POU2F2.md
... ...
@@ -33,14 +33,7 @@ timeline
33 33
34 34
## Mutation pattern and selective pressure estimates
35 35
36
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
37
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
38
-|BL |No |No | 3.431 | 0.000 |
39
-|DLBCL |No |Yes |12.445 |51.943 |
40
-|FL |No |No |17.646 | 0.000 |
41
-
42
-
43
-
36
+[[include:dnds_POU2F2.md]]
44 37
45 38
## POU2F2 Hotspots
46 39
PRDM1.md
... ...
@@ -31,14 +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
-|BL |No |No |0.746 | 0.000 |
37
-|DLBCL |No |Yes |4.912 |23.497 |
38
-|FL |No |No |0.000 | 0.000 |
39
-
40
-
41
-
34
+[[include:dnds_PRDM1.md]]
42 35
43 36
## PRDM1 Hotspots
44 37
PTPN6.md
... ...
@@ -25,13 +25,7 @@ timeline
25 25
26 26
## Mutation pattern and selective pressure estimates
27 27
28
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
29
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
30
-|BL |No |No |0.000 | 0.000 |
31
-|DLBCL |No |No |5.433 |14.931 |
32
-|FL |No |No |0.000 | 0.000 |
33
-
34
-
28
+[[include:dnds_PTPN6.md]]
35 29
36 30
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/PTPN6_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/PTPN6_protein_hg38.html)
37 31
RB1.md
... ...
@@ -30,14 +30,7 @@ timeline
30 30
31 31
## Mutation pattern and selective pressure estimates
32 32
33
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
34
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
35
-|BL |No |No |1.029 | 6.855 |
36
-|DLBCL |No |Yes |0.933 |17.514 |
37
-|FL |No |No |1.890 | 0.000 |
38
-
39
-
40
-
33
+[[include:dnds_RB1.md]]
41 34
42 35
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/RB1_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/RB1_protein_hg38.html)
43 36
S1PR2.md
... ...
@@ -40,11 +40,7 @@ timeline
40 40
41 41
## Mutation pattern and selective pressure estimates
42 42
43
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
44
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
45
-|BL |Yes |No | 0.000 | 0.000 |
46
-|DLBCL |Yes |Yes |34.147 | 0.000 |
47
-|FL |Yes |Yes |36.780 |339.679 |
43
+[[include:dnds_S1PR2.md]]
48 44
49 45
## aSHM regions
50 46
SETD1B.md
... ...
@@ -27,12 +27,7 @@ timeline
27 27
28 28
## Mutation pattern and selective pressure estimates
29 29
30
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
31
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
32
-|BL |No |No |0.000 | 0.000 |
33
-|DLBCL |No |No |2.645 | 24.278 |
34
-|FL |No |Yes |4.979 |128.132 |
35
-
30
+[[include:dnds_SETD1B.md]]
36 31
37 32
## SETD1B Hotspots
38 33
SF3B1.md
... ...
@@ -31,14 +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
-|BL |No |No |2.277 |0.000 |
37
-|DLBCL |No |No |3.245 |7.004 |
38
-|FL |No |No |2.408 |0.000 |
39
-
40
-
41
-
34
+[[include:dnds_SF3B1.md]]
42 35
43 36
## SF3B1 Hotspots
44 37
SGK1.md
... ...
@@ -32,16 +32,12 @@ timeline
32 32
33 33
## Mutation incidence in large patient cohorts (GAMBL reanalysis)
34 34
35
-[[include:DLBCL_SOCS1.md]]
36
-[[include:FL_SOCS1.md]]
35
+[[include:DLBCL_SGK1.md]]
36
+[[include:FL_SGK1.md]]
37 37
38 38
## Mutation pattern and selective pressure estimates
39 39
40
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
41
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
42
-|BL |Yes |No | 5.451 | 7.487 |
43
-|DLBCL |Yes |Yes | 6.056 | 13.755 |
44
-|FL |Yes |Yes |23.198 |134.356 |
40
+[[include:dnds_SGK1.md]]
45 41
46 42
## aSHM regions
47 43
SOCS1.md
... ...
@@ -37,11 +37,7 @@ timeline
37 37
38 38
## Mutation pattern and selective pressure estimates
39 39
40
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
41
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
42
-|BL |Yes |No | 4.476 | 0.000 |
43
-|DLBCL |Yes |Yes | 5.023 | 17.509 |
44
-|FL |Yes |Yes |21.460 |123.344 |
40
+[[include:dnds_SOCS1.md]]
45 41
46 42
## aSHM regions
47 43
SPEN.md
... ...
@@ -36,14 +36,7 @@ timeline
36 36
37 37
## Mutation pattern and selective pressure estimates
38 38
39
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
40
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
41
-|BL |No |No |1.456 | 0.000 |
42
-|DLBCL |No |No |0.900 |13.083 |
43
-|FL |No |No |1.765 |25.228 |
44
-
45
-
46
-
39
+[[include:dnds_SPEN.md]]
47 40
48 41
## SPEN Hotspots
49 42
STAT3.md
... ...
@@ -34,13 +34,7 @@ timeline
34 34
35 35
## Mutation pattern and selective pressure estimates
36 36
37
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
38
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
39
-|BL |No |No | 0.000 | 0.000 |
40
-|DLBCL |No |Yes |27.471 |12.427 |
41
-|FL |No |No |34.737 | 0.000 |
42
-
43
-
37
+[[include:dnds_STAT3.md]]
44 38
45 39
## STAT3 Hotspots
46 40
STAT6.md
... ...
@@ -41,14 +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 | 3.301 |0 |
47
-|DLBCL |No |No | 11.582 |0 |
48
-|FL |No |Yes |116.612 |0 |
49
-
50
-
51
-
44
+[[include:dnds_STAT6.md]]
52 45
53 46
## STAT6 Hotspots
54 47
TAF1.md
... ...
@@ -29,13 +29,7 @@ timeline
29 29
30 30
## Mutation pattern and selective pressure estimates
31 31
32
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
33
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
34
-|BL |No |No |0.410 |0 |
35
-|DLBCL |No |No |5.884 |0 |
36
-|FL |No |No |8.661 |0 |
37
-
38
-
32
+[[include:dnds_TAF1.md]]
39 33
40 34
41 35
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/TAF1_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/TAF1_protein_hg38.html)
TBL1XR1.md
... ...
@@ -38,12 +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 |No |Yes |17.892 |29.577 |
44
-|DLBCL |No |Yes |24.811 |24.179 |
45
-|FL |No |No |12.400 |18.940 |
46
-
41
+[[include:dnds_TBL1XR1.md]]
47 42
48 43
## TBL1XR1 Hotspots
49 44
TET2.md
... ...
@@ -29,14 +29,7 @@ timeline
29 29
30 30
## Mutation pattern and selective pressure estimates
31 31
32
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
33
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
34
-|BL |No |Yes |1.516 |25.932 |
35
-|DLBCL |No |Yes |0.663 |12.181 |
36
-|FL |No |No |0.892 |10.949 |
37
-
38
-
39
-
32
+[[include:dnds_TET2.md]]
40 33
41 34
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/TET2_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/TET2_protein_hg38.html)
42 35
TMEM30A.md
... ...
@@ -32,12 +32,7 @@ timeline
32 32
33 33
## Mutation pattern and selective pressure estimates
34 34
35
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
36
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
37
-|BL |No |No |4.270 | 46.360 |
38
-|DLBCL |No |Yes |0.000 |221.848 |
39
-|FL |No |No |5.098 | 0.000 |
40
-
35
+[[include:dnds_TMEM30A.md]]
41 36
42 37
43 38
## TMEM30A Hotspots
TMSB4X.md
... ...
@@ -36,11 +36,7 @@ timeline
36 36
37 37
## Mutation pattern and selective pressure estimates
38 38
39
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
40
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
41
-|BL |Yes |No | 0.000 | 0.000 |
42
-|DLBCL |Yes |Yes |23.522 |254.537 |
43
-|FL |Yes |Yes |60.545 |310.498 |
39
+[[include:dnds_TMSB4X.md]]
44 40
45 41
## aSHM regions
46 42
TNFAIP3.md
... ...
@@ -34,13 +34,7 @@ timeline
34 34
35 35
## Mutation pattern and selective pressure estimates
36 36
37
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
38
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
39
-|BL |No |No |1.168 |16.846 |
40
-|DLBCL |No |Yes |1.550 |30.319 |
41
-|FL |No |No |5.686 |75.953 |
42
-
43
-
37
+[[include:dnds_TNFAIP3.md]]
44 38
45 39
## TNFAIP3 Hotspots
46 40
TNFRSF14.md
... ...
@@ -35,13 +35,7 @@ timeline
35 35
36 36
## Mutation pattern and selective pressure estimates
37 37
38
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
39
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
40
-|BL |No |No | 1.388 | 34.410 |
41
-|DLBCL |No |Yes |32.541 | 207.456 |
42
-|FL |No |Yes |96.380 |1034.281 |
43
-
44
-
38
+[[include:dnds_TNFRSF14.md]]
45 39
46 40
## TNFRSF14 Hotspots
47 41
TOX.md
... ...
@@ -28,14 +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 |No |No |1.503 |17.955 |
34
-|DLBCL |No |No |3.481 |12.292 |
35
-|FL |No |No |1.975 |21.081 |
36
-
37
-
38
-
31
+[[include:dnds_TOX.md]]
39 32
40 33
## TOX Hotspots
41 34
UBE2A.md
... ...
@@ -33,13 +33,7 @@ timeline
33 33
34 34
## Mutation pattern and selective pressure estimates
35 35
36
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
37
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
38
-|BL |No |No | 0.000 |0 |
39
-|DLBCL |No |Yes |26.609 |0 |
40
-|FL |No |No |51.360 |0 |
41
-
42
-
36
+[[include:dnds_UBE2A.md]]
43 37
44 38
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/UBE2A_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/UBE2A_protein_hg38.html)
45 39
WEE1.md
... ...
@@ -30,11 +30,7 @@ timeline
30 30
31 31
## Mutation pattern and selective pressure estimates
32 32
33
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
34
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
35
-|BL |Yes |No |4.336 | 0.000 |
36
-|DLBCL |Yes |Yes |8.073 |15.059 |
37
-|FL |Yes |No |4.041 | 0.000 |
33
+[[include:dnds_WEE1.md]]
38 34
39 35
## aSHM regions
40 36
XPO1.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
-|BL |No |No |1.028 |0 |
37
-|DLBCL |No |No |9.927 |0 |
38
-|FL |No |No |0.000 |0 |
39
-
34
+[[include:dnds_XPO1.md]]
40 35
41 36
## XPO1 Hotspots
42 37
ZC3H12A.md
... ...
@@ -30,13 +30,7 @@ timeline
30 30
31 31
## Mutation pattern and selective pressure estimates
32 32
33
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
34
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
35
-|BL |No |No |0.000 | 0.000 |
36
-|DLBCL |No |No |2.488 |18.944 |
37
-|FL |No |No |0.000 | 0.000 |
38
-
39
-
33
+[[include:dnds_ZC3H12A.md]]
40 34
41 35
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/ZC3H12A_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/ZC3H12A_protein_hg38.html)
42 36
ZFP36L1.md
... ...
@@ -39,11 +39,7 @@ timeline
39 39
40 40
## Mutation pattern and selective pressure estimates
41 41
42
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
43
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
44
-|BL |Yes |Yes |2.453 |185.809 |
45
-|DLBCL |Yes |Yes |1.293 | 14.964 |
46
-|FL |Yes |Yes |7.622 |419.109 |
42
+[[include:dnds_ZFP36L1.md]]
47 43
48 44
## aSHM regions
49 45
ZNF292.md
... ...
@@ -26,14 +26,7 @@ timeline
26 26
27 27
## Mutation pattern and selective pressure estimates
28 28
29
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
30
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
31
-|BL |No |No |1.036 | 2.462 |
32
-|DLBCL |No |No |1.272 |11.022 |
33
-|FL |No |No |2.049 | 0.000 |
34
-
35
-
36
-
29
+[[include:dnds_ZNF292.md]]
37 30
38 31
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/ZNF292_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/ZNF292_protein_hg38.html)
39 32
ZNF608.md
... ...
@@ -29,14 +29,7 @@ timeline
29 29
30 30
## Mutation pattern and selective pressure estimates
31 31
32
-|Entity|aSHM|Significant selection|dN/dS (missense)|dN/dS (nonsense)|
33
-|:------:|:----:|:---------------------:|:----------------:|:----------------:|
34
-|BL |No |No |0.986 |0.000 |
35
-|DLBCL |No |No |1.714 |3.638 |
36
-|FL |No |No |1.867 |4.218 |
37
-
38
-
39
-
32
+[[include:dnds_ZNF608.md]]
40 33
41 34
View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/ZNF608_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/ZNF608_protein_hg38.html)
42 35