MCL_genes - morinlab/LLMPP GitHub Wiki
title: 'MCL genes' bibliography: 'morinlab.bib' csl: 'NLM.csl' link-citations: true
Origins of MCL genes
Tier 1, high-confidence MCL genes
23 total
| Gene | Summary | First MCL study | Other entities | QC result |
|---|---|---|---|---|
| ATM | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@camachoATMGeneInactivation2002] | Bea et al | [@braggioGenomicAnalysisMarginal2012; @reddyGeneticFunctionalDrivers2017] | |
| BIRC3 | Tier 1 GE[@beaLandscapeSomaticMutations2013], aSHM | Bea et al | [@arthurGenomewideDiscoverySomatic2018; @dunsCharacterizationDLBCLPMBL2021; @rossiAlterationBIRC3Multiple2011] | |
| CARD11 | Tier 1 GE[@wuGeneticHeterogeneityPrimary2016], FE[@lenzOncogenicCARD11Mutations2008] | Wu et al | [@lenzOncogenicCARD11Mutations2008; @morinFrequentMutationHistonemodifying2011; @yanBCRTLRSignaling2012] | |
| CCND1 | Tier 1 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| DAZAP1 | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020] | Pararajalingam et al | ||
| EWSR1 | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020] | Pararajalingam et al | ||
| HNRNPH1 | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020] | Pararajalingam et al | ||
| KMT2D | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@zhangDisruptionKMT2DPerturbs2015] | Bea et al | [@deschGenotypingCirculatingTumor2020; @grandeGenomewideDiscoverySomatic2019; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012] | |
| MEF2B | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@ponMEF2BMutationsNonHodgkin2015], aSHM | Bea et al | [@morinFrequentMutationHistonemodifying2011] | |
| NFKBIE | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020], FE[@mansouriFunctionalLossIkBe2015] | Pararajalingam et al | [@mansouriFrequentNFKBIEDeletions2016; @morinGeneticLandscapesRelapsed2016] | |
| NOTCH1 | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@ryanCellRegulomeLinks2017] | Bea et al | [@loveGeneticLandscapeMutations2012; @pasqualucciAnalysisCodingGenome2011; @rossiCodingGenomeSplenic2012] | |
| NOTCH2 | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@leeGainoffunctionMutationsCopy2009] | Bea et al | [@rossiCodingGenomeSplenic2012; @zhangGeneticHeterogeneityDiffuse2013] | |
| NSD2 | Tier 1 GE[@beaLandscapeSomaticMutations2013] | Bea et al | [@zhangGeneticHeterogeneityDiffuse2013] | |
| POT1 | Tier 1 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| RB1 | Tier 1 GE[@zhangGenomicLandscapeMantle2014], FE[@pinyolInactivationRB1Mantlecell2007] | Zhang et al | [@morinMutationalStructuralAnalysis2013] | |
| S1PR1 | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020] | Pararajalingam et al | [@lohrDiscoveryPrioritizationSomatic2012] | |
| SMARCA4 | Tier 1 GE[@nadeuGenomicEpigenomicInsights2020b], FE[@fernandoFunctionalCharacterizationSMARCA42020] | Nadeu et al | [@krysiakRecurrentSomaticMutations2017; @reddyGeneticFunctionalDrivers2017; @richterRecurrentMutationID32012] | |
| SP140 | Tier 1 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| SYNE1 | Tier 1 GE[@nadeuGenomicEpigenomicInsights2020b] | Nadeu et al | ||
| TERT | Tier 1 GE[@nadeuGenomicEpigenomicInsights2020b] | Nadeu et al | ||
| TLR2 | Tier 1 GE[@beaLandscapeSomaticMutations2013] | Bea et al | [@chapuyMolecularSubtypesDiffuse2018] | |
| TP53 | Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@katoUnderstandingFunctionstructureFunctionmutation2003] | Bea et al | [@morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018; @wildaInactivationARFMDM2p53Pathway2004] | |
| UBR5 | Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020] | Pararajalingam et al | [@albuquerqueEnhancingKnowledgeDiscovery2017] |
Tier 2, low-confidence MCL genes
46 total
| Gene | Summary | First MCL study | Other entities | QC result |
|---|---|---|---|---|
| ABCA3 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | [@zhangGeneticHeterogeneityDiffuse2013] | |
| ABCC9 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| ANK2 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@zhangGeneticHeterogeneityDiffuse2013] | |
| ARID1B | Tier 2 GE | [@reddyGeneticFunctionalDrivers2017] | ||
| ATP11C | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| B2M | Tier 2 GE[@pararajalingamCodingNoncodingDrivers2020], FE[@challa-malladiCombinedGeneticInactivation2011] | Pararajalingam et al | [@morinFrequentMutationHistonemodifying2011; @reichelFlowSortingExome2015] | |
| BCOR | Tier 2 GE[@nadeuGenomicEpigenomicInsights2020b] | Nadeu et al | [@jalladesExomeSequencingIdentifies2017] | |
| CDH8 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@reddyGeneticFunctionalDrivers2017] | |
| CHMP4C | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| COL11A1 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| COL16A1 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| CRYBG3 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| CTNNA2 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| DCP1B | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| DHDH | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| DLC1 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| DLGAP2 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| DNAJC6 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| EIF2AK4 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| ESX1 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| FAT4 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@morinMutationalStructuralAnalysis2013; @parryWholeExomeSequencing2013] | |
| GRIN2A | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| HEPH | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| KCNC2 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| KIAA1671 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| KMT2C | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@sarkozyMutationalLandscapeGray2021; @zhangGeneticHeterogeneityDiffuse2013; @zhouSporadicEndemicBurkitt2019] | |
| LUZP4 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| MRGPRF | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| NIN | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| OGDHL | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| PCDHB2 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| PCSK2 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| PDLIM3 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| PLXNB3 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@spinaGeneticsNodalMarginal2016] | |
| RGS4 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| ROBO2 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| SALL3 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | [@loveGeneticLandscapeMutations2012] | |
| SI | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| SLC17A6 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| SMARCB1 | Tier 2 GE[@nadeuGenomicEpigenomicInsights2020b] | Nadeu et al | ||
| SMC1A | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| TBC1D26 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| TNRC6B | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| TRPM6 | Tier 2 GE[@beaLandscapeSomaticMutations2013] | Bea et al | ||
| ZNF117 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al | ||
| ZNF296 | Tier 2 GE[@zhangGenomicLandscapeMantle2014] | Zhang et al |
Tier 3, retired MCL genes
0 total
| Gene | Summary | First MCL study | Other entities | QC result |
|---|