This pipeline computes the correlation between significantly recurrent gene mutations and molecular subtypes.
Testing the association between mutation status of 11 genes and 10 molecular subtypes across 57 patients, 4 significant findings detected with P value < 0.05 and Q value < 0.25.
-
KRAS mutation correlated to 'MRNASEQ_CHIERARCHICAL'.
-
PTEN mutation correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
Clinical Features |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
nMutated (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
PTEN | 11 (19%) | 46 |
0.0936 (0.497) |
9e-05 (0.0099) |
0.333 (0.774) |
0.0188 (0.296) |
0.00188 (0.103) |
0.0451 (0.497) |
0.0964 (0.497) |
0.0614 (0.497) |
0.004 (0.147) |
0.0134 (0.261) |
KRAS | 7 (12%) | 50 |
0.102 (0.497) |
0.0143 (0.261) |
0.423 (0.837) |
0.201 (0.644) |
0.0318 (0.435) |
0.00624 (0.172) |
0.464 (0.895) |
0.0917 (0.497) |
0.311 (0.774) |
0.058 (0.497) |
TP53 | 51 (89%) | 6 |
0.569 (0.941) |
0.631 (0.97) |
0.746 (0.981) |
0.138 (0.595) |
0.877 (1.00) |
0.513 (0.911) |
1 (1.00) |
0.913 (1.00) |
1 (1.00) |
1 (1.00) |
FBXW7 | 22 (39%) | 35 |
0.262 (0.758) |
0.722 (0.97) |
0.15 (0.595) |
0.168 (0.617) |
0.631 (0.97) |
0.103 (0.497) |
0.473 (0.897) |
0.932 (1.00) |
1 (1.00) |
0.776 (0.981) |
PPP2R1A | 16 (28%) | 41 |
0.76 (0.981) |
0.705 (0.97) |
0.695 (0.97) |
0.499 (0.911) |
0.591 (0.957) |
0.672 (0.97) |
0.571 (0.941) |
0.317 (0.774) |
0.699 (0.97) |
0.235 (0.698) |
RB1 | 6 (11%) | 51 |
0.225 (0.689) |
0.0932 (0.497) |
0.62 (0.97) |
0.313 (0.774) |
0.08 (0.497) |
0.0992 (0.497) |
0.835 (1.00) |
0.861 (1.00) |
0.865 (1.00) |
1 (1.00) |
ZBTB7B | 6 (11%) | 51 |
0.723 (0.97) |
0.939 (1.00) |
0.305 (0.774) |
0.378 (0.785) |
1 (1.00) |
0.915 (1.00) |
0.0987 (0.497) |
0.147 (0.595) |
0.481 (0.897) |
0.163 (0.617) |
PIK3R1 | 6 (11%) | 51 |
1 (1.00) |
0.939 (1.00) |
0.573 (0.941) |
0.775 (0.981) |
0.544 (0.941) |
0.704 (0.97) |
0.426 (0.837) |
0.506 (0.911) |
1 (1.00) |
0.305 (0.774) |
ARHGAP35 | 6 (11%) | 51 |
0.568 (0.941) |
0.331 (0.774) |
0.695 (0.97) |
0.345 (0.774) |
1 (1.00) |
0.401 (0.818) |
1 (1.00) |
0.191 (0.644) |
1 (1.00) |
0.177 (0.629) |
PIK3CA | 20 (35%) | 37 |
0.637 (0.97) |
0.902 (1.00) |
0.205 (0.644) |
0.294 (0.774) |
0.364 (0.777) |
0.367 (0.777) |
0.11 (0.506) |
0.339 (0.774) |
0.193 (0.644) |
0.271 (0.764) |
MAMLD1 | 4 (7%) | 53 |
1 (1.00) |
0.903 (1.00) |
0.104 (0.497) |
0.0356 (0.435) |
0.683 (0.97) |
0.769 (0.981) |
0.0656 (0.497) |
0.676 (0.97) |
0.152 (0.595) |
0.36 (0.777) |
P value = 0.569 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
TP53 MUTATED | 17 | 19 | 14 |
TP53 WILD-TYPE | 1 | 2 | 3 |
P value = 0.631 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
TP53 MUTATED | 12 | 8 | 8 | 12 | 11 |
TP53 WILD-TYPE | 0 | 1 | 2 | 1 | 2 |
P value = 0.746 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
TP53 MUTATED | 10 | 10 | 13 | 10 |
TP53 WILD-TYPE | 0 | 2 | 2 | 1 |
P value = 0.138 (Fisher's exact test), Q value = 0.6
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
TP53 MUTATED | 9 | 8 | 7 | 6 | 6 | 4 | 3 |
TP53 WILD-TYPE | 0 | 0 | 0 | 1 | 1 | 1 | 2 |
P value = 0.877 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
TP53 MUTATED | 14 | 18 | 10 | 9 |
TP53 WILD-TYPE | 1 | 2 | 2 | 1 |
P value = 0.513 (Fisher's exact test), Q value = 0.91
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
TP53 MUTATED | 11 | 3 | 8 | 5 | 7 | 5 | 12 |
TP53 WILD-TYPE | 0 | 1 | 0 | 1 | 1 | 1 | 2 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
TP53 MUTATED | 10 | 20 | 4 | 17 |
TP53 WILD-TYPE | 1 | 2 | 0 | 2 |
P value = 0.913 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
TP53 MUTATED | 21 | 8 | 16 | 6 |
TP53 WILD-TYPE | 3 | 0 | 2 | 0 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
TP53 MUTATED | 12 | 21 | 18 |
TP53 WILD-TYPE | 1 | 2 | 2 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
TP53 MUTATED | 22 | 7 | 15 | 7 |
TP53 WILD-TYPE | 3 | 0 | 2 | 0 |
P value = 0.262 (Fisher's exact test), Q value = 0.76
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
FBXW7 MUTATED | 9 | 9 | 4 |
FBXW7 WILD-TYPE | 9 | 12 | 13 |
P value = 0.722 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
FBXW7 MUTATED | 6 | 4 | 4 | 3 | 5 |
FBXW7 WILD-TYPE | 6 | 5 | 6 | 10 | 8 |
P value = 0.15 (Fisher's exact test), Q value = 0.6
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
FBXW7 MUTATED | 4 | 2 | 7 | 7 |
FBXW7 WILD-TYPE | 6 | 10 | 8 | 4 |
P value = 0.168 (Fisher's exact test), Q value = 0.62
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
FBXW7 MUTATED | 4 | 4 | 1 | 3 | 5 | 3 | 0 |
FBXW7 WILD-TYPE | 5 | 4 | 6 | 4 | 2 | 2 | 5 |
P value = 0.631 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
FBXW7 MUTATED | 7 | 8 | 5 | 2 |
FBXW7 WILD-TYPE | 8 | 12 | 7 | 8 |
P value = 0.103 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
FBXW7 MUTATED | 4 | 4 | 5 | 2 | 2 | 2 | 3 |
FBXW7 WILD-TYPE | 7 | 0 | 3 | 4 | 6 | 4 | 11 |
P value = 0.473 (Fisher's exact test), Q value = 0.9
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
FBXW7 MUTATED | 5 | 8 | 3 | 6 |
FBXW7 WILD-TYPE | 6 | 14 | 1 | 13 |
P value = 0.932 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
FBXW7 MUTATED | 9 | 4 | 7 | 2 |
FBXW7 WILD-TYPE | 15 | 4 | 11 | 4 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
FBXW7 MUTATED | 5 | 9 | 8 |
FBXW7 WILD-TYPE | 8 | 14 | 12 |
P value = 0.776 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
FBXW7 MUTATED | 9 | 4 | 6 | 3 |
FBXW7 WILD-TYPE | 16 | 3 | 11 | 4 |
P value = 0.76 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
PPP2R1A MUTATED | 4 | 7 | 5 |
PPP2R1A WILD-TYPE | 14 | 14 | 12 |
P value = 0.705 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
PPP2R1A MUTATED | 4 | 3 | 4 | 3 | 2 |
PPP2R1A WILD-TYPE | 8 | 6 | 6 | 10 | 11 |
P value = 0.695 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
PPP2R1A MUTATED | 4 | 2 | 4 | 3 |
PPP2R1A WILD-TYPE | 6 | 10 | 11 | 8 |
P value = 0.499 (Fisher's exact test), Q value = 0.91
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
PPP2R1A MUTATED | 3 | 1 | 3 | 3 | 1 | 2 | 0 |
PPP2R1A WILD-TYPE | 6 | 7 | 4 | 4 | 6 | 3 | 5 |
P value = 0.591 (Fisher's exact test), Q value = 0.96
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
PPP2R1A MUTATED | 6 | 5 | 2 | 3 |
PPP2R1A WILD-TYPE | 9 | 15 | 10 | 7 |
P value = 0.672 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
PPP2R1A MUTATED | 4 | 1 | 4 | 1 | 2 | 2 | 2 |
PPP2R1A WILD-TYPE | 7 | 3 | 4 | 5 | 6 | 4 | 12 |
P value = 0.571 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
PPP2R1A MUTATED | 5 | 5 | 1 | 5 |
PPP2R1A WILD-TYPE | 6 | 17 | 3 | 14 |
P value = 0.317 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
PPP2R1A MUTATED | 8 | 4 | 3 | 1 |
PPP2R1A WILD-TYPE | 16 | 4 | 15 | 5 |
P value = 0.699 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
PPP2R1A MUTATED | 5 | 6 | 5 |
PPP2R1A WILD-TYPE | 8 | 17 | 15 |
P value = 0.235 (Fisher's exact test), Q value = 0.7
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
PPP2R1A MUTATED | 8 | 4 | 3 | 1 |
PPP2R1A WILD-TYPE | 17 | 3 | 14 | 6 |
P value = 0.102 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
KRAS MUTATED | 2 | 5 | 0 |
KRAS WILD-TYPE | 16 | 16 | 17 |
P value = 0.0143 (Fisher's exact test), Q value = 0.26
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
KRAS MUTATED | 0 | 1 | 1 | 0 | 5 |
KRAS WILD-TYPE | 12 | 8 | 9 | 13 | 8 |
P value = 0.423 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
KRAS MUTATED | 1 | 0 | 3 | 1 |
KRAS WILD-TYPE | 9 | 12 | 12 | 10 |
P value = 0.201 (Fisher's exact test), Q value = 0.64
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
KRAS MUTATED | 0 | 0 | 2 | 1 | 2 | 0 | 0 |
KRAS WILD-TYPE | 9 | 8 | 5 | 6 | 5 | 5 | 5 |
P value = 0.0318 (Fisher's exact test), Q value = 0.44
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
KRAS MUTATED | 0 | 3 | 4 | 0 |
KRAS WILD-TYPE | 15 | 17 | 8 | 10 |
P value = 0.00624 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
KRAS MUTATED | 0 | 0 | 1 | 0 | 0 | 4 | 2 |
KRAS WILD-TYPE | 11 | 4 | 7 | 6 | 8 | 2 | 12 |
P value = 0.464 (Fisher's exact test), Q value = 0.9
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
KRAS MUTATED | 1 | 4 | 1 | 1 |
KRAS WILD-TYPE | 10 | 18 | 3 | 18 |
P value = 0.0917 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
KRAS MUTATED | 1 | 0 | 5 | 1 |
KRAS WILD-TYPE | 23 | 8 | 13 | 5 |
P value = 0.311 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
KRAS MUTATED | 1 | 5 | 1 |
KRAS WILD-TYPE | 12 | 18 | 19 |
P value = 0.058 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
KRAS MUTATED | 1 | 0 | 5 | 1 |
KRAS WILD-TYPE | 24 | 7 | 12 | 6 |
P value = 0.0936 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
PTEN MUTATED | 1 | 7 | 3 |
PTEN WILD-TYPE | 17 | 14 | 14 |
P value = 9e-05 (Fisher's exact test), Q value = 0.0099
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
PTEN MUTATED | 0 | 0 | 6 | 5 | 0 |
PTEN WILD-TYPE | 12 | 9 | 4 | 8 | 13 |
P value = 0.333 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
PTEN MUTATED | 0 | 3 | 2 | 3 |
PTEN WILD-TYPE | 10 | 9 | 13 | 8 |
P value = 0.0188 (Fisher's exact test), Q value = 0.3
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
PTEN MUTATED | 0 | 2 | 0 | 1 | 0 | 3 | 2 |
PTEN WILD-TYPE | 9 | 6 | 7 | 6 | 7 | 2 | 3 |
P value = 0.00188 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
PTEN MUTATED | 0 | 8 | 0 | 3 |
PTEN WILD-TYPE | 15 | 12 | 12 | 7 |
P value = 0.0451 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
PTEN MUTATED | 0 | 0 | 3 | 0 | 3 | 0 | 5 |
PTEN WILD-TYPE | 11 | 4 | 5 | 6 | 5 | 6 | 9 |
P value = 0.0964 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
PTEN MUTATED | 2 | 1 | 1 | 6 |
PTEN WILD-TYPE | 9 | 21 | 3 | 13 |
P value = 0.0614 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
PTEN MUTATED | 8 | 0 | 1 | 1 |
PTEN WILD-TYPE | 16 | 8 | 17 | 5 |
P value = 0.004 (Fisher's exact test), Q value = 0.15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
PTEN MUTATED | 3 | 0 | 7 |
PTEN WILD-TYPE | 10 | 23 | 13 |
P value = 0.0134 (Fisher's exact test), Q value = 0.26
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
PTEN MUTATED | 8 | 0 | 0 | 2 |
PTEN WILD-TYPE | 17 | 7 | 17 | 5 |
P value = 0.225 (Fisher's exact test), Q value = 0.69
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
RB1 MUTATED | 2 | 4 | 0 |
RB1 WILD-TYPE | 16 | 17 | 17 |
P value = 0.0932 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
RB1 MUTATED | 0 | 1 | 3 | 2 | 0 |
RB1 WILD-TYPE | 12 | 8 | 7 | 11 | 13 |
P value = 0.62 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
RB1 MUTATED | 0 | 1 | 3 | 1 |
RB1 WILD-TYPE | 10 | 11 | 12 | 10 |
P value = 0.313 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
RB1 MUTATED | 0 | 1 | 0 | 2 | 0 | 1 | 1 |
RB1 WILD-TYPE | 9 | 7 | 7 | 5 | 7 | 4 | 4 |
P value = 0.08 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
RB1 MUTATED | 0 | 4 | 0 | 2 |
RB1 WILD-TYPE | 15 | 16 | 12 | 8 |
P value = 0.0992 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
RB1 MUTATED | 0 | 0 | 2 | 0 | 3 | 0 | 1 |
RB1 WILD-TYPE | 11 | 4 | 6 | 6 | 5 | 6 | 13 |
P value = 0.835 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
RB1 MUTATED | 2 | 2 | 0 | 2 |
RB1 WILD-TYPE | 9 | 20 | 4 | 17 |
P value = 0.861 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
RB1 MUTATED | 3 | 0 | 2 | 1 |
RB1 WILD-TYPE | 21 | 8 | 16 | 5 |
P value = 0.865 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
RB1 MUTATED | 2 | 2 | 2 |
RB1 WILD-TYPE | 11 | 21 | 18 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
RB1 MUTATED | 3 | 0 | 2 | 1 |
RB1 WILD-TYPE | 22 | 7 | 15 | 6 |
P value = 0.723 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
ZBTB7B MUTATED | 2 | 1 | 2 |
ZBTB7B WILD-TYPE | 16 | 20 | 15 |
P value = 0.939 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
ZBTB7B MUTATED | 2 | 1 | 1 | 1 | 1 |
ZBTB7B WILD-TYPE | 10 | 8 | 9 | 12 | 12 |
P value = 0.305 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
ZBTB7B MUTATED | 1 | 3 | 1 | 0 |
ZBTB7B WILD-TYPE | 9 | 9 | 14 | 11 |
P value = 0.378 (Fisher's exact test), Q value = 0.78
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
ZBTB7B MUTATED | 2 | 2 | 0 | 0 | 0 | 0 | 1 |
ZBTB7B WILD-TYPE | 7 | 6 | 7 | 7 | 7 | 5 | 4 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
ZBTB7B MUTATED | 2 | 2 | 1 | 1 |
ZBTB7B WILD-TYPE | 13 | 18 | 11 | 9 |
P value = 0.915 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
ZBTB7B MUTATED | 2 | 0 | 0 | 0 | 1 | 1 | 2 |
ZBTB7B WILD-TYPE | 9 | 4 | 8 | 6 | 7 | 5 | 12 |
P value = 0.0987 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
ZBTB7B MUTATED | 1 | 1 | 2 | 2 |
ZBTB7B WILD-TYPE | 10 | 21 | 2 | 17 |
P value = 0.147 (Fisher's exact test), Q value = 0.6
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
ZBTB7B MUTATED | 5 | 1 | 0 | 0 |
ZBTB7B WILD-TYPE | 19 | 7 | 18 | 6 |
P value = 0.481 (Fisher's exact test), Q value = 0.9
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
ZBTB7B MUTATED | 2 | 1 | 3 |
ZBTB7B WILD-TYPE | 11 | 22 | 17 |
P value = 0.163 (Fisher's exact test), Q value = 0.62
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
ZBTB7B MUTATED | 5 | 1 | 0 | 0 |
ZBTB7B WILD-TYPE | 20 | 6 | 17 | 7 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
PIK3R1 MUTATED | 2 | 2 | 2 |
PIK3R1 WILD-TYPE | 16 | 19 | 15 |
P value = 0.939 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
PIK3R1 MUTATED | 2 | 1 | 1 | 1 | 1 |
PIK3R1 WILD-TYPE | 10 | 8 | 9 | 12 | 12 |
P value = 0.573 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
PIK3R1 MUTATED | 2 | 2 | 2 | 0 |
PIK3R1 WILD-TYPE | 8 | 10 | 13 | 11 |
P value = 0.775 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
PIK3R1 MUTATED | 2 | 2 | 0 | 1 | 1 | 0 | 0 |
PIK3R1 WILD-TYPE | 7 | 6 | 7 | 6 | 6 | 5 | 5 |
P value = 0.544 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
PIK3R1 MUTATED | 3 | 2 | 1 | 0 |
PIK3R1 WILD-TYPE | 12 | 18 | 11 | 10 |
P value = 0.704 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
PIK3R1 MUTATED | 2 | 1 | 1 | 0 | 0 | 1 | 1 |
PIK3R1 WILD-TYPE | 9 | 3 | 7 | 6 | 8 | 5 | 13 |
P value = 0.426 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
PIK3R1 MUTATED | 2 | 2 | 1 | 1 |
PIK3R1 WILD-TYPE | 9 | 20 | 3 | 18 |
P value = 0.506 (Fisher's exact test), Q value = 0.91
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
PIK3R1 MUTATED | 2 | 2 | 2 | 0 |
PIK3R1 WILD-TYPE | 22 | 6 | 16 | 6 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
PIK3R1 MUTATED | 1 | 3 | 2 |
PIK3R1 WILD-TYPE | 12 | 20 | 18 |
P value = 0.305 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
PIK3R1 MUTATED | 2 | 2 | 1 | 1 |
PIK3R1 WILD-TYPE | 23 | 5 | 16 | 6 |
P value = 0.568 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
ARHGAP35 MUTATED | 1 | 2 | 3 |
ARHGAP35 WILD-TYPE | 17 | 19 | 14 |
P value = 0.331 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
ARHGAP35 MUTATED | 2 | 0 | 2 | 0 | 2 |
ARHGAP35 WILD-TYPE | 10 | 9 | 8 | 13 | 11 |
P value = 0.695 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
ARHGAP35 MUTATED | 2 | 1 | 1 | 2 |
ARHGAP35 WILD-TYPE | 8 | 11 | 14 | 9 |
P value = 0.345 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
ARHGAP35 MUTATED | 2 | 0 | 0 | 0 | 2 | 1 | 1 |
ARHGAP35 WILD-TYPE | 7 | 8 | 7 | 7 | 5 | 4 | 4 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
ARHGAP35 MUTATED | 2 | 2 | 1 | 1 |
ARHGAP35 WILD-TYPE | 13 | 18 | 11 | 9 |
P value = 0.401 (Fisher's exact test), Q value = 0.82
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
ARHGAP35 MUTATED | 2 | 0 | 2 | 0 | 1 | 1 | 0 |
ARHGAP35 WILD-TYPE | 9 | 4 | 6 | 6 | 7 | 5 | 14 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
ARHGAP35 MUTATED | 1 | 2 | 0 | 2 |
ARHGAP35 WILD-TYPE | 10 | 20 | 4 | 17 |
P value = 0.191 (Fisher's exact test), Q value = 0.64
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
ARHGAP35 MUTATED | 1 | 2 | 1 | 1 |
ARHGAP35 WILD-TYPE | 23 | 6 | 17 | 5 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
ARHGAP35 MUTATED | 1 | 2 | 2 |
ARHGAP35 WILD-TYPE | 12 | 21 | 18 |
P value = 0.177 (Fisher's exact test), Q value = 0.63
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
ARHGAP35 MUTATED | 1 | 2 | 1 | 1 |
ARHGAP35 WILD-TYPE | 24 | 5 | 16 | 6 |
P value = 0.637 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
PIK3CA MUTATED | 5 | 9 | 5 |
PIK3CA WILD-TYPE | 13 | 12 | 12 |
P value = 0.902 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
PIK3CA MUTATED | 4 | 3 | 5 | 4 | 4 |
PIK3CA WILD-TYPE | 8 | 6 | 5 | 9 | 9 |
P value = 0.205 (Fisher's exact test), Q value = 0.64
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
PIK3CA MUTATED | 4 | 3 | 4 | 7 |
PIK3CA WILD-TYPE | 6 | 9 | 11 | 4 |
P value = 0.294 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
PIK3CA MUTATED | 2 | 3 | 2 | 1 | 3 | 4 | 3 |
PIK3CA WILD-TYPE | 7 | 5 | 5 | 6 | 4 | 1 | 2 |
P value = 0.364 (Fisher's exact test), Q value = 0.78
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
PIK3CA MUTATED | 5 | 10 | 3 | 2 |
PIK3CA WILD-TYPE | 10 | 10 | 9 | 8 |
P value = 0.367 (Fisher's exact test), Q value = 0.78
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
PIK3CA MUTATED | 3 | 3 | 4 | 2 | 1 | 1 | 6 |
PIK3CA WILD-TYPE | 8 | 1 | 4 | 4 | 7 | 5 | 8 |
P value = 0.11 (Fisher's exact test), Q value = 0.51
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
PIK3CA MUTATED | 4 | 4 | 2 | 10 |
PIK3CA WILD-TYPE | 7 | 18 | 2 | 9 |
P value = 0.339 (Fisher's exact test), Q value = 0.77
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
PIK3CA MUTATED | 11 | 2 | 4 | 3 |
PIK3CA WILD-TYPE | 13 | 6 | 14 | 3 |
P value = 0.193 (Fisher's exact test), Q value = 0.64
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
PIK3CA MUTATED | 6 | 5 | 9 |
PIK3CA WILD-TYPE | 7 | 18 | 11 |
P value = 0.271 (Fisher's exact test), Q value = 0.76
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
PIK3CA MUTATED | 12 | 1 | 4 | 3 |
PIK3CA WILD-TYPE | 13 | 6 | 13 | 4 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 21 | 17 |
MAMLD1 MUTATED | 1 | 2 | 1 |
MAMLD1 WILD-TYPE | 17 | 19 | 16 |
P value = 0.903 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 10 | 13 | 13 |
MAMLD1 MUTATED | 0 | 1 | 1 | 1 | 1 |
MAMLD1 WILD-TYPE | 12 | 8 | 9 | 12 | 12 |
P value = 0.104 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 12 | 15 | 11 |
MAMLD1 MUTATED | 0 | 0 | 1 | 3 |
MAMLD1 WILD-TYPE | 10 | 12 | 14 | 8 |
P value = 0.0356 (Fisher's exact test), Q value = 0.44
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 9 | 8 | 7 | 7 | 7 | 5 | 5 |
MAMLD1 MUTATED | 0 | 2 | 0 | 0 | 0 | 2 | 0 |
MAMLD1 WILD-TYPE | 9 | 6 | 7 | 7 | 7 | 3 | 5 |
P value = 0.683 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 15 | 20 | 12 | 10 |
MAMLD1 MUTATED | 0 | 2 | 1 | 1 |
MAMLD1 WILD-TYPE | 15 | 18 | 11 | 9 |
P value = 0.769 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 4 | 8 | 6 | 8 | 6 | 14 |
MAMLD1 MUTATED | 0 | 0 | 1 | 1 | 1 | 0 | 1 |
MAMLD1 WILD-TYPE | 11 | 4 | 7 | 5 | 7 | 6 | 13 |
P value = 0.0656 (Fisher's exact test), Q value = 0.5
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 11 | 22 | 4 | 19 |
MAMLD1 MUTATED | 0 | 0 | 1 | 3 |
MAMLD1 WILD-TYPE | 11 | 22 | 3 | 16 |
P value = 0.676 (Fisher's exact test), Q value = 0.97
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 24 | 8 | 18 | 6 |
MAMLD1 MUTATED | 2 | 0 | 1 | 1 |
MAMLD1 WILD-TYPE | 22 | 8 | 17 | 5 |
P value = 0.152 (Fisher's exact test), Q value = 0.6
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 13 | 23 | 20 |
MAMLD1 MUTATED | 2 | 0 | 2 |
MAMLD1 WILD-TYPE | 11 | 23 | 18 |
P value = 0.36 (Fisher's exact test), Q value = 0.78
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 25 | 7 | 17 | 7 |
MAMLD1 MUTATED | 3 | 0 | 0 | 1 |
MAMLD1 WILD-TYPE | 22 | 7 | 17 | 6 |
-
Mutation data file = sample_sig_gene_table.txt from Mutsig_2CV pipeline
-
Processed Mutation data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCS-TP/20063030/transformed.cor.cli.txt
-
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCS-TP/20140950/UCS-TP.transferedmergedcluster.txt
-
Number of patients = 57
-
Number of significantly mutated genes = 11
-
Number of Molecular subtypes = 10
-
Exclude genes that fewer than K tumors have mutations, K = 3
For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.
In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.