DLBCL_genes.md
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@@ -19,35 +19,35 @@ link-citations: true
19 19
|[ACTG1](ACTG1)|Tier 1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@deschGenotypingCirculatingTumor2020; @spinaGeneticsNodalMarginal2016b]||
20 20
|[ARID1A](ARID1A)|Tier 1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@krysiakRecurrentSomaticMutations2017b; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c; @wienandGenomicAnalysesFlowsorted2019b]||
21 21
|[ATM](ATM)|Tier 1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@beaLandscapeSomaticMutations2013; @braggioGenomicAnalysisMarginal2012]||
22
-|[B2M](B2M)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@pararajalingamCodingNoncodingDrivers2020; @reichelFlowSortingExome2015a]||
23
-|[BCL10](BCL10)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b; @spinaGeneticsNodalMarginal2016b]||
24
-|[BCL2](BCL2)|Tier 1, EE, CE|[Tanaka et al](papers/tanakaFrequentIncidenceSomatic1992)[@tanakaFrequentIncidenceSomatic1992]|[@burkhardtClinicalRelevanceMolecular2022b; @morinFrequentMutationHistonemodifying2011; @sarkozyMutationalLandscapeGray2021a]||
25
-|[BCL6](BCL6)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]||
26
-|[BCL7A](BCL7A)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@grandeGenomewideDiscoverySomatic2019; @krysiakRecurrentSomaticMutations2017b; @reichelFlowSortingExome2015a]||
22
+|[B2M](B2M)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@pararajalingamCodingNoncodingDrivers2020; @reichelFlowSortingExome2015a]||
23
+|[BCL10](BCL10)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b; @spinaGeneticsNodalMarginal2016b]||
24
+|[BCL2](BCL2)|Tier 1, EE|[Tanaka et al](papers/tanakaFrequentIncidenceSomatic1992)[@tanakaFrequentIncidenceSomatic1992]|[@burkhardtClinicalRelevanceMolecular2022b; @morinFrequentMutationHistonemodifying2011; @sarkozyMutationalLandscapeGray2021a]||
25
+|[BCL6](BCL6)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]||
26
+|[BCL7A](BCL7A)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@grandeGenomewideDiscoverySomatic2019; @krysiakRecurrentSomaticMutations2017b; @reichelFlowSortingExome2015a]||
27 27
|[BIRC6](BIRC6)|Tier 1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@sarkozyMutationalLandscapeGray2021a]||
28 28
|[BRAF](BRAF)|Tier 1|[Tiacci et al](papers/tiacciBRAFMutationsHairycell2011a)[@tiacciBRAFMutationsHairycell2011a]|[@loveGeneticLandscapeMutations2012]||
29
-|[BTG1](BTG1)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@burkhardtClinicalRelevanceMolecular2022b; @sarkozyMutationalLandscapeGray2021a]||
30
-|[BTG2](BTG2)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]||
29
+|[BTG1](BTG1)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@burkhardtClinicalRelevanceMolecular2022b; @sarkozyMutationalLandscapeGray2021a]||
30
+|[BTG2](BTG2)|Tier 1, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]||
31 31
|[BTK](BTK)|Tier 1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@krysiakRecurrentSomaticMutations2017b]||
32 32
|[CARD11](CARD11)|Tier 1, EE, CE|[Lenz et al](papers/lenzOncogenicCARD11Mutations2008)[@lenzOncogenicCARD11Mutations2008]|[@morinFrequentMutationHistonemodifying2011; @wuGeneticHeterogeneityPrimary2016; @yanBCRTLRSignaling2012a]||
33
-|[CCND3](CCND3)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017; @richterRecurrentMutationID32012a]||
34
-|[CD58](CD58)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@schneiderAlterationsCD58Gene2015a]||
33
+|[CCND3](CCND3)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017; @richterRecurrentMutationID32012a]||
34
+|[CD58](CD58)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@schneiderAlterationsCD58Gene2015a]||
35 35
|[CD70](CD70)|Tier 1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b]||
36
-|[CD79B](CD79B)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]||
36
+|[CD79B](CD79B)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]||
37 37
|[CD83](CD83)|Tier 1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@dunsCharacterizationDLBCLPMBL2021b; @paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b]||
38
-|[CDKN2A](CDKN2A)|Tier 1, EE, CE|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]||
39
-|[CREBBP](CREBBP)|Tier 1, EE, CE|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@dunsCharacterizationDLBCLPMBL2021b; @loveGeneticLandscapeMutations2012; @parryWholeExomeSequencing2013]||
38
+|[CDKN2A](CDKN2A)|Tier 1, CE|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]||
39
+|[CREBBP](CREBBP)|Tier 1, EE|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@dunsCharacterizationDLBCLPMBL2021b; @loveGeneticLandscapeMutations2012; @parryWholeExomeSequencing2013]||
40 40
|[CXCR4](CXCR4)|Tier 1|[Khodabakhshi et al](papers/khodabakhshiRecurrentTargetsAberrant2012)[@khodabakhshiRecurrentTargetsAberrant2012]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]||
41 41
|[CXCR5](CXCR5)|Tier 1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@mottokIntegrativeGenomicAnalysis2019b]||
42 42
|[DDX3X](DDX3X)|Tier 1, EE, CE|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@mottokIntegrativeGenomicAnalysis2019b; @schmitzBurkittLymphomaPathogenesis2012]||
43 43
|[DTX1](DTX1)|Tier 1, EE, CE|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@gomezUltraDeepSequencingReveals2023; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]||
44 44
|[DUSP2](DUSP2)|Tier 1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@dunsCharacterizationDLBCLPMBL2021b]||
45 45
|[EBF1](EBF1)|Tier 1|[Bohle et al](papers/bohleRoleEarlyBcell2013)[@bohleRoleEarlyBcell2013]|[@reichelFlowSortingExome2015a; @thomasGeneticSubgroupsInform2023]||
46
-|[EEF1A1](EEF1A1)|Tier 1, EE, CE|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@reichelFlowSortingExome2015a]||
47
-|[EP300](EP300)|Tier 1, EE, CE|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@rossiCodingGenomeSplenic2012c]||
46
+|[EEF1A1](EEF1A1)|Tier 1, CE|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@reichelFlowSortingExome2015a]||
47
+|[EP300](EP300)|Tier 1, EE|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@rossiCodingGenomeSplenic2012c]||
48 48
|[ETS1](ETS1)|Tier 1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]||
49 49
|[ETV6](ETV6)|Tier 1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|||
50
-|[EZH2](EZH2)|Tier 1, EE, CE|[Morin et al](papers/morinSomaticMutationsAltering2010a)[@morinSomaticMutationsAltering2010a]|[@loveGeneticLandscapeMutations2012; @mottokIntegrativeGenomicAnalysis2019b]||
50
+|[EZH2](EZH2)|Tier 1, EE|[Morin et al](papers/morinSomaticMutationsAltering2010a)[@morinSomaticMutationsAltering2010a]|[@loveGeneticLandscapeMutations2012; @mottokIntegrativeGenomicAnalysis2019b]||
51 51
|[FAS](FAS)|Tier 1|[Scholl et al](papers/schollMutationsRegionFAS2007)[@schollMutationsRegionFAS2007]|[@spinaGeneticsNodalMarginal2016b]||
52 52
|[FBXO11](FBXO11)|Tier 1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@parryWholeExomeSequencing2013; @richterRecurrentMutationID32012a]||
53 53
|[FBXW7](FBXW7)|Tier 1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||
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@@ -87,7 +87,7 @@ link-citations: true
87 87
|[LCOR](LCOR)|Tier 1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|||
88 88
|[LRRN3](LRRN3)|Tier 1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a]||
89 89
|[LTB](LTB)|Tier 1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@deschGenotypingCirculatingTumor2020]||
90
-|[MEF2B](MEF2B)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@beaLandscapeSomaticMutations2013]||
90
+|[MEF2B](MEF2B)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@beaLandscapeSomaticMutations2013]||
91 91
|[MEF2C](MEF2C)|Tier 1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|||
92 92
|[MGA](MGA)|Tier 1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@jalladesExomeSequencingIdentifies2017]||
93 93
|[MPEG1](MPEG1)|Tier 1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|||
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@@ -116,9 +116,9 @@ link-citations: true
116 116
|[S1PR2](S1PR2)|Tier 1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@muppidiLossSignalingGa132014b]||
117 117
|[SETD1B](SETD1B)|Tier 1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|||
118 118
|[SF3B1](SF3B1)|Tier 1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@loveGeneticLandscapeMutations2012]||
119
-|[SGK1](SGK1)|Tier 1, EE, CE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b]||
119
+|[SGK1](SGK1)|Tier 1, EE|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b]||
120 120
|[SIN3A](SIN3A)|Tier 1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@grandeGenomewideDiscoverySomatic2019; @rossiCodingGenomeSplenic2012c]||
121
-|[SMARCA4](SMARCA4)|Tier 1, EE, CE|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@krysiakRecurrentSomaticMutations2017b; @nadeuGenomicEpigenomicInsights2020b; @richterRecurrentMutationID32012a]||
121
+|[SMARCA4](SMARCA4)|Tier 1, EE|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@krysiakRecurrentSomaticMutations2017b; @nadeuGenomicEpigenomicInsights2020b; @richterRecurrentMutationID32012a]||
122 122
|[SOCS1](SOCS1)|Tier 1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@wenigerMutationsTumorSuppressor2006a]||
123 123
|[SPEN](SPEN)|Tier 1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@rossiCodingGenomeSplenic2012c; @sarkozyMutationalLandscapeGray2021a]||
124 124
|[STAT3](STAT3)|Tier 1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|||