BL_Tier1.md
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-### *32 total*
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-|Gene|Summary| First BL study | Other entities | QC result |
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-|:-:|:--:|:-:|:-|:-|
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-|[ARID1A](ARID1A)|Tier 1 |[Love et al](papers/loveGeneticLandscapeMutations2012)|[@krysiakRecurrentSomaticMutations2017; @rossiCodingGenomeSplenic2012; @wienandGenomicAnalysesFlowsorted2019; @zhangGeneticHeterogeneityDiffuse2013]||
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-|[BACH2](BACH2)|Tier 1 |[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|||
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-|[BCL6](BCL6)|Tier 1 |[Love et al](papers/loveGeneticLandscapeMutations2012)|[@drevalGeneticSubdivisionsFollicular2023; @morinFrequentMutationHistonemodifying2011]|PASS|
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-|[BCL7A](BCL7A)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], FE[@balinas-gaviraFrequentMutationsAminoterminal2020], aSHM|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@krysiakRecurrentSomaticMutations2017; @morinFrequentMutationHistonemodifying2011; @reichelFlowSortingExome2015]||
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-|[BMP7](BMP7)|Tier 1 GE[@paneaWholeGenomeLandscape2019]|[Panea et al](papers/paneaWholeGenomeLandscape2019)|||
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-|[CCND3](CCND3)|Tier 1 GE[@richterRecurrentMutationID32012], FE[@schmitzBurkittLymphomaPathogenesis2012]|[Richter et al](papers/richterRecurrentMutationID32012)|[@deschGenotypingCirculatingTumor2020; @jalladesExomeSequencingIdentifies2017; @morinFrequentMutationHistonemodifying2011]||
11
-|[CHD8](CHD8)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|||
12
-|[CREBBP](CREBBP)|Tier 1 GE[@loveGeneticLandscapeMutations2012], FE[@pasqualucciInactivatingMutationsAcetyltransferase2011]|[Love et al](papers/loveGeneticLandscapeMutations2012)|[@dunsCharacterizationDLBCLPMBL2021; @parryWholeExomeSequencing2013; @pasqualucciInactivatingMutationsAcetyltransferase2011]|PASS|
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-|[DDX3X](DDX3X)|Tier 1 GE[@schmitzBurkittLymphomaPathogenesis2012], FE[@gongSequentialInverseDysregulation2021]|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|[@mottokIntegrativeGenomicAnalysis2019; @reddyGeneticFunctionalDrivers2017]||
14
-|[FBXO11](FBXO11)|Tier 1 GE[@richterRecurrentMutationID32012], FE[@duanFBXO11TargetsBCL62011]|[Richter et al](papers/richterRecurrentMutationID32012)|[@arthurGenomewideDiscoverySomatic2018; @parryWholeExomeSequencing2013]||
15
-|[FOXO1](FOXO1)|Tier 1 GE[@schmitzBurkittLymphomaPathogenesis2012], FE[@trinhAnalysisFOXO1Mutations]|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|[@dunsCharacterizationDLBCLPMBL2021; @morinFrequentMutationHistonemodifying2011]||
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-|[GNA13](GNA13)|Tier 1 GE[@loveGeneticLandscapeMutations2012], FE[@muppidiLossSignalingGa132014]|[Love et al](papers/loveGeneticLandscapeMutations2012)|[@morinFrequentMutationHistonemodifying2011; @reichelFlowSortingExome2015]||
17
-|[GNAI2](GNAI2)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], FE[@muppidiLossSignalingGa132014]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@drevalGeneticSubdivisionsFollicular2023; @morinMutationalStructuralAnalysis2013]||
18
-|[HIST1H1E](HIST1H1E)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], aSHM|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@krysiakRecurrentSomaticMutations2017; @lohrDiscoveryPrioritizationSomatic2012; @reichelFlowSortingExome2015]||
19
-|[HNRNPU](HNRNPU)|Tier 1 GE[@paneaWholeGenomeLandscape2019]|[Panea et al](papers/paneaWholeGenomeLandscape2019)|[@reddyGeneticFunctionalDrivers2017]||
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-|[ID3](ID3)|Tier 1 GE[@richterRecurrentMutationID32012]|[Richter et al](papers/richterRecurrentMutationID32012)|[@schmitzGeneticsPathogenesisDiffuse2018; @spinaGeneticsNodalMarginal2016]||
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-|[KMT2D](KMT2D)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], FE[@zhangDisruptionKMT2DPerturbs2015]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@beaLandscapeSomaticMutations2013; @deschGenotypingCirculatingTumor2020; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012]||
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-|[MYC](MYC)|Tier 1 GE[@johnstonCmycHypermutationBurkitt1992], FE[@freieGermlinePointMutation2024], aSHM|[Johnston et al](papers/johnstonCmycHypermutationBurkitt1992)|[@dunsCharacterizationDLBCLPMBL2021; @jalladesExomeSequencingIdentifies2017; @pasqualucciHypermutationMultipleProtooncogenes2001]||
23
-|[P2RY8](P2RY8)|Tier 1 GE[@muppidiLossSignalingGa132014], FE[@muppidiLossSignalingGa132014]|[Muppidi et al](papers/muppidiLossSignalingGa132014)|[@drevalGeneticSubdivisionsFollicular2023; @lohrDiscoveryPrioritizationSomatic2012]||
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-|[PCBP1](PCBP1)|Tier 1 GE[@schmitzBurkittLymphomaPathogenesis2012]|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|||
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-|[PHF6](PHF6)|Tier 1 GE[@thomasGeneticSubgroupsInform2023]|[Thomas et al](papers/thomasGeneticSubgroupsInform2023)|[@reddyGeneticFunctionalDrivers2017]||
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-|[PTEN](PTEN)|Tier 1 GE[@loveGeneticLandscapeMutations2012], FE[@pfeiferPTENLossDefines2013]|[Love et al](papers/loveGeneticLandscapeMutations2012)|[@reddyGeneticFunctionalDrivers2017]||
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-|[RFX7](RFX7)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], FE[@weberPiggyBacTransposonTools2019]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@arthurGenomewideDiscoverySomatic2018]||
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-|[RHOA](RHOA)|Tier 1 GE[@richterRecurrentMutationID32012], FE[@ohayreInactivatingMutationsGNA132016]|[Richter et al](papers/richterRecurrentMutationID32012)|[@zhangGeneticHeterogeneityDiffuse2013]||
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-|[SIN3A](SIN3A)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@chapuyMolecularSubtypesDiffuse2018; @rossiCodingGenomeSplenic2012]||
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-|[SMARCA4](SMARCA4)|Tier 1 GE[@richterRecurrentMutationID32012], FE[@fernandoFunctionalCharacterizationSMARCA42020]|[Richter et al](papers/richterRecurrentMutationID32012)|[@krysiakRecurrentSomaticMutations2017; @nadeuGenomicEpigenomicInsights2020; @reddyGeneticFunctionalDrivers2017]||
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-|[TCF3](TCF3)|Tier 1 GE[@schmitzBurkittLymphomaPathogenesis2012]|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|||
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-|[TCL1A](TCL1A)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019], aSHM|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@reddyGeneticFunctionalDrivers2017]||
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-|[TFAP4](TFAP4)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|||
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-|[TP53](TP53)|Tier 1 GE[@wildaInactivationARFMDM2p53Pathway2004], FE[@katoUnderstandingFunctionstructureFunctionmutation2003]|[Wilda et al](papers/wildaInactivationARFMDM2p53Pathway2004)|[@beaLandscapeSomaticMutations2013; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018]||
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-|[USP7](USP7)|Tier 1 GE[@grandeGenomewideDiscoverySomatic2019]|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|[@arthurGenomewideDiscoverySomatic2018]||
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-|[WNK1](WNK1)|Tier 1 GE[@thomasGeneticSubgroupsInform2023]|[Thomas et al](papers/thomasGeneticSubgroupsInform2023)|[@hubschmannMutationalMechanismsShaping2021; @jalladesExomeSequencingIdentifies2017]||
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+|Gene|Status| First BL study |
1
+|:-:|:--:|:-:|
2
+|[ARID1A](ARID1A)|Tier 1|[Love et al](papers/loveGeneticLandscapeMutations2012)|
3
+|[BACH2](BACH2)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
4
+|[BCL6](BCL6)|Tier 1|[Love et al](papers/loveGeneticLandscapeMutations2012)|
5
+|[BCL7A](BCL7A)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
6
+|[BMP7](BMP7)|Tier 1|[Panea et al](papers/paneaWholeGenomeLandscape2019)|
7
+|[CCND3](CCND3)|Tier 1|[Richter et al](papers/richterRecurrentMutationID32012)|
8
+|[CHD8](CHD8)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
9
+|[CREBBP](CREBBP)|Tier 1|[Love et al](papers/loveGeneticLandscapeMutations2012)|
10
+|[DDX3X](DDX3X)|Tier 1|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|
11
+|[EZH2](EZH2)|Tier 1|[Love et al](papers/loveGeneticLandscapeMutations2012)|
12
+|[FBXO11](FBXO11)|Tier 1|[Richter et al](papers/richterRecurrentMutationID32012)|
13
+|[FOXO1](FOXO1)|Tier 1|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|
14
+|[GNA13](GNA13)|Tier 1|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|
15
+|[GNAI2](GNAI2)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
16
+|[HIST1H1E](HIST1H1E)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
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+|[HNRNPU](HNRNPU)|Tier 1|[Panea et al](papers/paneaWholeGenomeLandscape2019)|
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+|[ID3](ID3)|Tier 1|[Richter et al](papers/richterRecurrentMutationID32012)|
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+|[IGLL5](IGLL5)|Tier 1|[Panea et al](papers/paneaWholeGenomeLandscape2019)|
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+|[KMT2D](KMT2D)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
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+|[MYC](MYC)|Tier 1|[Johnston et al](papers/johnstonCmycHypermutationBurkitt1992)|
22
+|[P2RY8](P2RY8)|Tier 1|[Muppidi et al](papers/muppidiLossSignalingGa132014)|
23
+|[PCBP1](PCBP1)|Tier 1|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|
24
+|[PHF6](PHF6)|Tier 1|[Thomas et al](papers/thomasGeneticSubgroupsInform2023)|
25
+|[PTEN](PTEN)|Tier 1|[Love et al](papers/loveGeneticLandscapeMutations2012)|
26
+|[RFX7](RFX7)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
27
+|[RHOA](RHOA)|Tier 1|[Richter et al](papers/richterRecurrentMutationID32012)|
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+|[SIN3A](SIN3A)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
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+|[SMARCA4](SMARCA4)|Tier 1|[Richter et al](papers/richterRecurrentMutationID32012)|
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+|[TCF3](TCF3)|Tier 1|[Schmitz et al](papers/schmitzBurkittLymphomaPathogenesis2012)|
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+|[TCL1A](TCL1A)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
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+|[TFAP4](TFAP4)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
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+|[TP53](TP53)|Tier 1|[Wilda et al](papers/wildaInactivationARFMDM2p53Pathway2004)|
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+|[USP7](USP7)|Tier 1|[Grande et al](papers/grandeGenomewideDiscoverySomatic2019)|
35
+|[WNK1](WNK1)|Tier 1|[Thomas et al](papers/thomasGeneticSubgroupsInform2023)|
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