DLBCL_genes.md
... ...
@@ -46,7 +46,7 @@ link-citations: true
46 46
|[EEF1A1](EEF1A1)|Tier 1 GE[@hubschmannMutationalMechanismsShaping2021b], CE[@gongExpressionClinicalValue2021]|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)|[@reichelFlowSortingExome2015a]||
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
-|[ETV6](ETV6)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|||
49
+|[ETV6](ETV6)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a], CE[@guoSGK1MutationStatus2022b]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|||
50 50
|[EZH2](EZH2)|Tier 1 GE[@morinSomaticMutationsAltering2010a], FE[@yapSomaticMutationsEZH22011b]|[Morin et al](papers/morinSomaticMutationsAltering2010a)|[@loveGeneticLandscapeMutations2012; @mottokIntegrativeGenomicAnalysis2019b]||
51 51
|[FAS](FAS)|Tier 1 GE[@schollMutationsRegionFAS2007], FE[@seebergerLossFasCD952001]|[Scholl et al](papers/schollMutationsRegionFAS2007)|[@spinaGeneticsNodalMarginal2016b]||
52 52
|[FBXO11](FBXO11)|Tier 1 GE[@hubschmannMutationalMechanismsShaping2021b], FE[@schneiderFBXO11InactivationLeads2016b]|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)|[@parryWholeExomeSequencing2013; @richterRecurrentMutationID32012a]||
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@@ -89,12 +89,12 @@ link-citations: true
89 89
|[LTB](LTB)|Tier 1 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)|[@deschGenotypingCirculatingTumor2020]||
90 90
|[MEF2B](MEF2B)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@yingMEF2BMutationsLead]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@beaLandscapeSomaticMutations2013]||
91 91
|[MEF2C](MEF2C)|Tier 1 GE[@arthurGenomewideDiscoverySomatic2018], FE[@jingjingNovelMEF2CMutation2020]|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)|||
92
-|[MGA](MGA)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@jalladesExomeSequencingIdentifies2017]||
93
-|[MPEG1](MPEG1)|Tier 1 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|||
92
+|[MGA](MGA)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017], CE[@guoSGK1MutationStatus2022b]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@jalladesExomeSequencingIdentifies2017]||
93
+|[MPEG1](MPEG1)|Tier 1 GE[@morinMutationalStructuralAnalysis2013], CE[@guoSGK1MutationStatus2022b]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|||
94 94
|[MS4A1](MS4A1)|Tier 1 GE[@rushtonGeneticEvolutionaryPatterns2020]|[Rushton et al](papers/rushtonGeneticEvolutionaryPatterns2020)|[@mottokIntegrativeGenomicAnalysis2019b]||
95 95
|[MTOR](MTOR)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@paneaWholeGenomeLandscape2019]||
96 96
|[MYC](MYC)|Tier 1 GE[@pasqualucciHypermutationMultipleProtooncogenes2001a], FE[@giallongoIdentificationCmycOncogene1983], CE[@christieCMYCTranslocation142008]|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)|[@dunsCharacterizationDLBCLPMBL2021b; @jalladesExomeSequencingIdentifies2017; @johnstonCmycHypermutationBurkitt1992]||
97
-|[MYD88](MYD88)|Tier 1 GE[@ngoOncogenicallyActiveMYD882011a], FE[@ngoOncogenicallyActiveMYD882011a]|[Ngo et al](papers/ngoOncogenicallyActiveMYD882011a)|[@yanBCRTLRSignaling2012a]||
97
+|[MYD88](MYD88)|Tier 1 GE[@ngoOncogenicallyActiveMYD882011a], FE[@ngoOncogenicallyActiveMYD882011a], CE[@guoSGK1MutationStatus2022b]|[Ngo et al](papers/ngoOncogenicallyActiveMYD882011a)|[@yanBCRTLRSignaling2012a]||
98 98
|[NFKBIA](NFKBIA)|Tier 1 GE[@lakeMutationsNFKBIAEncoding2009]|[Lake et al](papers/lakeMutationsNFKBIAEncoding2009)|[@russler-germainMutationsAssociatedProgression2023b; @wienandGenomicAnalysesFlowsorted2019b]||
99 99
|[NFKBIE](NFKBIE)|Tier 1 GE[@morinGeneticLandscapesRelapsed2016]|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)|[@mansouriFrequentNFKBIEDeletions2016; @pararajalingamCodingNoncodingDrivers2020]||
100 100
|[NFKBIZ](NFKBIZ)|Tier 1 GE[@morinGeneticLandscapesRelapsed2016], FE[@arthurGenomewideDiscoverySomatic2018]|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)|||
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@@ -103,7 +103,7 @@ link-citations: true
103 103
|[NOTCH2](NOTCH2)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], CE[@campos-martinClinicalDiagnosticRelevance2017]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c]||
104 104
|[OSBPL10](OSBPL10)|Tier 1 GE[@zhangGeneticHeterogeneityDiffuse2013], CE[@dobashiTP53OSBPL10Alterations2018b]|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)|||
105 105
|[P2RY8](P2RY8)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a], FE[@muppidiLossSignalingGa132014b]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@muppidiLossSignalingGa132014b]||
106
-|[PIM1](PIM1)|Tier 1 GE[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)|[@burkhardtClinicalRelevanceMolecular2022b; @dunsCharacterizationDLBCLPMBL2021b]||
106
+|[PIM1](PIM1)|Tier 1 GE[@pasqualucciHypermutationMultipleProtooncogenes2001a], CE[@guoSGK1MutationStatus2022b]|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)|[@burkhardtClinicalRelevanceMolecular2022b; @dunsCharacterizationDLBCLPMBL2021b]||
107 107
|[PIM2](PIM2)|Tier 1 GE[@arthurGenomewideDiscoverySomatic2018]|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)|[@reichelFlowSortingExome2015a]||
108 108
|[POU2AF1](POU2AF1)|Tier 1 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)|[@krysiakRecurrentSomaticMutations2017b]||
109 109
|[POU2F2](POU2F2)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@krysiakRecurrentSomaticMutations2017b]||
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@@ -120,7 +120,7 @@ link-citations: true
120 120
|[SIN3A](SIN3A)|Tier 1 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)|[@grandeGenomewideDiscoverySomatic2019; @rossiCodingGenomeSplenic2012c]||
121 121
|[SMARCA4](SMARCA4)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017], FE[@dengSMARCA4HaploinsufficientCell2024]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|[@krysiakRecurrentSomaticMutations2017b; @nadeuGenomicEpigenomicInsights2020b; @richterRecurrentMutationID32012a]||
122 122
|[SOCS1](SOCS1)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@wenigerMutationsTumorSuppressor2006a]||
123
-|[SPEN](SPEN)|Tier 1 GE[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)|[@rossiCodingGenomeSplenic2012c; @sarkozyMutationalLandscapeGray2021a]||
123
+|[SPEN](SPEN)|Tier 1 GE[@albuquerqueEnhancingKnowledgeDiscovery2017a], CE[@guoSGK1MutationStatus2022b]|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)|[@rossiCodingGenomeSplenic2012c; @sarkozyMutationalLandscapeGray2021a]||
124 124
|[STAT3](STAT3)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|||
125 125
|[STAT6](STAT6)|Tier 1 GE[@yildizActivatingSTAT6Mutations2015c], FE[@yildizActivatingSTAT6Mutations2015c]|[Yildiz et al](papers/yildizActivatingSTAT6Mutations2015c)|[@ritzRecurrentMutationsSTAT62009a]||
126 126
|[TAF1](TAF1)|Tier 1 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)|[@spinaGeneticsNodalMarginal2016b]||
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@@ -129,7 +129,7 @@ link-citations: true
129 129
|[TMEM30A](TMEM30A)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], FE[@ennishiTMEM30ALossoffunctionMutations2020b], CE[@ennishiTMEM30ALossoffunctionMutations2020b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|||
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
-|[TNFRSF14](TNFRSF14)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@cheungAcquiredTNFRSF14Mutations2010a; @spinaGeneticsNodalMarginal2016b]||
132
+|[TNFRSF14](TNFRSF14)|Tier 1 GE[@morinFrequentMutationHistonemodifying2011], CE[@guoSGK1MutationStatus2022b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@cheungAcquiredTNFRSF14Mutations2010a; @spinaGeneticsNodalMarginal2016b]||
133 133
|[TOX](TOX)|Tier 1 GE[@reddyGeneticFunctionalDrivers2017]|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)|||
134 134
|[TP53](TP53)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a], FE[@rowhTp53DeletionLineage2011]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@beaLandscapeSomaticMutations2013; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012c; @tiacciPervasiveMutationsJAKSTAT2018b; @wildaInactivationARFMDM2p53Pathway2004]||
135 135
|[UBE2A](UBE2A)|Tier 1 GE[@lohrDiscoveryPrioritizationSomatic2012a]|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)|[@reichelFlowSortingExome2015a]||
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@@ -170,7 +170,7 @@ link-citations: true
170 170
|[CD74](CD74)|Tier 2 GE[@arthurGenomewideDiscoverySomatic2018]|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)|||
171 171
|[CDH9](CDH9)|Tier 2 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)||PASS|
172 172
|[CEP164](CEP164)|Tier 2 GE[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)|||
173
-|[CIITA](CIITA)|Tier 2 GE[@morinFrequentMutationHistonemodifying2011]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@mottokGenomicAlterationsCIITA2015b]||
173
+|[CIITA](CIITA)|Tier 2 GE[@morinFrequentMutationHistonemodifying2011], CE[@guoSGK1MutationStatus2022b]|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)|[@mottokGenomicAlterationsCIITA2015b]||
174 174
|[CNOT2](CNOT2)|Tier 2 GE[@hubschmannMutationalMechanismsShaping2021b]|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)||PASS|
175 175
|[CNTNAP5](CNTNAP5)|Tier 2 GE[@morinMutationalStructuralAnalysis2013]|[Morin et al](papers/morinMutationalStructuralAnalysis2013)||PASS|
176 176
|[COQ7](COQ7)|Tier 2 GE[@chapuyMolecularSubtypesDiffuse2018b]|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)||PASS|