This pipeline computes the correlation between significantly recurrent gene mutations and molecular subtypes.
Testing the association between mutation status of 20 genes and 10 molecular subtypes across 220 patients, 19 significant findings detected with P value < 0.05 and Q value < 0.25.
-
PIK3CA mutation correlated to 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
-
PGM5 mutation correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CNMF'.
-
CBWD1 mutation correlated to 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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TP53 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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ARID1A mutation correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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PTEN mutation correlated to 'MRNASEQ_CNMF'.
Table 1. Get Full Table Overview of the association between mutation status of 20 genes and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 19 significant findings detected.
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 | Chi-square test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Chi-square test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
TP53 | 99 (45%) | 121 |
7.48e-10 (1.5e-07) |
3.37e-05 (0.00656) |
0.17 (1.00) |
0.855 (1.00) |
0.000261 (0.0492) |
0.000375 (0.0702) |
0.0327 (1.00) |
1.29e-05 (0.00254) |
0.204 (1.00) |
2.33e-05 (0.00456) |
PIK3CA | 48 (22%) | 172 |
0.00139 (0.251) |
3.38e-09 (6.72e-07) |
0.0143 (1.00) |
0.000338 (0.0636) |
0.000924 (0.169) |
3.97e-05 (0.0077) |
0.00508 (0.843) |
0.0171 (1.00) |
0.0179 (1.00) |
0.00312 (0.539) |
CBWD1 | 28 (13%) | 192 |
0.0029 (0.504) |
4.65e-06 (0.000921) |
7.85e-05 (0.0151) |
0.00466 (0.784) |
9.94e-05 (0.019) |
0.00371 (0.634) |
0.0284 (1.00) |
0.00791 (1.00) |
0.238 (1.00) |
0.00018 (0.0342) |
PGM5 | 22 (10%) | 198 |
0.00946 (1.00) |
7.48e-05 (0.0144) |
0.153 (1.00) |
0.0283 (1.00) |
0.000974 (0.177) |
0.00238 (0.423) |
0.276 (1.00) |
0.029 (1.00) |
0.117 (1.00) |
0.0171 (1.00) |
ARID1A | 41 (19%) | 179 |
0.0005 (0.093) |
0.00711 (1.00) |
0.0151 (1.00) |
0.0637 (1.00) |
0.000738 (0.137) |
0.00996 (1.00) |
0.0861 (1.00) |
0.00608 (1.00) |
0.883 (1.00) |
0.162 (1.00) |
PTEN | 14 (6%) | 206 |
0.0495 (1.00) |
0.0152 (1.00) |
0.00434 (0.734) |
0.0101 (1.00) |
0.000833 (0.153) |
0.0121 (1.00) |
0.158 (1.00) |
0.012 (1.00) |
0.288 (1.00) |
0.00607 (1.00) |
KRAS | 25 (11%) | 195 |
0.0118 (1.00) |
0.127 (1.00) |
0.557 (1.00) |
0.921 (1.00) |
0.216 (1.00) |
0.0262 (1.00) |
0.164 (1.00) |
0.505 (1.00) |
0.0973 (1.00) |
0.912 (1.00) |
SMAD4 | 19 (9%) | 201 |
0.778 (1.00) |
0.963 (1.00) |
0.064 (1.00) |
0.735 (1.00) |
0.00387 (0.658) |
0.193 (1.00) |
0.201 (1.00) |
0.157 (1.00) |
0.531 (1.00) |
0.536 (1.00) |
RHOA | 13 (6%) | 207 |
0.251 (1.00) |
0.189 (1.00) |
0.872 (1.00) |
0.86 (1.00) |
0.558 (1.00) |
0.0531 (1.00) |
0.0035 (0.602) |
0.0848 (1.00) |
0.00268 (0.469) |
0.038 (1.00) |
IRF2 | 14 (6%) | 206 |
0.67 (1.00) |
0.414 (1.00) |
0.0641 (1.00) |
0.764 (1.00) |
0.21 (1.00) |
0.632 (1.00) |
0.0301 (1.00) |
0.0244 (1.00) |
0.123 (1.00) |
0.0866 (1.00) |
CDH1 | 18 (8%) | 202 |
0.189 (1.00) |
0.457 (1.00) |
0.574 (1.00) |
0.64 (1.00) |
0.11 (1.00) |
0.0575 (1.00) |
0.0261 (1.00) |
0.0495 (1.00) |
0.0791 (1.00) |
0.123 (1.00) |
FBXW7 | 19 (9%) | 201 |
0.12 (1.00) |
0.0221 (1.00) |
0.00182 (0.326) |
0.0142 (1.00) |
0.00743 (1.00) |
0.323 (1.00) |
0.155 (1.00) |
0.0696 (1.00) |
0.00949 (1.00) |
0.00256 (0.45) |
B2M | 8 (4%) | 212 |
0.0958 (1.00) |
0.0232 (1.00) |
0.0861 (1.00) |
0.695 (1.00) |
0.0513 (1.00) |
0.3 (1.00) |
0.355 (1.00) |
0.149 (1.00) |
0.598 (1.00) |
0.103 (1.00) |
FAM46D | 6 (3%) | 214 |
0.661 (1.00) |
0.708 (1.00) |
0.744 (1.00) |
0.109 (1.00) |
0.103 (1.00) |
1 (1.00) |
0.775 (1.00) |
0.67 (1.00) |
1 (1.00) |
0.714 (1.00) |
RNF43 | 9 (4%) | 211 |
0.838 (1.00) |
0.596 (1.00) |
0.577 (1.00) |
0.113 (1.00) |
0.273 (1.00) |
0.798 (1.00) |
0.634 (1.00) |
0.181 (1.00) |
0.878 (1.00) |
0.274 (1.00) |
APC | 33 (15%) | 187 |
0.875 (1.00) |
0.0231 (1.00) |
0.0755 (1.00) |
0.0909 (1.00) |
0.302 (1.00) |
0.00248 (0.438) |
0.0124 (1.00) |
0.00499 (0.834) |
0.06 (1.00) |
0.00989 (1.00) |
WSB2 | 7 (3%) | 213 |
0.417 (1.00) |
0.131 (1.00) |
0.0861 (1.00) |
0.0629 (1.00) |
0.126 (1.00) |
0.0291 (1.00) |
0.00144 (0.259) |
0.065 (1.00) |
0.132 (1.00) |
0.0464 (1.00) |
MAP2K7 | 14 (6%) | 206 |
0.319 (1.00) |
0.0984 (1.00) |
0.821 (1.00) |
0.764 (1.00) |
0.0501 (1.00) |
0.488 (1.00) |
0.158 (1.00) |
0.0964 (1.00) |
0.791 (1.00) |
0.261 (1.00) |
TRPS1 | 30 (14%) | 190 |
0.92 (1.00) |
0.0435 (1.00) |
0.111 (1.00) |
0.118 (1.00) |
0.0233 (1.00) |
0.235 (1.00) |
0.332 (1.00) |
0.665 (1.00) |
0.516 (1.00) |
0.118 (1.00) |
C13ORF33 | 6 (3%) | 214 |
0.344 (1.00) |
0.0165 (1.00) |
0.0152 (1.00) |
0.0861 (1.00) |
0.141 (1.00) |
0.46 (1.00) |
0.515 (1.00) |
0.44 (1.00) |
0.216 (1.00) |
0.274 (1.00) |
P value = 0.00139 (Chi-square test), Q value = 0.25
Table S1. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
PIK3CA MUTATED | 35 | 4 | 3 | 2 | 4 | 0 |
PIK3CA WILD-TYPE | 68 | 14 | 32 | 5 | 51 | 1 |
Figure S1. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D1V1.png)
P value = 3.38e-09 (Fisher's exact test), Q value = 6.7e-07
Table S2. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
PIK3CA MUTATED | 19 | 15 | 4 | 4 |
PIK3CA WILD-TYPE | 8 | 36 | 40 | 49 |
Figure S2. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D1V2.png)
P value = 0.0143 (Fisher's exact test), Q value = 1
Table S3. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
PIK3CA MUTATED | 20 | 8 | 17 |
PIK3CA WILD-TYPE | 42 | 60 | 50 |
Figure S3. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D1V3.png)
P value = 0.000338 (Fisher's exact test), Q value = 0.064
Table S4. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
PIK3CA MUTATED | 22 | 15 | 8 |
PIK3CA WILD-TYPE | 59 | 21 | 72 |
Figure S4. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
![](D1V4.png)
P value = 0.000924 (Chi-square test), Q value = 0.17
Table S5. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
PIK3CA MUTATED | 20 | 8 | 3 | 9 | 4 |
PIK3CA WILD-TYPE | 28 | 35 | 27 | 21 | 40 |
Figure S5. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D1V5.png)
P value = 3.97e-05 (Fisher's exact test), Q value = 0.0077
Table S6. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
PIK3CA MUTATED | 3 | 29 | 12 |
PIK3CA WILD-TYPE | 50 | 48 | 53 |
Figure S6. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D1V6.png)
P value = 0.00508 (Fisher's exact test), Q value = 0.84
Table S7. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
PIK3CA MUTATED | 27 | 14 | 7 |
PIK3CA WILD-TYPE | 57 | 55 | 60 |
Figure S7. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D1V7.png)
P value = 0.0171 (Fisher's exact test), Q value = 1
Table S8. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
PIK3CA MUTATED | 16 | 5 | 27 |
PIK3CA WILD-TYPE | 56 | 49 | 67 |
Figure S8. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D1V8.png)
P value = 0.0179 (Fisher's exact test), Q value = 1
Table S9. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
PIK3CA MUTATED | 21 | 13 | 8 |
PIK3CA WILD-TYPE | 35 | 56 | 43 |
Figure S9. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
![](D1V9.png)
P value = 0.00312 (Fisher's exact test), Q value = 0.54
Table S10. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
PIK3CA MUTATED | 3 | 28 | 11 |
PIK3CA WILD-TYPE | 39 | 56 | 39 |
Figure S10. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D1V10.png)
P value = 0.00946 (Chi-square test), Q value = 1
Table S11. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
PGM5 MUTATED | 16 | 3 | 1 | 2 | 0 | 0 |
PGM5 WILD-TYPE | 87 | 15 | 34 | 5 | 55 | 1 |
Figure S11. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D2V1.png)
P value = 7.48e-05 (Fisher's exact test), Q value = 0.014
Table S12. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
PGM5 MUTATED | 3 | 12 | 1 | 0 |
PGM5 WILD-TYPE | 24 | 39 | 43 | 53 |
Figure S12. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D2V2.png)
P value = 0.153 (Fisher's exact test), Q value = 1
Table S13. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
PGM5 MUTATED | 10 | 4 | 6 |
PGM5 WILD-TYPE | 52 | 64 | 61 |
P value = 0.0283 (Fisher's exact test), Q value = 1
Table S14. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
PGM5 MUTATED | 11 | 6 | 3 |
PGM5 WILD-TYPE | 70 | 30 | 77 |
Figure S13. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
![](D2V4.png)
P value = 0.000974 (Chi-square test), Q value = 0.18
Table S15. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
PGM5 MUTATED | 11 | 2 | 5 | 1 | 0 |
PGM5 WILD-TYPE | 37 | 41 | 25 | 29 | 44 |
Figure S14. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D2V5.png)
P value = 0.00238 (Fisher's exact test), Q value = 0.42
Table S16. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
PGM5 MUTATED | 0 | 13 | 6 |
PGM5 WILD-TYPE | 53 | 64 | 59 |
Figure S15. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D2V6.png)
P value = 0.276 (Fisher's exact test), Q value = 1
Table S17. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
PGM5 MUTATED | 12 | 5 | 5 |
PGM5 WILD-TYPE | 72 | 64 | 62 |
P value = 0.029 (Fisher's exact test), Q value = 1
Table S18. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
PGM5 MUTATED | 7 | 1 | 14 |
PGM5 WILD-TYPE | 65 | 53 | 80 |
Figure S16. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D2V8.png)
P value = 0.117 (Fisher's exact test), Q value = 1
Table S19. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
PGM5 MUTATED | 4 | 10 | 2 |
PGM5 WILD-TYPE | 52 | 59 | 49 |
P value = 0.0171 (Fisher's exact test), Q value = 1
Table S20. Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
PGM5 MUTATED | 0 | 12 | 4 |
PGM5 WILD-TYPE | 42 | 72 | 46 |
Figure S17. Get High-res Image Gene #2: 'PGM5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D2V10.png)
P value = 0.0118 (Chi-square test), Q value = 1
Table S21. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
KRAS MUTATED | 17 | 1 | 1 | 3 | 3 | 0 |
KRAS WILD-TYPE | 86 | 17 | 34 | 4 | 52 | 1 |
Figure S18. Get High-res Image Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D3V1.png)
P value = 0.127 (Fisher's exact test), Q value = 1
Table S22. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
KRAS MUTATED | 2 | 9 | 5 | 2 |
KRAS WILD-TYPE | 25 | 42 | 39 | 51 |
P value = 0.557 (Fisher's exact test), Q value = 1
Table S23. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
KRAS MUTATED | 10 | 7 | 7 |
KRAS WILD-TYPE | 52 | 61 | 60 |
P value = 0.921 (Fisher's exact test), Q value = 1
Table S24. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
KRAS MUTATED | 11 | 4 | 9 |
KRAS WILD-TYPE | 70 | 32 | 71 |
P value = 0.216 (Chi-square test), Q value = 1
Table S25. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
KRAS MUTATED | 9 | 4 | 2 | 4 | 2 |
KRAS WILD-TYPE | 39 | 39 | 28 | 26 | 42 |
P value = 0.0262 (Fisher's exact test), Q value = 1
Table S26. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
KRAS MUTATED | 1 | 12 | 8 |
KRAS WILD-TYPE | 52 | 65 | 57 |
Figure S19. Get High-res Image Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D3V6.png)
P value = 0.164 (Fisher's exact test), Q value = 1
Table S27. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
KRAS MUTATED | 13 | 4 | 8 |
KRAS WILD-TYPE | 71 | 65 | 59 |
P value = 0.505 (Fisher's exact test), Q value = 1
Table S28. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
KRAS MUTATED | 8 | 4 | 13 |
KRAS WILD-TYPE | 64 | 50 | 81 |
P value = 0.0973 (Fisher's exact test), Q value = 1
Table S29. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
KRAS MUTATED | 5 | 11 | 2 |
KRAS WILD-TYPE | 51 | 58 | 49 |
P value = 0.912 (Fisher's exact test), Q value = 1
Table S30. Gene #3: 'KRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
KRAS MUTATED | 5 | 8 | 5 |
KRAS WILD-TYPE | 37 | 76 | 45 |
P value = 0.0029 (Chi-square test), Q value = 0.5
Table S31. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
CBWD1 MUTATED | 23 | 1 | 3 | 1 | 0 | 0 |
CBWD1 WILD-TYPE | 80 | 17 | 32 | 6 | 55 | 1 |
Figure S20. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D4V1.png)
P value = 4.65e-06 (Fisher's exact test), Q value = 0.00092
Table S32. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
CBWD1 MUTATED | 4 | 16 | 2 | 0 |
CBWD1 WILD-TYPE | 23 | 35 | 42 | 53 |
Figure S21. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D4V2.png)
P value = 7.85e-05 (Fisher's exact test), Q value = 0.015
Table S33. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
CBWD1 MUTATED | 18 | 2 | 7 |
CBWD1 WILD-TYPE | 44 | 66 | 60 |
Figure S22. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D4V3.png)
P value = 0.00466 (Fisher's exact test), Q value = 0.78
Table S34. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
CBWD1 MUTATED | 14 | 9 | 4 |
CBWD1 WILD-TYPE | 67 | 27 | 76 |
Figure S23. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
![](D4V4.png)
P value = 9.94e-05 (Chi-square test), Q value = 0.019
Table S35. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
CBWD1 MUTATED | 15 | 4 | 3 | 2 | 0 |
CBWD1 WILD-TYPE | 33 | 39 | 27 | 28 | 44 |
Figure S24. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D4V5.png)
P value = 0.00371 (Fisher's exact test), Q value = 0.63
Table S36. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
CBWD1 MUTATED | 2 | 17 | 5 |
CBWD1 WILD-TYPE | 51 | 60 | 60 |
Figure S25. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D4V6.png)
P value = 0.0284 (Fisher's exact test), Q value = 1
Table S37. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
CBWD1 MUTATED | 17 | 7 | 4 |
CBWD1 WILD-TYPE | 67 | 62 | 63 |
Figure S26. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D4V7.png)
P value = 0.00791 (Fisher's exact test), Q value = 1
Table S38. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
CBWD1 MUTATED | 10 | 1 | 17 |
CBWD1 WILD-TYPE | 62 | 53 | 77 |
Figure S27. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D4V8.png)
P value = 0.238 (Fisher's exact test), Q value = 1
Table S39. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
CBWD1 MUTATED | 8 | 11 | 3 |
CBWD1 WILD-TYPE | 48 | 58 | 48 |
P value = 0.00018 (Fisher's exact test), Q value = 0.034
Table S40. Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
CBWD1 MUTATED | 0 | 19 | 3 |
CBWD1 WILD-TYPE | 42 | 65 | 47 |
Figure S28. Get High-res Image Gene #4: 'CBWD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D4V10.png)
P value = 7.48e-10 (Chi-square test), Q value = 1.5e-07
Table S41. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
TP53 MUTATED | 21 | 14 | 20 | 4 | 39 | 0 |
TP53 WILD-TYPE | 82 | 4 | 15 | 3 | 16 | 1 |
Figure S29. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D5V1.png)
P value = 3.37e-05 (Fisher's exact test), Q value = 0.0066
Table S42. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
TP53 MUTATED | 5 | 25 | 15 | 37 |
TP53 WILD-TYPE | 22 | 26 | 29 | 16 |
Figure S30. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D5V2.png)
P value = 0.17 (Fisher's exact test), Q value = 1
Table S43. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
TP53 MUTATED | 33 | 25 | 30 |
TP53 WILD-TYPE | 29 | 43 | 37 |
P value = 0.855 (Fisher's exact test), Q value = 1
Table S44. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
TP53 MUTATED | 37 | 17 | 34 |
TP53 WILD-TYPE | 44 | 19 | 46 |
P value = 0.000261 (Chi-square test), Q value = 0.049
Table S45. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
TP53 MUTATED | 14 | 12 | 12 | 17 | 30 |
TP53 WILD-TYPE | 34 | 31 | 18 | 13 | 14 |
Figure S31. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D5V5.png)
P value = 0.000375 (Fisher's exact test), Q value = 0.07
Table S46. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
TP53 MUTATED | 35 | 30 | 20 |
TP53 WILD-TYPE | 18 | 47 | 45 |
Figure S32. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D5V6.png)
P value = 0.0327 (Fisher's exact test), Q value = 1
Table S47. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
TP53 MUTATED | 34 | 26 | 39 |
TP53 WILD-TYPE | 50 | 43 | 28 |
Figure S33. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D5V7.png)
P value = 1.29e-05 (Fisher's exact test), Q value = 0.0025
Table S48. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
TP53 MUTATED | 23 | 39 | 37 |
TP53 WILD-TYPE | 49 | 15 | 57 |
Figure S34. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D5V8.png)
P value = 0.204 (Fisher's exact test), Q value = 1
Table S49. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
TP53 MUTATED | 25 | 38 | 20 |
TP53 WILD-TYPE | 31 | 31 | 31 |
P value = 2.33e-05 (Fisher's exact test), Q value = 0.0046
Table S50. Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
TP53 MUTATED | 31 | 39 | 13 |
TP53 WILD-TYPE | 11 | 45 | 37 |
Figure S35. Get High-res Image Gene #5: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D5V10.png)
P value = 5e-04 (Chi-square test), Q value = 0.093
Table S51. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
ARID1A MUTATED | 32 | 2 | 5 | 1 | 1 | 0 |
ARID1A WILD-TYPE | 71 | 16 | 30 | 6 | 54 | 1 |
Figure S36. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D6V1.png)
P value = 0.00711 (Fisher's exact test), Q value = 1
Table S52. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
ARID1A MUTATED | 9 | 12 | 6 | 3 |
ARID1A WILD-TYPE | 18 | 39 | 38 | 50 |
Figure S37. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D6V2.png)
P value = 0.0151 (Fisher's exact test), Q value = 1
Table S53. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
ARID1A MUTATED | 19 | 7 | 13 |
ARID1A WILD-TYPE | 43 | 61 | 54 |
Figure S38. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D6V3.png)
P value = 0.0637 (Fisher's exact test), Q value = 1
Table S54. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
ARID1A MUTATED | 22 | 7 | 10 |
ARID1A WILD-TYPE | 59 | 29 | 70 |
P value = 0.000738 (Chi-square test), Q value = 0.14
Table S55. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
ARID1A MUTATED | 19 | 9 | 4 | 5 | 2 |
ARID1A WILD-TYPE | 29 | 34 | 26 | 25 | 42 |
Figure S39. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D6V5.png)
P value = 0.00996 (Fisher's exact test), Q value = 1
Table S56. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
ARID1A MUTATED | 4 | 22 | 13 |
ARID1A WILD-TYPE | 49 | 55 | 52 |
Figure S40. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D6V6.png)
P value = 0.0861 (Fisher's exact test), Q value = 1
Table S57. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
ARID1A MUTATED | 22 | 10 | 9 |
ARID1A WILD-TYPE | 62 | 59 | 58 |
P value = 0.00608 (Fisher's exact test), Q value = 1
Table S58. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
ARID1A MUTATED | 11 | 4 | 26 |
ARID1A WILD-TYPE | 61 | 50 | 68 |
Figure S41. Get High-res Image Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D6V8.png)
P value = 0.883 (Fisher's exact test), Q value = 1
Table S59. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
ARID1A MUTATED | 9 | 13 | 8 |
ARID1A WILD-TYPE | 47 | 56 | 43 |
P value = 0.162 (Fisher's exact test), Q value = 1
Table S60. Gene #6: 'ARID1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
ARID1A MUTATED | 4 | 19 | 7 |
ARID1A WILD-TYPE | 38 | 65 | 43 |
P value = 0.778 (Chi-square test), Q value = 1
Table S61. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
SMAD4 MUTATED | 8 | 1 | 5 | 0 | 5 | 0 |
SMAD4 WILD-TYPE | 95 | 17 | 30 | 7 | 50 | 1 |
P value = 0.963 (Fisher's exact test), Q value = 1
Table S62. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
SMAD4 MUTATED | 2 | 5 | 3 | 5 |
SMAD4 WILD-TYPE | 25 | 46 | 41 | 48 |
P value = 0.064 (Fisher's exact test), Q value = 1
Table S63. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
SMAD4 MUTATED | 9 | 5 | 2 |
SMAD4 WILD-TYPE | 53 | 63 | 65 |
P value = 0.735 (Fisher's exact test), Q value = 1
Table S64. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
SMAD4 MUTATED | 6 | 4 | 6 |
SMAD4 WILD-TYPE | 75 | 32 | 74 |
P value = 0.00387 (Chi-square test), Q value = 0.66
Table S65. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
SMAD4 MUTATED | 5 | 1 | 7 | 4 | 0 |
SMAD4 WILD-TYPE | 43 | 42 | 23 | 26 | 44 |
Figure S42. Get High-res Image Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D7V5.png)
P value = 0.193 (Fisher's exact test), Q value = 1
Table S66. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
SMAD4 MUTATED | 2 | 10 | 5 |
SMAD4 WILD-TYPE | 51 | 67 | 60 |
P value = 0.201 (Fisher's exact test), Q value = 1
Table S67. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
SMAD4 MUTATED | 11 | 4 | 4 |
SMAD4 WILD-TYPE | 73 | 65 | 63 |
P value = 0.157 (Fisher's exact test), Q value = 1
Table S68. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
SMAD4 MUTATED | 5 | 2 | 12 |
SMAD4 WILD-TYPE | 67 | 52 | 82 |
P value = 0.531 (Fisher's exact test), Q value = 1
Table S69. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
SMAD4 MUTATED | 4 | 8 | 3 |
SMAD4 WILD-TYPE | 52 | 61 | 48 |
P value = 0.536 (Fisher's exact test), Q value = 1
Table S70. Gene #7: 'SMAD4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
SMAD4 MUTATED | 2 | 9 | 4 |
SMAD4 WILD-TYPE | 40 | 75 | 46 |
P value = 0.251 (Chi-square test), Q value = 1
Table S71. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
RHOA MUTATED | 10 | 1 | 2 | 0 | 0 | 0 |
RHOA WILD-TYPE | 93 | 17 | 33 | 7 | 55 | 1 |
P value = 0.189 (Fisher's exact test), Q value = 1
Table S72. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
RHOA MUTATED | 1 | 2 | 6 | 2 |
RHOA WILD-TYPE | 26 | 49 | 38 | 51 |
P value = 0.872 (Fisher's exact test), Q value = 1
Table S73. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
RHOA MUTATED | 3 | 4 | 5 |
RHOA WILD-TYPE | 59 | 64 | 62 |
P value = 0.86 (Fisher's exact test), Q value = 1
Table S74. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
RHOA MUTATED | 4 | 2 | 6 |
RHOA WILD-TYPE | 77 | 34 | 74 |
P value = 0.558 (Chi-square test), Q value = 1
Table S75. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
RHOA MUTATED | 2 | 4 | 2 | 3 | 1 |
RHOA WILD-TYPE | 46 | 39 | 28 | 27 | 43 |
P value = 0.0531 (Fisher's exact test), Q value = 1
Table S76. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
RHOA MUTATED | 1 | 3 | 8 |
RHOA WILD-TYPE | 52 | 74 | 57 |
P value = 0.0035 (Fisher's exact test), Q value = 0.6
Table S77. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
RHOA MUTATED | 4 | 9 | 0 |
RHOA WILD-TYPE | 80 | 60 | 67 |
Figure S43. Get High-res Image Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D8V7.png)
P value = 0.0848 (Fisher's exact test), Q value = 1
Table S78. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
RHOA MUTATED | 8 | 1 | 4 |
RHOA WILD-TYPE | 64 | 53 | 90 |
P value = 0.00268 (Fisher's exact test), Q value = 0.47
Table S79. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
RHOA MUTATED | 4 | 0 | 7 |
RHOA WILD-TYPE | 52 | 69 | 44 |
Figure S44. Get High-res Image Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
![](D8V9.png)
P value = 0.038 (Fisher's exact test), Q value = 1
Table S80. Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
RHOA MUTATED | 1 | 3 | 7 |
RHOA WILD-TYPE | 41 | 81 | 43 |
Figure S45. Get High-res Image Gene #8: 'RHOA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D8V10.png)
P value = 0.67 (Chi-square test), Q value = 1
Table S81. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
IRF2 MUTATED | 9 | 1 | 1 | 1 | 2 | 0 |
IRF2 WILD-TYPE | 94 | 17 | 34 | 6 | 53 | 1 |
P value = 0.414 (Fisher's exact test), Q value = 1
Table S82. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
IRF2 MUTATED | 1 | 5 | 1 | 2 |
IRF2 WILD-TYPE | 26 | 46 | 43 | 51 |
P value = 0.0641 (Fisher's exact test), Q value = 1
Table S83. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
IRF2 MUTATED | 8 | 2 | 3 |
IRF2 WILD-TYPE | 54 | 66 | 64 |
P value = 0.764 (Fisher's exact test), Q value = 1
Table S84. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
IRF2 MUTATED | 6 | 3 | 4 |
IRF2 WILD-TYPE | 75 | 33 | 76 |
P value = 0.21 (Chi-square test), Q value = 1
Table S85. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
IRF2 MUTATED | 6 | 2 | 1 | 1 | 1 |
IRF2 WILD-TYPE | 42 | 41 | 29 | 29 | 43 |
P value = 0.632 (Fisher's exact test), Q value = 1
Table S86. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
IRF2 MUTATED | 2 | 6 | 3 |
IRF2 WILD-TYPE | 51 | 71 | 62 |
P value = 0.0301 (Fisher's exact test), Q value = 1
Table S87. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
IRF2 MUTATED | 10 | 1 | 3 |
IRF2 WILD-TYPE | 74 | 68 | 64 |
Figure S46. Get High-res Image Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D9V7.png)
P value = 0.0244 (Fisher's exact test), Q value = 1
Table S88. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
IRF2 MUTATED | 4 | 0 | 10 |
IRF2 WILD-TYPE | 68 | 54 | 84 |
Figure S47. Get High-res Image Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D9V8.png)
P value = 0.123 (Fisher's exact test), Q value = 1
Table S89. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
IRF2 MUTATED | 4 | 5 | 0 |
IRF2 WILD-TYPE | 52 | 64 | 51 |
P value = 0.0866 (Fisher's exact test), Q value = 1
Table S90. Gene #9: 'IRF2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
IRF2 MUTATED | 2 | 7 | 0 |
IRF2 WILD-TYPE | 40 | 77 | 50 |
P value = 0.189 (Chi-square test), Q value = 1
Table S91. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
CDH1 MUTATED | 12 | 1 | 3 | 1 | 0 | 0 |
CDH1 WILD-TYPE | 91 | 17 | 32 | 6 | 55 | 1 |
P value = 0.457 (Fisher's exact test), Q value = 1
Table S92. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
CDH1 MUTATED | 1 | 4 | 6 | 3 |
CDH1 WILD-TYPE | 26 | 47 | 38 | 50 |
P value = 0.574 (Fisher's exact test), Q value = 1
Table S93. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
CDH1 MUTATED | 4 | 8 | 6 |
CDH1 WILD-TYPE | 58 | 60 | 61 |
P value = 0.64 (Fisher's exact test), Q value = 1
Table S94. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
CDH1 MUTATED | 7 | 2 | 9 |
CDH1 WILD-TYPE | 74 | 34 | 71 |
P value = 0.11 (Chi-square test), Q value = 1
Table S95. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
CDH1 MUTATED | 2 | 7 | 1 | 4 | 2 |
CDH1 WILD-TYPE | 46 | 36 | 29 | 26 | 42 |
P value = 0.0575 (Fisher's exact test), Q value = 1
Table S96. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
CDH1 MUTATED | 1 | 6 | 9 |
CDH1 WILD-TYPE | 52 | 71 | 56 |
P value = 0.0261 (Fisher's exact test), Q value = 1
Table S97. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
CDH1 MUTATED | 8 | 9 | 1 |
CDH1 WILD-TYPE | 76 | 60 | 66 |
Figure S48. Get High-res Image Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D10V7.png)
P value = 0.0495 (Fisher's exact test), Q value = 1
Table S98. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
CDH1 MUTATED | 10 | 1 | 7 |
CDH1 WILD-TYPE | 62 | 53 | 87 |
Figure S49. Get High-res Image Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D10V8.png)
P value = 0.0791 (Fisher's exact test), Q value = 1
Table S99. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
CDH1 MUTATED | 5 | 2 | 7 |
CDH1 WILD-TYPE | 51 | 67 | 44 |
P value = 0.123 (Fisher's exact test), Q value = 1
Table S100. Gene #10: 'CDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
CDH1 MUTATED | 1 | 6 | 7 |
CDH1 WILD-TYPE | 41 | 78 | 43 |
P value = 0.0495 (Chi-square test), Q value = 1
Table S101. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
PTEN MUTATED | 12 | 0 | 0 | 1 | 1 | 0 |
PTEN WILD-TYPE | 91 | 18 | 35 | 6 | 54 | 1 |
Figure S50. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D11V1.png)
P value = 0.0152 (Fisher's exact test), Q value = 1
Table S102. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
PTEN MUTATED | 4 | 4 | 0 | 1 |
PTEN WILD-TYPE | 23 | 47 | 44 | 52 |
Figure S51. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D11V2.png)
P value = 0.00434 (Fisher's exact test), Q value = 0.73
Table S103. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
PTEN MUTATED | 8 | 0 | 5 |
PTEN WILD-TYPE | 54 | 68 | 62 |
Figure S52. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D11V3.png)
P value = 0.0101 (Fisher's exact test), Q value = 1
Table S104. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
PTEN MUTATED | 10 | 2 | 1 |
PTEN WILD-TYPE | 71 | 34 | 79 |
Figure S53. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
![](D11V4.png)
P value = 0.000833 (Chi-square test), Q value = 0.15
Table S105. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
PTEN MUTATED | 10 | 1 | 0 | 2 | 1 |
PTEN WILD-TYPE | 38 | 42 | 30 | 28 | 43 |
Figure S54. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D11V5.png)
P value = 0.0121 (Fisher's exact test), Q value = 1
Table S106. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
PTEN MUTATED | 1 | 11 | 2 |
PTEN WILD-TYPE | 52 | 66 | 63 |
Figure S55. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D11V6.png)
P value = 0.158 (Fisher's exact test), Q value = 1
Table S107. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
PTEN MUTATED | 9 | 2 | 3 |
PTEN WILD-TYPE | 75 | 67 | 64 |
P value = 0.012 (Fisher's exact test), Q value = 1
Table S108. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
PTEN MUTATED | 3 | 0 | 11 |
PTEN WILD-TYPE | 69 | 54 | 83 |
Figure S56. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D11V8.png)
P value = 0.288 (Fisher's exact test), Q value = 1
Table S109. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
PTEN MUTATED | 5 | 3 | 1 |
PTEN WILD-TYPE | 51 | 66 | 50 |
P value = 0.00607 (Fisher's exact test), Q value = 1
Table S110. Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
PTEN MUTATED | 0 | 9 | 0 |
PTEN WILD-TYPE | 42 | 75 | 50 |
Figure S57. Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D11V10.png)
P value = 0.12 (Chi-square test), Q value = 1
Table S111. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
FBXW7 MUTATED | 15 | 1 | 1 | 0 | 2 | 0 |
FBXW7 WILD-TYPE | 88 | 17 | 34 | 7 | 53 | 1 |
P value = 0.0221 (Fisher's exact test), Q value = 1
Table S112. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
FBXW7 MUTATED | 1 | 10 | 2 | 2 |
FBXW7 WILD-TYPE | 26 | 41 | 42 | 51 |
Figure S58. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D12V2.png)
P value = 0.00182 (Fisher's exact test), Q value = 0.33
Table S113. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
FBXW7 MUTATED | 12 | 1 | 5 |
FBXW7 WILD-TYPE | 50 | 67 | 62 |
Figure S59. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D12V3.png)
P value = 0.0142 (Fisher's exact test), Q value = 1
Table S114. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
FBXW7 MUTATED | 11 | 5 | 2 |
FBXW7 WILD-TYPE | 70 | 31 | 78 |
Figure S60. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
![](D12V4.png)
P value = 0.00743 (Chi-square test), Q value = 1
Table S115. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
FBXW7 MUTATED | 10 | 1 | 1 | 2 | 2 |
FBXW7 WILD-TYPE | 38 | 42 | 29 | 28 | 42 |
Figure S61. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D12V5.png)
P value = 0.323 (Fisher's exact test), Q value = 1
Table S116. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
FBXW7 MUTATED | 4 | 9 | 3 |
FBXW7 WILD-TYPE | 49 | 68 | 62 |
P value = 0.155 (Fisher's exact test), Q value = 1
Table S117. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
FBXW7 MUTATED | 11 | 3 | 5 |
FBXW7 WILD-TYPE | 73 | 66 | 62 |
P value = 0.0696 (Fisher's exact test), Q value = 1
Table S118. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
FBXW7 MUTATED | 4 | 2 | 13 |
FBXW7 WILD-TYPE | 68 | 52 | 81 |
P value = 0.00949 (Fisher's exact test), Q value = 1
Table S119. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
FBXW7 MUTATED | 5 | 10 | 0 |
FBXW7 WILD-TYPE | 51 | 59 | 51 |
Figure S62. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
![](D12V9.png)
P value = 0.00256 (Fisher's exact test), Q value = 0.45
Table S120. Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
FBXW7 MUTATED | 2 | 13 | 0 |
FBXW7 WILD-TYPE | 40 | 71 | 50 |
Figure S63. Get High-res Image Gene #12: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D12V10.png)
P value = 0.0958 (Chi-square test), Q value = 1
Table S121. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
B2M MUTATED | 8 | 0 | 0 | 0 | 0 | 0 |
B2M WILD-TYPE | 95 | 18 | 35 | 7 | 55 | 1 |
P value = 0.0232 (Fisher's exact test), Q value = 1
Table S122. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
B2M MUTATED | 1 | 6 | 1 | 0 |
B2M WILD-TYPE | 26 | 45 | 43 | 53 |
Figure S64. Get High-res Image Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D13V2.png)
P value = 0.0861 (Fisher's exact test), Q value = 1
Table S123. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
B2M MUTATED | 4 | 0 | 3 |
B2M WILD-TYPE | 58 | 68 | 64 |
P value = 0.695 (Fisher's exact test), Q value = 1
Table S124. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
B2M MUTATED | 3 | 2 | 2 |
B2M WILD-TYPE | 78 | 34 | 78 |
P value = 0.0513 (Chi-square test), Q value = 1
Table S125. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
B2M MUTATED | 5 | 1 | 0 | 1 | 0 |
B2M WILD-TYPE | 43 | 42 | 30 | 29 | 44 |
P value = 0.3 (Fisher's exact test), Q value = 1
Table S126. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
B2M MUTATED | 1 | 5 | 1 |
B2M WILD-TYPE | 52 | 72 | 64 |
P value = 0.355 (Fisher's exact test), Q value = 1
Table S127. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
B2M MUTATED | 5 | 2 | 1 |
B2M WILD-TYPE | 79 | 67 | 66 |
P value = 0.149 (Fisher's exact test), Q value = 1
Table S128. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
B2M MUTATED | 2 | 0 | 6 |
B2M WILD-TYPE | 70 | 54 | 88 |
P value = 0.598 (Fisher's exact test), Q value = 1
Table S129. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
B2M MUTATED | 4 | 2 | 2 |
B2M WILD-TYPE | 52 | 67 | 49 |
P value = 0.103 (Fisher's exact test), Q value = 1
Table S130. Gene #13: 'B2M MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
B2M MUTATED | 0 | 7 | 1 |
B2M WILD-TYPE | 42 | 77 | 49 |
P value = 0.661 (Chi-square test), Q value = 1
Table S131. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
FAM46D MUTATED | 3 | 0 | 0 | 0 | 3 | 0 |
FAM46D WILD-TYPE | 100 | 18 | 35 | 7 | 52 | 1 |
P value = 0.708 (Fisher's exact test), Q value = 1
Table S132. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
FAM46D MUTATED | 0 | 2 | 2 | 1 |
FAM46D WILD-TYPE | 27 | 49 | 42 | 52 |
P value = 0.744 (Fisher's exact test), Q value = 1
Table S133. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
FAM46D MUTATED | 2 | 1 | 2 |
FAM46D WILD-TYPE | 60 | 67 | 65 |
P value = 0.109 (Fisher's exact test), Q value = 1
Table S134. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
FAM46D MUTATED | 3 | 2 | 0 |
FAM46D WILD-TYPE | 78 | 34 | 80 |
P value = 0.103 (Chi-square test), Q value = 1
Table S135. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
FAM46D MUTATED | 0 | 1 | 0 | 3 | 2 |
FAM46D WILD-TYPE | 48 | 42 | 30 | 27 | 42 |
P value = 1 (Fisher's exact test), Q value = 1
Table S136. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
FAM46D MUTATED | 2 | 2 | 2 |
FAM46D WILD-TYPE | 51 | 75 | 63 |
P value = 0.775 (Fisher's exact test), Q value = 1
Table S137. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
FAM46D MUTATED | 3 | 1 | 2 |
FAM46D WILD-TYPE | 81 | 68 | 65 |
P value = 0.67 (Fisher's exact test), Q value = 1
Table S138. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
FAM46D MUTATED | 1 | 2 | 3 |
FAM46D WILD-TYPE | 71 | 52 | 91 |
P value = 1 (Fisher's exact test), Q value = 1
Table S139. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
FAM46D MUTATED | 2 | 2 | 1 |
FAM46D WILD-TYPE | 54 | 67 | 50 |
P value = 0.714 (Fisher's exact test), Q value = 1
Table S140. Gene #14: 'FAM46D MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
FAM46D MUTATED | 2 | 2 | 1 |
FAM46D WILD-TYPE | 40 | 82 | 49 |
P value = 0.838 (Chi-square test), Q value = 1
Table S141. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
RNF43 MUTATED | 6 | 1 | 1 | 0 | 1 | 0 |
RNF43 WILD-TYPE | 97 | 17 | 34 | 7 | 54 | 1 |
P value = 0.596 (Fisher's exact test), Q value = 1
Table S142. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
RNF43 MUTATED | 0 | 3 | 2 | 1 |
RNF43 WILD-TYPE | 27 | 48 | 42 | 52 |
P value = 0.577 (Fisher's exact test), Q value = 1
Table S143. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
RNF43 MUTATED | 4 | 2 | 3 |
RNF43 WILD-TYPE | 58 | 66 | 64 |
P value = 0.113 (Fisher's exact test), Q value = 1
Table S144. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
RNF43 MUTATED | 5 | 3 | 1 |
RNF43 WILD-TYPE | 76 | 33 | 79 |
P value = 0.273 (Chi-square test), Q value = 1
Table S145. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
RNF43 MUTATED | 2 | 1 | 0 | 3 | 1 |
RNF43 WILD-TYPE | 46 | 42 | 30 | 27 | 43 |
P value = 0.798 (Fisher's exact test), Q value = 1
Table S146. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
RNF43 MUTATED | 1 | 3 | 3 |
RNF43 WILD-TYPE | 52 | 74 | 62 |
P value = 0.634 (Fisher's exact test), Q value = 1
Table S147. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
RNF43 MUTATED | 5 | 2 | 2 |
RNF43 WILD-TYPE | 79 | 67 | 65 |
P value = 0.181 (Fisher's exact test), Q value = 1
Table S148. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
RNF43 MUTATED | 3 | 0 | 6 |
RNF43 WILD-TYPE | 69 | 54 | 88 |
P value = 0.878 (Fisher's exact test), Q value = 1
Table S149. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
RNF43 MUTATED | 2 | 3 | 1 |
RNF43 WILD-TYPE | 54 | 66 | 50 |
P value = 0.274 (Fisher's exact test), Q value = 1
Table S150. Gene #15: 'RNF43 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
RNF43 MUTATED | 0 | 5 | 1 |
RNF43 WILD-TYPE | 42 | 79 | 49 |
P value = 0.875 (Chi-square test), Q value = 1
Table S151. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
APC MUTATED | 16 | 3 | 3 | 1 | 10 | 0 |
APC WILD-TYPE | 87 | 15 | 32 | 6 | 45 | 1 |
P value = 0.0231 (Fisher's exact test), Q value = 1
Table S152. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
APC MUTATED | 1 | 12 | 2 | 7 |
APC WILD-TYPE | 26 | 39 | 42 | 46 |
Figure S65. Get High-res Image Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D16V2.png)
P value = 0.0755 (Fisher's exact test), Q value = 1
Table S153. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
APC MUTATED | 13 | 5 | 11 |
APC WILD-TYPE | 49 | 63 | 56 |
P value = 0.0909 (Fisher's exact test), Q value = 1
Table S154. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
APC MUTATED | 17 | 5 | 7 |
APC WILD-TYPE | 64 | 31 | 73 |
P value = 0.302 (Chi-square test), Q value = 1
Table S155. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
APC MUTATED | 9 | 2 | 5 | 6 | 7 |
APC WILD-TYPE | 39 | 41 | 25 | 24 | 37 |
P value = 0.00248 (Fisher's exact test), Q value = 0.44
Table S156. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
APC MUTATED | 5 | 20 | 4 |
APC WILD-TYPE | 48 | 57 | 61 |
Figure S66. Get High-res Image Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D16V6.png)
P value = 0.0124 (Fisher's exact test), Q value = 1
Table S157. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
APC MUTATED | 19 | 4 | 10 |
APC WILD-TYPE | 65 | 65 | 57 |
Figure S67. Get High-res Image Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D16V7.png)
P value = 0.00499 (Fisher's exact test), Q value = 0.83
Table S158. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
APC MUTATED | 4 | 7 | 22 |
APC WILD-TYPE | 68 | 47 | 72 |
Figure S68. Get High-res Image Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
![](D16V8.png)
P value = 0.06 (Fisher's exact test), Q value = 1
Table S159. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
APC MUTATED | 8 | 12 | 2 |
APC WILD-TYPE | 48 | 57 | 49 |
P value = 0.00989 (Fisher's exact test), Q value = 1
Table S160. Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
APC MUTATED | 5 | 16 | 1 |
APC WILD-TYPE | 37 | 68 | 49 |
Figure S69. Get High-res Image Gene #16: 'APC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D16V10.png)
P value = 0.417 (Chi-square test), Q value = 1
Table S161. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
WSB2 MUTATED | 6 | 0 | 1 | 0 | 0 | 0 |
WSB2 WILD-TYPE | 97 | 18 | 34 | 7 | 55 | 1 |
P value = 0.131 (Fisher's exact test), Q value = 1
Table S162. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
WSB2 MUTATED | 1 | 4 | 1 | 0 |
WSB2 WILD-TYPE | 26 | 47 | 43 | 53 |
P value = 0.0861 (Fisher's exact test), Q value = 1
Table S163. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
WSB2 MUTATED | 4 | 0 | 3 |
WSB2 WILD-TYPE | 58 | 68 | 64 |
P value = 0.0629 (Fisher's exact test), Q value = 1
Table S164. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
WSB2 MUTATED | 5 | 2 | 0 |
WSB2 WILD-TYPE | 76 | 34 | 80 |
P value = 0.126 (Chi-square test), Q value = 1
Table S165. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
WSB2 MUTATED | 4 | 0 | 1 | 2 | 0 |
WSB2 WILD-TYPE | 44 | 43 | 29 | 28 | 44 |
P value = 0.0291 (Fisher's exact test), Q value = 1
Table S166. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
WSB2 MUTATED | 1 | 6 | 0 |
WSB2 WILD-TYPE | 52 | 71 | 65 |
Figure S70. Get High-res Image Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
![](D17V6.png)
P value = 0.00144 (Fisher's exact test), Q value = 0.26
Table S167. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
WSB2 MUTATED | 7 | 0 | 0 |
WSB2 WILD-TYPE | 77 | 69 | 67 |
Figure S71. Get High-res Image Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
![](D17V7.png)
P value = 0.065 (Fisher's exact test), Q value = 1
Table S168. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
WSB2 MUTATED | 1 | 0 | 6 |
WSB2 WILD-TYPE | 71 | 54 | 88 |
P value = 0.132 (Fisher's exact test), Q value = 1
Table S169. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
WSB2 MUTATED | 4 | 2 | 0 |
WSB2 WILD-TYPE | 52 | 67 | 51 |
P value = 0.0464 (Fisher's exact test), Q value = 1
Table S170. Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
WSB2 MUTATED | 0 | 6 | 0 |
WSB2 WILD-TYPE | 42 | 78 | 50 |
Figure S72. Get High-res Image Gene #17: 'WSB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D17V10.png)
P value = 0.319 (Chi-square test), Q value = 1
Table S171. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
MAP2K7 MUTATED | 10 | 0 | 2 | 1 | 1 | 0 |
MAP2K7 WILD-TYPE | 93 | 18 | 33 | 6 | 54 | 1 |
P value = 0.0984 (Fisher's exact test), Q value = 1
Table S172. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
MAP2K7 MUTATED | 1 | 7 | 2 | 1 |
MAP2K7 WILD-TYPE | 26 | 44 | 42 | 52 |
P value = 0.821 (Fisher's exact test), Q value = 1
Table S173. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
MAP2K7 MUTATED | 3 | 5 | 5 |
MAP2K7 WILD-TYPE | 59 | 63 | 62 |
P value = 0.764 (Fisher's exact test), Q value = 1
Table S174. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
MAP2K7 MUTATED | 6 | 3 | 4 |
MAP2K7 WILD-TYPE | 75 | 33 | 76 |
P value = 0.0501 (Chi-square test), Q value = 1
Table S175. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
MAP2K7 MUTATED | 7 | 3 | 1 | 0 | 1 |
MAP2K7 WILD-TYPE | 41 | 40 | 29 | 30 | 43 |
P value = 0.488 (Fisher's exact test), Q value = 1
Table S176. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
MAP2K7 MUTATED | 2 | 7 | 3 |
MAP2K7 WILD-TYPE | 51 | 70 | 62 |
P value = 0.158 (Fisher's exact test), Q value = 1
Table S177. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
MAP2K7 MUTATED | 9 | 2 | 3 |
MAP2K7 WILD-TYPE | 75 | 67 | 64 |
P value = 0.0964 (Fisher's exact test), Q value = 1
Table S178. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
MAP2K7 MUTATED | 3 | 1 | 10 |
MAP2K7 WILD-TYPE | 69 | 53 | 84 |
P value = 0.791 (Fisher's exact test), Q value = 1
Table S179. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
MAP2K7 MUTATED | 4 | 5 | 2 |
MAP2K7 WILD-TYPE | 52 | 64 | 49 |
P value = 0.261 (Fisher's exact test), Q value = 1
Table S180. Gene #18: 'MAP2K7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
MAP2K7 MUTATED | 1 | 8 | 2 |
MAP2K7 WILD-TYPE | 41 | 76 | 48 |
P value = 0.92 (Chi-square test), Q value = 1
Table S181. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
TRPS1 MUTATED | 15 | 2 | 3 | 1 | 9 | 0 |
TRPS1 WILD-TYPE | 88 | 16 | 32 | 6 | 46 | 1 |
P value = 0.0435 (Fisher's exact test), Q value = 1
Table S182. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
TRPS1 MUTATED | 2 | 12 | 2 | 6 |
TRPS1 WILD-TYPE | 25 | 39 | 42 | 47 |
Figure S73. Get High-res Image Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D19V2.png)
P value = 0.111 (Fisher's exact test), Q value = 1
Table S183. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
TRPS1 MUTATED | 12 | 5 | 11 |
TRPS1 WILD-TYPE | 50 | 63 | 56 |
P value = 0.118 (Fisher's exact test), Q value = 1
Table S184. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
TRPS1 MUTATED | 13 | 8 | 7 |
TRPS1 WILD-TYPE | 68 | 28 | 73 |
P value = 0.0233 (Chi-square test), Q value = 1
Table S185. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
TRPS1 MUTATED | 12 | 2 | 1 | 4 | 7 |
TRPS1 WILD-TYPE | 36 | 41 | 29 | 26 | 37 |
Figure S74. Get High-res Image Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
![](D19V5.png)
P value = 0.235 (Fisher's exact test), Q value = 1
Table S186. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
TRPS1 MUTATED | 9 | 12 | 5 |
TRPS1 WILD-TYPE | 44 | 65 | 60 |
P value = 0.332 (Fisher's exact test), Q value = 1
Table S187. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
TRPS1 MUTATED | 13 | 6 | 11 |
TRPS1 WILD-TYPE | 71 | 63 | 56 |
P value = 0.665 (Fisher's exact test), Q value = 1
Table S188. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
TRPS1 MUTATED | 8 | 7 | 15 |
TRPS1 WILD-TYPE | 64 | 47 | 79 |
P value = 0.516 (Fisher's exact test), Q value = 1
Table S189. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
TRPS1 MUTATED | 8 | 10 | 4 |
TRPS1 WILD-TYPE | 48 | 59 | 47 |
P value = 0.118 (Fisher's exact test), Q value = 1
Table S190. Gene #19: 'TRPS1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
TRPS1 MUTATED | 4 | 15 | 3 |
TRPS1 WILD-TYPE | 38 | 69 | 47 |
P value = 0.344 (Chi-square test), Q value = 1
Table S191. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 103 | 18 | 35 | 7 | 55 | 1 |
C13ORF33 MUTATED | 3 | 1 | 1 | 1 | 0 | 0 |
C13ORF33 WILD-TYPE | 100 | 17 | 34 | 6 | 55 | 1 |
P value = 0.0165 (Fisher's exact test), Q value = 1
Table S192. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 27 | 51 | 44 | 53 |
C13ORF33 MUTATED | 1 | 5 | 0 | 0 |
C13ORF33 WILD-TYPE | 26 | 46 | 44 | 53 |
Figure S75. Get High-res Image Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D20V2.png)
P value = 0.0152 (Fisher's exact test), Q value = 1
Table S193. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 62 | 68 | 67 |
C13ORF33 MUTATED | 5 | 1 | 0 |
C13ORF33 WILD-TYPE | 57 | 67 | 67 |
Figure S76. Get High-res Image Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'
![](D20V3.png)
P value = 0.0861 (Fisher's exact test), Q value = 1
Table S194. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 81 | 36 | 80 |
C13ORF33 MUTATED | 4 | 2 | 0 |
C13ORF33 WILD-TYPE | 77 | 34 | 80 |
P value = 0.141 (Chi-square test), Q value = 1
Table S195. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 48 | 43 | 30 | 30 | 44 |
C13ORF33 MUTATED | 3 | 0 | 1 | 0 | 0 |
C13ORF33 WILD-TYPE | 45 | 43 | 29 | 30 | 44 |
P value = 0.46 (Fisher's exact test), Q value = 1
Table S196. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 53 | 77 | 65 |
C13ORF33 MUTATED | 0 | 3 | 1 |
C13ORF33 WILD-TYPE | 53 | 74 | 64 |
P value = 0.515 (Fisher's exact test), Q value = 1
Table S197. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 84 | 69 | 67 |
C13ORF33 MUTATED | 1 | 3 | 2 |
C13ORF33 WILD-TYPE | 83 | 66 | 65 |
P value = 0.44 (Fisher's exact test), Q value = 1
Table S198. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 72 | 54 | 94 |
C13ORF33 MUTATED | 3 | 0 | 3 |
C13ORF33 WILD-TYPE | 69 | 54 | 91 |
P value = 0.216 (Fisher's exact test), Q value = 1
Table S199. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 69 | 51 |
C13ORF33 MUTATED | 0 | 4 | 2 |
C13ORF33 WILD-TYPE | 56 | 65 | 49 |
P value = 0.274 (Fisher's exact test), Q value = 1
Table S200. Gene #20: 'C13ORF33 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 42 | 84 | 50 |
C13ORF33 MUTATED | 0 | 5 | 1 |
C13ORF33 WILD-TYPE | 42 | 79 | 49 |
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Mutation data file = transformed.cor.cli.txt
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Molecular subtypes file = STAD-TP.transferedmergedcluster.txt
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Number of patients = 220
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Number of significantly mutated genes = 20
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Number of Molecular subtypes = 10
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Exclude genes that fewer than K tumors have mutations, K = 3
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
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.