Changes in 2df8092: add incidence

				EEF1A1.md
			
          @@ -30,13 +30,8 @@ timeline

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          -|Entity|source        |frequency (%)|

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

          -|DLBCL |GAMBL genomes | 4.78        |

          -|DLBCL |Schmitz cohort| 2.98        |

          -|DLBCL |Reddy cohort  | 2.50        |

          -|DLBCL |Chapuy cohort | 4.70        |

          -|FL    |GAMBL genomes |11.32        |

          +[[include:DLBCL_EEF1A1.md]]

          +[[include:FL_EEF1A1.md]]

           ## Mutation pattern and selective pressure estimates

				EP300.md
			
          @@ -31,21 +31,13 @@ timeline

           |Entity|Tier|Description                           |

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

           |![MZL](images/icons/MZL_tier1.png)|1|high-confidence MZL gene[@rossiCodingGenomeSplenic2012]|

          -|![DLBCL](images/icons/DLBCL_tier1.png) |1-EE   |high-confidence DLBCL gene supported by functional data           [@pasqualucciInactivatingMutationsAcetyltransferase2011]|

          -|![FL](images/icons/FL_tier1.png)    |1-EE   |high-confidence FL gene supported by functional data              [@pasqualucciInactivatingMutationsAcetyltransferase2011]|

          +|![DLBCL](images/icons/DLBCL_tier1.png) |1   |high-confidence DLBCL gene supported by functional data           [@pasqualucciInactivatingMutationsAcetyltransferase2011]|

          +|![FL](images/icons/FL_tier1.png)    |1   |high-confidence FL gene supported by functional data              [@pasqualucciInactivatingMutationsAcetyltransferase2011]|

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          -|Entity|source               |frequency (%)|

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

          -|BL    |GAMBL genomes+capture| 4.62        |

          -|BL    |Thomas cohort        | 4.20        |

          -|BL    |Panea cohort         | 7.90        |

          -|DLBCL |GAMBL genomes        |11.85        |

          -|DLBCL |Schmitz cohort       | 9.79        |

          -|DLBCL |Reddy cohort         | 7.11        |

          -|DLBCL |Chapuy cohort        | 8.12        |

          -|FL    |GAMBL genomes        |12.47        |

          +[[include:DLBCL_EP300.md]]

          +[[include:FL_EP300.md]]

           ## Mutation pattern and selective pressure estimates

				ETS1.md
			
          @@ -38,15 +38,8 @@ timeline

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          -|Entity|source               |frequency (%)|

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

          -|DLBCL |GAMBL genomes        | 4.59        |

          -|DLBCL |Schmitz cohort       | 7.87        |

          -|DLBCL |Reddy cohort         | 4.40        |

          -|DLBCL |Chapuy cohort        | 5.56        |

          -|BL    |GAMBL genomes+capture| 7.62        |

          -|BL    |Thomas cohort        | 7.60        |

          -|BL    |Panea cohort         |11.90        |

          +[[include:DLBCL_ETS1.md]]

          +[[include:FL_ETS1.md]]

           ## Mutation pattern and selective pressure estimates

				ETV6.md
			
          @@ -34,12 +34,7 @@ timeline

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          -|Entity|source        |frequency (%)|

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

          -|DLBCL |GAMBL genomes | 4.97        |

          -|DLBCL |Schmitz cohort|10.43        |

          -|DLBCL |Reddy cohort  | 5.81        |

          -|DLBCL |Chapuy cohort |10.26        |

          +[[include:DLBCL_ETV6.md]]

           ## Mutation pattern and selective pressure estimates

				EZH2.md
			
          @@ -44,16 +44,9 @@ timeline

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          -|Entity|source               |frequency (%)|

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

          -|BL    |GAMBL genomes+capture| 3.46        |

          -|BL    |Thomas cohort        | 1.30        |

          -|BL    |Panea cohort         |10.90        |

          -|DLBCL |GAMBL genomes        |13.77        |

          -|DLBCL |Schmitz cohort       | 9.15        |

          -|DLBCL |Reddy cohort         | 8.91        |

          -|DLBCL |Chapuy cohort        | 5.56        |

          -|FL    |GAMBL genomes        |24.94        |

          +

          +[[include:DLBCL_EZH2.md]]

          +[[include:FL_EZH2.md]]

           ## Mutation pattern and selective pressure estimates

...	...	@@ -30,13 +30,8 @@ timeline
30	30
31	31	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
32	32
33		-\|Entity\|source \|frequency (%)\|
34		-\|:------:\|:--------------:\|:-------------:\|
35		-\|DLBCL \|GAMBL genomes \| 4.78 \|
36		-\|DLBCL \|Schmitz cohort\| 2.98 \|
37		-\|DLBCL \|Reddy cohort \| 2.50 \|
38		-\|DLBCL \|Chapuy cohort \| 4.70 \|
39		-\|FL \|GAMBL genomes \|11.32 \|
	33	+[[include:DLBCL_EEF1A1.md]]
	34	+[[include:FL_EEF1A1.md]]
40	35
41	36	## Mutation pattern and selective pressure estimates
42	37

...	...	@@ -31,21 +31,13 @@ timeline
31	31	\|Entity\|Tier\|Description \|
32	32	\|:------:\|:----:\|--------------------------------------\|
33	33	\|![MZL](images/icons/MZL_tier1.png)\|1\|high-confidence MZL gene[@rossiCodingGenomeSplenic2012]\|
34		-\|![DLBCL](images/icons/DLBCL_tier1.png) \|1-EE \|high-confidence DLBCL gene supported by functional data [@pasqualucciInactivatingMutationsAcetyltransferase2011]\|
35		-\|![FL](images/icons/FL_tier1.png) \|1-EE \|high-confidence FL gene supported by functional data [@pasqualucciInactivatingMutationsAcetyltransferase2011]\|
	34	+\|![DLBCL](images/icons/DLBCL_tier1.png) \|1 \|high-confidence DLBCL gene supported by functional data [@pasqualucciInactivatingMutationsAcetyltransferase2011]\|
	35	+\|![FL](images/icons/FL_tier1.png) \|1 \|high-confidence FL gene supported by functional data [@pasqualucciInactivatingMutationsAcetyltransferase2011]\|
36	36
37	37	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
38	38
39		-\|Entity\|source \|frequency (%)\|
40		-\|:------:\|:---------------------:\|:-------------:\|
41		-\|BL \|GAMBL genomes+capture\| 4.62 \|
42		-\|BL \|Thomas cohort \| 4.20 \|
43		-\|BL \|Panea cohort \| 7.90 \|
44		-\|DLBCL \|GAMBL genomes \|11.85 \|
45		-\|DLBCL \|Schmitz cohort \| 9.79 \|
46		-\|DLBCL \|Reddy cohort \| 7.11 \|
47		-\|DLBCL \|Chapuy cohort \| 8.12 \|
48		-\|FL \|GAMBL genomes \|12.47 \|
	39	+[[include:DLBCL_EP300.md]]
	40	+[[include:FL_EP300.md]]
49	41
50	42	## Mutation pattern and selective pressure estimates
51	43

...	...	@@ -38,15 +38,8 @@ timeline
38	38
39	39	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
40	40
41		-\|Entity\|source \|frequency (%)\|
42		-\|:------:\|:---------------------:\|:-------------:\|
43		-\|DLBCL \|GAMBL genomes \| 4.59 \|
44		-\|DLBCL \|Schmitz cohort \| 7.87 \|
45		-\|DLBCL \|Reddy cohort \| 4.40 \|
46		-\|DLBCL \|Chapuy cohort \| 5.56 \|
47		-\|BL \|GAMBL genomes+capture\| 7.62 \|
48		-\|BL \|Thomas cohort \| 7.60 \|
49		-\|BL \|Panea cohort \|11.90 \|
	41	+[[include:DLBCL_ETS1.md]]
	42	+[[include:FL_ETS1.md]]
50	43
51	44	## Mutation pattern and selective pressure estimates
52	45

...	...	@@ -34,12 +34,7 @@ timeline
34	34
35	35	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
36	36
37		-\|Entity\|source \|frequency (%)\|
38		-\|:------:\|:--------------:\|:-------------:\|
39		-\|DLBCL \|GAMBL genomes \| 4.97 \|
40		-\|DLBCL \|Schmitz cohort\|10.43 \|
41		-\|DLBCL \|Reddy cohort \| 5.81 \|
42		-\|DLBCL \|Chapuy cohort \|10.26 \|
	37	+[[include:DLBCL_ETV6.md]]
43	38
44	39	## Mutation pattern and selective pressure estimates
45	40

...	...	@@ -44,16 +44,9 @@ timeline
44	44
45	45	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
46	46
47		-\|Entity\|source \|frequency (%)\|
48		-\|:------:\|:---------------------:\|:-------------:\|
49		-\|BL \|GAMBL genomes+capture\| 3.46 \|
50		-\|BL \|Thomas cohort \| 1.30 \|
51		-\|BL \|Panea cohort \|10.90 \|
52		-\|DLBCL \|GAMBL genomes \|13.77 \|
53		-\|DLBCL \|Schmitz cohort \| 9.15 \|
54		-\|DLBCL \|Reddy cohort \| 8.91 \|
55		-\|DLBCL \|Chapuy cohort \| 5.56 \|
56		-\|FL \|GAMBL genomes \|24.94 \|
	47	+
	48	+[[include:DLBCL_EZH2.md]]
	49	+[[include:FL_EZH2.md]]
57	50
58	51	## Mutation pattern and selective pressure estimates
59	52