NOL9.md
... ...
@@ -18,8 +18,8 @@ timeline
18 18
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|--------------------------|
21
-|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@spinaGeneticsNodalMarginal2016b]|
22
-|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene[@schmitzGeneticsPathogenesisDiffuse2018a]|
21
+|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@spinaGeneticsNodalMarginal2016]|
22
+|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene[@schmitzGeneticsPathogenesisDiffuse2018]|
23 23
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
25 25
NOTCH1.md
... ...
@@ -25,7 +25,7 @@ timeline
25 25
26 26
|Entity|Tier|Description |
27 27
|:------:|:----:|--------------------------------------|
28
-|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@rossiCodingGenomeSplenic2012c]|
28
+|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@rossiCodingGenomeSplenic2012]|
29 29
|![BL](images/icons/BL_tier2.png) |3 |Retired, Failed QC[@loveGeneticLandscapeMutations2012]|
30 30
|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene |
31 31
|![MCL](images/icons/MCL_tier1.png) |1 |high-confidence MCL gene |
NOTCH2.md
... ...
@@ -23,7 +23,7 @@ timeline
23 23
24 24
|Entity|Tier|Description |
25 25
|:------:|:----:|--------------------------------------|
26
-|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@rossiCodingGenomeSplenic2012c]|
26
+|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@rossiCodingGenomeSplenic2012]|
27 27
|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene [@zhangGeneticHeterogeneityDiffuse2013]|
28 28
|![MCL](images/icons/MCL_tier1.png) |1 |high-confidence MCL gene [@beaLandscapeSomaticMutations2013]|
29 29
NUP214.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018b]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
OR6K3.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
P2RY8.md
... ...
@@ -20,8 +20,8 @@ timeline
20 20
|Entity|Tier|Description |
21 21
|:------:|:----:|--------------------------------------|
22 22
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
23
-|![BL](images/icons/BL_tier1.png) |1 |high-confidence BL gene [@muppidiLossSignalingGa132014b]|
24
-|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene [@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![BL](images/icons/BL_tier1.png) |1 |high-confidence BL gene [@muppidiLossSignalingGa132014]|
24
+|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene [@lohrDiscoveryPrioritizationSomatic2012]|
25 25
|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established|
26 26
27 27
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PACRG.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016b]|
23
+|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PAPOLG.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@schmitzGeneticsPathogenesisDiffuse2018a]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@schmitzGeneticsPathogenesisDiffuse2018]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PARK2.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016b]|
23
+|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PASD1.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PAX5.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous [@pasqualucciHypermutationMultipleProtooncogenes2001a]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous [@pasqualucciHypermutationMultipleProtooncogenes2001]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PCDHB6.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PCLO.md
... ...
@@ -19,7 +19,7 @@ timeline
19 19
|:------:|:----:|-----------------------------------------|
20 20
|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene|
21 21
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
22
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
22
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
23 23
|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene |
24 24
25 25
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PDE4DIP.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018b]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PDGFC.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PDS5B.md
... ...
@@ -21,7 +21,7 @@ timeline
21 21
|Entity|Tier|Description |
22 22
|:------:|:----:|-----------------------------------------|
23 23
|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@morinMutationalStructuralAnalysis2013]|
24
-|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established [@hubschmannMutationalMechanismsShaping2021b]|
24
+|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established [@hubschmannMutationalMechanismsShaping2021]|
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
27 27
... ...
@@ -54,7 +54,7 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
54 54
55 55
## All Mutations
56 56
57
-### FL[@hubschmannMutationalMechanismsShaping2021b]
57
+### FL[@hubschmannMutationalMechanismsShaping2021]
58 58
59 59
[SP116618](https://www.bcgsc.ca/downloads/morinlab/GAMBL/MALY/SP116618.html)
60 60
[SP116686](https://www.bcgsc.ca/downloads/morinlab/GAMBL/MALY/SP116686.html)
PIM1.md
... ...
@@ -22,9 +22,9 @@ timeline
22 22
23 23
|Entity|Tier|Description |
24 24
|:------:|:----:|--------------------------------------|
25
-|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@dunsCharacterizationDLBCLPMBL2021b]|
26
-|![BL](images/icons/BL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in BL is tenuous [@burkhardtClinicalRelevanceMolecular2022b]|
27
-|![DLBCL](images/icons/DLBCL_tier1.png) |1-a | aSHM target and high-confidence DLBCL gene [@pasqualucciHypermutationMultipleProtooncogenes2001a]|
25
+|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@dunsCharacterizationDLBCLPMBL2021]|
26
+|![BL](images/icons/BL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in BL is tenuous [@burkhardtClinicalRelevanceMolecular2022]|
27
+|![DLBCL](images/icons/DLBCL_tier1.png) |1-a | aSHM target and high-confidence DLBCL gene [@pasqualucciHypermutationMultipleProtooncogenes2001]|
28 28
|![FL](images/icons/FL_tier1.png) |1-a | aSHM target and high-confidence FL gene |
29 29
30 30
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PIM2.md
... ...
@@ -25,7 +25,7 @@ timeline
25 25
26 26
|Entity|Tier|Description |
27 27
|:------:|:----:|--------------------------|
28
-|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@reichelFlowSortingExome2015a]|
28
+|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@reichelFlowSortingExome2015]|
29 29
|![DLBCL](images/icons/DLBCL_tier1.png) |1 | aSHM target and high-confidence DLBCL gene[@reddyGeneticFunctionalDrivers2017; @schmitzGeneticsPathogenesisDiffuse2018a; @arthurGenomewideDiscoverySomatic2018]|
30 30
31 31
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PLXNB3.md
... ...
@@ -18,7 +18,7 @@ timeline
18 18
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|---------------------------------------|
21
-|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016b]|
21
+|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016]|
22 22
|![MCL](images/icons/MCL_tier2.png) |2 |relevance in MCL not firmly established[@zhangGenomicLandscapeMantle2014]|
23 23
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PNPO.md
... ...
@@ -19,7 +19,7 @@ timeline
19 19
20 20
|Entity|Tier|Description |
21 21
|:------:|:----:|-----------------------------------------|
22
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
22
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
23 23
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
25 25
POU2AF1.md
... ...
@@ -22,8 +22,8 @@ timeline
22 22
|Entity|Tier|Description |
23 23
|:------:|:----:|--------------------------|
24 24
|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene|
25
-|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene, hypermutated[@chapuyMolecularSubtypesDiffuse2018b]|
26
-|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene, hypermutated [@krysiakRecurrentSomaticMutations2017b]|
25
+|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene, hypermutated[@chapuyMolecularSubtypesDiffuse2018]|
26
+|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene, hypermutated [@krysiakRecurrentSomaticMutations2017]|
27 27
28 28
29 29
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
POU2F2.md
... ...
@@ -24,7 +24,7 @@ timeline
24 24
|Entity|Tier|Description |
25 25
|:------:|:----:|--------------------------|
26 26
|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene[@lohrDiscoveryPrioritizationSomatic2012a; @zhangGeneticHeterogeneityDiffuse2013; @reddyGeneticFunctionalDrivers2017]|
27
-|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene [@krysiakRecurrentSomaticMutations2017b]|
27
+|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene [@krysiakRecurrentSomaticMutations2017]|
28 28
29 29
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
30 30
PPP4C.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|--------------------------------------|
20
-|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
20
+|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PPP6R2.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|--------------------------------------|
20
-|![BL](images/icons/BL_tier2.png) |2 |relevance in BL not firmly established[@burkhardtClinicalRelevanceMolecular2022b]|
20
+|![BL](images/icons/BL_tier2.png) |2 |relevance in BL not firmly established[@burkhardtClinicalRelevanceMolecular2022]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PREX1.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|--------------------------------------|
20
-|![BL](images/icons/BL_tier2.png) |2 |relevance in BL not firmly established[@burkhardtClinicalRelevanceMolecular2022b]|
20
+|![BL](images/icons/BL_tier2.png) |2 |relevance in BL not firmly established[@burkhardtClinicalRelevanceMolecular2022]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PRKDC.md
... ...
@@ -19,8 +19,8 @@ timeline
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|--------------------------------------|
21 21
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
22
-|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene [@schmitzGeneticsPathogenesisDiffuse2018a]|
23
-|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
22
+|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene [@schmitzGeneticsPathogenesisDiffuse2018]|
23
+|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
24 24
25 25
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
26 26
PRPS1.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018b]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
PRUNE2.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018b]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PTPN1.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@gunawardanaRecurrentSomaticMutations2014c]|
20
+|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@gunawardanaRecurrentSomaticMutations2014]|
21 21
|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous |
22 22
23 23
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
PTPRD.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|--------------------------|
20
-|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@spinaGeneticsNodalMarginal2016b]|
20
+|![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@spinaGeneticsNodalMarginal2016]|
21 21
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
22 22
|![DLBCL](images/icons/DLBCL_tier1.png) |2 |low-confidence DLBCL gene|
23 23
|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene |
PZP.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|--------------------------------------|
20
-|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@russler-germainMutationsAssociatedProgression2023b]|
20
+|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@russler-germainMutationsAssociatedProgression2023]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
RAC2.md
... ...
@@ -18,7 +18,7 @@ timeline
18 18
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|-----------------------------------------|
21
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
21
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
22 22
23 23
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
24 24
RAD9A.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018b]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@chapuyMolecularSubtypesDiffuse2018]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
RANBP2.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@reichelFlowSortingExome2015a]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@reichelFlowSortingExome2015]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
RBM38.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@wienandGenomicAnalysesFlowsorted2019b]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@wienandGenomicAnalysesFlowsorted2019]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
RBM6.md
... ...
@@ -19,7 +19,7 @@ timeline
19 19
20 20
|Entity|Tier|Description |
21 21
|:------:|:----:|--------------------------------------|
22
-|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
22
+|![FL](images/icons/FL_tier2.png) |2 |relevance in FL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
23 23
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
25 25
RELN.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@sarkozyMutationalLandscapeGray2021a]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@sarkozyMutationalLandscapeGray2021]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
RFTN1.md
... ...
@@ -18,7 +18,7 @@ timeline
18 18
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|-----------------------------------------|
21
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@dunsCharacterizationDLBCLPMBL2021b]|
21
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@dunsCharacterizationDLBCLPMBL2021]|
22 22
|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established|
23 23
|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous [@arthurGenomewideDiscoverySomatic2018]|
24 24
RGS1.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@mottokIntegrativeGenomicAnalysis2019b]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@mottokIntegrativeGenomicAnalysis2019]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
RHOH.md
... ...
@@ -9,7 +9,7 @@ link-citations: true
9 9
10 10
|Entity|Tier|Description |
11 11
|:------:|:----:|-----------------------------------------|
12
-|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous [@pasqualucciHypermutationMultipleProtooncogenes2001a]|
12
+|![DLBCL](images/icons/DLBCL_tier2.png) |2-a | aSHM target; Although recurrent, the relevance of mutations in DLBCL is tenuous [@pasqualucciHypermutationMultipleProtooncogenes2001]|
13 13
14 14
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
15 15
RRAGC.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
|Entity|Tier|Description |
21 21
|:------:|:----:|--------------------------|
22 22
|![DLBCL](images/icons/DLBCL_tier1.png) |1 |high-confidence DLBCL gene[@reddyGeneticFunctionalDrivers2017;@hubschmannMutationalMechanismsShaping2021b ]|
23
-|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene [@okosunRecurrentMTORC1activatingRRAGC2016a] |
23
+|![FL](images/icons/FL_tier1.png) |1 |high-confidence FL gene [@okosunRecurrentMTORC1activatingRRAGC2016] |
24 24
25 25
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
26 26
S1PR1.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
|:------:|:----:|------------------------|
21 21
|![MCL](images/icons/MCL_tier1.png) |1 |high-confidence MCL gene[@pararajalingamCodingNoncodingDrivers2020]|
22 22
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
25 25
26 26
|Entity|source |frequency (%)|
S1PR2.md
... ...
@@ -28,7 +28,7 @@ timeline
28 28
|Entity|Tier|Description |
29 29
|:------:|:----:|--------------------------------------|
30 30
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
31
-|![BL](images/icons/BL_tier2.png) |2 | aSHM target; Although recurrent, the relevance of mutations in BL is tenuous [@muppidiLossSignalingGa132014b]|
31
+|![BL](images/icons/BL_tier2.png) |2 | aSHM target; Although recurrent, the relevance of mutations in BL is tenuous [@muppidiLossSignalingGa132014]|
32 32
|![DLBCL](images/icons/DLBCL_tier1.png) |1 | aSHM target and high-confidence DLBCL gene [@morinFrequentMutationHistonemodifying2011; @lohrDiscoveryPrioritizationSomatic2012a; @morinMutationalStructuralAnalysis2013]|
33 33
|![FL](images/icons/FL_tier1.png) |1 | aSHM target and high-confidence FL gene |
34 34
SAMD5.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016b]|
23
+|![MZL](images/icons/MZL_tier2.png)|2|relevance in MZL not firmly established[@spinaGeneticsNodalMarginal2016]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
SENP7.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@reichelFlowSortingExome2015a]|
23
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@reichelFlowSortingExome2015]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
SETD5.md
... ...
@@ -18,7 +18,7 @@ timeline
18 18
19 19
|Entity|Tier|Description |
20 20
|:------:|:----:|-----------------------------------------|
21
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018b]|
21
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018]|
22 22
|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@reddyGeneticFunctionalDrivers2017]|
23 23
24 24
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
SGK1.md
... ...
@@ -26,7 +26,7 @@ timeline
26 26
27 27
|Entity|Tier|Description |
28 28
|:------:|:----:|--------------------------------------|
29
-|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@dunsCharacterizationDLBCLPMBL2021b]|
29
+|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene[@dunsCharacterizationDLBCLPMBL2021]|
30 30
|![DLBCL](images/icons/DLBCL_tier1.png) |1 | aSHM target and high-confidence DLBCL gene [@morinFrequentMutationHistonemodifying2011]|
31 31
|![FL](images/icons/FL_tier1.png) |1 | aSHM target and high-confidence FL gene [@morinFrequentMutationHistonemodifying2011; @zhangGeneticHeterogeneityDiffuse2013; @morinMutationalStructuralAnalysis2013]|
32 32
SLC34A2.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021b]|
20
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@hubschmannMutationalMechanismsShaping2021]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
SLITRK6.md
... ...
@@ -20,7 +20,7 @@ timeline
20 20
21 21
|Entity|Tier|Description|
22 22
|:------:|:----:|--------------------------------------|
23
-|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012a]|
23
+|![DLBCL](images/icons/DLBCL_tier2.png)|2|relevance in DLBCL not firmly established[@lohrDiscoveryPrioritizationSomatic2012]|
24 24
25 25
26 26
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
SMARCB1.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|---------------------------------------|
20
-|![MCL](images/icons/MCL_tier2.png) |2 |relevance in MCL not firmly established[@nadeuGenomicEpigenomicInsights2020b]|
20
+|![MCL](images/icons/MCL_tier2.png) |2 |relevance in MCL not firmly established[@nadeuGenomicEpigenomicInsights2020]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
STAT5B.md
... ...
@@ -21,7 +21,7 @@ timeline
21 21
22 22
|Entity|Tier|Description |
23 23
|:------:|:----:|-----------------------------------------|
24
-|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018b]|
24
+|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established[@tiacciPervasiveMutationsJAKSTAT2018]|
25 25
|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@zhangGeneticHeterogeneityDiffuse2013]|
26 26
27 27
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
SYNE1.md
... ...
@@ -17,7 +17,7 @@ timeline
17 17
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|------------------------|
20
-|![MCL](images/icons/MCL_tier1.png) |1 |high-confidence MCL gene[@nadeuGenomicEpigenomicInsights2020b]|
20
+|![MCL](images/icons/MCL_tier1.png) |1 |high-confidence MCL gene[@nadeuGenomicEpigenomicInsights2020]|
21 21
22 22
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
23 23
TAP1.md
... ...
@@ -18,7 +18,7 @@ timeline
18 18
|Entity|Tier|Description |
19 19
|:------:|:----:|-----------------------------------------|
20 20
|![PMBL](images/icons/PMBL_tier1.png)|1|high-confidence PMBL/cHL/GZL gene|
21
-|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@schmitzGeneticsPathogenesisDiffuse2018a]|
21
+|![DLBCL](images/icons/DLBCL_tier2.png) |2 |relevance in DLBCL not firmly established[@schmitzGeneticsPathogenesisDiffuse2018]|
22 22
23 23
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
24 24