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, 8 significant findings detected with P value < 0.05 and Q value < 0.25.
-
KRAS mutation correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
-
PTEN mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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 |
0.00877 (0.204) |
0.00121 (0.104) |
0.0515 (0.388) |
0.0182 (0.25) |
0.0111 (0.204) |
0.0447 (0.378) |
0.0653 (0.392) |
0.06 (0.388) |
0.0093 (0.204) |
0.0134 (0.211) |
KRAS | 7 (12%) | 50 |
0.14 (0.532) |
0.00189 (0.104) |
0.611 (0.884) |
0.201 (0.583) |
0.0301 (0.331) |
0.00587 (0.204) |
0.875 (1.00) |
0.0928 (0.464) |
0.169 (0.532) |
0.0592 (0.388) |
TP53 | 51 (89%) | 6 |
0.631 (0.89) |
0.645 (0.892) |
0.418 (0.825) |
0.138 (0.532) |
1 (1.00) |
0.513 (0.841) |
1 (1.00) |
0.912 (1.00) |
0.801 (0.977) |
1 (1.00) |
FBXW7 | 22 (39%) | 35 |
0.0886 (0.464) |
0.775 (0.958) |
0.0703 (0.392) |
0.166 (0.532) |
0.54 (0.848) |
0.104 (0.475) |
0.508 (0.841) |
0.932 (1.00) |
0.914 (1.00) |
0.774 (0.958) |
PPP2R1A | 16 (28%) | 41 |
0.649 (0.892) |
0.808 (0.977) |
0.583 (0.862) |
0.501 (0.841) |
0.775 (0.958) |
0.672 (0.911) |
0.364 (0.792) |
0.316 (0.772) |
0.588 (0.862) |
0.235 (0.662) |
RB1 | 6 (11%) | 51 |
1 (1.00) |
0.368 (0.792) |
0.471 (0.841) |
0.313 (0.772) |
0.0712 (0.392) |
0.0977 (0.467) |
0.871 (1.00) |
0.863 (1.00) |
0.522 (0.841) |
1 (1.00) |
ZBTB7B | 6 (11%) | 51 |
0.527 (0.841) |
1 (1.00) |
0.144 (0.532) |
0.375 (0.792) |
1 (1.00) |
0.915 (1.00) |
0.157 (0.532) |
0.148 (0.532) |
0.427 (0.825) |
0.16 (0.532) |
PIK3R1 | 6 (11%) | 51 |
0.871 (1.00) |
1 (1.00) |
0.506 (0.841) |
0.773 (0.958) |
0.571 (0.862) |
0.706 (0.935) |
1 (1.00) |
0.501 (0.841) |
0.423 (0.825) |
0.305 (0.772) |
ARHGAP35 | 6 (11%) | 51 |
1 (1.00) |
0.458 (0.841) |
0.551 (0.853) |
0.344 (0.792) |
0.572 (0.862) |
0.398 (0.811) |
0.502 (0.841) |
0.192 (0.57) |
0.445 (0.841) |
0.174 (0.532) |
PIK3CA | 20 (35%) | 37 |
0.389 (0.808) |
0.156 (0.532) |
0.715 (0.937) |
0.294 (0.771) |
0.275 (0.738) |
0.369 (0.792) |
0.0233 (0.284) |
0.339 (0.792) |
0.173 (0.532) |
0.269 (0.738) |
MAMLD1 | 4 (7%) | 53 |
1 (1.00) |
0.137 (0.532) |
0.0396 (0.363) |
0.036 (0.36) |
0.626 (0.89) |
0.769 (0.958) |
0.0593 (0.388) |
0.679 (0.911) |
0.493 (0.841) |
0.356 (0.792) |
P value = 0.631 (Fisher's exact test), Q value = 0.89
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
TP53 MUTATED | 20 | 19 | 11 |
TP53 WILD-TYPE | 1 | 3 | 2 |
P value = 0.645 (Fisher's exact test), Q value = 0.89
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
TP53 MUTATED | 19 | 11 | 12 | 9 |
TP53 WILD-TYPE | 1 | 2 | 1 | 2 |
P value = 0.418 (Fisher's exact test), Q value = 0.82
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
TP53 MUTATED | 12 | 8 | 10 | 6 | 7 |
TP53 WILD-TYPE | 0 | 1 | 2 | 0 | 2 |
P value = 0.138 (Fisher's exact test), Q value = 0.53
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 = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
TP53 MUTATED | 14 | 17 | 11 | 9 |
TP53 WILD-TYPE | 2 | 2 | 1 | 1 |
P value = 0.513 (Fisher's exact test), Q value = 0.84
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 |
---|---|---|---|
ALL | 15 | 24 | 17 |
TP53 MUTATED | 14 | 22 | 15 |
TP53 WILD-TYPE | 1 | 2 | 2 |
P value = 0.912 (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 = 0.801 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
TP53 MUTATED | 10 | 13 | 12 | 16 |
TP53 WILD-TYPE | 0 | 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 = 0.0886 (Fisher's exact test), Q value = 0.46
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
FBXW7 MUTATED | 11 | 9 | 2 |
FBXW7 WILD-TYPE | 10 | 13 | 11 |
P value = 0.775 (Fisher's exact test), Q value = 0.96
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
FBXW7 MUTATED | 9 | 4 | 4 | 5 |
FBXW7 WILD-TYPE | 11 | 9 | 9 | 6 |
P value = 0.0703 (Fisher's exact test), Q value = 0.39
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
FBXW7 MUTATED | 5 | 6 | 7 | 1 | 1 |
FBXW7 WILD-TYPE | 7 | 3 | 5 | 5 | 8 |
P value = 0.166 (Fisher's exact test), Q value = 0.53
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 = 0.54 (Fisher's exact test), Q value = 0.85
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
FBXW7 MUTATED | 7 | 7 | 6 | 2 |
FBXW7 WILD-TYPE | 9 | 12 | 6 | 8 |
P value = 0.104 (Fisher's exact test), Q value = 0.48
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 = 0.508 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
FBXW7 MUTATED | 4 | 10 | 8 |
FBXW7 WILD-TYPE | 11 | 14 | 9 |
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 = 0.914 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
FBXW7 MUTATED | 5 | 5 | 5 | 7 |
FBXW7 WILD-TYPE | 5 | 9 | 9 | 11 |
P value = 0.774 (Fisher's exact test), Q value = 0.96
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 = 0.649 (Fisher's exact test), Q value = 0.89
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
PPP2R1A MUTATED | 5 | 8 | 3 |
PPP2R1A WILD-TYPE | 16 | 14 | 10 |
P value = 0.808 (Fisher's exact test), Q value = 0.98
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
PPP2R1A MUTATED | 7 | 4 | 3 | 2 |
PPP2R1A WILD-TYPE | 13 | 9 | 10 | 9 |
P value = 0.583 (Fisher's exact test), Q value = 0.86
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
PPP2R1A MUTATED | 5 | 2 | 4 | 1 | 1 |
PPP2R1A WILD-TYPE | 7 | 7 | 8 | 5 | 8 |
P value = 0.501 (Fisher's exact test), Q value = 0.84
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 = 0.775 (Fisher's exact test), Q value = 0.96
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
PPP2R1A MUTATED | 6 | 4 | 3 | 3 |
PPP2R1A WILD-TYPE | 10 | 15 | 9 | 7 |
P value = 0.672 (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 |
PPP2R1A MUTATED | 4 | 1 | 4 | 1 | 2 | 2 | 2 |
PPP2R1A WILD-TYPE | 7 | 3 | 4 | 5 | 6 | 4 | 12 |
P value = 0.364 (Fisher's exact test), Q value = 0.79
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
PPP2R1A MUTATED | 6 | 7 | 3 |
PPP2R1A WILD-TYPE | 9 | 17 | 14 |
P value = 0.316 (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 = 0.588 (Fisher's exact test), Q value = 0.86
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
PPP2R1A MUTATED | 3 | 6 | 3 | 4 |
PPP2R1A WILD-TYPE | 7 | 8 | 11 | 14 |
P value = 0.235 (Fisher's exact test), Q value = 0.66
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 = 0.14 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
KRAS MUTATED | 2 | 5 | 0 |
KRAS WILD-TYPE | 19 | 17 | 13 |
P value = 0.00189 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
KRAS MUTATED | 0 | 1 | 1 | 5 |
KRAS WILD-TYPE | 20 | 12 | 12 | 6 |
P value = 0.611 (Fisher's exact test), Q value = 0.88
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
KRAS MUTATED | 1 | 2 | 2 | 0 | 0 |
KRAS WILD-TYPE | 11 | 7 | 10 | 6 | 9 |
P value = 0.201 (Fisher's exact test), Q value = 0.58
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 = 0.0301 (Fisher's exact test), Q value = 0.33
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
KRAS MUTATED | 0 | 3 | 4 | 0 |
KRAS WILD-TYPE | 16 | 16 | 8 | 10 |
P value = 0.00587 (Fisher's exact test), Q value = 0.2
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 = 0.875 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
KRAS MUTATED | 1 | 4 | 2 |
KRAS WILD-TYPE | 14 | 20 | 15 |
P value = 0.0928 (Fisher's exact test), Q value = 0.46
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 = 0.169 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
KRAS MUTATED | 0 | 2 | 4 | 1 |
KRAS WILD-TYPE | 10 | 12 | 10 | 17 |
P value = 0.0592 (Fisher's exact test), Q value = 0.39
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 = 0.00877 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
PTEN MUTATED | 1 | 9 | 1 |
PTEN WILD-TYPE | 20 | 13 | 12 |
P value = 0.00121 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
PTEN MUTATED | 1 | 7 | 3 | 0 |
PTEN WILD-TYPE | 19 | 6 | 10 | 11 |
P value = 0.0515 (Fisher's exact test), Q value = 0.39
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
PTEN MUTATED | 0 | 0 | 3 | 2 | 3 |
PTEN WILD-TYPE | 12 | 9 | 9 | 4 | 6 |
P value = 0.0182 (Fisher's exact test), Q value = 0.25
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 = 0.0111 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
PTEN MUTATED | 1 | 8 | 0 | 2 |
PTEN WILD-TYPE | 15 | 11 | 12 | 8 |
P value = 0.0447 (Fisher's exact test), Q value = 0.38
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 = 0.0653 (Fisher's exact test), Q value = 0.39
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
PTEN MUTATED | 4 | 1 | 5 |
PTEN WILD-TYPE | 11 | 23 | 12 |
P value = 0.06 (Fisher's exact test), Q value = 0.39
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 = 0.0093 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
PTEN MUTATED | 0 | 3 | 0 | 7 |
PTEN WILD-TYPE | 10 | 11 | 14 | 11 |
P value = 0.0134 (Fisher's exact test), Q value = 0.21
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 = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
RB1 MUTATED | 2 | 3 | 1 |
RB1 WILD-TYPE | 19 | 19 | 12 |
P value = 0.368 (Fisher's exact test), Q value = 0.79
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
RB1 MUTATED | 2 | 3 | 1 | 0 |
RB1 WILD-TYPE | 18 | 10 | 12 | 11 |
P value = 0.471 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
RB1 MUTATED | 0 | 2 | 1 | 1 | 1 |
RB1 WILD-TYPE | 12 | 7 | 11 | 5 | 8 |
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 = 0.0712 (Fisher's exact test), Q value = 0.39
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
RB1 MUTATED | 0 | 4 | 0 | 2 |
RB1 WILD-TYPE | 16 | 15 | 12 | 8 |
P value = 0.0977 (Fisher's exact test), Q value = 0.47
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 = 0.871 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
RB1 MUTATED | 2 | 2 | 2 |
RB1 WILD-TYPE | 13 | 22 | 15 |
P value = 0.863 (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 = 0.522 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
RB1 MUTATED | 0 | 3 | 1 | 2 |
RB1 WILD-TYPE | 10 | 11 | 13 | 16 |
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 = 0.527 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
ZBTB7B MUTATED | 2 | 1 | 2 |
ZBTB7B WILD-TYPE | 19 | 21 | 11 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
ZBTB7B MUTATED | 2 | 1 | 2 | 1 |
ZBTB7B WILD-TYPE | 18 | 12 | 11 | 10 |
P value = 0.144 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
ZBTB7B MUTATED | 2 | 0 | 0 | 2 | 1 |
ZBTB7B WILD-TYPE | 10 | 9 | 12 | 4 | 8 |
P value = 0.375 (Fisher's exact test), Q value = 0.79
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 | 16 | 19 | 12 | 10 |
ZBTB7B MUTATED | 2 | 2 | 1 | 1 |
ZBTB7B WILD-TYPE | 14 | 17 | 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 = 0.157 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
ZBTB7B MUTATED | 1 | 1 | 4 |
ZBTB7B WILD-TYPE | 14 | 23 | 13 |
P value = 0.148 (Fisher's exact test), Q value = 0.53
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 = 0.427 (Fisher's exact test), Q value = 0.82
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
ZBTB7B MUTATED | 2 | 2 | 0 | 2 |
ZBTB7B WILD-TYPE | 8 | 12 | 14 | 16 |
P value = 0.16 (Fisher's exact test), Q value = 0.53
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 = 0.871 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
PIK3R1 MUTATED | 3 | 2 | 1 |
PIK3R1 WILD-TYPE | 18 | 20 | 12 |
P value = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
PIK3R1 MUTATED | 3 | 1 | 1 | 1 |
PIK3R1 WILD-TYPE | 17 | 12 | 12 | 10 |
P value = 0.506 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
PIK3R1 MUTATED | 2 | 2 | 0 | 1 | 1 |
PIK3R1 WILD-TYPE | 10 | 7 | 12 | 5 | 8 |
P value = 0.773 (Fisher's exact test), Q value = 0.96
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 = 0.571 (Fisher's exact test), Q value = 0.86
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
PIK3R1 MUTATED | 3 | 2 | 1 | 0 |
PIK3R1 WILD-TYPE | 13 | 17 | 11 | 10 |
P value = 0.706 (Fisher's exact test), Q value = 0.94
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 = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
PIK3R1 MUTATED | 1 | 3 | 2 |
PIK3R1 WILD-TYPE | 14 | 21 | 15 |
P value = 0.501 (Fisher's exact test), Q value = 0.84
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 = 0.423 (Fisher's exact test), Q value = 0.82
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
PIK3R1 MUTATED | 2 | 0 | 2 | 2 |
PIK3R1 WILD-TYPE | 8 | 14 | 12 | 16 |
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 = 1 (Fisher's exact test), Q value = 1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
ARHGAP35 MUTATED | 2 | 3 | 1 |
ARHGAP35 WILD-TYPE | 19 | 19 | 12 |
P value = 0.458 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
ARHGAP35 MUTATED | 2 | 2 | 0 | 2 |
ARHGAP35 WILD-TYPE | 18 | 11 | 13 | 9 |
P value = 0.551 (Fisher's exact test), Q value = 0.85
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
ARHGAP35 MUTATED | 2 | 0 | 3 | 0 | 1 |
ARHGAP35 WILD-TYPE | 10 | 9 | 9 | 6 | 8 |
P value = 0.344 (Fisher's exact test), Q value = 0.79
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 = 0.572 (Fisher's exact test), Q value = 0.86
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
ARHGAP35 MUTATED | 3 | 2 | 1 | 0 |
ARHGAP35 WILD-TYPE | 13 | 17 | 11 | 10 |
P value = 0.398 (Fisher's exact test), Q value = 0.81
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 = 0.502 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
ARHGAP35 MUTATED | 0 | 3 | 2 |
ARHGAP35 WILD-TYPE | 15 | 21 | 15 |
P value = 0.192 (Fisher's exact test), Q value = 0.57
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 = 0.445 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
ARHGAP35 MUTATED | 2 | 0 | 1 | 2 |
ARHGAP35 WILD-TYPE | 8 | 14 | 13 | 16 |
P value = 0.174 (Fisher's exact test), Q value = 0.53
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 = 0.389 (Fisher's exact test), Q value = 0.81
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 22 | 13 |
PIK3CA MUTATED | 6 | 10 | 3 |
PIK3CA WILD-TYPE | 15 | 12 | 10 |
P value = 0.156 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
PIK3CA MUTATED | 6 | 8 | 4 | 2 |
PIK3CA WILD-TYPE | 14 | 5 | 9 | 9 |
P value = 0.715 (Fisher's exact test), Q value = 0.94
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
PIK3CA MUTATED | 3 | 3 | 6 | 3 | 3 |
PIK3CA WILD-TYPE | 9 | 6 | 6 | 3 | 6 |
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 = 0.275 (Fisher's exact test), Q value = 0.74
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
PIK3CA MUTATED | 5 | 10 | 3 | 2 |
PIK3CA WILD-TYPE | 11 | 9 | 9 | 8 |
P value = 0.369 (Fisher's exact test), Q value = 0.79
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 = 0.0233 (Fisher's exact test), Q value = 0.28
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
PIK3CA MUTATED | 6 | 4 | 10 |
PIK3CA WILD-TYPE | 9 | 20 | 7 |
P value = 0.339 (Fisher's exact test), Q value = 0.79
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 = 0.173 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
PIK3CA MUTATED | 3 | 6 | 2 | 9 |
PIK3CA WILD-TYPE | 7 | 8 | 12 | 9 |
P value = 0.269 (Fisher's exact test), Q value = 0.74
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 | 21 | 22 | 13 |
MAMLD1 MUTATED | 1 | 2 | 1 |
MAMLD1 WILD-TYPE | 20 | 20 | 12 |
P value = 0.137 (Fisher's exact test), Q value = 0.53
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 20 | 13 | 13 | 11 |
MAMLD1 MUTATED | 0 | 2 | 2 | 0 |
MAMLD1 WILD-TYPE | 20 | 11 | 11 | 11 |
P value = 0.0396 (Fisher's exact test), Q value = 0.36
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 12 | 9 | 12 | 6 | 9 |
MAMLD1 MUTATED | 0 | 0 | 2 | 2 | 0 |
MAMLD1 WILD-TYPE | 12 | 9 | 10 | 4 | 9 |
P value = 0.036 (Fisher's exact test), Q value = 0.36
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 = 0.626 (Fisher's exact test), Q value = 0.89
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 16 | 19 | 12 | 10 |
MAMLD1 MUTATED | 0 | 2 | 1 | 1 |
MAMLD1 WILD-TYPE | 16 | 17 | 11 | 9 |
P value = 0.769 (Fisher's exact test), Q value = 0.96
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 = 0.0593 (Fisher's exact test), Q value = 0.39
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 15 | 24 | 17 |
MAMLD1 MUTATED | 1 | 0 | 3 |
MAMLD1 WILD-TYPE | 14 | 24 | 14 |
P value = 0.679 (Fisher's exact test), Q value = 0.91
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 = 0.493 (Fisher's exact test), Q value = 0.84
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 10 | 14 | 14 | 18 |
MAMLD1 MUTATED | 0 | 2 | 0 | 2 |
MAMLD1 WILD-TYPE | 10 | 12 | 14 | 16 |
P value = 0.356 (Fisher's exact test), Q value = 0.79
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/22569431/transformed.cor.cli.txt
-
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCS-TP/22541488/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.