From 5bcb5b99986f06b920966cea23ac35924a4f9560 Mon Sep 17 00:00:00 2001 From: rdmorin Date: Fri, 24 May 2024 13:31:40 -0400 Subject: [PATCH] more updates --- resources/curated/fl_genes.tsv | 47 +++++---- resources/curated/fl_tiers.tsv | 1 + resources/curated/gene_history_first.tsv | 27 ++--- resources/curated/gene_history_full.tsv | 129 +++++++++++++---------- resources/curated/temp | 129 +++++++++++++++++++++++ 5 files changed, 242 insertions(+), 91 deletions(-) create mode 100644 resources/curated/temp diff --git a/resources/curated/fl_genes.tsv b/resources/curated/fl_genes.tsv index 44221d5a..efdfddfd 100644 --- a/resources/curated/fl_genes.tsv +++ b/resources/curated/fl_genes.tsv @@ -2,19 +2,19 @@ gene curated Dreval Hubschmann Crouch de_Leval Kalmbach Russler-Germain First_de ABL2 FALSE FALSE FALSE FALSE FALSE TRUE FALSE 37563306 russler-germainMutationsAssociatedProgression2023a 0.6928406466512702 NA ACTB TRUE TRUE TRUE FALSE FALSE FALSE FALSE NA 5.311778290993072 aSHM ACTG1 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 3.0023094688221708 NA -ARID1A TRUE FALSE TRUE TRUE TRUE FALSE FALSE NA 12.471131639722863 NA -ATP6AP1 TRUE TRUE TRUE FALSE TRUE FALSE FALSE NA 4.849884526558891 NA +ARID1A TRUE FALSE TRUE TRUE TRUE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 12.471131639722863 NA +ATP6AP1 TRUE TRUE TRUE FALSE TRUE FALSE FALSE 26691987 okosunRecurrentMTORC1activatingRRAGC2016a 4.849884526558891 NA ATP6V1A FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 1.1547344110854503 NA -ATP6V1B2 TRUE TRUE TRUE FALSE TRUE FALSE FALSE NA 7.390300230946882 NA +ATP6V1B2 TRUE TRUE TRUE FALSE TRUE FALSE FALSE 26691987 okosunRecurrentMTORC1activatingRRAGC2016a 7.390300230946882 NA B2M TRUE TRUE TRUE FALSE TRUE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 8.545034642032332 NA BCL10 FALSE FALSE FALSE FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 2.3094688221709005 NA BCL2 TRUE TRUE TRUE TRUE TRUE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 50.34642032332564 NA BCL6 TRUE FALSE FALSE FALSE FALSE FALSE TRUE 37084389 5.773672055427252 aSHM -BCL7A TRUE FALSE TRUE TRUE TRUE TRUE TRUE NA 13.856812933025404 aSHM +BCL7A TRUE FALSE TRUE TRUE TRUE TRUE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 13.856812933025404 aSHM BIRC6 TRUE TRUE FALSE FALSE FALSE FALSE FALSE NA 3.695150115473441 NA BTG1 TRUE TRUE FALSE TRUE TRUE FALSE FALSE NA 6.466512702078522 aSHM BTG2 TRUE TRUE TRUE TRUE FALSE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 4.387990762124711 aSHM -BTK TRUE FALSE FALSE FALSE TRUE FALSE FALSE NA 6.928406466512702 NA +BTK TRUE FALSE FALSE FALSE TRUE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 6.928406466512702 NA CARD11 TRUE FALSE FALSE FALSE TRUE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 14.780600461893764 NA CCDC42BPB FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b NA NA CCND3 TRUE TRUE FALSE FALSE FALSE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 3.233256351039261 NA @@ -24,8 +24,8 @@ CD83 TRUE TRUE NA TRUE FALSE FALSE FALSE 37493986 russler-germainMutationsAssoci CILP FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 0.4618937644341801 NA CPNE8 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 2.0785219399538106 NA CREBBP TRUE TRUE NA TRUE TRUE TRUE TRUE 21796119 65.1270207852194 NA -CTSS TRUE FALSE NA FALSE TRUE FALSE FALSE NA 3.9260969976905313 NA -CXCR4 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 khodabakhshiRecurrentTargetsAberrant2012 3.464203233256351 NA +CTSS TRUE FALSE NA FALSE TRUE FALSE FALSE 32330423 barariaCathepsinAlterationsInduce2020c 3.9260969976905313 NA +CXCR4 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 3.464203233256351 NA CYP2A6 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 0.23094688221709006 NA DDX3X FALSE TRUE NA FALSE FALSE FALSE FALSE 37084389 2.540415704387991 NA DHX15 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 0.6928406466512702 NA @@ -42,23 +42,23 @@ GBP7 FALSE FALSE NA FALSE FALSE TRUE FALSE 37563306 russler-germainMutationsAsso GNA13 TRUE TRUE TRUE FALSE TRUE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 10.161662817551964 NA GNAI2 TRUE FALSE TRUE FALSE FALSE FALSE FALSE NA 4.157043879907621 NA GRM6 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 0.9237875288683602 NA -HIST1H1B TRUE TRUE NA TRUE FALSE FALSE FALSE NA 5.542725173210162 aSHM +HIST1H1B TRUE TRUE NA TRUE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 5.542725173210162 aSHM HIST1H1C TRUE TRUE NA TRUE TRUE FALSE FALSE 21796119 morinFrequentMutationHistonemodifying2011 5.080831408775982 aSHM -HIST1H1D TRUE FALSE NA TRUE FALSE FALSE TRUE NA 3.233256351039261 aSHM -HIST1H1E TRUE TRUE NA TRUE TRUE FALSE TRUE NA 12.933025404157044 aSHM -HIST1H2AC TRUE FALSE NA TRUE FALSE FALSE TRUE NA 2.3094688221709005 aSHM -HIST1H2AG TRUE FALSE NA TRUE FALSE FALSE FALSE NA 2.0785219399538106 aSHM -HIST1H2AM TRUE FALSE NA TRUE FALSE FALSE TRUE NA 3.695150115473441 aSHM -HIST1H2BC TRUE FALSE NA TRUE FALSE FALSE FALSE NA 3.464203233256351 aSHM -HIST1H2BD TRUE FALSE NA TRUE FALSE FALSE FALSE NA 1.1547344110854503 aSHM -HIST1H2BG TRUE FALSE NA TRUE FALSE FALSE FALSE NA 2.0785219399538106 aSHM -HIST1H2BM FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 0.6928406466512702 aSHM +HIST1H1D TRUE FALSE NA TRUE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 3.233256351039261 aSHM +HIST1H1E TRUE TRUE NA TRUE TRUE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 12.933025404157044 aSHM +HIST1H2AC TRUE FALSE NA TRUE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 2.3094688221709005 aSHM +HIST1H2AG TRUE FALSE NA TRUE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 2.0785219399538106 aSHM +HIST1H2AM TRUE FALSE NA TRUE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 3.695150115473441 aSHM +HIST1H2BC TRUE FALSE NA TRUE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 3.464203233256351 aSHM +HIST1H2BD TRUE FALSE NA TRUE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 1.1547344110854503 aSHM +HIST1H2BG TRUE FALSE NA TRUE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 2.0785219399538106 aSHM +HIST1H2BM FALSE FALSE NA FALSE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 0.6928406466512702 aSHM HIST1H3B TRUE FALSE NA TRUE FALSE FALSE FALSE NA 1.6166281755196306 aSHM -HIST1H3G TRUE FALSE NA TRUE FALSE FALSE TRUE NA 1.6166281755196306 aSHM -HIST1H3I FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 1.1547344110854503 aSHM +HIST1H3G TRUE FALSE NA TRUE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 1.6166281755196306 aSHM +HIST1H3I FALSE FALSE NA FALSE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 1.1547344110854503 aSHM HLA-B FALSE TRUE NA FALSE FALSE FALSE FALSE NA 3.464203233256351 NA HNRNPD FALSE TRUE NA FALSE FALSE FALSE FALSE NA NA NA -HVCN1 TRUE FALSE NA FALSE TRUE FALSE FALSE NA 6.466512702078522 NA +HVCN1 TRUE FALSE NA FALSE TRUE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b 6.466512702078522 NA ID3 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 0.9237875288683602 NA IGLL5 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 35.33487297921478 aSHM/SHM. Unclear if this should be considered a gene IRF4 TRUE FALSE NA FALSE FALSE FALSE FALSE NA 1.1547344110854503 LBCL-IRF4 @@ -85,9 +85,8 @@ NFKBIA FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAs OR8H2 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 1.1547344110854503 NA P2RY8 FALSE TRUE NA FALSE FALSE FALSE FALSE NA 2.3094688221709005 NA PCLO TRUE TRUE NA FALSE FALSE FALSE FALSE NA 9.237875288683602 NA -PDS5B FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 morinMutationalStructuralAnalysis2013 1.6166281755196306 NA PIM1 TRUE TRUE NA TRUE TRUE FALSE TRUE NA 9.237875288683602 NA -POU2AF1 TRUE TRUE NA FALSE TRUE TRUE TRUE NA 12.240184757505773 NA +POU2AF1 TRUE TRUE NA FALSE TRUE TRUE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 12.240184757505773 NA POU2F2 TRUE FALSE NA FALSE TRUE TRUE FALSE NA 6.235565819861431 NA PPP4C FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 2.0785219399538106 NA PRKDC FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 schmitzGeneticsPathogenesisDiffuse2018a 3.0023094688221708 NA @@ -99,7 +98,7 @@ S1PR2 TRUE FALSE NA FALSE TRUE FALSE FALSE NA 6.235565819861431 NA SESN1 FALSE FALSE NA FALSE FALSE FALSE FALSE 28659443 0.23094688221709006 NA SGK1 TRUE TRUE TRUE TRUE TRUE FALSE TRUE 21796119 morinFrequentMutationHistonemodifying2011 6.0046189376443415 NA SHROOM3 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 1.1547344110854503 NA -SMARCA4 TRUE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 4.157043879907621 NA +SMARCA4 TRUE FALSE NA FALSE FALSE FALSE TRUE 28064239 krysiakRecurrentSomaticMutations2017b 4.157043879907621 NA SOCS1 TRUE TRUE TRUE TRUE TRUE FALSE TRUE NA 9.699769053117782 NA SRRM2 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 1.3856812933025404 NA STAB2 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 2.540415704387991 NA @@ -114,3 +113,5 @@ TPP1 FALSE FALSE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMecha VMA21 TRUE TRUE TRUE FALSE FALSE FALSE FALSE 33953289 hubschmannMutationalMechanismsShaping2021b 5.080831408775982 NA XIRP2 FALSE FALSE NA FALSE FALSE FALSE TRUE 37493986 russler-germainMutationsAssociatedProgression2023a 3.9260969976905313 NA ZC3H12A FALSE TRUE NA FALSE FALSE FALSE FALSE NA 0.4618937644341801 NA +EGR1 FALSE FALSE FALSE FALSE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b +ZNF608 FALSE FALSE FALSE FALSE FALSE FALSE FALSE 28064239 krysiakRecurrentSomaticMutations2017b diff --git a/resources/curated/fl_tiers.tsv b/resources/curated/fl_tiers.tsv index d7cd3030..6f310cbe 100644 --- a/resources/curated/fl_tiers.tsv +++ b/resources/curated/fl_tiers.tsv @@ -35,6 +35,7 @@ EBF1 1 EEF1A1 2 EP300 1 EZH2 1 +EGR1 2 FAS 1 FOXO1 1 FZR1 2 diff --git a/resources/curated/gene_history_first.tsv b/resources/curated/gene_history_first.tsv index 714b9aea..20180bb7 100644 --- a/resources/curated/gene_history_first.tsv +++ b/resources/curated/gene_history_first.tsv @@ -23,9 +23,9 @@ ARID5B 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 ATM 2013 beaLandscapeSomaticMutations2013 MCL 1 ATP11C 2014 zhangGenomicLandscapeMantle2014 MCL 2 ATP2C2 2012 loveGeneticLandscapeMutations2012 BL 2 -ATP6AP1 NA Unknown FL 1 +ATP6AP1 2016 okosunRecurrentMTORC1activatingRRAGC2016a FL 1 ATP6V1A 2021 hubschmannMutationalMechanismsShaping2021b FL 2 -ATP6V1B2 NA Unknown FL 1 +ATP6V1B2 2016 okosunRecurrentMTORC1activatingRRAGC2016a FL 1 ATR 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 B2M 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 BACH2 2019 grandeGenomewideDiscoverySomatic2019 BL 2 @@ -34,7 +34,7 @@ BCL11A NA Unknown DLBCL 1 BCL2 1992 tanakaFrequentIncidenceSomatic1992 DLBCL 1 BCL2L11 NA Unknown BL 2 BCL6 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 -BCL7A 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 +BCL7A 2017 krysiakRecurrentSomaticMutations2017b FL 1 BCOR 2020 nadeuGenomicEpigenomicInsights2020a MCL 1 BCR NA Unknown DLBCL 1 BIRC3 2013 beaLandscapeSomaticMutations2013 MCL 1 @@ -98,7 +98,7 @@ CRIP1 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 CRYBG3 2013 beaLandscapeSomaticMutations2013 MCL 2 CTCF 2019 paneaWholeGenomeLandscape2019 BL 2 CTNNA2 2014 zhangGenomicLandscapeMantle2014 MCL 2 -CTSS NA Unknown FL 1 +CTSS 2020 barariaCathepsinAlterationsInduce2020c FL 1 CXCR4 2012 khodabakhshiRecurrentTargetsAberrant2012 DLBCL 1 CXCR5 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 CYB5D1 2012 loveGeneticLandscapeMutations2012 BL 2 @@ -130,6 +130,7 @@ E2F2 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 EBF1 2013 bohleRoleEarlyBcell2013 DLBCL 1 EDNRB 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 EEF1A1 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 1 +EGR1 2017 krysiakRecurrentSomaticMutations2017b FL 2 EHD1 NA Unknown BL 2 EIF2AK3 NA Unknown DLBCL 2 EIF2AK4 2014 zhangGenomicLandscapeMantle2014 MCL 2 @@ -189,23 +190,23 @@ GSG2 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 GTSE1 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 HDAC7 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 HEPH 2014 zhangGenomicLandscapeMantle2014 MCL 2 -HIST1H1B 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 1 +HIST1H1B 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H1C 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 HIST1H1D 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 HIST1H1E 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 HIST1H2AC 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 HIST1H2AG 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 -HIST1H2AM 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H2AM 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2BC 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 -HIST1H2BD NA Unknown FL 1 -HIST1H2BG NA Unknown FL 1 +HIST1H2BD 2017 krysiakRecurrentSomaticMutations2017b FL 1 +HIST1H2BG 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2BK 2019 paneaWholeGenomeLandscape2019 BL 2 -HIST1H2BM 2023 russler-germainMutationsAssociatedProgression2023a FL 2 +HIST1H2BM 2017 krysiakRecurrentSomaticMutations2017b FL 2 HIST1H3B 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 HIST1H3D 2019 paneaWholeGenomeLandscape2019 BL 2 -HIST1H3G NA Unknown FL 1 +HIST1H3G 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H3H 2019 paneaWholeGenomeLandscape2019 BL 2 -HIST1H3I 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H3I 2017 krysiakRecurrentSomaticMutations2017b FL 2 HIST1H3J 2019 paneaWholeGenomeLandscape2019 BL 2 HIST1H4J 2019 paneaWholeGenomeLandscape2019 BL 2 HIST2H2BE 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 @@ -221,7 +222,7 @@ HNRNPD NA Unknown DLBCL 1 HNRNPH1 2020 pararajalingamCodingNoncodingDrivers2020 DLBCL 1 HNRNPU 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 HRAS 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -HVCN1 NA Unknown DLBCL 1 +HVCN1 2017 krysiakRecurrentSomaticMutations2017b FL 1 ICK 2012 loveGeneticLandscapeMutations2012 BL 2 ID3 2012 schmitzBurkittLymphomaPathogenesis2012 DLBCL 2 IER2 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 @@ -365,7 +366,7 @@ POGZ 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 POLRMT 2012 loveGeneticLandscapeMutations2012 BL 2 POR 2012 loveGeneticLandscapeMutations2012 BL 2 POT1 2014 zhangGenomicLandscapeMantle2014 MCL 1 -POU2AF1 NA Unknown DLBCL 1 +POU2AF1 2017 krysiakRecurrentSomaticMutations2017b FL 1 POU2F2 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 PPP1R9B NA Unknown DLBCL 1 PPP4C 2021 hubschmannMutationalMechanismsShaping2021b FL 2 diff --git a/resources/curated/gene_history_full.tsv b/resources/curated/gene_history_full.tsv index 85692946..b6f8fce4 100644 --- a/resources/curated/gene_history_full.tsv +++ b/resources/curated/gene_history_full.tsv @@ -18,27 +18,31 @@ ANK2 2014 zhangGenomicLandscapeMantle2014 MCL 2 ANKRD12 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 ANKRD17 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 ARHGEF1 2014 muppidiLossSignalingGa132014b BL 2 -ARID1A 2012 loveGeneticLandscapeMutations2012 BL 1 ARID1A 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 +ARID1A 2017 krysiakRecurrentSomaticMutations2017b FL 1 +ARID1A 2012 loveGeneticLandscapeMutations2012 BL 1 ARID1B 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 ARID5B 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 ATM 2013 beaLandscapeSomaticMutations2013 MCL 1 ATM 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 ATP11C 2014 zhangGenomicLandscapeMantle2014 MCL 2 ATP2C2 2012 loveGeneticLandscapeMutations2012 BL 2 +ATP6AP1 2016 okosunRecurrentMTORC1activatingRRAGC2016a FL 1 ATP6V1A 2021 hubschmannMutationalMechanismsShaping2021b FL 2 +ATP6V1B2 2016 okosunRecurrentMTORC1activatingRRAGC2016a FL 1 ATR 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -B2M 2011 morinFrequentMutationHistonemodifying2011 FL 1 -B2M 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 B2M 2020 pararajalingamCodingNoncodingDrivers2020 MCL 2 +B2M 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +B2M 2011 morinFrequentMutationHistonemodifying2011 FL 1 BACH2 2019 grandeGenomewideDiscoverySomatic2019 BL 2 BCL10 2023 russler-germainMutationsAssociatedProgression2023a FL 2 BCL10 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 -BCL2 2012 loveGeneticLandscapeMutations2012 BL 2 BCL2 1992 tanakaFrequentIncidenceSomatic1992 DLBCL 1 BCL2 2011 morinFrequentMutationHistonemodifying2011 FL 1 +BCL2 2012 loveGeneticLandscapeMutations2012 BL 2 BCL6 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 BCL6 2012 loveGeneticLandscapeMutations2012 BL 2 +BCL7A 2017 krysiakRecurrentSomaticMutations2017b FL 1 BCL7A 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 BCL7A 2019 grandeGenomewideDiscoverySomatic2019 BL 2 BCOR 2020 nadeuGenomicEpigenomicInsights2020a MCL 1 @@ -46,33 +50,34 @@ BIRC3 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 2 BIRC3 2013 beaLandscapeSomaticMutations2013 MCL 1 BIRC6 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 BMP7 2019 paneaWholeGenomeLandscape2019 BL 1 -BRAF 2012 loveGeneticLandscapeMutations2012 BL 2 BRAF 2011 tiacciBRAFMutationsHairycell2011a DLBCL 1 +BRAF 2012 loveGeneticLandscapeMutations2012 BL 2 BRD4 2012 loveGeneticLandscapeMutations2012 BL 2 BRINP3 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 BTBD3 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 BTG1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 BTG1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +BTG2 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 BTG2 2011 morinFrequentMutationHistonemodifying2011 FL 1 BTG2 2012 loveGeneticLandscapeMutations2012 BL 2 -BTG2 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +BTK 2017 krysiakRecurrentSomaticMutations2017b FL 1 BTK 2017 albuquerqueEnhancingKnowledgeDiscovery2017a DLBCL 1 C16orf48 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 C6orf27 2012 loveGeneticLandscapeMutations2012 BL 2 CAD 2012 loveGeneticLandscapeMutations2012 BL 2 CADPS2 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 +CARD11 2008 lenzOncogenicCARD11Mutations2008 DLBCL 1 CARD11 2011 morinFrequentMutationHistonemodifying2011 FL 1 CARD11 2016 wuGeneticHeterogeneityPrimary2016 MCL 1 -CARD11 2008 lenzOncogenicCARD11Mutations2008 DLBCL 1 CARD4 2012 loveGeneticLandscapeMutations2012 BL 2 CASP8 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 CBLB 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 CCDC42BPB 2021 hubschmannMutationalMechanismsShaping2021b FL 2 CCL4 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 CCND1 2013 beaLandscapeSomaticMutations2013 MCL 1 -CCND3 2011 morinFrequentMutationHistonemodifying2011 FL 1 CCND3 2012 schmitzBurkittLymphomaPathogenesis2012 BL 1 CCND3 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +CCND3 2011 morinFrequentMutationHistonemodifying2011 FL 1 CCNF 2015 abateDistinctViralMutational2015a BL 2 CCT6B 2012 loveGeneticLandscapeMutations2012 BL 2 CD22 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 @@ -80,14 +85,14 @@ CD274 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 CD36 2011 pasqualucciAnalysisCodingGenome2011 DLBCL 1 CD44 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 2 CD58 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 -CD70 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 CD70 2023 russler-germainMutationsAssociatedProgression2023a FL 2 +CD70 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 CD74 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 2 CD79A 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 CD79B 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 -CD83 2019 paneaWholeGenomeLandscape2019 BL 2 -CD83 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 CD83 2023 russler-germainMutationsAssociatedProgression2023a FL 1 +CD83 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 +CD83 2019 paneaWholeGenomeLandscape2019 BL 2 CDC73 2012 loveGeneticLandscapeMutations2012 BL 2 CDC73 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 CDH17 2012 loveGeneticLandscapeMutations2012 BL 2 @@ -117,9 +122,10 @@ CRIP1 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 CRYBG3 2013 beaLandscapeSomaticMutations2013 MCL 2 CTCF 2019 paneaWholeGenomeLandscape2019 BL 2 CTNNA2 2014 zhangGenomicLandscapeMantle2014 MCL 2 -CXCR4 2012 khodabakhshiRecurrentTargetsAberrant2012 DLBCL 1 +CTSS 2020 barariaCathepsinAlterationsInduce2020c FL 1 CXCR4 2019 paneaWholeGenomeLandscape2019 BL 2 -CXCR4 2012 khodabakhshiRecurrentTargetsAberrant2012 FL 2 +CXCR4 2012 khodabakhshiRecurrentTargetsAberrant2012 DLBCL 1 +CXCR4 2017 krysiakRecurrentSomaticMutations2017b FL 2 CXCR5 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 CYB5D1 2012 loveGeneticLandscapeMutations2012 BL 2 CYP2A6 2023 russler-germainMutationsAssociatedProgression2023a FL 2 @@ -129,8 +135,8 @@ DAZAP1 2020 pararajalingamCodingNoncodingDrivers2020 DLBCL 1 DCAF6 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 DCP1B 2013 beaLandscapeSomaticMutations2013 MCL 2 DDX10 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -DDX3X 2012 schmitzBurkittLymphomaPathogenesis2012 BL 1 DDX3X 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 +DDX3X 2012 schmitzBurkittLymphomaPathogenesis2012 BL 1 DHCR7 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 DHDH 2014 zhangGenomicLandscapeMantle2014 MCL 2 DHX15 2021 hubschmannMutationalMechanismsShaping2021b FL 2 @@ -146,14 +152,15 @@ DNMT1 2019 paneaWholeGenomeLandscape2019 BL 2 DNMT3A 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 DOCK1 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 DSG4 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 -DTX1 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 DTX1 2019 paneaWholeGenomeLandscape2019 BL 2 +DTX1 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 DUSP2 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 E2F2 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 EBF1 2013 bohleRoleEarlyBcell2013 DLBCL 1 EDNRB 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 EEF1A1 2021 hubschmannMutationalMechanismsShaping2021b FL 2 EEF1A1 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 1 +EGR1 2017 krysiakRecurrentSomaticMutations2017b FL 2 EIF2AK4 2014 zhangGenomicLandscapeMantle2014 MCL 2 EIF2C4 2012 loveGeneticLandscapeMutations2012 BL 2 EIF4A1 2019 paneaWholeGenomeLandscape2019 BL 1 @@ -170,14 +177,14 @@ ETS1 2019 paneaWholeGenomeLandscape2019 BL 2 ETV6 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 EWSR1 2020 pararajalingamCodingNoncodingDrivers2020 MCL 1 EXOSC6 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 -EZH2 2010 morinSomaticMutationsAltering2010 FL 1 EZH2 2012 loveGeneticLandscapeMutations2012 BL 2 EZH2 2010 morinSomaticMutationsAltering2010 DLBCL 1 +EZH2 2010 morinSomaticMutationsAltering2010 FL 1 FAM129B 2012 loveGeneticLandscapeMutations2012 BL 2 FAM38B 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 FAS 2007 schollMutationsRegionFAS2007 DLBCL 1 -FAT4 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 FAT4 2014 zhangGenomicLandscapeMantle2014 MCL 2 +FAT4 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 FBXO11 2023 thomasGeneticSubgroupsInform2023 BL 1 FBXO11 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 1 FBXW7 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 @@ -185,8 +192,8 @@ FGFR3 2012 loveGeneticLandscapeMutations2012 BL 2 FLYWCH1 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 FNDC1 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 FOXC1 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 -FOXO1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 FOXO1 2012 schmitzBurkittLymphomaPathogenesis2012 BL 1 +FOXO1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 FOXO1 2011 morinFrequentMutationHistonemodifying2011 FL 1 FOXP1 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 FTCD 2012 loveGeneticLandscapeMutations2012 BL 2 @@ -198,16 +205,16 @@ GABRA2 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 GAK 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 GBP7 2023 russler-germainMutationsAssociatedProgression2023a FL 2 GGTLA4 2012 loveGeneticLandscapeMutations2012 BL 2 -GNA13 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 GNA13 2012 loveGeneticLandscapeMutations2012 BL 1 +GNA13 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 GNA13 2011 morinFrequentMutationHistonemodifying2011 FL 1 -GNAI2 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 GNAI2 2019 grandeGenomewideDiscoverySomatic2019 BL 1 +GNAI2 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 GNAS 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 GOLGA5 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 GPC5 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 -GRB2 2019 paneaWholeGenomeLandscape2019 BL 2 GRB2 2011 pasqualucciAnalysisCodingGenome2011 DLBCL 1 +GRB2 2019 paneaWholeGenomeLandscape2019 BL 2 GRHPR 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 GRIK5 2012 loveGeneticLandscapeMutations2012 BL 2 GRIN2A 2014 zhangGenomicLandscapeMantle2014 MCL 2 @@ -217,46 +224,57 @@ GTSE1 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 HDAC7 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 HEPH 2014 zhangGenomicLandscapeMantle2014 MCL 2 HIST1H1B 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 1 -HIST1H1C 2011 morinFrequentMutationHistonemodifying2011 FL 1 -HIST1H1C 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +HIST1H1B 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H1C 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H1C 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +HIST1H1C 2011 morinFrequentMutationHistonemodifying2011 FL 1 +HIST1H1D 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H1D 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 -HIST1H1E 2019 grandeGenomewideDiscoverySomatic2019 BL 2 +HIST1H1E 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H1E 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 +HIST1H1E 2019 grandeGenomewideDiscoverySomatic2019 BL 2 HIST1H2AC 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 +HIST1H2AC 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2AG 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 +HIST1H2AG 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2AG 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H2AM 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2AM 2019 paneaWholeGenomeLandscape2019 BL 2 HIST1H2BC 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 +HIST1H2BC 2017 krysiakRecurrentSomaticMutations2017b FL 1 +HIST1H2BD 2017 krysiakRecurrentSomaticMutations2017b FL 1 +HIST1H2BG 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H2BK 2019 paneaWholeGenomeLandscape2019 BL 2 -HIST1H2BM 2023 russler-germainMutationsAssociatedProgression2023a FL 2 +HIST1H2BM 2017 krysiakRecurrentSomaticMutations2017b FL 2 HIST1H3B 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 HIST1H3D 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H3G 2017 krysiakRecurrentSomaticMutations2017b FL 1 HIST1H3H 2019 paneaWholeGenomeLandscape2019 BL 2 +HIST1H3I 2017 krysiakRecurrentSomaticMutations2017b FL 2 HIST1H3I 2019 paneaWholeGenomeLandscape2019 BL 2 -HIST1H3I 2023 russler-germainMutationsAssociatedProgression2023a FL 2 HIST1H3J 2019 paneaWholeGenomeLandscape2019 BL 2 HIST1H4J 2019 paneaWholeGenomeLandscape2019 BL 2 HIST2H2BE 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 HLA-DQA1 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 1 HLA-DQB1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 HNF1B 2011 pasqualucciAnalysisCodingGenome2011 DLBCL 2 -HNRNPH1 2020 pararajalingamCodingNoncodingDrivers2020 MCL 1 HNRNPH1 2020 pararajalingamCodingNoncodingDrivers2020 DLBCL 1 -HNRNPU 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 +HNRNPH1 2020 pararajalingamCodingNoncodingDrivers2020 MCL 1 HNRNPU 2019 paneaWholeGenomeLandscape2019 BL 1 +HNRNPU 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 HRAS 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 +HVCN1 2017 krysiakRecurrentSomaticMutations2017b FL 1 ICK 2012 loveGeneticLandscapeMutations2012 BL 2 -ID3 2012 loveGeneticLandscapeMutations2012 BL 1 ID3 2012 schmitzBurkittLymphomaPathogenesis2012 DLBCL 2 ID3 2023 russler-germainMutationsAssociatedProgression2023a FL 2 +ID3 2012 loveGeneticLandscapeMutations2012 BL 1 IER2 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 IFNGR1 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 IGLL5 2023 russler-germainMutationsAssociatedProgression2023a FL 2 IKBKB 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 IKBKE 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 -IKZF3 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 IKZF3 2019 paneaWholeGenomeLandscape2019 BL 2 +IKZF3 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 IL4R 2021 dunsCharacterizationDLBCLPMBL2021b DLBCL 1 IL6 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 INO80 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 2 @@ -283,13 +301,13 @@ KLHL21 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 KLHL26 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 KLHL6 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 KLHL6 2011 morinFrequentMutationHistonemodifying2011 FL 1 +KMT2C 2019 zhouSporadicEndemicBurkitt2019 BL 2 KMT2C 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 KMT2C 2014 zhangGenomicLandscapeMantle2014 MCL 2 -KMT2C 2019 zhouSporadicEndemicBurkitt2019 BL 2 KMT2D 2019 grandeGenomewideDiscoverySomatic2019 BL 1 -KMT2D 2013 beaLandscapeSomaticMutations2013 MCL 1 KMT2D 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 KMT2D 2011 morinFrequentMutationHistonemodifying2011 FL 1 +KMT2D 2013 beaLandscapeSomaticMutations2013 MCL 1 KRAS 2012 lohrDiscoveryPrioritizationSomatic2012a DLBCL 1 LAMA5 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 LAPTM5 2021 hubschmannMutationalMechanismsShaping2021b FL 2 @@ -310,12 +328,12 @@ MAP3K6 2012 loveGeneticLandscapeMutations2012 BL 2 MAP4K4 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 MAP7D1 2023 russler-germainMutationsAssociatedProgression2023a FL 2 MARK1 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -MCL1 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 MCL1 2019 paneaWholeGenomeLandscape2019 BL 2 +MCL1 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 MECOM 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 +MEF2B 2013 beaLandscapeSomaticMutations2013 MCL 1 MEF2B 2011 morinFrequentMutationHistonemodifying2011 FL 1 MEF2B 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 -MEF2B 2013 beaLandscapeSomaticMutations2013 MCL 1 MEF2C 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 MET 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 MGA 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 @@ -331,8 +349,8 @@ MRGPRF 2014 zhangGenomicLandscapeMantle2014 MCL 2 MS4A1 2020 rushtonGeneticEvolutionaryPatterns2020 DLBCL 1 MSH2 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 MSH6 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -MTOR 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 MTOR 2019 paneaWholeGenomeLandscape2019 BL 2 +MTOR 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 MYB 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 MYBPC2 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 MYC 2001 pasqualucciHypermutationMultipleProtooncogenes2001a DLBCL 1 @@ -360,8 +378,8 @@ NLRP8 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 NOA1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 NOL9 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 NOTCH1 2013 beaLandscapeSomaticMutations2013 MCL 1 -NOTCH1 2012 loveGeneticLandscapeMutations2012 BL 2 NOTCH1 2011 pasqualucciAnalysisCodingGenome2011 DLBCL 1 +NOTCH1 2012 loveGeneticLandscapeMutations2012 BL 2 NOTCH2 2013 beaLandscapeSomaticMutations2013 MCL 1 NOTCH2 2008 troenNOTCH2MutationsMarginal2008 DLBCL 1 NRXN2 2012 loveGeneticLandscapeMutations2012 BL 2 @@ -372,8 +390,8 @@ OR8H2 2023 russler-germainMutationsAssociatedProgression2023a FL 2 OSBPL10 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 P2RX5 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 P2RY2 2012 loveGeneticLandscapeMutations2012 BL 2 -P2RY8 2012 lohrDiscoveryPrioritizationSomatic2012a DLBCL 1 P2RY8 2014 muppidiLossSignalingGa132014b BL 1 +P2RY8 2012 lohrDiscoveryPrioritizationSomatic2012a DLBCL 1 PABPC4L 2019 paneaWholeGenomeLandscape2019 BL 2 PAPOLG 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 2 PASK 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 @@ -388,16 +406,15 @@ PCSK2 2013 beaLandscapeSomaticMutations2013 MCL 2 PDCD11 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 PDE4DIP 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 PDLIM3 2013 beaLandscapeSomaticMutations2013 MCL 2 -PDS5B 2013 morinMutationalStructuralAnalysis2013 FL 2 PDS5B 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 PDZRN3 2019 paneaWholeGenomeLandscape2019 BL 2 -PHF6 2023 thomasGeneticSubgroupsInform2023 BL 1 PHF6 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 +PHF6 2023 thomasGeneticSubgroupsInform2023 BL 1 PIK3CD 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -PIK3R1 2019 paneaWholeGenomeLandscape2019 BL 2 PIK3R1 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 2 -PIM1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 +PIK3R1 2019 paneaWholeGenomeLandscape2019 BL 2 PIM1 2001 pasqualucciHypermutationMultipleProtooncogenes2001a DLBCL 1 +PIM1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 PIM2 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 1 PKD1 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 PLCG2 2019 paneaWholeGenomeLandscape2019 BL 2 @@ -407,14 +424,15 @@ POGZ 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 POLRMT 2012 loveGeneticLandscapeMutations2012 BL 2 POR 2012 loveGeneticLandscapeMutations2012 BL 2 POT1 2014 zhangGenomicLandscapeMantle2014 MCL 1 +POU2AF1 2017 krysiakRecurrentSomaticMutations2017b FL 1 POU2F2 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 PPP4C 2021 hubschmannMutationalMechanismsShaping2021b FL 2 PPP6R2 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 PRDM1 2013 morinMutationalStructuralAnalysis2013 DLBCL 1 PREX1 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 PRKCB 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 -PRKDC 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 PRKDC 2018 schmitzGeneticsPathogenesisDiffuse2018a FL 2 +PRKDC 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 PRPS1 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 PRSS22 2012 loveGeneticLandscapeMutations2012 BL 2 PTEN 2012 loveGeneticLandscapeMutations2012 BL 1 @@ -424,8 +442,8 @@ PTPRK 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 PTPRN 2012 loveGeneticLandscapeMutations2012 BL 2 PXDNL 2019 paneaWholeGenomeLandscape2019 BL 2 PZP 2023 russler-germainMutationsAssociatedProgression2023a FL 2 -RAC2 2019 paneaWholeGenomeLandscape2019 BL 2 RAC2 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 +RAC2 2019 paneaWholeGenomeLandscape2019 BL 2 RAD9A 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 RANBP6 2012 loveGeneticLandscapeMutations2012 BL 2 RARA 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 @@ -445,11 +463,11 @@ RPL10 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 RRAGC 2016 okosunRecurrentMTORC1activatingRRAGC2016a DLBCL 1 RUNX1 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 S1PR1 2020 pararajalingamCodingNoncodingDrivers2020 MCL 1 -S1PR2 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 S1PR2 2014 muppidiLossSignalingGa132014b BL 2 +S1PR2 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 SAL3 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 -SALL3 2012 loveGeneticLandscapeMutations2012 BL 2 SALL3 2014 zhangGenomicLandscapeMantle2014 MCL 2 +SALL3 2012 loveGeneticLandscapeMutations2012 BL 2 SAMD9L 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 SAPS2 2012 loveGeneticLandscapeMutations2012 BL 2 SARM1 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 @@ -459,8 +477,8 @@ SETD1B 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 SETD2 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 2 SETD5 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 SF3B1 2012 loveGeneticLandscapeMutations2012 BL 2 -SGK1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 SGK1 2011 morinFrequentMutationHistonemodifying2011 FL 1 +SGK1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 SHANK1 2012 loveGeneticLandscapeMutations2012 BL 2 SHROOM3 2023 russler-germainMutationsAssociatedProgression2023a FL 2 SI 2014 zhangGenomicLandscapeMantle2014 MCL 2 @@ -469,10 +487,10 @@ SIN3A 2019 grandeGenomewideDiscoverySomatic2019 BL 1 SLC17A6 2013 beaLandscapeSomaticMutations2013 MCL 2 SLC29A2 2012 loveGeneticLandscapeMutations2012 BL 2 SLC34A2 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 -SMARCA4 2023 russler-germainMutationsAssociatedProgression2023a FL 1 SMARCA4 2020 nadeuGenomicEpigenomicInsights2020a MCL 1 -SMARCA4 2012 loveGeneticLandscapeMutations2012 BL 1 +SMARCA4 2017 krysiakRecurrentSomaticMutations2017b FL 1 SMARCA4 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 +SMARCA4 2012 loveGeneticLandscapeMutations2012 BL 1 SMARCB1 2020 nadeuGenomicEpigenomicInsights2020a MCL 2 SMC1A 2014 zhangGenomicLandscapeMantle2014 MCL 2 SMEK1 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 @@ -481,8 +499,8 @@ SOCS1 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 SP140 2013 beaLandscapeSomaticMutations2013 MCL 1 SP3 2019 paneaWholeGenomeLandscape2019 BL 2 SPEN 2012 rossiCodingGenomeSplenic2012c DLBCL 1 -SRRM2 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 SRRM2 2023 russler-germainMutationsAssociatedProgression2023a FL 2 +SRRM2 2013 morinMutationalStructuralAnalysis2013 DLBCL 2 ST6GAL1 2018 arthurGenomewideDiscoverySomatic2018 DLBCL 2 STAB2 2023 russler-germainMutationsAssociatedProgression2023a FL 2 STAT3 2014 ohgamiSTAT3MutationsAre2014 DLBCL 1 @@ -502,25 +520,25 @@ TBL1XR1 2016 mareschalWholeExomeSequencing2016 DLBCL 1 TCF3 2012 schmitzBurkittLymphomaPathogenesis2012 BL 1 TCL1A 2019 grandeGenomewideDiscoverySomatic2019 BL 1 TERT 2020 nadeuGenomicEpigenomicInsights2020a MCL 1 -TET2 2017 albuquerqueEnhancingKnowledgeDiscovery2017a DLBCL 1 TET2 2019 paneaWholeGenomeLandscape2019 BL 2 +TET2 2017 albuquerqueEnhancingKnowledgeDiscovery2017a DLBCL 1 TFAP4 2019 grandeGenomewideDiscoverySomatic2019 BL 1 TGFBR2 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 TIGD6 2012 loveGeneticLandscapeMutations2012 BL 2 TIPARP 2017 reddyGeneticFunctionalDrivers2017 DLBCL 2 -TLR2 2013 beaLandscapeSomaticMutations2013 MCL 1 TLR2 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 -TMEM30A 2011 morinFrequentMutationHistonemodifying2011 FL 2 +TLR2 2013 beaLandscapeSomaticMutations2013 MCL 1 TMEM30A 2011 morinFrequentMutationHistonemodifying2011 DLBCL 1 +TMEM30A 2011 morinFrequentMutationHistonemodifying2011 FL 2 TMSB4X 2017 albuquerqueEnhancingKnowledgeDiscovery2017a DLBCL 1 TNFAIP3 2009 compagnoMutationsMultipleGenes2009a DLBCL 1 -TNFRSF14 2010 cheungAcquiredTNFRSF14Mutations2010a FL 1 TNFRSF14 2010 cheungAcquiredTNFRSF14Mutations2010a DLBCL 1 +TNFRSF14 2010 cheungAcquiredTNFRSF14Mutations2010a FL 1 TNRC6B 2013 beaLandscapeSomaticMutations2013 MCL 2 TOP2A 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 TOX 2017 reddyGeneticFunctionalDrivers2017 DLBCL 1 -TP53 2013 beaLandscapeSomaticMutations2013 MCL 1 TP53 2011 morinFrequentMutationHistonemodifying2011 FL 1 +TP53 2013 beaLandscapeSomaticMutations2013 MCL 1 TPP1 2021 hubschmannMutationalMechanismsShaping2021b FL 2 TPST2 2012 loveGeneticLandscapeMutations2012 BL 2 TRAF3 2011 pasqualucciAnalysisCodingGenome2011 DLBCL 2 @@ -540,8 +558,8 @@ WDR7 2019 paneaWholeGenomeLandscape2019 BL 2 WDR90 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 WEE1 2018 schmitzGeneticsPathogenesisDiffuse2018a DLBCL 1 WHAMM 2012 schmitzBurkittLymphomaPathogenesis2012 BL 2 -WNK1 2023 thomasGeneticSubgroupsInform2023 BL 1 WNK1 2021 hubschmannMutationalMechanismsShaping2021b DLBCL 2 +WNK1 2023 thomasGeneticSubgroupsInform2023 BL 1 WNK2 2019 paneaWholeGenomeLandscape2019 BL 2 XIRP2 2023 russler-germainMutationsAssociatedProgression2023a FL 2 XPO1 2016 mareschalWholeExomeSequencing2016 DLBCL 1 @@ -562,5 +580,6 @@ ZNF229 2012 loveGeneticLandscapeMutations2012 BL 2 ZNF292 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 ZNF296 2014 zhangGenomicLandscapeMantle2014 MCL 2 ZNF423 2018 chapuyMolecularSubtypesDiffuse2018b DLBCL 2 +ZNF608 2017 krysiakRecurrentSomaticMutations2017b FL ZNF608 2013 zhangGeneticHeterogeneityDiffuse2013 DLBCL 1 ZNF85 2022 burkhardtClinicalRelevanceMolecular2022b BL 2 diff --git a/resources/curated/temp b/resources/curated/temp new file mode 100644 index 00000000..87b7d430 --- /dev/null +++ b/resources/curated/temp @@ -0,0 +1,129 @@ +Gene +ALPK2 +ARID1A +B2M +BACH2 +BCL10 +BCL11A +BCL2 +BCL2L11 +BCL6 +BCL7A +BCR +BIRC6 +BMP7 +BTG2 +C10orf12 +CARD11 +CCND3 +CCNF +CD58 +CD70 +CD79B +CD83 +CDKN2A +CDKN2C +CHD8 +CREBBP +CTCF +CXCR4 +DDX3X +DNMT1 +DTX1 +EBF1 +EHD1 +EIF4A1 +EP300 +EPPK1 +ETS1 +EZH2 +FAS +FBXO11 +FIP1L1 +FOXO1 +FZD3 +GNA13 +GNAI2 +GRB2 +HIST1H1B +HIST1H1C +HIST1H1D +HIST1H1E +HIST1H2AG +HIST1H2AM +HIST1H2BK +HIST1H3D +HIST1H3H +HIST1H3I +HIST1H3J +HIST1H4J +HLA-A +HLA-B +HLA-DMB +HNRNPU +HVCN1 +ID3 +IGLL5 +IKZF3 +IRF8 +KCNK10 +KLHL6 +KMT2D +LTB +MCL1 +MEF2B +MME +MTOR +MYC +MYD88 +MYO1E +NFKBIA +NOTCH2 +OSBPL10 +P2RY8 +PABPC4L +PCBP1 +PCDHA11 +PDZRN3 +PHF6 +PIK3R1 +PLCG2 +PMAIP1 +PRDM1 +PRKCD +PTEN +PXDNL +RAC2 +RFX7 +RHOA +RNF144B +RPL22 +S1PR2 +SEPT10 +SGK1 +SIN3A +SMARCA4 +SNTB2 +SOCS1 +SP3 +STAT3 +STAT6 +SYNCRIP +TBL1XR1 +TCF3 +TCL1A +TET2 +TFAP4 +TMEM30A +TMSB4X +TNFAIP3 +TNFRSF14 +TOX +TP53 +UBE2A +USP7 +WDR7 +WNK1 +WNK2 +ZFP36L1 +ARHGEF1