fc26a6fea468c88ad3847c4e9b974161b956bf0f
EP300.md
| ... | ... | @@ -41,13 +41,7 @@ timeline |
| 41 | 41 | |
| 42 | 42 | ## Mutation pattern and selective pressure estimates |
| 43 | 43 | |
| 44 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 45 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 46 | -|BL |No |No | 2.769 |3.550 | |
|
| 47 | -|DLBCL |No |No | 3.344 |7.980 | |
|
| 48 | -|FL |No |Yes |15.586 |7.719 | |
|
| 49 | - |
|
| 50 | - |
|
| 44 | +[[include:dnds_EP300.md]] |
|
| 51 | 45 | |
| 52 | 46 | ## EP300 Hotspots |
| 53 | 47 |
ETS1.md
| ... | ... | @@ -43,11 +43,7 @@ timeline |
| 43 | 43 | |
| 44 | 44 | ## Mutation pattern and selective pressure estimates |
| 45 | 45 | |
| 46 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 47 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 48 | -|DLBCL |Yes |No |2.987 | 0.000 | |
|
| 49 | -|FL |Yes |No |5.163 |25.463 | |
|
| 50 | -|BL |Yes |No |5.097 |18.417 | |
|
| 46 | +[[include:dnds_ETS1.md]] |
|
| 51 | 47 | |
| 52 | 48 | ## aSHM regions |
| 53 | 49 |
ETV6.md
| ... | ... | @@ -38,11 +38,7 @@ timeline |
| 38 | 38 | |
| 39 | 39 | ## Mutation pattern and selective pressure estimates |
| 40 | 40 | |
| 41 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 42 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 43 | -|BL |Yes |No |1.527 | 0.000 | |
|
| 44 | -|DLBCL |Yes |Yes |2.366 |28.723 | |
|
| 45 | -|FL |Yes |No |2.772 | 0.000 | |
|
| 41 | +[[include:dnds_ETV6.md]] |
|
| 46 | 42 | |
| 47 | 43 | ## aSHM regions |
| 48 | 44 |
EZH2.md
| ... | ... | @@ -50,14 +50,7 @@ timeline |
| 50 | 50 | |
| 51 | 51 | ## Mutation pattern and selective pressure estimates |
| 52 | 52 | |
| 53 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 54 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 55 | -|BL |No |No | 4.992 |0 | |
|
| 56 | -|DLBCL |No |Yes | 19.753 |0 | |
|
| 57 | -|FL |No |Yes |117.987 |0 | |
|
| 58 | - |
|
| 59 | - |
|
| 60 | - |
|
| 53 | +[[include:dnds_EZH2.md]] |
|
| 61 | 54 | |
| 62 | 55 | ## EZH2 Hotspots |
| 63 | 56 |
FAS.md
| ... | ... | @@ -42,12 +42,7 @@ timeline |
| 42 | 42 | |
| 43 | 43 | ## Mutation pattern and selective pressure estimates |
| 44 | 44 | |
| 45 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 46 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 47 | -|BL |No |No | 6.699 | 0.000 | |
|
| 48 | -|DLBCL |No |Yes |16.878 |179.289 | |
|
| 49 | -|FL |No |Yes | 0.000 |176.866 | |
|
| 50 | - |
|
| 45 | +[[include:dnds_FAS.md]] |
|
| 51 | 46 | |
| 52 | 47 | View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/FAS_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/FAS_protein_hg38.html) |
| 53 | 48 |
GRB2.md
| ... | ... | @@ -31,12 +31,7 @@ timeline |
| 31 | 31 | |
| 32 | 32 | ## Mutation pattern and selective pressure estimates |
| 33 | 33 | |
| 34 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 35 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 36 | -|DLBCL |No |Yes |33.029 |168.982 | |
|
| 37 | -|FL |No |No | 8.575 | 0.000 | |
|
| 38 | - |
|
| 39 | - |
|
| 34 | +[[include:dnds_GRB2.md]] |
|
| 40 | 35 | |
| 41 | 36 | View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/GRB2_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/GRB2_protein_hg38.html) |
| 42 | 37 |
GRHPR.md
| ... | ... | @@ -28,11 +28,7 @@ timeline |
| 28 | 28 | |
| 29 | 29 | ## Mutation pattern and selective pressure estimates |
| 30 | 30 | |
| 31 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 32 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 33 | -|BL |Yes |No | 1.819 | 0.000 | |
|
| 34 | -|DLBCL |Yes |Yes |10.245 |60.346 | |
|
| 35 | -|FL |Yes |No | 0.000 | 0.000 | |
|
| 31 | +[[include:dnds_GRHPR.md]] |
|
| 36 | 32 | |
| 37 | 33 | ## aSHM regions |
| 38 | 34 |
HIST1H1B.md
| ... | ... | @@ -28,25 +28,18 @@ timeline |
| 28 | 28 | |
| 29 | 29 | ## Mutation incidence in large patient cohorts (GAMBL reanalysis) |
| 30 | 30 | |
| 31 | -|Entity|source |frequency (%)| |
|
| 32 | -|:------:|:---------------------:|:-------------:| |
|
| 33 | -|BL |GAMBL genomes+capture|4.62 | |
|
| 34 | -|BL |Thomas cohort |5.50 | |
|
| 35 | -|BL |Panea cohort |4.00 | |
|
| 36 | -|DLBCL |GAMBL genomes |8.41 | |
|
| 37 | -|DLBCL |Schmitz cohort |8.51 | |
|
| 38 | -|DLBCL |Reddy cohort |7.31 | |
|
| 39 | -|DLBCL |Chapuy cohort |9.83 | |
|
| 40 | -|FL |GAMBL genomes |5.54 | |
|
| 31 | +### DLBCL |
|
| 32 | +[[include:DLBCL_HIST1H1B.md]] |
|
| 41 | 33 | |
| 42 | -## Mutation pattern and selective pressure estimates |
|
| 34 | +### FL |
|
| 35 | +[[include:FL_HIST1H1B.md]] |
|
| 36 | + |
|
| 37 | +### BL |
|
| 38 | +[[include:BL_HIST1H1B.md]] |
|
| 43 | 39 | |
| 44 | -|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)| |
|
| 45 | -|:------:|:----:|:---------------------:|:----------------:|:----------------:| |
|
| 46 | -|BL |No |Yes | 6.345 |34.135 | |
|
| 47 | -|DLBCL |No |Yes | 5.595 | 0.000 | |
|
| 48 | -|FL |No |No |19.175 | 0.000 | |
|
| 40 | +## Mutation pattern and selective pressure estimates |
|
| 49 | 41 | |
| 42 | +[[include:dnds_HIST1H1B.md]] |
|
| 50 | 43 | |
| 51 | 44 | |
| 52 | 45 | View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/HIST1H1B_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/HIST1H1B_protein_hg38.html) |