Changes in 860d9db: update

				DLBCL_genes.md
			
          @@ -142,7 +142,7 @@ link-citations: true

           ## Tier 2 DLBCL genes

          -### *184 total*

          +### *181 total*

           |Gene|Tier| First DLBCL study | Other entities | QC result |

           |:-:|:-:|:-:|:-|:-|

          @@ -177,10 +177,8 @@ link-citations: true

           |[CPS1](CPS1)|2|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]|||

           |[CRIP1](CRIP1)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||PASS|

           |[DAZAP1](DAZAP1)|2|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)[@pararajalingamCodingNoncodingDrivers2020]|||

          -|[DCAF6](DCAF6)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[DDX10](DDX10)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[DHX16](DHX16)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||PASS|

          -|[DICER1](DICER1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[DNAH5](DNAH5)|2|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]|[@jalladesExomeSequencingIdentifies2017]|PASS|

           |[DNM2](DNM2)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]||PASS|

           |[DNMT3B](DNMT3B)|2|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]|||

          @@ -326,14 +324,13 @@ link-citations: true

           |[YY1](YY1)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||PASS|

           |[ZCCHC7](ZCCHC7)|2|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]|||

           |[ZEB2](ZEB2)|2|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

          -|[ZFAT](ZFAT)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[ZFX](ZFX)|2|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||PASS|

           |[ZNF217](ZNF217)|2|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]|[@reichelFlowSortingExome2015a]|PASS|

           |[ZNF423](ZNF423)|2|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]||PASS|

           ## Tier 3 DLBCL genes

          -### *383 total*

          +### *386 total*

           |Gene|Tier| First DLBCL study | Other entities | QC result |

           |:-:|:-:|:-:|:-|:-|

          @@ -425,10 +422,12 @@ link-citations: true

           |[CYP24A1](CYP24A1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[CYP2C18](CYP2C18)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[CYYR1](CYYR1)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]|||

          +|[DCAF6](DCAF6)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[DDB1](DDB1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[DGCR8](DGCR8)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]|||

           |[DHX33](DHX33)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]|||

           |[DIAPH3](DIAPH3)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

          +|[DICER1](DICER1)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[DIP2B](DIP2B)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[DLGAP1](DLGAP1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|[@loveGeneticLandscapeMutations2012]||

           |[DMXL1](DMXL1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

          @@ -709,6 +708,7 @@ link-citations: true

           |[WT1](WT1)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[XDH](XDH)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[ZBTB7A](ZBTB7A)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]|[@burkhardtClinicalRelevanceMolecular2022b]|FAIL|

          +|[ZFAT](ZFAT)|3|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]||FAIL|

           |[ZIC4](ZIC4)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

           |[ZMYM4](ZMYM4)|3|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]|||

           |[ZNF354A](ZNF354A)|3|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]|||

				Home.md
			
          @@ -19,8 +19,8 @@ To get started, select one of the gene lists from the table below then select th

           |Entity|Tier 1 (high-confidence)|Tier 2 (low-confidence)|Tier 3 (retired) |

           |:-:|:-:|:-:|:-:|

           |BL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/bl_genes.tsv)|[29 genes](BL_genes#tier-1-bl-genes)|[75 genes](BL_genes#tier-2-bl-genes)|[70 genes](BL_genes#tier-3-bl-genes)|

          -|DLBCL [(tsv)](https://github.com/morinlab/LLMPP/blob/main/resources/curated/dlbcl_genes.tsv)|[128 genes](DLBCL_genes#tier-1-dlbcl-genes)|[178 genes](DLBCL_genes#tier-2-dlbcl-genes)|[385 genes](DLBCL_genes#tier-3-dlbcl-genes)|

          -|FL [(tsv)](https://github.com/morinlab/LLMPP/blob/main/resources/curated/fl_genes.tsv)|[66 genes](FL_genes#tier-1-fl-genes)|[49 genes](FL_genes#tier-2-fl-genes)|[0 genes](FL_genes#tier-3-fl-genes)|

          +|DLBCL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/dlbcl_genes.tsv)|[124 genes](DLBCL_genes#tier-1-dlbcl-genes)|[181 genes](DLBCL_genes#tier-2-dlbcl-genes)|[386 genes](DLBCL_genes#tier-3-dlbcl-genes)|

          +|FL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/fl_genes.tsv)|[66 genes](FL_genes#tier-1-fl-genes)|[49 genes](FL_genes#tier-2-fl-genes)|[0 genes](FL_genes#tier-3-fl-genes)|

           ### History of lymphoma genes in common entities

...	...	@@ -142,7 +142,7 @@ link-citations: true
142	142
143	143	## Tier 2 DLBCL genes
144	144
145		-### 184 total
	145	+### 181 total
146	146
147	147	\|Gene\|Tier\| First DLBCL study \| Other entities \| QC result \|
148	148	\|:-:\|:-:\|:-:\|:-\|:-\|
...	...	@@ -177,10 +177,8 @@ link-citations: true
177	177	\|[CPS1](CPS1)\|2\|[Lohr et al](papers/lohrDiscoveryPrioritizationSomatic2012a)[@lohrDiscoveryPrioritizationSomatic2012a]\|\|\|
178	178	\|[CRIP1](CRIP1)\|2\|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]\|\|PASS\|
179	179	\|[DAZAP1](DAZAP1)\|2\|[Pararajalingam et al](papers/pararajalingamCodingNoncodingDrivers2020)[@pararajalingamCodingNoncodingDrivers2020]\|\|\|
180		-\|[DCAF6](DCAF6)\|2\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
181	180	\|[DDX10](DDX10)\|2\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
182	181	\|[DHX16](DHX16)\|2\|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]\|\|PASS\|
183		-\|[DICER1](DICER1)\|2\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
184	182	\|[DNAH5](DNAH5)\|2\|[Morin et al](papers/morinMutationalStructuralAnalysis2013)[@morinMutationalStructuralAnalysis2013]\|[@jalladesExomeSequencingIdentifies2017]\|PASS\|
185	183	\|[DNM2](DNM2)\|2\|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]\|\|PASS\|
186	184	\|[DNMT3B](DNMT3B)\|2\|[Albuquerque et al](papers/albuquerqueEnhancingKnowledgeDiscovery2017a)[@albuquerqueEnhancingKnowledgeDiscovery2017a]\|\|\|
...	...	@@ -326,14 +324,13 @@ link-citations: true
326	324	\|[YY1](YY1)\|2\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|PASS\|
327	325	\|[ZCCHC7](ZCCHC7)\|2\|[Arthur et al](papers/arthurGenomewideDiscoverySomatic2018)[@arthurGenomewideDiscoverySomatic2018]\|\|\|
328	326	\|[ZEB2](ZEB2)\|2\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
329		-\|[ZFAT](ZFAT)\|2\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
330	327	\|[ZFX](ZFX)\|2\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|PASS\|
331	328	\|[ZNF217](ZNF217)\|2\|[Hubschmann et al](papers/hubschmannMutationalMechanismsShaping2021b)[@hubschmannMutationalMechanismsShaping2021b]\|[@reichelFlowSortingExome2015a]\|PASS\|
332	329	\|[ZNF423](ZNF423)\|2\|[Chapuy et al](papers/chapuyMolecularSubtypesDiffuse2018b)[@chapuyMolecularSubtypesDiffuse2018b]\|\|PASS\|
333	330
334	331	## Tier 3 DLBCL genes
335	332
336		-### 383 total
	333	+### 386 total
337	334
338	335	\|Gene\|Tier\| First DLBCL study \| Other entities \| QC result \|
339	336	\|:-:\|:-:\|:-:\|:-\|:-\|
...	...	@@ -425,10 +422,12 @@ link-citations: true
425	422	\|[CYP24A1](CYP24A1)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
426	423	\|[CYP2C18](CYP2C18)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
427	424	\|[CYYR1](CYYR1)\|3\|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]\|\|\|
	425	+\|[DCAF6](DCAF6)\|3\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
428	426	\|[DDB1](DDB1)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
429	427	\|[DGCR8](DGCR8)\|3\|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]\|\|\|
430	428	\|[DHX33](DHX33)\|3\|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]\|\|\|
431	429	\|[DIAPH3](DIAPH3)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
	430	+\|[DICER1](DICER1)\|3\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
432	431	\|[DIP2B](DIP2B)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
433	432	\|[DLGAP1](DLGAP1)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|[@loveGeneticLandscapeMutations2012]\|\|
434	433	\|[DMXL1](DMXL1)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
...	...	@@ -709,6 +708,7 @@ link-citations: true
709	708	\|[WT1](WT1)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
710	709	\|[XDH](XDH)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
711	710	\|[ZBTB7A](ZBTB7A)\|3\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|[@burkhardtClinicalRelevanceMolecular2022b]\|FAIL\|
	711	+\|[ZFAT](ZFAT)\|3\|[Reddy et al](papers/reddyGeneticFunctionalDrivers2017)[@reddyGeneticFunctionalDrivers2017]\|\|FAIL\|
712	712	\|[ZIC4](ZIC4)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|
713	713	\|[ZMYM4](ZMYM4)\|3\|[Fan et al](papers/fanComprehensiveCharacterizationDriver2020b)[@fanComprehensiveCharacterizationDriver2020b]\|\|\|
714	714	\|[ZNF354A](ZNF354A)\|3\|[Zhang et al](papers/zhangGeneticHeterogeneityDiffuse2013)[@zhangGeneticHeterogeneityDiffuse2013]\|\|\|

...	...	@@ -19,8 +19,8 @@ To get started, select one of the gene lists from the table below then select th
19	19	\|Entity\|Tier 1 (high-confidence)\|Tier 2 (low-confidence)\|Tier 3 (retired) \|
20	20	\|:-:\|:-:\|:-:\|:-:\|
21	21	\|BL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/bl_genes.tsv)\|[29 genes](BL_genes#tier-1-bl-genes)\|[75 genes](BL_genes#tier-2-bl-genes)\|[70 genes](BL_genes#tier-3-bl-genes)\|
22		-\|DLBCL [(tsv)](https://github.com/morinlab/LLMPP/blob/main/resources/curated/dlbcl_genes.tsv)\|[128 genes](DLBCL_genes#tier-1-dlbcl-genes)\|[178 genes](DLBCL_genes#tier-2-dlbcl-genes)\|[385 genes](DLBCL_genes#tier-3-dlbcl-genes)\|
23		-\|FL [(tsv)](https://github.com/morinlab/LLMPP/blob/main/resources/curated/fl_genes.tsv)\|[66 genes](FL_genes#tier-1-fl-genes)\|[49 genes](FL_genes#tier-2-fl-genes)\|[0 genes](FL_genes#tier-3-fl-genes)\|
	22	+\|DLBCL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/dlbcl_genes.tsv)\|[124 genes](DLBCL_genes#tier-1-dlbcl-genes)\|[181 genes](DLBCL_genes#tier-2-dlbcl-genes)\|[386 genes](DLBCL_genes#tier-3-dlbcl-genes)\|
	23	+\|FL [(tsv)](https://raw.githubusercontent.com/morinlab/LLMPP/main/resources/curated/fl_genes.tsv)\|[66 genes](FL_genes#tier-1-fl-genes)\|[49 genes](FL_genes#tier-2-fl-genes)\|[0 genes](FL_genes#tier-3-fl-genes)\|
24	24
25	25
26	26	### History of lymphoma genes in common entities