIA 2 russler-germainMutationsAssociatedProgression2023 37493986 -OR8H2 2 russler-germainMutationsAssociatedProgression2023 37493986 -P2RY8 2 drevalGeneticSubdivisionsFollicular2023 37084389 -PDS5B 2 PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 -PPP4C 2 PASS 4 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morinSomaticMutationsAltering2010 20081860 GOF 21078963 drevalGeneticSubdivisionsFollicular2023 +FAS 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 20935634 crouchMolecularSubclustersFollicular2022 +FOXO1 1 morinFrequentMutationHistonemodifying2011 21796119 GOF 23460611 crouchMolecularSubclustersFollicular2022 +GNA13 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 26616858 crouchMolecularSubclustersFollicular2022 +GNAI2 1 drevalGeneticSubdivisionsFollicular2023 37084389 kalmbachNovelInsightsPathogenesis2023 +HIST1H1B 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H1C 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 crouchMolecularSubclustersFollicular2022 +HIST1H1D 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H1E 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H2AC 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H2AG 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H2AM 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H2BC 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HIST1H2BG 1 TRUE krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +HVCN1 1 krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +IRF8 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 LOF 38996030 crouchMolecularSubclustersFollicular2022 +KLHL6 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 LOF 29695787 crouchMolecularSubclustersFollicular2022 +KMT2D 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 26366712 crouchMolecularSubclustersFollicular2022 +MAP2K1 1 louissaintPediatrictypeNodalFollicular2016 27325104 GOF 28533310 schmidtMutationsMAP2K1Are2017 +MEF2B 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 NEO 23974956; 26245647 crouchMolecularSubclustersFollicular2022 +MYC 1 TRUE rossiAberrantSomaticHypermutation2006 17018394 GOF 38565249 crouchMolecularSubclustersFollicular2022 +PIM1 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 GOF 27904766 crouchMolecularSubclustersFollicular2022 +POU2AF1 1 krysiakRecurrentSomaticMutations2017 28064239 crouchMolecularSubclustersFollicular2022 +POU2F2 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 26993806 crouchMolecularSubclustersFollicular2022 +RRAGC 1 okosunRecurrentMTORC1activatingRRAGC2016 26691987 GOF 26691987 drevalGeneticSubdivisionsFollicular2023 +SGK1 1 TRUE morinFrequentMutationHistonemodifying2011 21796119 GOF 33988691 crouchMolecularSubclustersFollicular2022 +SMARCA4 1 krysiakRecurrentSomaticMutations2017 28064239 LOF 33144586 crouchMolecularSubclustersFollicular2022 +SOCS1 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 LOF 15572583 crouchMolecularSubclustersFollicular2022 +STAT6 1 yildizActivatingSTAT6Mutations2015 25428220 GOF 35851155 crouchMolecularSubclustersFollicular2022 +TBL1XR1 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 32619424 crouchMolecularSubclustersFollicular2022 +TMSB4X 1 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 kalmbachNovelInsightsPathogenesis2023 +TNFAIP3 1 drevalGeneticSubdivisionsFollicular2023 37084389 LOF 19412164 crouchMolecularSubclustersFollicular2022 +TNFRSF14 1 cheungAcquiredTNFRSF14Mutations2010 21796119 crouchMolecularSubclustersFollicular2022 +TP53 1 morinFrequentMutationHistonemodifying2011 21796119 LOF 12826609 crouchMolecularSubclustersFollicular2022 +VMA21 1 hubschmannMutationalMechanismsShaping2021 33953289 LOF 35287545 kridelHistologicalTransformationProgression2016 +IGLL5 1 TRUE russler-germainMutationsAssociatedProgression2023 37493986 kridelHistologicalTransformationProgression2016 +IRF4 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 +ABL2 2 russler-germainMutationsAssociatedProgression2023 37563306 +ACTG1 2 TRUE hubschmannMutationalMechanismsShaping2021 33953289 +ATP6V1A 2 PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 +BTG1 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 +BTG2 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 +CD70 2 russler-germainMutationsAssociatedProgression2023 37493986 +CD79B 2 drevalGeneticSubdivisionsFollicular2023 37084389 +CDC42BPB 2 PASS 3 hubschmannMutationalMechanismsShaping2021 33953289 +CILP 2 russler-germainMutationsAssociatedProgression2023 37493986 +CPNE8 2 PASS 4 hubschmannMutationalMechanismsShaping2021 33953289 +CXCR4 2 TRUE krysiakRecurrentSomaticMutations2017 28064239 +CYP2A6 2 russler-germainMutationsAssociatedProgression2023 37493986 +NEB 2 maSubtypespecificCooccurringGenetic2022 33792219 +DDX3X 2 drevalGeneticSubdivisionsFollicular2023 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hubschmannMutationalMechanismsShaping2021 33953289 +PRKDC 2 hubschmannMutationalMechanismsShaping2021 33953289 +PTPRD 2 drevalGeneticSubdivisionsFollicular2023 37084389 +PZP 2 russler-germainMutationsAssociatedProgression2023 37493986 +RBM6 2 hubschmannMutationalMechanismsShaping2021 33953289 +S1PR2 2 TRUE drevalGeneticSubdivisionsFollicular2023 37084389 +SHROOM3 2 russler-germainMutationsAssociatedProgression2023 37493986 +SRRM2 2 russler-germainMutationsAssociatedProgression2023 37493986 +STAB2 2 russler-germainMutationsAssociatedProgression2023 37493986 +TMEM30A 2 morinFrequentMutationHistonemodifying2011 21796119 +TPP1 2 hubschmannMutationalMechanismsShaping2021 33953289 +XIRP2 2 russler-germainMutationsAssociatedProgression2023 37493986 +ZNF608 2 krysiakRecurrentSomaticMutations2017 28064239