Changes in 461f738: update

				MCL_genes.md
			
          @@ -18,26 +18,26 @@ link-citations: true

           |[ATM](ATM)|MCL Tier 1|[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@braggioGenomicAnalysisMarginal2012; @reddyGeneticFunctionalDrivers2017]|

           |[BIRC3](BIRC3)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@arthurGenomewideDiscoverySomatic2018; @dunsCharacterizationDLBCLPMBL2021; @rossiAlterationBIRC3Multiple2011]|

           |[CARD11](CARD11)|MCL Tier 1 |[Wu et al](papers/wuGeneticHeterogeneityPrimary2016)|[@lenzOncogenicCARD11Mutations2008; @morinFrequentMutationHistonemodifying2011; @yanBCRTLRSignaling2012]|

          -|[CCND1](CCND1)|Tier 1 GE[@beaLandscapeSomaticMutations2013]|[Bea et al](papers/beaLandscapeSomaticMutations2013)||

          -|[DAZAP1](DAZAP1)|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          -|[EWSR1](EWSR1)|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          -|[HNRNPH1](HNRNPH1)|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          -|[KMT2D](KMT2D)|Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@deschGenotypingCirculatingTumor2020; @grandeGenomewideDiscoverySomatic2019; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012]|

          +|[CCND1](CCND1)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)||

          +|[DAZAP1](DAZAP1)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          +|[EWSR1](EWSR1)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          +|[HNRNPH1](HNRNPH1)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)||

          +|[KMT2D](KMT2D)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@deschGenotypingCirculatingTumor2020; @grandeGenomewideDiscoverySomatic2019; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012]|

           |[MEF2B](MEF2B)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@morinFrequentMutationHistonemodifying2011]|

           |[NFKBIE](NFKBIE)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)|[@mansouriFrequentNFKBIEDeletions2016; @morinGeneticLandscapesRelapsed2016]|

           |[NOTCH1](NOTCH1)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@loveGeneticLandscapeMutations2012; @pasqualucciAnalysisCodingGenome2011; @rossiCodingGenomeSplenic2012]|

           |[NOTCH2](NOTCH2)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@rossiCodingGenomeSplenic2012; @zhangGeneticHeterogeneityDiffuse2013]|

          -|[NSD2](NSD2)|Tier 1 GE[@beaLandscapeSomaticMutations2013]|[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@zhangGeneticHeterogeneityDiffuse2013]|

          -|[POT1](POT1)|Tier 1 GE[@zhangGenomicLandscapeMantle2014]|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)||

          -|[RB1](RB1)|Tier 1 GE[@zhangGenomicLandscapeMantle2014], FE[@pinyolInactivationRB1Mantlecell2007]|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)|[@morinMutationalStructuralAnalysis2013]|

          -|[S1PR1](S1PR1)|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)|[@lohrDiscoveryPrioritizationSomatic2012]|

          -|[SMARCA4](SMARCA4)|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020], FE[@fernandoFunctionalCharacterizationSMARCA42020]|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)|[@krysiakRecurrentSomaticMutations2017; @reddyGeneticFunctionalDrivers2017; @richterRecurrentMutationID32012]|

          -|[SP140](SP140)|Tier 1 GE[@beaLandscapeSomaticMutations2013]|[Bea et al](papers/beaLandscapeSomaticMutations2013)||

          -|[SYNE1](SYNE1)|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020]|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)||

          -|[TERT](TERT)|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020]|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)||

          -|[TLR2](TLR2)|Tier 1 GE[@beaLandscapeSomaticMutations2013]|[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@chapuyMolecularSubtypesDiffuse2018]|

          -|[TP53](TP53)|Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@katoUnderstandingFunctionstructureFunctionmutation2003]|[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018; @wildaInactivationARFMDM2p53Pathway2004]|

          -|[UBR5](UBR5)|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)|[@albuquerqueEnhancingKnowledgeDiscovery2017]|

          +|[NSD2](NSD2)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@zhangGeneticHeterogeneityDiffuse2013]|

          +|[POT1](POT1)|MCL Tier 1 |[Zhang et al](papers/zhangGenomicLandscapeMantle2014)||

          +|[RB1](RB1)|MCL Tier 1 |[Zhang et al](papers/zhangGenomicLandscapeMantle2014)|[@morinMutationalStructuralAnalysis2013]|

          +|[S1PR1](S1PR1)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)|[@lohrDiscoveryPrioritizationSomatic2012]|

          +|[SMARCA4](SMARCA4)|MCL Tier 1 |[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)|[@krysiakRecurrentSomaticMutations2017; @reddyGeneticFunctionalDrivers2017; @richterRecurrentMutationID32012]|

          +|[SP140](SP140)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)||

          +|[SYNE1](SYNE1)|MCL Tier 1 |[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)||

          +|[TERT](TERT)|MCL Tier 1 |[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)||

          +|[TLR2](TLR2)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@chapuyMolecularSubtypesDiffuse2018]|

          +|[TP53](TP53)|MCL Tier 1 |[Bea et al](papers/beaLandscapeSomaticMutations2013)|[@morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018; @wildaInactivationARFMDM2p53Pathway2004]|

          +|[UBR5](UBR5)|MCL Tier 1 |[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)|[@albuquerqueEnhancingKnowledgeDiscovery2017]|

           ## Tier 2, low-confidence MCL genes

...	...	@@ -18,26 +18,26 @@ link-citations: true
18	18	\|[ATM](ATM)\|MCL Tier 1\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@braggioGenomicAnalysisMarginal2012; @reddyGeneticFunctionalDrivers2017]\|
19	19	\|[BIRC3](BIRC3)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@arthurGenomewideDiscoverySomatic2018; @dunsCharacterizationDLBCLPMBL2021; @rossiAlterationBIRC3Multiple2011]\|
20	20	\|[CARD11](CARD11)\|MCL Tier 1 \|[Wu et al](papers/wuGeneticHeterogeneityPrimary2016)\|[@lenzOncogenicCARD11Mutations2008; @morinFrequentMutationHistonemodifying2011; @yanBCRTLRSignaling2012]\|
21		-\|[CCND1](CCND1)\|Tier 1 GE[@beaLandscapeSomaticMutations2013]\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|\|
22		-\|[DAZAP1](DAZAP1)\|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
23		-\|[EWSR1](EWSR1)\|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
24		-\|[HNRNPH1](HNRNPH1)\|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
25		-\|[KMT2D](KMT2D)\|Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@deschGenotypingCirculatingTumor2020; @grandeGenomewideDiscoverySomatic2019; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012]\|
	21	+\|[CCND1](CCND1)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|\|
	22	+\|[DAZAP1](DAZAP1)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
	23	+\|[EWSR1](EWSR1)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
	24	+\|[HNRNPH1](HNRNPH1)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|\|
	25	+\|[KMT2D](KMT2D)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@deschGenotypingCirculatingTumor2020; @grandeGenomewideDiscoverySomatic2019; @morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012]\|
26	26	\|[MEF2B](MEF2B)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@morinFrequentMutationHistonemodifying2011]\|
27	27	\|[NFKBIE](NFKBIE)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|[@mansouriFrequentNFKBIEDeletions2016; @morinGeneticLandscapesRelapsed2016]\|
28	28	\|[NOTCH1](NOTCH1)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@loveGeneticLandscapeMutations2012; @pasqualucciAnalysisCodingGenome2011; @rossiCodingGenomeSplenic2012]\|
29	29	\|[NOTCH2](NOTCH2)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@rossiCodingGenomeSplenic2012; @zhangGeneticHeterogeneityDiffuse2013]\|
30		-\|[NSD2](NSD2)\|Tier 1 GE[@beaLandscapeSomaticMutations2013]\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@zhangGeneticHeterogeneityDiffuse2013]\|
31		-\|[POT1](POT1)\|Tier 1 GE[@zhangGenomicLandscapeMantle2014]\|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)\|\|
32		-\|[RB1](RB1)\|Tier 1 GE[@zhangGenomicLandscapeMantle2014], FE[@pinyolInactivationRB1Mantlecell2007]\|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)\|[@morinMutationalStructuralAnalysis2013]\|
33		-\|[S1PR1](S1PR1)\|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|[@lohrDiscoveryPrioritizationSomatic2012]\|
34		-\|[SMARCA4](SMARCA4)\|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020], FE[@fernandoFunctionalCharacterizationSMARCA42020]\|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|[@krysiakRecurrentSomaticMutations2017; @reddyGeneticFunctionalDrivers2017; @richterRecurrentMutationID32012]\|
35		-\|[SP140](SP140)\|Tier 1 GE[@beaLandscapeSomaticMutations2013]\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|\|
36		-\|[SYNE1](SYNE1)\|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020]\|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|\|
37		-\|[TERT](TERT)\|Tier 1 GE[@nadeuGenomicEpigenomicInsights2020]\|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|\|
38		-\|[TLR2](TLR2)\|Tier 1 GE[@beaLandscapeSomaticMutations2013]\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@chapuyMolecularSubtypesDiffuse2018]\|
39		-\|[TP53](TP53)\|Tier 1 GE[@beaLandscapeSomaticMutations2013], FE[@katoUnderstandingFunctionstructureFunctionmutation2003]\|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018; @wildaInactivationARFMDM2p53Pathway2004]\|
40		-\|[UBR5](UBR5)\|Tier 1 GE[@pararajalingamCodingNoncodingDrivers2020]\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|[@albuquerqueEnhancingKnowledgeDiscovery2017]\|
	30	+\|[NSD2](NSD2)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@zhangGeneticHeterogeneityDiffuse2013]\|
	31	+\|[POT1](POT1)\|MCL Tier 1 \|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)\|\|
	32	+\|[RB1](RB1)\|MCL Tier 1 \|[Zhang et al](papers/zhangGenomicLandscapeMantle2014)\|[@morinMutationalStructuralAnalysis2013]\|
	33	+\|[S1PR1](S1PR1)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|[@lohrDiscoveryPrioritizationSomatic2012]\|
	34	+\|[SMARCA4](SMARCA4)\|MCL Tier 1 \|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|[@krysiakRecurrentSomaticMutations2017; @reddyGeneticFunctionalDrivers2017; @richterRecurrentMutationID32012]\|
	35	+\|[SP140](SP140)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|\|
	36	+\|[SYNE1](SYNE1)\|MCL Tier 1 \|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|\|
	37	+\|[TERT](TERT)\|MCL Tier 1 \|[Nadeu et al](papers/nadeuGenomicEpigenomicInsights2020)\|\|
	38	+\|[TLR2](TLR2)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@chapuyMolecularSubtypesDiffuse2018]\|
	39	+\|[TP53](TP53)\|MCL Tier 1 \|[Bea et al](papers/beaLandscapeSomaticMutations2013)\|[@morinFrequentMutationHistonemodifying2011; @rossiCodingGenomeSplenic2012; @tiacciPervasiveMutationsJAKSTAT2018; @wildaInactivationARFMDM2p53Pathway2004]\|
	40	+\|[UBR5](UBR5)\|MCL Tier 1 \|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)\|[@albuquerqueEnhancingKnowledgeDiscovery2017]\|
41	41
42	42	## Tier 2, low-confidence MCL genes
43	43