DLBCL_genes.md
... ...
@@ -11,36 +11,36 @@ link-citations: true
11 11
12 12
## Tier 1 DLBCL genes
13 13
14
-### *129 total*
14
+### *128 total*
15 15
16 16
|Gene|Tier| First DLBCL evidence | Other entities |
17 17
|:-:|:-:|:--|:-|
18 18
|[ACTB](ACTB)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@wienandGenomicAnalysesFlowsorted2019b]|
19
-|[ACTG1](ACTG1)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@deschGenotypingCirculatingTumor2020; @spinaGeneticsNodalMarginal2016b]|
20
-|[ARID1A](ARID1A)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c; @wienandGenomicAnalysesFlowsorted2019b; @loveGeneticLandscapeMutations2012; @krysiakRecurrentSomaticMutations2017b]|
19
+|[ACTG1](ACTG1)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@spinaGeneticsNodalMarginal2016b; @deschGenotypingCirculatingTumor2020]|
20
+|[ARID1A](ARID1A)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@loveGeneticLandscapeMutations2012; @wienandGenomicAnalysesFlowsorted2019b; @krysiakRecurrentSomaticMutations2017b; @rossiCodingGenomeSplenic2012c]|
21 21
|[ATM](ATM)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@beaLandscapeSomaticMutations2013; @braggioGenomicAnalysisMarginal2012]|
22
-|[B2M](B2M)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @pararajalingamCodingNoncodingDrivers2020]|
22
+|[B2M](B2M)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@pararajalingamCodingNoncodingDrivers2020; @reichelFlowSortingExome2015a]|
23 23
|[BCL10](BCL10)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b; @spinaGeneticsNodalMarginal2016b]|
24 24
|[BCL2](BCL2)|1|[Tanaka et al](papers/tanakaFrequentIncidenceSomatic1992)[@tanakaFrequentIncidenceSomatic1992]|[@sarkozyMutationalLandscapeGray2021a; @morinFrequentMutationHistonemodifying2011; @burkhardtClinicalRelevanceMolecular2022b]|
25 25
|[BCL6](BCL6)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]|
26
-|[BCL7A](BCL7A)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@grandeGenomewideDiscoverySomatic2019; @krysiakRecurrentSomaticMutations2017b; @reichelFlowSortingExome2015a]|
26
+|[BCL7A](BCL7A)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@krysiakRecurrentSomaticMutations2017b; @grandeGenomewideDiscoverySomatic2019; @reichelFlowSortingExome2015a]|
27 27
|[BIRC6](BIRC6)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@sarkozyMutationalLandscapeGray2021a]|
28 28
|[BRAF](BRAF)|1|[Tiacci et al](papers/tiacciBRAFMutationsHairycell2011a)[@tiacciBRAFMutationsHairycell2011a]|[@loveGeneticLandscapeMutations2012]|
29 29
|[BTG1](BTG1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@sarkozyMutationalLandscapeGray2021a; @burkhardtClinicalRelevanceMolecular2022b]|
30 30
|[BTG2](BTG2)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012]|
31 31
|[BTK](BTK)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@krysiakRecurrentSomaticMutations2017b]|
32
-|[CARD11](CARD11)|1|[Lenz et al](papers/lenzOncogenicCARD11Mutations2008)[@lenzOncogenicCARD11Mutations2008]|[@wuGeneticHeterogeneityPrimary2016; @morinFrequentMutationHistonemodifying2011; @yanBCRTLRSignaling2012a]|
33
-|[CCND3](CCND3)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017; @richterRecurrentMutationID32012a]|
32
+|[CARD11](CARD11)|1|[Lenz et al](papers/lenzOncogenicCARD11Mutations2008)[@lenzOncogenicCARD11Mutations2008]|[@morinFrequentMutationHistonemodifying2011; @yanBCRTLRSignaling2012a; @wuGeneticHeterogeneityPrimary2016]|
33
+|[CCND3](CCND3)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@jalladesExomeSequencingIdentifies2017; @deschGenotypingCirculatingTumor2020; @richterRecurrentMutationID32012a]|
34 34
|[CD58](CD58)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@schneiderAlterationsCD58Gene2015a]|
35 35
|[CD70](CD70)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b]|
36 36
|[CD79B](CD79B)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]|
37
-|[CD83](CD83)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b; @dunsCharacterizationDLBCLPMBL2021b]|
38
-|[CDKN2A](CDKN2A)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@spinaGeneticsNodalMarginal2016b; @grandeGenomewideDiscoverySomatic2019]|
39
-|[CREBBP](CREBBP)|1|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@dunsCharacterizationDLBCLPMBL2021b; @parryWholeExomeSequencing2013; @loveGeneticLandscapeMutations2012]|
37
+|[CD83](CD83)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@russler-germainMutationsAssociatedProgression2023b; @paneaWholeGenomeLandscape2019; @dunsCharacterizationDLBCLPMBL2021b]|
38
+|[CDKN2A](CDKN2A)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]|
39
+|[CREBBP](CREBBP)|1|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@parryWholeExomeSequencing2013; @dunsCharacterizationDLBCLPMBL2021b; @loveGeneticLandscapeMutations2012]|
40 40
|[CXCR4](CXCR4)|1|[Khodabakhshi et al](papers/khodabakhshiRecurrentTargetsAberrant2012)[@khodabakhshiRecurrentTargetsAberrant2012]|[@paneaWholeGenomeLandscape2019; @krysiakRecurrentSomaticMutations2017b]|
41 41
|[CXCR5](CXCR5)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@mottokIntegrativeGenomicAnalysis2019b]|
42 42
|[DDX3X](DDX3X)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@schmitzBurkittLymphomaPathogenesis2012; @mottokIntegrativeGenomicAnalysis2019b]|
43
-|[DTX1](DTX1)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c; @loveGeneticLandscapeMutations2012; @gomezUltraDeepSequencingReveals2023]|
43
+|[DTX1](DTX1)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@gomezUltraDeepSequencingReveals2023; @rossiCodingGenomeSplenic2012c; @loveGeneticLandscapeMutations2012]|
44 44
|[DUSP2](DUSP2)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@dunsCharacterizationDLBCLPMBL2021b]|
45 45
|[EBF1](EBF1)|1|[Bohle et al](papers/bohleRoleEarlyBcell2013)[@bohleRoleEarlyBcell2013]|[@thomasGeneticSubgroupsInform2023; @reichelFlowSortingExome2015a]|
46 46
|[EEF1A1](EEF1A1)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@reichelFlowSortingExome2015a]|
... ...
@@ -49,19 +49,19 @@ link-citations: true
49 49
|[ETV6](ETV6)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
50 50
|[EZH2](EZH2)|1|[Morin et al](papers/morinSomaticMutationsAltering2010a)[@morinSomaticMutationsAltering2010a]|[@mottokIntegrativeGenomicAnalysis2019b; @loveGeneticLandscapeMutations2012]|
51 51
|[FAS](FAS)|1|[Scholl et al](papers/schollMutationsRegionFAS2007)[@schollMutationsRegionFAS2007]|[@spinaGeneticsNodalMarginal2016b]|
52
-|[FBXO11](FBXO11)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@richterRecurrentMutationID32012a; @parryWholeExomeSequencing2013]|
52
+|[FBXO11](FBXO11)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@parryWholeExomeSequencing2013; @richterRecurrentMutationID32012a]|
53 53
|[FBXW7](FBXW7)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
54 54
|[FOXO1](FOXO1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b; @schmitzBurkittLymphomaPathogenesis2012]|
55
-|[GNA13](GNA13)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @loveGeneticLandscapeMutations2012]|
55
+|[GNA13](GNA13)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@loveGeneticLandscapeMutations2012; @reichelFlowSortingExome2015a]|
56 56
|[GNAI2](GNAI2)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@grandeGenomewideDiscoverySomatic2019]|
57 57
|[GRB2](GRB2)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]||
58 58
|[GRHPR](GRHPR)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
59 59
|[HIST1H1B](HIST1H1B)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@krysiakRecurrentSomaticMutations2017b; @sarkozyMutationalLandscapeGray2021a]|
60 60
|[HIST1H1C](HIST1H1C)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]|
61
-|[HIST1H1D](HIST1H1D)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@jalladesExomeSequencingIdentifies2017; @krysiakRecurrentSomaticMutations2017b]|
62
-|[HIST1H1E](HIST1H1E)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@grandeGenomewideDiscoverySomatic2019; @reichelFlowSortingExome2015a; @krysiakRecurrentSomaticMutations2017b]|
61
+|[HIST1H1D](HIST1H1D)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b; @jalladesExomeSequencingIdentifies2017]|
62
+|[HIST1H1E](HIST1H1E)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a; @krysiakRecurrentSomaticMutations2017b; @grandeGenomewideDiscoverySomatic2019]|
63 63
|[HIST1H2AC](HIST1H2AC)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b]|
64
-|[HIST1H2AM](HIST1H2AM)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@paneaWholeGenomeLandscape2019; @krysiakRecurrentSomaticMutations2017b]|
64
+|[HIST1H2AM](HIST1H2AM)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]|
65 65
|[HIST1H2BC](HIST1H2BC)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@mottokIntegrativeGenomicAnalysis2019b; @krysiakRecurrentSomaticMutations2017b]|
66 66
|[HIST1H2BK](HIST1H2BK)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c; @paneaWholeGenomeLandscape2019]|
67 67
|[HIST1H3B](HIST1H3B)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a]|
... ...
@@ -75,14 +75,14 @@ link-citations: true
75 75
|[IKZF3](IKZF3)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]|
76 76
|[IL4R](IL4R)|1|[Duns et al](papers/dunsCharacterizationDLBCLPMBL2021b)[@dunsCharacterizationDLBCLPMBL2021b]|[@viganoSomaticIL4RMutations2018b]|
77 77
|[IRF4](IRF4)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@mottokIntegrativeGenomicAnalysis2019b]|
78
-|[IRF8](IRF8)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019; @mottokIntegrativeGenomicAnalysis2019b]|
78
+|[IRF8](IRF8)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@mottokIntegrativeGenomicAnalysis2019b; @paneaWholeGenomeLandscape2019]|
79 79
|[ITPKB](ITPKB)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@reichelFlowSortingExome2015a]|
80 80
|[JUNB](JUNB)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@mottokIntegrativeGenomicAnalysis2019b]|
81
-|[KLF2](KLF2)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@jalladesExomeSequencingIdentifies2017; @deschGenotypingCirculatingTumor2020]|
81
+|[KLF2](KLF2)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017]|
82 82
|[KLHL14](KLHL14)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
83 83
|[KLHL6](KLHL6)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@ganapathiGeneticLandscapeDural2016]|
84
-|[KMT2C](KMT2C)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@zhangGenomicLandscapeMantle2014; @zhouSporadicEndemicBurkitt2019; @sarkozyMutationalLandscapeGray2021a]|
85
-|[KMT2D](KMT2D)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@rossiCodingGenomeSplenic2012c; @grandeGenomewideDiscoverySomatic2019; @deschGenotypingCirculatingTumor2020; @beaLandscapeSomaticMutations2013]|
84
+|[KMT2C](KMT2C)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a; @zhouSporadicEndemicBurkitt2019; @zhangGenomicLandscapeMantle2014]|
85
+|[KMT2D](KMT2D)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@grandeGenomewideDiscoverySomatic2019; @rossiCodingGenomeSplenic2012c; @deschGenotypingCirculatingTumor2020; @beaLandscapeSomaticMutations2013]|
86 86
|[KRAS](KRAS)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
87 87
|[LCOR](LCOR)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
88 88
|[LRRN3](LRRN3)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a]|
... ...
@@ -93,17 +93,17 @@ link-citations: true
93 93
|[MPEG1](MPEG1)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
94 94
|[MS4A1](MS4A1)|1|[Rushton et al](papers/rushtonGeneticEvolutionaryPatterns2020)[@rushtonGeneticEvolutionaryPatterns2020]|[@mottokIntegrativeGenomicAnalysis2019b]|
95 95
|[MTOR](MTOR)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@paneaWholeGenomeLandscape2019]|
96
-|[MYC](MYC)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@dunsCharacterizationDLBCLPMBL2021b; @jalladesExomeSequencingIdentifies2017; @johnstonCmycHypermutationBurkitt1992]|
96
+|[MYC](MYC)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@johnstonCmycHypermutationBurkitt1992; @jalladesExomeSequencingIdentifies2017; @dunsCharacterizationDLBCLPMBL2021b]|
97 97
|[MYD88](MYD88)|1|[Ngo et al](papers/ngoOncogenicallyActiveMYD882011a)[@ngoOncogenicallyActiveMYD882011a]|[@yanBCRTLRSignaling2012a]|
98
-|[NFKBIA](NFKBIA)|1|[Lake et al](papers/lakeMutationsNFKBIAEncoding2009)[@lakeMutationsNFKBIAEncoding2009]|[@russler-germainMutationsAssociatedProgression2023b; @wienandGenomicAnalysesFlowsorted2019b]|
99
-|[NFKBIE](NFKBIE)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]|[@pararajalingamCodingNoncodingDrivers2020; @mansouriFrequentNFKBIEDeletions2016]|
98
+|[NFKBIA](NFKBIA)|1|[Lake et al](papers/lakeMutationsNFKBIAEncoding2009)[@lakeMutationsNFKBIAEncoding2009]|[@wienandGenomicAnalysesFlowsorted2019b; @russler-germainMutationsAssociatedProgression2023b]|
99
+|[NFKBIE](NFKBIE)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]|[@mansouriFrequentNFKBIEDeletions2016; @pararajalingamCodingNoncodingDrivers2020]|
100 100
|[NFKBIZ](NFKBIZ)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]||
101 101
|[NOL9](NOL9)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@spinaGeneticsNodalMarginal2016b]|
102
-|[NOTCH1](NOTCH1)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@beaLandscapeSomaticMutations2013; @loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c]|
103
-|[NOTCH2](NOTCH2)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c]|
102
+|[NOTCH1](NOTCH1)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@rossiCodingGenomeSplenic2012c; @loveGeneticLandscapeMutations2012; @beaLandscapeSomaticMutations2013]|
103
+|[NOTCH2](NOTCH2)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c; @beaLandscapeSomaticMutations2013]|
104 104
|[OSBPL10](OSBPL10)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
105 105
|[P2RY8](P2RY8)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@muppidiLossSignalingGa132014b]|
106
-|[PIM1](PIM1)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@burkhardtClinicalRelevanceMolecular2022b; @dunsCharacterizationDLBCLPMBL2021b]|
106
+|[PIM1](PIM1)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@dunsCharacterizationDLBCLPMBL2021b; @burkhardtClinicalRelevanceMolecular2022b]|
107 107
|[PIM2](PIM2)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|[@reichelFlowSortingExome2015a]|
108 108
|[POU2AF1](POU2AF1)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@krysiakRecurrentSomaticMutations2017b]|
109 109
|[POU2F2](POU2F2)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@krysiakRecurrentSomaticMutations2017b]|
... ...
@@ -118,10 +118,10 @@ link-citations: true
118 118
|[SETD1B](SETD1B)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]||
119 119
|[SF3B1](SF3B1)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@loveGeneticLandscapeMutations2012]|
120 120
|[SGK1](SGK1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b]|
121
-|[SIN3A](SIN3A)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@grandeGenomewideDiscoverySomatic2019; @rossiCodingGenomeSplenic2012c]|
122
-|[SMARCA4](SMARCA4)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@krysiakRecurrentSomaticMutations2017b; @nadeuGenomicEpigenomicInsights2020b; @richterRecurrentMutationID32012a]|
121
+|[SIN3A](SIN3A)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@rossiCodingGenomeSplenic2012c; @grandeGenomewideDiscoverySomatic2019]|
122
+|[SMARCA4](SMARCA4)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@nadeuGenomicEpigenomicInsights2020b; @krysiakRecurrentSomaticMutations2017b; @richterRecurrentMutationID32012a]|
123 123
|[SOCS1](SOCS1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@wenigerMutationsTumorSuppressor2006a]|
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-|[SPEN](SPEN)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@sarkozyMutationalLandscapeGray2021a; @rossiCodingGenomeSplenic2012c]|
124
+|[SPEN](SPEN)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@rossiCodingGenomeSplenic2012c; @sarkozyMutationalLandscapeGray2021a]|
125 125
|[STAT3](STAT3)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
126 126
|[STAT6](STAT6)|1|[Yildiz et al](papers/yildizActivatingSTAT6Mutations2015c)[@yildizActivatingSTAT6Mutations2015c]|[@ritzRecurrentMutationsSTAT62009a]|
127 127
|[TAF1](TAF1)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@spinaGeneticsNodalMarginal2016b]|
... ...
@@ -129,19 +129,18 @@ link-citations: true
129 129
|[TET2](TET2)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@thomasGeneticSubgroupsInform2023]|
130 130
|[TMEM30A](TMEM30A)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]||
131 131
|[TMSB4X](TMSB4X)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]||
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-|[TNFAIP3](TNFAIP3)|1|[Compagno et al](papers/compagnoMutationsMultipleGenes2009a)[@compagnoMutationsMultipleGenes2009a]|[@rossiAlterationBIRC3Multiple2011a; @schmitzTNFAIP3A20Tumor2009a]|
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-|[TNFRSF14](TNFRSF14)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@cheungAcquiredTNFRSF14Mutations2010a; @spinaGeneticsNodalMarginal2016b]|
132
+|[TNFAIP3](TNFAIP3)|1|[Compagno et al](papers/compagnoMutationsMultipleGenes2009a)[@compagnoMutationsMultipleGenes2009a]|[@schmitzTNFAIP3A20Tumor2009a; @rossiAlterationBIRC3Multiple2011a]|
133
+|[TNFRSF14](TNFRSF14)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@spinaGeneticsNodalMarginal2016b; @cheungAcquiredTNFRSF14Mutations2010a]|
134 134
|[TOX](TOX)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
135
-|[TP53](TP53)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@tiacciPervasiveMutationsJAKSTAT2018b; @rossiCodingGenomeSplenic2012c; @morinFrequentMutationHistonemodifying2011; @wildaInactivationARFMDM2p53Pathway2004; @beaLandscapeSomaticMutations2013]|
135
+|[TP53](TP53)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@beaLandscapeSomaticMutations2013; @tiacciPervasiveMutationsJAKSTAT2018b; @wildaInactivationARFMDM2p53Pathway2004; @rossiCodingGenomeSplenic2012c; @morinFrequentMutationHistonemodifying2011]|
136 136
|[TRRAP](TRRAP)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c]|
137 137
|[UBE2A](UBE2A)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a]|
138 138
|[UNC5C](UNC5C)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
139 139
|[USP7](USP7)|1||[@grandeGenomewideDiscoverySomatic2019]|
140
-|[VPS13B](VPS13B)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
141 140
|[WEE1](WEE1)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@reichelFlowSortingExome2015a]|
142 141
|[XPO1](XPO1)|1|[Mareschal et al](papers/mareschalWholeExomeSequencing2016)[@mareschalWholeExomeSequencing2016]|[@jardinRecurrentMutationsExportin2016a]|
143
-|[ZC3H12A](ZC3H12A)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
144
-|[ZFP36L1](ZFP36L1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @paneaWholeGenomeLandscape2019]|
142
+|[ZC3H12A](ZC3H12A)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
143
+|[ZFP36L1](ZFP36L1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019; @reichelFlowSortingExome2015a]|
145 144
|[ZNF292](ZNF292)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
146 145
|[ZNF608](ZNF608)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b]|
147 146
... ...
@@ -162,7 +161,7 @@ link-citations: true
162 161
|[BCL11A](BCL11A)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
163 162
|[BCOR](BCOR)|2||[@nadeuGenomicEpigenomicInsights2020b; @jalladesExomeSequencingIdentifies2017]|
164 163
|[BCR](BCR)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
165
-|[BIRC3](BIRC3)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|[@beaLandscapeSomaticMutations2013; @rossiAlterationBIRC3Multiple2011a; @dunsCharacterizationDLBCLPMBL2021b]|
164
+|[BIRC3](BIRC3)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|[@beaLandscapeSomaticMutations2013; @dunsCharacterizationDLBCLPMBL2021b; @rossiAlterationBIRC3Multiple2011a]|
166 165
|[BLK](BLK)|2|||
167 166
|[BRINP3](BRINP3)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
168 167
|[BTBD3](BTBD3)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
... ...
@@ -208,7 +207,7 @@ link-citations: true
208 207
|[GSG2](GSG2)|2|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]||
209 208
|[H1FOO](H1FOO)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
210 209
|[HDAC7](HDAC7)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
211
-|[HIST1H2AG](HIST1H2AG)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019; @rossiCodingGenomeSplenic2012c]|
210
+|[HIST1H2AG](HIST1H2AG)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@paneaWholeGenomeLandscape2019; @rossiCodingGenomeSplenic2012c; @krysiakRecurrentSomaticMutations2017b]|
212 211
|[HIST1H2AL](HIST1H2AL)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
213 212
|[HIST1H2BO](HIST1H2BO)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
214 213
|[HLA-DMA](HLA-DMA)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
... ...
@@ -217,8 +216,8 @@ link-citations: true
217 216
|[HNRNPH1](HNRNPH1)|2|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)[@pararajalingamCodingNoncodingDrivers2020]||
218 217
|[ID3](ID3)|2|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)[@schmitzBurkittLymphomaPathogenesis2012]|[@richterRecurrentMutationID32012a; @spinaGeneticsNodalMarginal2016b]|
219 218
|[IFNGR1](IFNGR1)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
220
-|[IGLL5](IGLL5)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@paneaWholeGenomeLandscape2019; @deschGenotypingCirculatingTumor2020; @russler-germainMutationsAssociatedProgression2023b]|
221
-|[IKBKB](IKBKB)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@wienandGenomicAnalysesFlowsorted2019b; @rossiAlterationBIRC3Multiple2011a]|
219
+|[IGLL5](IGLL5)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@russler-germainMutationsAssociatedProgression2023b; @deschGenotypingCirculatingTumor2020; @paneaWholeGenomeLandscape2019]|
220
+|[IKBKB](IKBKB)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@rossiAlterationBIRC3Multiple2011a; @wienandGenomicAnalysesFlowsorted2019b]|
222 221
|[IKBKE](IKBKE)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
223 222
|[IL16](IL16)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
224 223
|[IL6](IL6)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
... ...
@@ -321,7 +320,7 @@ link-citations: true
321 320
|[UNC5B](UNC5B)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
322 321
|[UNC5D](UNC5D)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
323 322
|[WDFY3](WDFY3)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
324
-|[WNK1](WNK1)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@thomasGeneticSubgroupsInform2023; @jalladesExomeSequencingIdentifies2017]|
323
+|[WNK1](WNK1)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@jalladesExomeSequencingIdentifies2017; @thomasGeneticSubgroupsInform2023]|
325 324
|[XBP1](XBP1)|2|||
326 325
|[YY1](YY1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
327 326
|[ZCCHC7](ZCCHC7)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||