7e22b513c88a008edf6a8ee8b87f9c2d7ff58e9e
DLBCL_genes.md
| ... | ... | @@ -27,23 +27,23 @@ link-citations: true |
| 27 | 27 | |[BIRC6](BIRC6)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@sarkozyMutationalLandscapeGray2021a]|| |
| 28 | 28 | |[BRAF](BRAF)|Tier 1 GE[@tiacciBRAFMutationsHairycell2011a]|[Tiacci et al](papers/tiacciBRAFMutationsHairycell2011a)|[@loveGeneticLandscapeMutations2012]|| |
| 29 | 29 | |[BTG1](BTG1)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@mlynarczykBTG1MutationYields2023b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@burkhardtClinicalRelevanceMolecular2022b; @sarkozyMutationalLandscapeGray2021a]|| |
| 30 | -|[BTG2](BTG2)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@loveGeneticLandscapeMutations2012]|| |
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| 30 | +|[BTG2](BTG2)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], CE[@guoMutationBTG2Gene2022b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@loveGeneticLandscapeMutations2012]|| |
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| 31 | 31 | |[BTK](BTK)|Tier 1 GE[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)|[@krysiakRecurrentSomaticMutations2017b]|| |
| 32 | -|[CARD11](CARD11)|Tier 1 GE[@lenzOncogenicCARD11Mutations2008], FE[@lenzOncogenicCARD11Mutations2008], CE|[Lenz et al](papers/lenzOncogenicCARD11Mutations2008)|[@morinFrequentMutationHistonemodifying2011; @wuGeneticHeterogeneityPrimary2016; @yanBCRTLRSignaling2012a]|| |
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| 32 | +|[CARD11](CARD11)|Tier 1 GE[@lenzOncogenicCARD11Mutations2008], FE[@lenzOncogenicCARD11Mutations2008], CE[@zhaoExpressionPrognosticValue2016]|[Lenz et al](papers/lenzOncogenicCARD11Mutations2008)|[@morinFrequentMutationHistonemodifying2011; @wuGeneticHeterogeneityPrimary2016; @yanBCRTLRSignaling2012a]|| |
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| 33 | 33 | |[CCND3](CCND3)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@schmitzBurkittLymphomaPathogenesis2012]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017; @richterRecurrentMutationID32012a]|| |
| 34 | 34 | |[CD58](CD58)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@challa-malladiCombinedGeneticInactivationa]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@schneiderAlterationsCD58Gene2015a]|| |
| 35 | 35 | |[CD70](CD70)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@russler-germainMutationsAssociatedProgression2023b]|| |
| 36 | 36 | |[CD79B](CD79B)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@davisChronicActiveBcellreceptor2010]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@paneaWholeGenomeLandscape2019]|| |
| 37 | 37 | |[CD83](CD83)|Tier 1 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@dunsCharacterizationDLBCLPMBL2021b; @paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b]|| |
| 38 | -|[CDKN2A](CDKN2A)|Tier 1 GE[@morinMutationalStructuralAnalysis2013], CE|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]|| |
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| 38 | +|[CDKN2A](CDKN2A)|Tier 1 GE[@morinMutationalStructuralAnalysis2013], CE[@jardinDiffuseLargeBcell2010a]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]|| |
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| 39 | 39 | |[CREBBP](CREBBP)|Tier 1 GE[@pasqualucciInactivatingMutationsAcetyltransferase2011a], FE[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)|[@dunsCharacterizationDLBCLPMBL2021b; @loveGeneticLandscapeMutations2012; @parryWholeExomeSequencing2013]|| |
| 40 | 40 | |[CXCR4](CXCR4)|Tier 1 GE[@khodabakhshiRecurrentTargetsAberrant2012]|[Khodabakhshi et al](papers/khodabakhshiRecurrentTargetsAberrant2012)|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]|| |
| 41 | 41 | |[CXCR5](CXCR5)|Tier 1 GE[@schmitzGeneticsPathogenesisDiffuse2018a]|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)|[@mottokIntegrativeGenomicAnalysis2019b]|| |
| 42 | -|[DDX3X](DDX3X)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017], FE[@gongSequentialInverseDysregulation2021], CE|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@mottokIntegrativeGenomicAnalysis2019b; @schmitzBurkittLymphomaPathogenesis2012]|| |
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| 43 | -|[DTX1](DTX1)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], FE[@demirandaExomeSequencingReveals2014], CE|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@gomezUltraDeepSequencingReveals2023; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]|| |
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| 42 | +|[DDX3X](DDX3X)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017], FE[@gongSequentialInverseDysregulation2021], CE[@kizhakeyilDDX3XLossAdverse2021]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@mottokIntegrativeGenomicAnalysis2019b; @schmitzBurkittLymphomaPathogenesis2012]|| |
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| 43 | +|[DTX1](DTX1)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], FE[@demirandaExomeSequencingReveals2014], CE[@merirantaDeltex1MutationsPredict2017b]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@gomezUltraDeepSequencingReveals2023; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]|| |
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| 44 | 44 | |[DUSP2](DUSP2)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@dunsCharacterizationDLBCLPMBL2021b]|| |
| 45 | 45 | |[EBF1](EBF1)|Tier 1 GE[@bohleRoleEarlyBcell2013]|[Bohle et al](papers/bohleRoleEarlyBcell2013)|[@reichelFlowSortingExome2015a; @thomasGeneticSubgroupsInform2023]|| |
| 46 | -|[EEF1A1](EEF1A1)|Tier 1 GE[@hubschmannMutationalMechanismsShaping2021b], CE|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)|[@reichelFlowSortingExome2015a]|| |
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| 46 | +|[EEF1A1](EEF1A1)|Tier 1 GE[@hubschmannMutationalMechanismsShaping2021b], CE[@gongExpressionClinicalValue2021]|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)|[@reichelFlowSortingExome2015a]|| |
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| 47 | 47 | |[EP300](EP300)|Tier 1 GE[@pasqualucciInactivatingMutationsAcetyltransferase2011a], FE[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)|[@rossiCodingGenomeSplenic2012c]|| |
| 48 | 48 | |[ETS1](ETS1)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@paneaWholeGenomeLandscape2019]|| |
| 49 | 49 | |[ETV6](ETV6)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)||| |
| ... | ... | @@ -51,7 +51,7 @@ link-citations: true |
| 51 | 51 | |[FAS](FAS)|Tier 1 GE[@schollMutationsRegionFAS2007]|[Scholl et al](papers/schollMutationsRegionFAS2007)|[@spinaGeneticsNodalMarginal2016b]|| |
| 52 | 52 | |[FBXO11](FBXO11)|Tier 1 GE[@hubschmannMutationalMechanismsShaping2021b]|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)|[@parryWholeExomeSequencing2013; @richterRecurrentMutationID32012a]|| |
| 53 | 53 | |[FBXW7](FBXW7)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)||| |
| 54 | -|[FOXO1](FOXO1)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@trinhAnalysisFOXO1Mutations], CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@dunsCharacterizationDLBCLPMBL2021b; @schmitzBurkittLymphomaPathogenesis2012]|| |
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| 54 | +|[FOXO1](FOXO1)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@trinhAnalysisFOXO1Mutations], CE[@trinhAnalysisFOXO1Mutations]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@dunsCharacterizationDLBCLPMBL2021b; @schmitzBurkittLymphomaPathogenesis2012]|| |
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| 55 | 55 | |[GNA13](GNA13)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@muppidiLossSignalingGa132014b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@loveGeneticLandscapeMutations2012; @reichelFlowSortingExome2015a]|| |
| 56 | 56 | |[GNAI2](GNAI2)|Tier 1 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@grandeGenomewideDiscoverySomatic2019]|| |
| 57 | 57 | |[GRB2](GRB2)|Tier 1 GE[@pasqualucciAnalysisCodingGenome2011]|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)||| |
| ... | ... | @@ -99,8 +99,8 @@ link-citations: true |
| 99 | 99 | |[NFKBIE](NFKBIE)|Tier 1 GE[@morinGeneticLandscapesRelapsed2016]|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)|[@mansouriFrequentNFKBIEDeletions2016; @pararajalingamCodingNoncodingDrivers2020]|| |
| 100 | 100 | |[NFKBIZ](NFKBIZ)|Tier 1 GE[@morinGeneticLandscapesRelapsed2016]|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)||| |
| 101 | 101 | |[NOL9](NOL9)|Tier 1 GE[@schmitzGeneticsPathogenesisDiffuse2018a]|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)|[@spinaGeneticsNodalMarginal2016b]|| |
| 102 | -|[NOTCH1](NOTCH1)|Tier 1 GE[@pasqualucciAnalysisCodingGenome2011], CE|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)|[@beaLandscapeSomaticMutations2013; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]|| |
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| 103 | -|[NOTCH2](NOTCH2)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], CE|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c]|| |
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| 102 | +|[NOTCH1](NOTCH1)|Tier 1 GE[@pasqualucciAnalysisCodingGenome2011], CE[@kridelWholeTranscriptomeSequencing2012]|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)|[@beaLandscapeSomaticMutations2013; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]|| |
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| 103 | +|[NOTCH2](NOTCH2)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], CE[@SMZL]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c]|| |
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| 104 | 104 | |[OSBPL10](OSBPL10)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)||| |
| 105 | 105 | |[P2RY8](P2RY8)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@muppidiLossSignalingGa132014b]|| |
| 106 | 106 | |[PIM1](PIM1)|Tier 1 GE[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)|[@burkhardtClinicalRelevanceMolecular2022b; @dunsCharacterizationDLBCLPMBL2021b]|| |
| ... | ... | @@ -126,7 +126,7 @@ link-citations: true |
| 126 | 126 | |[TAF1](TAF1)|Tier 1 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@spinaGeneticsNodalMarginal2016b]|| |
| 127 | 127 | |[TBL1XR1](TBL1XR1)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@rossiCodingGenomeSplenic2012c]|| |
| 128 | 128 | |[TET2](TET2)|Tier 1 GE[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)|[@thomasGeneticSubgroupsInform2023]|| |
| 129 | -|[TMEM30A](TMEM30A)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@ennishiTMEM30ALossoffunctionMutations2020b], CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)||| |
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| 129 | +|[TMEM30A](TMEM30A)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@ennishiTMEM30ALossoffunctionMutations2020b], CE[@ennishiTMEM30ALossoffunctionMutations2020b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)||| |
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| 130 | 130 | |[TMSB4X](TMSB4X)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)||| |
| 131 | 131 | |[TNFAIP3](TNFAIP3)|Tier 1 GE[@compagnoMutationsMultipleGenes2009a]|[Compagno et al](papers/compagnoMutationsMultipleGenes2009a)|[@rossiAlterationBIRC3Multiple2011a; @schmitzTNFAIP3A20Tumor2009a]|| |
| 132 | 132 | |[TNFRSF14](TNFRSF14)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@cheungAcquiredTNFRSF14Mutations2010a; @spinaGeneticsNodalMarginal2016b]|| |
| ... | ... | @@ -209,7 +209,7 @@ link-citations: true |
| 209 | 209 | |[HLA-DMA](HLA-DMA)|Tier 2 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)||| |
| 210 | 210 | |[HNF1B](HNF1B)|Tier 2 GE[@pasqualucciAnalysisCodingGenome2011]|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)||| |
| 211 | 211 | |[HNRNPD](HNRNPD)|Tier 2 GE[@reddyGeneticFunctionalDrivers2017]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)||| |
| 212 | -|[HNRNPH1](HNRNPH1)|Tier 2 GE[@pararajalingamCodingNoncodingDrivers2020], FE[@pararajalingamCodingNoncodingDrivers2020], CE|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||| |
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| 212 | +|[HNRNPH1](HNRNPH1)|Tier 2 GE[@pararajalingamCodingNoncodingDrivers2020], FE[@pararajalingamCodingNoncodingDrivers2020], CE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||| |
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| 213 | 213 | |[ID3](ID3)|Tier 2 GE[@schmitzBurkittLymphomaPathogenesis2012]|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|[@richterRecurrentMutationID32012a; @spinaGeneticsNodalMarginal2016b]|| |
| 214 | 214 | |[IFNGR1](IFNGR1)|Tier 2 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)||PASS| |
| 215 | 215 | |[IGLL5](IGLL5)|Tier 2 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)|[@deschGenotypingCirculatingTumor2020; @paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b]|| |