DLBCL_genes.md
... ...
@@ -11,33 +11,33 @@ link-citations: true
11 11
12 12
## Tier 1 DLBCL genes
13 13
14
-### *127 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]|[@wienandGenomicAnalysesFlowsorted2019b; @loveGeneticLandscapeMutations2012; @krysiakRecurrentSomaticMutations2017b; @rossiCodingGenomeSplenic2012c]|
21
-|[ATM](ATM)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@braggioGenomicAnalysisMarginal2012; @beaLandscapeSomaticMutations2013]|
22
-|[B2M](B2M)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @pararajalingamCodingNoncodingDrivers2020]|
23
-|[BCL10](BCL10)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@spinaGeneticsNodalMarginal2016b; @russler-germainMutationsAssociatedProgression2023b]|
24
-|[BCL2](BCL2)|1|[Tanaka et al](papers/tanakaFrequentIncidenceSomatic1992)[@tanakaFrequentIncidenceSomatic1992]|[@burkhardtClinicalRelevanceMolecular2022b; @morinFrequentMutationHistonemodifying2011; @sarkozyMutationalLandscapeGray2021a]|
19
+|[ACTG1](ACTG1)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@spinaGeneticsNodalMarginal2016b; @deschGenotypingCirculatingTumor2020]|
20
+|[ARID1A](ARID1A)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@loveGeneticLandscapeMutations2012; @krysiakRecurrentSomaticMutations2017b; @wienandGenomicAnalysesFlowsorted2019b; @rossiCodingGenomeSplenic2012c]|
21
+|[ATM](ATM)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@beaLandscapeSomaticMutations2013; @braggioGenomicAnalysisMarginal2012]|
22
+|[B2M](B2M)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@pararajalingamCodingNoncodingDrivers2020; @reichelFlowSortingExome2015a]|
23
+|[BCL10](BCL10)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@russler-germainMutationsAssociatedProgression2023b; @spinaGeneticsNodalMarginal2016b]|
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|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@grandeGenomewideDiscoverySomatic2019; @krysiakRecurrentSomaticMutations2017b; @reichelFlowSortingExome2015a]|
26
+|[BCL7A](BCL7A)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@krysiakRecurrentSomaticMutations2017b; @reichelFlowSortingExome2015a; @grandeGenomewideDiscoverySomatic2019]|
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
-|[BTG1](BTG1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@sarkozyMutationalLandscapeGray2021a; @burkhardtClinicalRelevanceMolecular2022b]|
29
+|[BTG1](BTG1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@burkhardtClinicalRelevanceMolecular2022b; @sarkozyMutationalLandscapeGray2021a]|
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]|[@yanBCRTLRSignaling2012a; @wuGeneticHeterogeneityPrimary2016; @morinFrequentMutationHistonemodifying2011]|
33
-|[CCND3](CCND3)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@richterRecurrentMutationID32012a; @jalladesExomeSequencingIdentifies2017; @deschGenotypingCirculatingTumor2020]|
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]|
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 37
|[CD83](CD83)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@dunsCharacterizationDLBCLPMBL2021b; @paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b]|
38
-|[CDKN2A](CDKN2A)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@spinaGeneticsNodalMarginal2016b; @grandeGenomewideDiscoverySomatic2019]|
39
-|[CREBBP](CREBBP)|1|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@loveGeneticLandscapeMutations2012; @parryWholeExomeSequencing2013; @dunsCharacterizationDLBCLPMBL2021b]|
40
-|[CXCR4](CXCR4)|1|[Khodabakhshi et al](papers/khodabakhshiRecurrentTargetsAberrant2012)[@khodabakhshiRecurrentTargetsAberrant2012]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]|
38
+|[CDKN2A](CDKN2A)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@grandeGenomewideDiscoverySomatic2019; @spinaGeneticsNodalMarginal2016b]|
39
+|[CREBBP](CREBBP)|1|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@dunsCharacterizationDLBCLPMBL2021b; @parryWholeExomeSequencing2013; @loveGeneticLandscapeMutations2012]|
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 43
|[DTX1](DTX1)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c; @gomezUltraDeepSequencingReveals2023]|
... ...
@@ -47,23 +47,23 @@ link-citations: true
47 47
|[EP300](EP300)|1|[Pasqualucci et al](papers/pasqualucciInactivatingMutationsAcetyltransferase2011a)[@pasqualucciInactivatingMutationsAcetyltransferase2011a]|[@rossiCodingGenomeSplenic2012c]|
48 48
|[ETS1](ETS1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]|
49 49
|[ETV6](ETV6)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
50
-|[EZH2](EZH2)|1|[Morin et al](papers/morinSomaticMutationsAltering2010a)[@morinSomaticMutationsAltering2010a]|[@loveGeneticLandscapeMutations2012; @mottokIntegrativeGenomicAnalysis2019b]|
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 52
|[FBXO11](FBXO11)|1|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@parryWholeExomeSequencing2013; @richterRecurrentMutationID32012a]|
53 53
|[FBXW7](FBXW7)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
54
-|[FOXO1](FOXO1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b; @schmitzBurkittLymphomaPathogenesis2012]|
54
+|[FOXO1](FOXO1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@schmitzBurkittLymphomaPathogenesis2012; @dunsCharacterizationDLBCLPMBL2021b]|
55 55
|[GNA13](GNA13)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @loveGeneticLandscapeMutations2012]|
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]|[@sarkozyMutationalLandscapeGray2021a; @krysiakRecurrentSomaticMutations2017b]|
60 60
|[HIST1H1C](HIST1H1C)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019]|
61
-|[HIST1H1D](HIST1H1D)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b; @jalladesExomeSequencingIdentifies2017]|
62
-|[HIST1H1E](HIST1H1E)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a; @grandeGenomewideDiscoverySomatic2019; @krysiakRecurrentSomaticMutations2017b]|
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]|
63 63
|[HIST1H2AC](HIST1H2AC)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b]|
64
-|[HIST1H2AM](HIST1H2AM)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@paneaWholeGenomeLandscape2019; @krysiakRecurrentSomaticMutations2017b]|
65
-|[HIST1H2BC](HIST1H2BC)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@mottokIntegrativeGenomicAnalysis2019b; @krysiakRecurrentSomaticMutations2017b]|
66
-|[HIST1H2BK](HIST1H2BK)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c; @paneaWholeGenomeLandscape2019]|
64
+|[HIST1H2AM](HIST1H2AM)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]|
65
+|[HIST1H2BC](HIST1H2BC)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@krysiakRecurrentSomaticMutations2017b; @mottokIntegrativeGenomicAnalysis2019b]|
66
+|[HIST1H2BK](HIST1H2BK)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@paneaWholeGenomeLandscape2019; @rossiCodingGenomeSplenic2012c]|
67 67
|[HIST1H3B](HIST1H3B)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a]|
68 68
|[HIST2H2BE](HIST2H2BE)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]||
69 69
|[HLA-A](HLA-A)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@deschGenotypingCirculatingTumor2020]|
... ...
@@ -75,15 +75,16 @@ link-citations: true
75 75
|[IKZF3](IKZF3)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@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]|[@mottokIntegrativeGenomicAnalysis2019b; @paneaWholeGenomeLandscape2019]|
78
+|[IRF8](IRF8)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019; @mottokIntegrativeGenomicAnalysis2019b]|
79 79
|[ITPKB](ITPKB)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@reichelFlowSortingExome2015a]|
80
-|[KLF2](KLF2)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017]|
80
+|[KLF2](KLF2)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@jalladesExomeSequencingIdentifies2017; @deschGenotypingCirculatingTumor2020]|
81 81
|[KLHL14](KLHL14)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
82 82
|[KLHL6](KLHL6)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@ganapathiGeneticLandscapeDural2016]|
83
-|[KMT2C](KMT2C)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@zhouSporadicEndemicBurkitt2019; @sarkozyMutationalLandscapeGray2021a; @zhangGenomicLandscapeMantle2014]|
84
-|[KMT2D](KMT2D)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@beaLandscapeSomaticMutations2013; @deschGenotypingCirculatingTumor2020; @rossiCodingGenomeSplenic2012c; @grandeGenomewideDiscoverySomatic2019]|
83
+|[KMT2C](KMT2C)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a; @zhangGenomicLandscapeMantle2014; @zhouSporadicEndemicBurkitt2019]|
84
+|[KMT2D](KMT2D)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@grandeGenomewideDiscoverySomatic2019; @deschGenotypingCirculatingTumor2020; @rossiCodingGenomeSplenic2012c; @beaLandscapeSomaticMutations2013]|
85 85
|[KRAS](KRAS)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
86 86
|[LCOR](LCOR)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
87
+|[LRRN3](LRRN3)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a]|
87 88
|[LTB](LTB)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@deschGenotypingCirculatingTumor2020]|
88 89
|[MEF2B](MEF2B)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@beaLandscapeSomaticMutations2013]|
89 90
|[MEF2C](MEF2C)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
... ...
@@ -91,13 +92,13 @@ link-citations: true
91 92
|[MPEG1](MPEG1)|1|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
92 93
|[MS4A1](MS4A1)|1|[Rushton et al](papers/rushtonGeneticEvolutionaryPatterns2020)[@rushtonGeneticEvolutionaryPatterns2020]|[@mottokIntegrativeGenomicAnalysis2019b]|
93 94
|[MTOR](MTOR)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@paneaWholeGenomeLandscape2019]|
94
-|[MYC](MYC)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@jalladesExomeSequencingIdentifies2017; @dunsCharacterizationDLBCLPMBL2021b; @johnstonCmycHypermutationBurkitt1992]|
95
+|[MYC](MYC)|1|[Pasqualucci et al](papers/pasqualucciHypermutationMultipleProtooncogenes2001a)[@pasqualucciHypermutationMultipleProtooncogenes2001a]|[@dunsCharacterizationDLBCLPMBL2021b; @jalladesExomeSequencingIdentifies2017; @johnstonCmycHypermutationBurkitt1992]|
95 96
|[MYD88](MYD88)|1|[Ngo et al](papers/ngoOncogenicallyActiveMYD882011a)[@ngoOncogenicallyActiveMYD882011a]|[@yanBCRTLRSignaling2012a]|
96
-|[NFKBIA](NFKBIA)|1|[Lake et al](papers/lakeMutationsNFKBIAEncoding2009)[@lakeMutationsNFKBIAEncoding2009]|[@wienandGenomicAnalysesFlowsorted2019b; @russler-germainMutationsAssociatedProgression2023b]|
97
-|[NFKBIE](NFKBIE)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]|[@pararajalingamCodingNoncodingDrivers2020; @mansouriFrequentNFKBIEDeletions2016]|
97
+|[NFKBIA](NFKBIA)|1|[Lake et al](papers/lakeMutationsNFKBIAEncoding2009)[@lakeMutationsNFKBIAEncoding2009]|[@russler-germainMutationsAssociatedProgression2023b; @wienandGenomicAnalysesFlowsorted2019b]|
98
+|[NFKBIE](NFKBIE)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]|[@mansouriFrequentNFKBIEDeletions2016; @pararajalingamCodingNoncodingDrivers2020]|
98 99
|[NFKBIZ](NFKBIZ)|1|[Morin et al](papers/morinGeneticLandscapesRelapsed2016)[@morinGeneticLandscapesRelapsed2016]||
99 100
|[NOL9](NOL9)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@spinaGeneticsNodalMarginal2016b]|
100
-|[NOTCH1](NOTCH1)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c; @loveGeneticLandscapeMutations2012]|
101
+|[NOTCH1](NOTCH1)|1|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]|[@loveGeneticLandscapeMutations2012; @rossiCodingGenomeSplenic2012c; @beaLandscapeSomaticMutations2013]|
101 102
|[NOTCH2](NOTCH2)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c]|
102 103
|[OSBPL10](OSBPL10)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
103 104
|[P2RY8](P2RY8)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@muppidiLossSignalingGa132014b]|
... ...
@@ -117,7 +118,7 @@ link-citations: true
117 118
|[SF3B1](SF3B1)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@loveGeneticLandscapeMutations2012]|
118 119
|[SGK1](SGK1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@dunsCharacterizationDLBCLPMBL2021b]|
119 120
|[SIN3A](SIN3A)|1|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@grandeGenomewideDiscoverySomatic2019; @rossiCodingGenomeSplenic2012c]|
120
-|[SMARCA4](SMARCA4)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@richterRecurrentMutationID32012a; @nadeuGenomicEpigenomicInsights2020b; @krysiakRecurrentSomaticMutations2017b]|
121
+|[SMARCA4](SMARCA4)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@krysiakRecurrentSomaticMutations2017b; @richterRecurrentMutationID32012a; @nadeuGenomicEpigenomicInsights2020b]|
121 122
|[SOCS1](SOCS1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@wenigerMutationsTumorSuppressor2006a]|
122 123
|[SPEN](SPEN)|1|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|[@sarkozyMutationalLandscapeGray2021a; @rossiCodingGenomeSplenic2012c]|
123 124
|[STAT3](STAT3)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
... ...
@@ -130,7 +131,7 @@ link-citations: true
130 131
|[TNFAIP3](TNFAIP3)|1|[Compagno et al](papers/compagnoMutationsMultipleGenes2009a)[@compagnoMutationsMultipleGenes2009a]|[@schmitzTNFAIP3A20Tumor2009a; @rossiAlterationBIRC3Multiple2011a]|
131 132
|[TNFRSF14](TNFRSF14)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@cheungAcquiredTNFRSF14Mutations2010a; @spinaGeneticsNodalMarginal2016b]|
132 133
|[TOX](TOX)|1|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
133
-|[TP53](TP53)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@beaLandscapeSomaticMutations2013; @rossiCodingGenomeSplenic2012c; @wildaInactivationARFMDM2p53Pathway2004; @morinFrequentMutationHistonemodifying2011; @tiacciPervasiveMutationsJAKSTAT2018b]|
134
+|[TP53](TP53)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@rossiCodingGenomeSplenic2012c; @morinFrequentMutationHistonemodifying2011; @beaLandscapeSomaticMutations2013; @tiacciPervasiveMutationsJAKSTAT2018b; @wildaInactivationARFMDM2p53Pathway2004]|
134 135
|[TRRAP](TRRAP)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@rossiCodingGenomeSplenic2012c]|
135 136
|[UBE2A](UBE2A)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|[@reichelFlowSortingExome2015a]|
136 137
|[UNC5C](UNC5C)|1|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
... ...
@@ -139,13 +140,13 @@ link-citations: true
139 140
|[WEE1](WEE1)|1|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]|[@reichelFlowSortingExome2015a]|
140 141
|[XPO1](XPO1)|1|[Mareschal et al](papers/mareschalWholeExomeSequencing2016)[@mareschalWholeExomeSequencing2016]|[@jardinRecurrentMutationsExportin2016a]|
141 142
|[ZC3H12A](ZC3H12A)|1|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
142
-|[ZFP36L1](ZFP36L1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@reichelFlowSortingExome2015a; @paneaWholeGenomeLandscape2019]|
143
+|[ZFP36L1](ZFP36L1)|1|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]|[@paneaWholeGenomeLandscape2019; @reichelFlowSortingExome2015a]|
143 144
|[ZNF292](ZNF292)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
144 145
|[ZNF608](ZNF608)|1|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@krysiakRecurrentSomaticMutations2017b]|
145 146
146 147
## Tier 2 DLBCL genes
147 148
148
-### *176 total*
149
+### *179 total*
149 150
150 151
|Gene|Tier| First DLBCL evidence | Other entities |
151 152
|:-:|:-:|:--|:-|
... ...
@@ -153,13 +154,14 @@ link-citations: true
153 154
|[ADAMTS1](ADAMTS1)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
154 155
|[AICDA](AICDA)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
155 156
|[ANKRD12](ANKRD12)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
157
+|[ANKRD17](ANKRD17)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
156 158
|[ARID5B](ARID5B)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@gomezUltraDeepSequencingReveals2023]|
157 159
|[ASXL3](ASXL3)|2|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]||
158 160
|[ATR](ATR)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
159 161
|[BCL11A](BCL11A)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
160 162
|[BCOR](BCOR)|2||[@jalladesExomeSequencingIdentifies2017; @nadeuGenomicEpigenomicInsights2020b]|
161 163
|[BCR](BCR)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
162
-|[BIRC3](BIRC3)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|[@dunsCharacterizationDLBCLPMBL2021b; @rossiAlterationBIRC3Multiple2011a; @beaLandscapeSomaticMutations2013]|
164
+|[BIRC3](BIRC3)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|[@beaLandscapeSomaticMutations2013; @dunsCharacterizationDLBCLPMBL2021b; @rossiAlterationBIRC3Multiple2011a]|
163 165
|[BLK](BLK)|2|||
164 166
|[BRINP3](BRINP3)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
165 167
|[BTBD3](BTBD3)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
... ...
@@ -179,6 +181,7 @@ link-citations: true
179 181
|[CPS1](CPS1)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
180 182
|[CRIP1](CRIP1)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
181 183
|[DAZAP1](DAZAP1)|2|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)[@pararajalingamCodingNoncodingDrivers2020]||
184
+|[DDX10](DDX10)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
182 185
|[DHX16](DHX16)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
183 186
|[DNAH5](DNAH5)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@jalladesExomeSequencingIdentifies2017]|
184 187
|[DNM2](DNM2)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
... ...
@@ -191,7 +194,7 @@ link-citations: true
191 194
|[FAM102A](FAM102A)|2|||
192 195
|[FANK1](FANK1)|2|||
193 196
|[FAT2](FAT2)|2|[Morin et al](papers/morinFrequentMutationHistonemodifying2011)[@morinFrequentMutationHistonemodifying2011]||
194
-|[FAT4](FAT4)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@parryWholeExomeSequencing2013; @zhangGenomicLandscapeMantle2014]|
197
+|[FAT4](FAT4)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@zhangGenomicLandscapeMantle2014; @parryWholeExomeSequencing2013]|
195 198
|[FCRL3](FCRL3)|2|||
196 199
|[FNBP1](FNBP1)|2|||
197 200
|[FOXC1](FOXC1)|2|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]||
... ...
@@ -204,17 +207,17 @@ link-citations: true
204 207
|[GSG2](GSG2)|2|[Schmitz et al](papers/schmitzGeneticsPathogenesisDiffuse2018a)[@schmitzGeneticsPathogenesisDiffuse2018a]||
205 208
|[H1FOO](H1FOO)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
206 209
|[HDAC7](HDAC7)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
207
-|[HIST1H2AG](HIST1H2AG)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019; @rossiCodingGenomeSplenic2012c]|
210
+|[HIST1H2AG](HIST1H2AG)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@rossiCodingGenomeSplenic2012c; @krysiakRecurrentSomaticMutations2017b; @paneaWholeGenomeLandscape2019]|
208 211
|[HIST1H2AL](HIST1H2AL)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
209 212
|[HIST1H2BO](HIST1H2BO)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
210 213
|[HLA-DMA](HLA-DMA)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
211 214
|[HNF1B](HNF1B)|2|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]||
212 215
|[HNRNPD](HNRNPD)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
213 216
|[HNRNPH1](HNRNPH1)|2|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)[@pararajalingamCodingNoncodingDrivers2020]||
214
-|[ID3](ID3)|2|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)[@schmitzBurkittLymphomaPathogenesis2012]|[@spinaGeneticsNodalMarginal2016b; @richterRecurrentMutationID32012a]|
217
+|[ID3](ID3)|2|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)[@schmitzBurkittLymphomaPathogenesis2012]|[@richterRecurrentMutationID32012a; @spinaGeneticsNodalMarginal2016b]|
215 218
|[IFNGR1](IFNGR1)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
216
-|[IGLL5](IGLL5)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@paneaWholeGenomeLandscape2019; @deschGenotypingCirculatingTumor2020; @russler-germainMutationsAssociatedProgression2023b]|
217
-|[IKBKB](IKBKB)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@wienandGenomicAnalysesFlowsorted2019b; @rossiAlterationBIRC3Multiple2011a]|
219
+|[IGLL5](IGLL5)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]|[@paneaWholeGenomeLandscape2019; @russler-germainMutationsAssociatedProgression2023b; @deschGenotypingCirculatingTumor2020]|
220
+|[IKBKB](IKBKB)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@rossiAlterationBIRC3Multiple2011a; @wienandGenomicAnalysesFlowsorted2019b]|
218 221
|[IKBKE](IKBKE)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
219 222
|[IL16](IL16)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
220 223
|[IL6](IL6)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
... ...
@@ -234,7 +237,7 @@ link-citations: true
234 237
|[MAGT1](MAGT1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
235 238
|[MALAT1](MALAT1)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
236 239
|[MAP2K1](MAP2K1)|2|[Shin et al](papers/shinBRAFV600EMAP2K12015)[@shinBRAFV600EMAP2K12015]|[@louissaintPediatrictypeNodalFollicular2016a]|
237
-|[MCL1](MCL1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@paneaWholeGenomeLandscape2019; @dunsCharacterizationDLBCLPMBL2021b]|
240
+|[MCL1](MCL1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@dunsCharacterizationDLBCLPMBL2021b; @paneaWholeGenomeLandscape2019]|
238 241
|[MECOM](MECOM)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
239 242
|[MET](MET)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
240 243
|[MIR142](MIR142)|2|[Kwanhian et al](papers/kwanhianMicroRNA142Mutated202012b)[@kwanhianMicroRNA142Mutated202012b]|[@grandeGenomewideDiscoverySomatic2019]|
... ...
@@ -246,7 +249,7 @@ link-citations: true
246 249
|[MYOM2](MYOM2)|2|[Pasqualucci et al](papers/pasqualucciAnalysisCodingGenome2011)[@pasqualucciAnalysisCodingGenome2011]||
247 250
|[NAV1](NAV1)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||
248 251
|[NCOA3](NCOA3)|2|||
249
-|[NCOR2](NCOR2)|2||[@schmitzBurkittLymphomaPathogenesis2012; @spinaGeneticsNodalMarginal2016b; @sarkozyMutationalLandscapeGray2021a]|
252
+|[NCOR2](NCOR2)|2||[@spinaGeneticsNodalMarginal2016b; @schmitzBurkittLymphomaPathogenesis2012; @sarkozyMutationalLandscapeGray2021a]|
250 253
|[NEAT1](NEAT1)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]||
251 254
|[NF1](NF1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
252 255
|[NFKB1](NFKB1)|2|||
... ...
@@ -265,6 +268,7 @@ link-citations: true
265 268
|[PCLO](PCLO)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
266 269
|[PDGFC](PDGFC)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]||
267 270
|[PDS5B](PDS5B)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@hubschmannMutationalMechanismsShaping2021b]|
271
+|[PIK3CD](PIK3CD)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
268 272
|[PIK3R1](PIK3R1)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@paneaWholeGenomeLandscape2019]|
269 273
|[PNPO](PNPO)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||
270 274
|[PPP1R9B](PPP1R9B)|2|||
... ...
@@ -328,7 +332,7 @@ link-citations: true
328 332
329 333
## Tier 3 DLBCL genes
330 334
331
-### *389 total*
335
+### *385 total*
332 336
333 337
|Gene|Tier| First DLBCL evidence | Other entities |
334 338
|:-:|:-:|:--|:-|
... ...
@@ -353,7 +357,6 @@ link-citations: true
353 357
|[AMIGO3](AMIGO3)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
354 358
|[AMPH](AMPH)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
355 359
|[ANK2](ANK2)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@zhangGenomicLandscapeMantle2014]|
356
-|[ANKRD17](ANKRD17)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
357 360
|[ANKRD44](ANKRD44)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
358 361
|[ANTXR1](ANTXR1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
359 362
|[AP1G2](AP1G2)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
... ...
@@ -423,7 +426,6 @@ link-citations: true
423 426
|[CYYR1](CYYR1)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
424 427
|[DCAF6](DCAF6)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
425 428
|[DDB1](DDB1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
426
-|[DDX10](DDX10)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
427 429
|[DGCR8](DGCR8)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
428 430
|[DHX33](DHX33)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
429 431
|[DIAPH3](DIAPH3)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
... ...
@@ -537,7 +539,6 @@ link-citations: true
537 539
|[LRP10](LRP10)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
538 540
|[LRP1B](LRP1B)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@spinaGeneticsNodalMarginal2016b]|
539 541
|[LRP3](LRP3)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
540
-|[LRRN3](LRRN3)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@sarkozyMutationalLandscapeGray2021a]|
541 542
|[LYST](LYST)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
542 543
|[MAP2K3](MAP2K3)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
543 544
|[MAP4K4](MAP4K4)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||
... ...
@@ -602,7 +603,6 @@ link-citations: true
602 603
|[PFN1](PFN1)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
603 604
|[PGR](PGR)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
604 605
|[PHF6](PHF6)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@thomasGeneticSubgroupsInform2023]|
605
-|[PIK3CD](PIK3CD)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
606 606
|[PKD1](PKD1)|3|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]||
607 607
|[PLA2G4B](PLA2G4B)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]||
608 608
|[PLCB4](PLCB4)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]||
papers/zhangGeneticHeterogeneityDiffuse2013.md
... ...
@@ -8,7 +8,7 @@ bibliography: 'morinlab.bib'
8 8
9 9
|Entity| Tier 1 genes| Tier 2 genes|Tier 3 genes|
10 10
|:-:|:-:|:-:|:-:|
11
-|DLBCL|15|13|272|
11
+|DLBCL|16|13|271|
12 12
```mermaid
13 13
---
14 14
config:
... ...
@@ -22,12 +22,12 @@ config:
22 22
suffix: ' genes)'
23 23
---
24 24
sankey-beta
25
-This study, New Tier 1, 15
26
-New Tier 1, DLBCL Tier 1, 15
25
+This study, New Tier 1, 16
26
+New Tier 1, DLBCL Tier 1, 16
27 27
This study, New Tier 2, 13
28 28
New Tier 2, DLBCL Tier 2, 13
29
-This study, New Tier 3, 272
30
-New Tier 3, DLBCL Tier 3, 272
29
+This study, New Tier 3, 271
30
+New Tier 3, DLBCL Tier 3, 271
31 31
All other DLBCL studies, DLBCL Tier 1, 112
32 32
All other DLBCL studies, DLBCL Tier 2, 166
33 33
All other DLBCL studies, DLBCL Tier 3, 114
... ...
@@ -45,6 +45,7 @@ All other DLBCL studies, DLBCL Tier 3, 114
45 45
|[HIST1H2BK](../HIST1H2BK)|1 |
46 46
|[KLHL14](../KLHL14)|1 |
47 47
|[KMT2C](../KMT2C)|1 |
48
+|[LRRN3](../LRRN3)|1 |
48 49
|[MGA](../MGA)|1 |
49 50
|[MTOR](../MTOR)|1 |
50 51
|[NOTCH2](../NOTCH2)|1 |
... ...
@@ -225,7 +226,6 @@ All other DLBCL studies, DLBCL Tier 3, 114
225 226
|[LRP10](../LRP10)|3 |
226 227
|[LRP1B](../LRP1B)|3 |
227 228
|[LRP3](../LRP3)|3 |
228
-|[LRRN3](../LRRN3)|3 |
229 229
|[LYST](../LYST)|3 |
230 230
|[MARCHF7](../MARCHF7)|3 |
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|[MBL2](../MBL2)|3 |