Papers.md
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@@ -10,6 +10,61 @@ bibliography: 'morinlab.bib'
10 10
|DLBCL|Sanger|11|28|0|MYC|[@pasqualucciHypermutationMultipleProtooncogenes2001](papers/pasqualucciHypermutationMultipleProtooncogenes2001.md)|
11 11
|BL|Sanger|0|24|0|TP53|[@wildaInactivationARFMDM2p53Pathway2004](papers/wildaInactivationARFMDM2p53Pathway2004.md)|
12 12
|DLBCL|Sanger|134|0|20|PRDM1|[@pasqualucciInactivationPRDM1BLIMP12006](papers/pasqualucciInactivationPRDM1BLIMP12006.md)|
13
+|DLBCL|Sanger||||FAS|[@schollMutationsRegionFAS2007](papers/schollMutationsRegionFAS2007.md)|
14
+|DLBCL|Sanger|6|217|21|CARD11|[@lenzOncogenicCARD11Mutations2008](papers/lenzOncogenicCARD11Mutations2008.md)|
15
+|DLBCL|Sanger||||NFKBIA|[@lakeMutationsNFKBIAEncoding2009](papers/lakeMutationsNFKBIAEncoding2009.md)|
16
+|DLBCL|Sanger|0|101||TNFAIP3|[@compagnoMutationsMultipleGenes2009](papers/compagnoMutationsMultipleGenes2009.md)|
17
+|FL|Sanger|11|251|0|TNFRSF14|[@cheungAcquiredTNFRSF14Mutations2010](papers/cheungAcquiredTNFRSF14Mutations2010.md)|
18
+|DLBCL/FL|RNA-seq/WGS|1|31|7|EZH2|[@morinSomaticMutationsAltering2010](papers/morinSomaticMutationsAltering2010.md)|
19
+|DLBCL|Sanger|0|382|20|MYD88|[@ngoOncogenicallyActiveMYD882011](papers/ngoOncogenicallyActiveMYD882011.md)|
20
+|DLBCL|RNA-seq/WGS|14|103|10|B2M|[@morinFrequentMutationHistonemodifying2011](papers/morinFrequentMutationHistonemodifying2011.md)|
21
+|DLBCL|exome|6|92|23|CD36|[@pasqualucciAnalysisCodingGenome2011](papers/pasqualucciAnalysisCodingGenome2011.md)|
22
+|DLBCL/FL|exome|7|134|0|CREBBP|[@pasqualucciInactivatingMutationsAcetyltransferase2011](papers/pasqualucciInactivatingMutationsAcetyltransferase2011.md)|
23
+|DLBCL|exome/Sanger||||BRAF|[@tiacciBRAFMutationsHairycell2011](papers/tiacciBRAFMutationsHairycell2011.md)|
24
+|BL|RNA-seq/WGS/exome||53||CCND3|[@richterRecurrentMutationID32012](papers/richterRecurrentMutationID32012.md)|
25
+|DLBCL|Sanger||||MIR142|[@kwanhianMicroRNA142Mutated202012](papers/kwanhianMicroRNA142Mutated202012.md)|
26
+|DLBCL|WGS|40|0|0|CXCR4|[@khodabakhshiRecurrentTargetsAberrant2012](papers/khodabakhshiRecurrentTargetsAberrant2012.md)|
27
+|DLBCL|exome|55|0|0|ACTB|[@lohrDiscoveryPrioritizationSomatic2012](papers/lohrDiscoveryPrioritizationSomatic2012.md)|
28
+|MZL|Panel||||CARD11|[@yanBCRTLRSignaling2012](papers/yanBCRTLRSignaling2012.md)|
29
+|BL|exome|| ||ACAD9|[@loveGeneticLandscapeMutations2012](papers/loveGeneticLandscapeMutations2012.md)|
30
+|BL|RNA-seq||||C16orf48|[@schmitzBurkittLymphomaPathogenesis2012](papers/schmitzBurkittLymphomaPathogenesis2012.md)|
31
+|DLBCL|exome|34|39| 21|ARID1A|[@zhangGeneticHeterogeneityDiffuse2013](papers/zhangGeneticHeterogeneityDiffuse2013.md)|
32
+|DLBCL|Sanger|0|0| 6|EBF1|[@bohleRoleEarlyBcell2013](papers/bohleRoleEarlyBcell2013.md)|
33
+|DLBCL|WGS|40|0|13|ABI3BP|[@morinMutationalStructuralAnalysis2013](papers/morinMutationalStructuralAnalysis2013.md)|
34
+|MZL|exome||||AMOTL1|[@parryWholeExomeSequencing2013](papers/parryWholeExomeSequencing2013.md)|
35
+|MCL|exome||||ANK2|[@zhangGenomicLandscapeMantle2014](papers/zhangGenomicLandscapeMantle2014.md)|
36
+|BL|Sanger||||ARHGEF1|[@muppidiLossSignalingGa132014](papers/muppidiLossSignalingGa132014.md)|
37
+|BL|RNA-seq|0|20 |0|CCNF|[@abateDistinctViralMutational2015](papers/abateDistinctViralMutational2015.md)|
38
+|DLBCL|Sanger|24|0|0 |STAT6|[@yildizActivatingSTAT6Mutations2015](papers/yildizActivatingSTAT6Mutations2015.md)|
39
+|DLBCL|Sanger||||MAP2K1|[@shinBRAFV600EMAP2K12015](papers/shinBRAFV600EMAP2K12015.md)|
40
+|DLBCL|exome|14|0|0|XPO1|[@mareschalWholeExomeSequencing2016](papers/mareschalWholeExomeSequencing2016.md)|
41
+|FL|WGS|3|3| (100.0)|ATP6AP1|[@okosunRecurrentMTORC1activatingRRAGC2016](papers/okosunRecurrentMTORC1activatingRRAGC2016.md)|
42
+|FL|exome|1|1 |(100.0)|MAP2K1|[@louissaintPediatrictypeNodalFollicular2016](papers/louissaintPediatrictypeNodalFollicular2016.md)|
43
+|DLBCL|exome|2|2| (100.0)|NFKBIE|[@morinGeneticLandscapesRelapsed2016](papers/morinGeneticLandscapesRelapsed2016.md)|
44
+|FL|exome|22|17 |(77.3)|ARID1A|[@krysiakRecurrentSomaticMutations2017](papers/krysiakRecurrentSomaticMutations2017.md)|
45
+|DLBCL|exome|3|3 |(100.0)|BTK|[@albuquerqueEnhancingKnowledgeDiscovery2017](papers/albuquerqueEnhancingKnowledgeDiscovery2017.md)|
46
+|DLBCL|exome|59|6 |(10.2)|ANKRD17|[@reddyGeneticFunctionalDrivers2017](papers/reddyGeneticFunctionalDrivers2017.md)|
47
+|DLBCL|exome|19|2 |(10.5)|CCL4|[@chapuyMolecularSubtypesDiffuse2018](papers/chapuyMolecularSubtypesDiffuse2018.md)|
48
+|DLBCL|WGS|19|7| (36.8)|AICDA|[@arthurGenomewideDiscoverySomatic2018](papers/arthurGenomewideDiscoverySomatic2018.md)|
49
+|DLBCL|exome|16|7| (43.8)|CXCR5|[@schmitzGeneticsPathogenesisDiffuse2018](papers/schmitzGeneticsPathogenesisDiffuse2018.md)|
50
+|BL|exome|1|0 |(0.0)|KMT2C|[@zhouSporadicEndemicBurkitt2019](papers/zhouSporadicEndemicBurkitt2019.md)|
51
+|BL|RNA-seq/exome|39|4| (10.3)|ALPK2|[@paneaWholeGenomeLandscape2019](papers/paneaWholeGenomeLandscape2019.md)|
52
+|BL|WGS|13|9| (69.2)|BACH2|[@grandeGenomewideDiscoverySomatic2019](papers/grandeGenomewideDiscoverySomatic2019.md)|
53
+|FL|panel|1|1| (100.0)|CTSS|[@barariaCathepsinAlterationsInduce2020](papers/barariaCathepsinAlterationsInduce2020.md)|
54
+|DLBCL|exome/panel|1|1 |(100.0)|MS4A1|[@rushtonGeneticEvolutionaryPatterns2020](papers/rushtonGeneticEvolutionaryPatterns2020.md)|
55
+|DLBCL|WGS|38|3 |(7.9)|ACTG1|[@hubschmannMutationalMechanismsShaping2021](papers/hubschmannMutationalMechanismsShaping2021.md)|
56
+|BL|panel|25|0| (0.0)|ADAMTS5|[@burkhardtClinicalRelevanceMolecular2022](papers/burkhardtClinicalRelevanceMolecular2022.md)|
57
+|BL|WGS|6|2| (33.3)|CDKN2C|[@thomasGeneticSubgroupsInform2023](papers/thomasGeneticSubgroupsInform2023.md)|
58
+|FL|exome|20|1| (5.0)|ABL2|[@russler-germainMutationsAssociatedProgression2023](papers/russler-germainMutationsAssociatedProgression2023.md)|
59
+
60
+
61
+|Entity|Method|Paired samples|Unpaired samples|Cell lines|Example gene|Study|
62
+|:-:|:-:|:-:|:-:|:-:|:-:|:-------:|
63
+|DLBCL|Sanger|0|5|0|BCL2|[@tanakaFrequentIncidenceSomatic1992](papers/tanakaFrequentIncidenceSomatic1992.md)|
64
+|BL|Sanger|0|0|9|MYC|[@johnstonCmycHypermutationBurkitt1992](papers/johnstonCmycHypermutationBurkitt1992.md)|
65
+|DLBCL|Sanger|11|28|0|MYC|[@pasqualucciHypermutationMultipleProtooncogenes2001](papers/pasqualucciHypermutationMultipleProtooncogenes2001.md)|
66
+|BL|Sanger|0|24|0|TP53|[@wildaInactivationARFMDM2p53Pathway2004](papers/wildaInactivationARFMDM2p53Pathway2004.md)|
67
+|DLBCL|Sanger|134|0|20|PRDM1|[@pasqualucciInactivationPRDM1BLIMP12006](papers/pasqualucciInactivationPRDM1BLIMP12006.md)|
13 68
|PMBL|Sanger||||GPR126|[@wenigerMutationsTumorSuppressor2006](papers/wenigerMutationsTumorSuppressor2006.md)|
14 69
|DLBCL|Sanger||||FAS|[@schollMutationsRegionFAS2007](papers/schollMutationsRegionFAS2007.md)|
15 70
|DLBCL|Sanger|6|217|21|CARD11|[@lenzOncogenicCARD11Mutations2008](papers/lenzOncogenicCARD11Mutations2008.md)|
... ...
@@ -44,13 +99,13 @@ bibliography: 'morinlab.bib'
44 99
|PMBL|WGS/Sanger||||PTPN1|[@gunawardanaRecurrentSomaticMutations2014](papers/gunawardanaRecurrentSomaticMutations2014.md)|
45 100
|BL|Sanger||||ARHGEF1|[@muppidiLossSignalingGa132014](papers/muppidiLossSignalingGa132014.md)|
46 101
|BL|RNA-seq|0|20 |0|CCNF|[@abateDistinctViralMutational2015](papers/abateDistinctViralMutational2015.md)|
47
-|DLBCL|Sanger|1|1| (100.0)|STAT6|[@yildizActivatingSTAT6Mutations2015](papers/yildizActivatingSTAT6Mutations2015.md)|
48
-|PMBL|Sanger|1|1 |(100.0)|CIITA|[@mottokGenomicAlterationsCIITA2015](papers/mottokGenomicAlterationsCIITA2015.md)|
49
-|PMBL|Sanger|1|1 |(100.0)|CD58|[@schneiderAlterationsCD58Gene2015](papers/schneiderAlterationsCD58Gene2015.md)|
50
-|PMBL|exome|29|11 |(37.9)|ARIH2|[@reichelFlowSortingExome2015](papers/reichelFlowSortingExome2015.md)|
51
-|DLBCL|Sanger|1|0 |(0.0)|MAP2K1|[@shinBRAFV600EMAP2K12015](papers/shinBRAFV600EMAP2K12015.md)|
52
-|MZL|exome|1|1 |(100.0)|KLHL6|[@ganapathiGeneticLandscapeDural2016](papers/ganapathiGeneticLandscapeDural2016.md)|
53
-|DLBCL|exome|1|1 |(100.0)|XPO1|[@mareschalWholeExomeSequencing2016](papers/mareschalWholeExomeSequencing2016.md)|
102
+|DLBCL|Sanger|24|0|0 |STAT6|[@yildizActivatingSTAT6Mutations2015](papers/yildizActivatingSTAT6Mutations2015.md)|
103
+|PMBL|Sanger||||CIITA|[@mottokGenomicAlterationsCIITA2015](papers/mottokGenomicAlterationsCIITA2015.md)|
104
+|PMBL|Sanger||||CD58|[@schneiderAlterationsCD58Gene2015](papers/schneiderAlterationsCD58Gene2015.md)|
105
+|PMBL|exome||||ARIH2|[@reichelFlowSortingExome2015](papers/reichelFlowSortingExome2015.md)|
106
+|DLBCL|Sanger||||MAP2K1|[@shinBRAFV600EMAP2K12015](papers/shinBRAFV600EMAP2K12015.md)|
107
+|MZL|exome|| ||KLHL6|[@ganapathiGeneticLandscapeDural2016](papers/ganapathiGeneticLandscapeDural2016.md)|
108
+|DLBCL|exome|14|0|0|XPO1|[@mareschalWholeExomeSequencing2016](papers/mareschalWholeExomeSequencing2016.md)|
54 109
|FL|WGS|3|3| (100.0)|ATP6AP1|[@okosunRecurrentMTORC1activatingRRAGC2016](papers/okosunRecurrentMTORC1activatingRRAGC2016.md)|
55 110
|PMBL|Sanger|1|1| (100.0)|XPO1|[@jardinRecurrentMutationsExportin2016](papers/jardinRecurrentMutationsExportin2016.md)|
56 111
|PMBL|exome/Sanger|1|1| (100.0)|NFKBIE|[@mansouriFrequentNFKBIEDeletions2016](papers/mansouriFrequentNFKBIEDeletions2016.md)|
... ...
@@ -86,5 +141,6 @@ bibliography: 'morinlab.bib'
86 141
|FL|exome|20|1| (5.0)|ABL2|[@russler-germainMutationsAssociatedProgression2023](papers/russler-germainMutationsAssociatedProgression2023.md)|
87 142
|PMBL|exome|7|2| (28.6)|ARID5B|[@gomezUltraDeepSequencingReveals2023](papers/gomezUltraDeepSequencingReveals2023.md)|
88 143
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+
89 145
# References
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