This pipeline computes the correlation between significantly recurrent gene mutations and selected clinical features.
Testing the association between mutation status of 15 genes and 8 clinical features across 50 patients, 98 significant findings detected with P value < 1.
-
TP53 mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
EGFR mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
CDKN2A mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
SMAD4 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
KRAS mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
KEAP1 mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
CSMD3 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
BRAF mutation correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
SPTA1 mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
STK11 mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
OR4A5 mutation correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
SETD2 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
CDH10 mutation correlated to 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
MGAT4C mutation correlated to 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
U2AF2 mutation correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
Clinical Features |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
||
nMutated (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Chi-square test | Fisher's exact test | Fisher's exact test | Chi-square test | Fisher's exact test | |
EGFR | 10 (20%) | 40 | 0.317 | 0.634 | 1 | 0.851 | 0.628 | 0.174 | 0.406 | 0.736 |
KRAS | 4 (8%) | 46 | 0.321 | 0.492 | 0.586 | 0.158 | 0.16 | 0.0155 | 0.913 | 0.704 |
CSMD3 | 10 (20%) | 40 | 0.0169 | 0.584 | 0.877 | 0.217 | 0.275 | 1 | 0.531 | 0.621 |
SETD2 | 5 (10%) | 45 | 0.489 | 0.172 | 0.304 | 0.541 | 0.594 | 0.57 | 0.335 | 0.216 |
TP53 | 17 (34%) | 33 | 0.229 | 1 | 1 | 0.147 | 0.00103 | 0.699 | 0.0625 | 0.411 |
CDKN2A | 5 (10%) | 45 | 0.307 | 1 | 0.804 | 0.941 | 0.317 | 1 | 0.881 | 0.538 |
SMAD4 | 5 (10%) | 45 | 0.697 | 0.516 | 0.586 | 0.839 | 1 | 1 | 0.509 | 0.39 |
KEAP1 | 6 (12%) | 44 | 0.215 | 1 | 0.125 | 0.163 | 0.363 | 0.00033 | 0.257 | 0.272 |
SPTA1 | 7 (14%) | 43 | 0.473 | 1 | 0.139 | 0.335 | 0.183 | 0.0997 | 0.344 | 0.136 |
STK11 | 3 (6%) | 47 | 0.406 | 0.15 | 0.699 | 0.722 | 0.00429 | 0.386 | 1 | |
OR4A5 | 3 (6%) | 47 | 0.406 | 1 | 5.24e-05 | 1 | 1 | 0.125 | 0.373 | |
CDH10 | 4 (8%) | 46 | 1 | 0.758 | 0.304 | 0.431 | 0.0436 | 0.56 | 0.532 | 1 |
MGAT4C | 3 (6%) | 47 | 1 | 0.586 | 0.23 | 0.494 | 1 | 0.874 | 1 | |
U2AF2 | 3 (6%) | 47 | 0.588 | 0.845 | 1 | 0.477 | 0.652 | |||
BRAF | 5 (10%) | 45 | 1 | 0.15 | 1 | 0.535 | 1 |
P value = 0.229 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
TP53 MUTATED | 6 | 7 | 4 |
TP53 WILD-TYPE | 5 | 20 | 8 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
TP53 MUTATED | 5 | 3 | 4 |
TP53 WILD-TYPE | 13 | 6 | 9 |
P value = 0.147 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
TP53 MUTATED | 0 | 3 | 2 | 2 | 3 | 2 |
TP53 WILD-TYPE | 5 | 4 | 9 | 4 | 6 | 0 |
P value = 0.00103 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
TP53 MUTATED | 2 | 13 | 1 | 1 |
TP53 WILD-TYPE | 5 | 7 | 15 | 6 |
P value = 0.699 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
TP53 MUTATED | 2 | 15 |
TP53 WILD-TYPE | 7 | 26 |
P value = 0.0625 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
TP53 MUTATED | 5 | 6 | 2 | 1 | 3 |
TP53 WILD-TYPE | 4 | 8 | 5 | 14 | 2 |
P value = 0.411 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
TP53 MUTATED | 1 | 11 | 5 |
TP53 WILD-TYPE | 2 | 15 | 16 |
P value = 0.317 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
EGFR MUTATED | 4 | 4 | 2 |
EGFR WILD-TYPE | 7 | 23 | 10 |
P value = 0.634 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
EGFR MUTATED | 1 | 2 | 3 |
EGFR WILD-TYPE | 9 | 10 | 7 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
EGFR MUTATED | 4 | 2 | 2 |
EGFR WILD-TYPE | 14 | 7 | 11 |
P value = 0.851 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
EGFR MUTATED | 2 | 1 | 2 | 1 | 2 | 0 |
EGFR WILD-TYPE | 3 | 6 | 9 | 5 | 7 | 2 |
P value = 0.628 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
EGFR MUTATED | 0 | 5 | 4 | 1 |
EGFR WILD-TYPE | 7 | 15 | 12 | 6 |
P value = 0.174 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
EGFR MUTATED | 0 | 10 |
EGFR WILD-TYPE | 9 | 31 |
P value = 0.406 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
EGFR MUTATED | 1 | 5 | 1 | 3 | 0 |
EGFR WILD-TYPE | 8 | 9 | 6 | 12 | 5 |
P value = 0.736 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
EGFR MUTATED | 1 | 5 | 4 |
EGFR WILD-TYPE | 2 | 21 | 17 |
P value = 0.307 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
CDKN2A MUTATED | 2 | 3 | 0 |
CDKN2A WILD-TYPE | 9 | 24 | 12 |
P value = 0.804 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
CDKN2A MUTATED | 1 | 1 | 2 |
CDKN2A WILD-TYPE | 17 | 8 | 11 |
P value = 0.941 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
CDKN2A MUTATED | 0 | 1 | 1 | 1 | 1 | 0 |
CDKN2A WILD-TYPE | 5 | 6 | 10 | 5 | 8 | 2 |
P value = 0.317 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
CDKN2A MUTATED | 1 | 3 | 0 | 1 |
CDKN2A WILD-TYPE | 6 | 17 | 16 | 6 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
CDKN2A MUTATED | 1 | 4 |
CDKN2A WILD-TYPE | 8 | 37 |
P value = 0.881 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
CDKN2A MUTATED | 1 | 2 | 1 | 1 | 0 |
CDKN2A WILD-TYPE | 8 | 12 | 6 | 14 | 5 |
P value = 0.538 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
CDKN2A MUTATED | 0 | 4 | 1 |
CDKN2A WILD-TYPE | 3 | 22 | 20 |
P value = 0.697 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
SMAD4 MUTATED | 2 | 2 | 1 |
SMAD4 WILD-TYPE | 9 | 25 | 11 |
P value = 0.516 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
SMAD4 MUTATED | 2 | 2 | 0 |
SMAD4 WILD-TYPE | 8 | 10 | 10 |
P value = 0.586 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
SMAD4 MUTATED | 1 | 0 | 2 |
SMAD4 WILD-TYPE | 17 | 9 | 11 |
P value = 0.839 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
SMAD4 MUTATED | 0 | 0 | 1 | 1 | 1 | 0 |
SMAD4 WILD-TYPE | 5 | 7 | 10 | 5 | 8 | 2 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
SMAD4 MUTATED | 1 | 4 |
SMAD4 WILD-TYPE | 8 | 37 |
P value = 0.509 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
SMAD4 MUTATED | 2 | 2 | 0 | 1 | 0 |
SMAD4 WILD-TYPE | 7 | 12 | 7 | 14 | 5 |
P value = 0.39 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
SMAD4 MUTATED | 1 | 2 | 2 |
SMAD4 WILD-TYPE | 2 | 24 | 19 |
P value = 0.321 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
KRAS MUTATED | 2 | 2 | 0 |
KRAS WILD-TYPE | 9 | 25 | 12 |
P value = 0.492 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
KRAS MUTATED | 2 | 1 | 0 |
KRAS WILD-TYPE | 8 | 11 | 10 |
P value = 0.586 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
KRAS MUTATED | 1 | 0 | 2 |
KRAS WILD-TYPE | 17 | 9 | 11 |
P value = 0.158 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
KRAS MUTATED | 0 | 0 | 0 | 1 | 1 | 1 |
KRAS WILD-TYPE | 5 | 7 | 11 | 5 | 8 | 1 |
P value = 0.16 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
KRAS MUTATED | 2 | 2 | 0 | 0 |
KRAS WILD-TYPE | 5 | 18 | 16 | 7 |
P value = 0.0155 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
KRAS MUTATED | 3 | 1 |
KRAS WILD-TYPE | 6 | 40 |
P value = 0.913 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
KRAS MUTATED | 1 | 1 | 1 | 1 | 0 |
KRAS WILD-TYPE | 8 | 13 | 6 | 14 | 5 |
P value = 0.704 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
KRAS MUTATED | 0 | 3 | 1 |
KRAS WILD-TYPE | 3 | 23 | 20 |
P value = 0.215 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
KEAP1 MUTATED | 3 | 2 | 1 |
KEAP1 WILD-TYPE | 8 | 25 | 11 |
P value = 0.125 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
KEAP1 MUTATED | 1 | 3 | 1 |
KEAP1 WILD-TYPE | 17 | 6 | 12 |
P value = 0.163 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
KEAP1 MUTATED | 0 | 3 | 1 | 0 | 1 | 0 |
KEAP1 WILD-TYPE | 5 | 4 | 10 | 6 | 8 | 2 |
P value = 0.363 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
KEAP1 MUTATED | 2 | 3 | 1 | 0 |
KEAP1 WILD-TYPE | 5 | 17 | 15 | 7 |
P value = 0.00033 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
KEAP1 MUTATED | 5 | 1 |
KEAP1 WILD-TYPE | 4 | 40 |
P value = 0.257 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
KEAP1 MUTATED | 0 | 1 | 1 | 2 | 2 |
KEAP1 WILD-TYPE | 9 | 13 | 6 | 13 | 3 |
P value = 0.272 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
KEAP1 MUTATED | 1 | 2 | 3 |
KEAP1 WILD-TYPE | 2 | 24 | 18 |
P value = 0.0169 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
CSMD3 MUTATED | 5 | 2 | 3 |
CSMD3 WILD-TYPE | 6 | 25 | 9 |
P value = 0.584 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
CSMD3 MUTATED | 1 | 3 | 1 |
CSMD3 WILD-TYPE | 9 | 9 | 9 |
P value = 0.877 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
CSMD3 MUTATED | 4 | 1 | 2 |
CSMD3 WILD-TYPE | 14 | 8 | 11 |
P value = 0.217 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
CSMD3 MUTATED | 1 | 3 | 1 | 2 | 0 | 0 |
CSMD3 WILD-TYPE | 4 | 4 | 10 | 4 | 9 | 2 |
P value = 0.275 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
CSMD3 MUTATED | 2 | 6 | 1 | 1 |
CSMD3 WILD-TYPE | 5 | 14 | 15 | 6 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
CSMD3 MUTATED | 2 | 8 |
CSMD3 WILD-TYPE | 7 | 33 |
P value = 0.531 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
CSMD3 MUTATED | 1 | 5 | 1 | 2 | 1 |
CSMD3 WILD-TYPE | 8 | 9 | 6 | 13 | 4 |
P value = 0.621 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
CSMD3 MUTATED | 1 | 6 | 3 |
CSMD3 WILD-TYPE | 2 | 20 | 18 |
P value = 0.15 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
BRAF MUTATED | 2 | 2 | 0 | 1 |
BRAF WILD-TYPE | 5 | 18 | 16 | 6 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
BRAF MUTATED | 1 | 4 |
BRAF WILD-TYPE | 8 | 37 |
P value = 0.535 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
BRAF MUTATED | 2 | 1 | 0 | 2 | 0 |
BRAF WILD-TYPE | 7 | 13 | 7 | 13 | 5 |
P value = 0.473 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
SPTA1 MUTATED | 3 | 3 | 1 |
SPTA1 WILD-TYPE | 8 | 24 | 11 |
P value = 0.139 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
SPTA1 MUTATED | 4 | 2 | 0 |
SPTA1 WILD-TYPE | 14 | 7 | 13 |
P value = 0.335 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
SPTA1 MUTATED | 2 | 2 | 1 | 1 | 0 | 0 |
SPTA1 WILD-TYPE | 3 | 5 | 10 | 5 | 9 | 2 |
P value = 0.183 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
SPTA1 MUTATED | 3 | 2 | 2 | 0 |
SPTA1 WILD-TYPE | 4 | 18 | 14 | 7 |
P value = 0.0997 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
SPTA1 MUTATED | 3 | 4 |
SPTA1 WILD-TYPE | 6 | 37 |
P value = 0.344 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
SPTA1 MUTATED | 1 | 4 | 0 | 2 | 0 |
SPTA1 WILD-TYPE | 8 | 10 | 7 | 13 | 5 |
P value = 0.136 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
SPTA1 MUTATED | 1 | 5 | 1 |
SPTA1 WILD-TYPE | 2 | 21 | 20 |
P value = 0.406 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
STK11 MUTATED | 0 | 3 | 0 |
STK11 WILD-TYPE | 11 | 24 | 12 |
P value = 0.15 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
STK11 MUTATED | 1 | 2 | 0 |
STK11 WILD-TYPE | 17 | 7 | 13 |
P value = 0.699 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
STK11 MUTATED | 1 | 1 | 1 | 0 | 0 | 0 |
STK11 WILD-TYPE | 4 | 6 | 10 | 6 | 9 | 2 |
P value = 0.722 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
STK11 MUTATED | 1 | 1 | 1 | 0 |
STK11 WILD-TYPE | 6 | 19 | 15 | 7 |
P value = 0.00429 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
STK11 MUTATED | 3 | 0 |
STK11 WILD-TYPE | 6 | 41 |
P value = 0.386 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
STK11 MUTATED | 0 | 1 | 1 | 0 | 1 |
STK11 WILD-TYPE | 9 | 13 | 6 | 15 | 4 |
P value = 0.406 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
OR4A5 MUTATED | 0 | 3 | 0 |
OR4A5 WILD-TYPE | 11 | 24 | 12 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
OR4A5 MUTATED | 1 | 1 | 1 |
OR4A5 WILD-TYPE | 17 | 8 | 12 |
P value = 5.24e-05 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
OR4A5 MUTATED | 0 | 0 | 0 | 0 | 1 | 2 |
OR4A5 WILD-TYPE | 5 | 7 | 11 | 6 | 8 | 0 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
OR4A5 MUTATED | 0 | 3 |
OR4A5 WILD-TYPE | 9 | 38 |
P value = 0.125 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
OR4A5 MUTATED | 2 | 0 | 1 | 0 | 0 |
OR4A5 WILD-TYPE | 7 | 14 | 6 | 15 | 5 |
P value = 0.373 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
OR4A5 MUTATED | 0 | 3 | 0 |
OR4A5 WILD-TYPE | 3 | 23 | 21 |
P value = 0.489 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
SETD2 MUTATED | 0 | 3 | 2 |
SETD2 WILD-TYPE | 11 | 24 | 10 |
P value = 0.172 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
SETD2 MUTATED | 3 | 1 | 0 |
SETD2 WILD-TYPE | 7 | 11 | 10 |
P value = 0.304 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
SETD2 MUTATED | 3 | 0 | 0 |
SETD2 WILD-TYPE | 15 | 9 | 13 |
P value = 0.541 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
SETD2 MUTATED | 0 | 1 | 2 | 0 | 0 | 0 |
SETD2 WILD-TYPE | 5 | 6 | 9 | 6 | 9 | 2 |
P value = 0.594 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
SETD2 MUTATED | 1 | 1 | 2 | 1 |
SETD2 WILD-TYPE | 6 | 19 | 14 | 6 |
P value = 0.57 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
SETD2 MUTATED | 0 | 5 |
SETD2 WILD-TYPE | 9 | 36 |
P value = 0.335 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
SETD2 MUTATED | 2 | 0 | 0 | 2 | 1 |
SETD2 WILD-TYPE | 7 | 14 | 7 | 13 | 4 |
P value = 0.216 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
SETD2 MUTATED | 0 | 1 | 4 |
SETD2 WILD-TYPE | 3 | 25 | 17 |
P value = 0.758 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 10 | 12 | 10 |
CDH10 MUTATED | 0 | 2 | 1 |
CDH10 WILD-TYPE | 10 | 10 | 9 |
P value = 0.304 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
CDH10 MUTATED | 3 | 0 | 0 |
CDH10 WILD-TYPE | 15 | 9 | 13 |
P value = 0.431 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
CDH10 MUTATED | 1 | 0 | 2 | 0 | 0 | 0 |
CDH10 WILD-TYPE | 4 | 7 | 9 | 6 | 9 | 2 |
P value = 0.0436 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
CDH10 MUTATED | 1 | 0 | 1 | 2 |
CDH10 WILD-TYPE | 6 | 20 | 15 | 5 |
P value = 0.56 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
CDH10 MUTATED | 1 | 3 |
CDH10 WILD-TYPE | 8 | 38 |
P value = 0.532 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
CDH10 MUTATED | 0 | 2 | 0 | 2 | 0 |
CDH10 WILD-TYPE | 9 | 12 | 7 | 13 | 5 |
P value = 0.586 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 18 | 9 | 13 |
MGAT4C MUTATED | 1 | 0 | 2 |
MGAT4C WILD-TYPE | 17 | 9 | 11 |
P value = 0.23 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 5 | 7 | 11 | 6 | 9 | 2 |
MGAT4C MUTATED | 0 | 0 | 1 | 0 | 1 | 1 |
MGAT4C WILD-TYPE | 5 | 7 | 10 | 6 | 8 | 1 |
P value = 0.494 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
MGAT4C MUTATED | 0 | 2 | 0 | 1 |
MGAT4C WILD-TYPE | 7 | 18 | 16 | 6 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
MGAT4C MUTATED | 0 | 3 |
MGAT4C WILD-TYPE | 9 | 38 |
P value = 0.874 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
MGAT4C MUTATED | 1 | 1 | 0 | 1 | 0 |
MGAT4C WILD-TYPE | 8 | 13 | 7 | 14 | 5 |
P value = 0.588 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 11 | 27 | 12 |
U2AF2 MUTATED | 1 | 1 | 1 |
U2AF2 WILD-TYPE | 10 | 26 | 11 |
P value = 0.845 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 7 | 20 | 16 | 7 |
U2AF2 MUTATED | 0 | 1 | 2 | 0 |
U2AF2 WILD-TYPE | 7 | 19 | 14 | 7 |
P value = 1 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 |
---|---|---|
ALL | 9 | 41 |
U2AF2 MUTATED | 0 | 3 |
U2AF2 WILD-TYPE | 9 | 38 |
P value = 0.477 (Chi-square test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 9 | 14 | 7 | 15 | 5 |
U2AF2 MUTATED | 1 | 0 | 0 | 2 | 0 |
U2AF2 WILD-TYPE | 8 | 14 | 7 | 13 | 5 |
P value = 0.652 (Fisher's exact test)
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 3 | 26 | 21 |
U2AF2 MUTATED | 0 | 1 | 2 |
U2AF2 WILD-TYPE | 3 | 25 | 19 |
-
Mutation data file = MOLECULAR_NONSMOKER.mutsig.cluster.txt
-
Clinical data file = MOLECULAR_NONSMOKER.transferedmergedcluster.txt
-
Number of patients = 50
-
Number of significantly mutated genes = 15
-
Number of selected clinical features = 8
-
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 multi-class clinical features (nominal or ordinal), Chi-square tests (Greenwood and Nikulin 1996) were used to estimate the P values using the 'chisq.test' function in R
This is an experimental feature. The full results of the analysis summarized in this report can be downloaded from the TCGA Data Coordination Center.