This pipeline computes the correlation between significantly recurrent gene mutations and selected clinical features.
Testing the association between mutation status of 197 genes and 4 clinical features across 248 patients, 10 significant findings detected with Q value < 0.25.
-
PTEN mutation correlated to 'HISTOLOGICAL_TYPE'.
-
PIK3R1 mutation correlated to 'HISTOLOGICAL_TYPE'.
-
TP53 mutation correlated to 'HISTOLOGICAL_TYPE'.
-
CTCF mutation correlated to 'HISTOLOGICAL_TYPE'.
-
FBXW7 mutation correlated to 'HISTOLOGICAL_TYPE'.
-
ARID1A mutation correlated to 'Time to Death' and 'HISTOLOGICAL_TYPE'.
-
KRAS mutation correlated to 'HISTOLOGICAL_TYPE'.
-
CTNNB1 mutation correlated to 'HISTOLOGICAL_TYPE'.
-
PPP2R1A mutation correlated to 'HISTOLOGICAL_TYPE'.
Clinical Features |
Time to Death |
RADIATION THERAPY |
HISTOLOGICAL TYPE |
RESIDUAL TUMOR |
||
nMutated (%) | nWild-Type | logrank test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
ARID1A | 83 (33%) | 165 |
0.00164 (0.143) |
0.332 (0.857) |
7e-05 (0.011) |
0.254 (0.857) |
PTEN | 161 (65%) | 87 |
0.0174 (0.76) |
0.0995 (0.857) |
1e-05 (0.00197) |
0.0477 (0.857) |
PIK3R1 | 82 (33%) | 166 |
0.184 (0.857) |
0.405 (0.876) |
1e-05 (0.00197) |
0.951 (1.00) |
TP53 | 69 (28%) | 179 |
0.00425 (0.298) |
0.66 (0.921) |
1e-05 (0.00197) |
0.0475 (0.857) |
CTCF | 44 (18%) | 204 |
0.14 (0.857) |
0.863 (1.00) |
0.00022 (0.0289) |
0.895 (1.00) |
FBXW7 | 38 (15%) | 210 |
0.79 (0.966) |
0.584 (0.906) |
0.00291 (0.229) |
0.479 (0.876) |
KRAS | 52 (21%) | 196 |
0.0689 (0.857) |
0.872 (1.00) |
0.00031 (0.0349) |
0.492 (0.876) |
CTNNB1 | 74 (30%) | 174 |
0.656 (0.92) |
0.391 (0.876) |
1e-05 (0.00197) |
0.529 (0.906) |
PPP2R1A | 28 (11%) | 220 |
0.733 (0.949) |
0.68 (0.935) |
0.00086 (0.0847) |
1 (1.00) |
PIK3CA | 131 (53%) | 117 |
0.0122 (0.602) |
1 (1.00) |
0.283 (0.857) |
0.151 (0.857) |
ARHGAP35 | 36 (15%) | 212 |
0.922 (1.00) |
0.459 (0.876) |
0.726 (0.949) |
0.925 (1.00) |
ZFHX3 | 44 (18%) | 204 |
0.57 (0.906) |
0.086 (0.857) |
0.0661 (0.857) |
0.435 (0.876) |
SPOP | 21 (8%) | 227 |
0.256 (0.857) |
1 (1.00) |
0.842 (0.998) |
0.569 (0.906) |
FGFR2 | 31 (12%) | 217 |
0.291 (0.857) |
0.843 (0.998) |
0.78 (0.958) |
0.361 (0.858) |
TCP11L2 | 14 (6%) | 234 |
0.0673 (0.857) |
0.582 (0.906) |
0.17 (0.857) |
0.227 (0.857) |
VPS11 | 11 (4%) | 237 |
0.514 (0.904) |
0.538 (0.906) |
1 (1.00) |
1 (1.00) |
MAX | 9 (4%) | 239 |
0.626 (0.906) |
1 (1.00) |
0.459 (0.876) |
0.351 (0.857) |
SOX17 | 7 (3%) | 241 |
0.389 (0.876) |
1 (1.00) |
0.425 (0.876) |
0.675 (0.932) |
CCND1 | 14 (6%) | 234 |
0.439 (0.876) |
0.392 (0.876) |
0.17 (0.857) |
0.255 (0.857) |
NRAS | 9 (4%) | 239 |
0.169 (0.857) |
0.492 (0.876) |
1 (1.00) |
1 (1.00) |
EP300 | 21 (8%) | 227 |
0.272 (0.857) |
0.486 (0.876) |
0.0664 (0.857) |
1 (1.00) |
KLHL8 | 12 (5%) | 236 |
0.483 (0.876) |
0.763 (0.952) |
0.289 (0.857) |
0.212 (0.857) |
ALG8 | 11 (4%) | 237 |
0.657 (0.92) |
0.751 (0.949) |
0.352 (0.857) |
0.593 (0.906) |
GNPTAB | 20 (8%) | 228 |
0.0761 (0.857) |
0.146 (0.857) |
0.268 (0.857) |
0.578 (0.906) |
SIN3A | 21 (8%) | 227 |
0.214 (0.857) |
0.155 (0.857) |
0.276 (0.857) |
0.892 (1.00) |
ARID5B | 29 (12%) | 219 |
0.82 (0.988) |
0.066 (0.857) |
0.0106 (0.556) |
0.0915 (0.857) |
NFE2L2 | 14 (6%) | 234 |
0.491 (0.876) |
0.267 (0.857) |
0.172 (0.857) |
0.848 (0.998) |
ZNF471 | 15 (6%) | 233 |
0.844 (0.998) |
0.268 (0.857) |
0.14 (0.857) |
0.36 (0.858) |
MORC4 | 20 (8%) | 228 |
0.0577 (0.857) |
0.81 (0.983) |
0.27 (0.857) |
1 (1.00) |
SELP | 10 (4%) | 238 |
0.54 (0.906) |
0.333 (0.857) |
0.335 (0.857) |
0.247 (0.857) |
RBMX | 12 (5%) | 236 |
0.914 (1.00) |
0.763 (0.952) |
0.291 (0.857) |
0.0788 (0.857) |
FAT1 | 40 (16%) | 208 |
0.0307 (0.857) |
0.86 (1.00) |
0.0456 (0.857) |
0.772 (0.958) |
MARK3 | 11 (4%) | 237 |
0.47 (0.876) |
0.751 (0.949) |
0.354 (0.857) |
0.197 (0.857) |
SOS1 | 12 (5%) | 236 |
0.178 (0.857) |
1 (1.00) |
0.289 (0.857) |
0.836 (0.998) |
RBBP6 | 22 (9%) | 226 |
0.206 (0.857) |
0.817 (0.986) |
0.0433 (0.857) |
0.498 (0.882) |
ZNF263 | 7 (3%) | 241 |
0.278 (0.857) |
1 (1.00) |
0.426 (0.876) |
0.2 (0.857) |
INTS7 | 8 (3%) | 240 |
0.169 (0.857) |
0.714 (0.949) |
0.437 (0.876) |
0.53 (0.906) |
L1TD1 | 16 (6%) | 232 |
0.115 (0.857) |
0.425 (0.876) |
0.121 (0.857) |
0.878 (1.00) |
NAT1 | 7 (3%) | 241 |
0.896 (1.00) |
1 (1.00) |
0.429 (0.876) |
0.467 (0.876) |
JAKMIP2 | 12 (5%) | 236 |
0.356 (0.857) |
0.544 (0.906) |
0.288 (0.857) |
0.259 (0.857) |
ING1 | 12 (5%) | 236 |
0.196 (0.857) |
0.763 (0.952) |
0.291 (0.857) |
1 (1.00) |
CCDC6 | 6 (2%) | 242 |
0.46 (0.876) |
1 (1.00) |
0.361 (0.858) |
1 (1.00) |
ZNF781 | 10 (4%) | 238 |
0.256 (0.857) |
0.0975 (0.857) |
0.334 (0.857) |
0.479 (0.876) |
MKI67 | 29 (12%) | 219 |
0.0786 (0.857) |
0.312 (0.857) |
0.0105 (0.556) |
0.236 (0.857) |
EIF2S2 | 9 (4%) | 239 |
0.222 (0.857) |
0.492 (0.876) |
0.456 (0.876) |
0.339 (0.857) |
BCOR | 30 (12%) | 218 |
0.0712 (0.857) |
0.545 (0.906) |
0.00814 (0.493) |
0.362 (0.858) |
RASA1 | 21 (8%) | 227 |
0.0429 (0.857) |
0.242 (0.857) |
0.567 (0.906) |
1 (1.00) |
DNER | 18 (7%) | 230 |
0.299 (0.857) |
0.806 (0.98) |
0.416 (0.876) |
0.629 (0.906) |
C9ORF23 | 9 (4%) | 239 |
0.295 (0.857) |
1 (1.00) |
0.457 (0.876) |
1 (1.00) |
CUX1 | 21 (8%) | 227 |
0.208 (0.857) |
0.817 (0.986) |
0.275 (0.857) |
0.806 (0.98) |
CDK17 | 14 (6%) | 234 |
0.402 (0.876) |
0.267 (0.857) |
0.126 (0.857) |
0.268 (0.857) |
USP28 | 10 (4%) | 238 |
0.127 (0.857) |
0.333 (0.857) |
0.333 (0.857) |
0.778 (0.958) |
MSH6 | 17 (7%) | 231 |
0.223 (0.857) |
1 (1.00) |
0.491 (0.876) |
0.6 (0.906) |
WDR45 | 11 (4%) | 237 |
0.665 (0.924) |
1 (1.00) |
0.355 (0.857) |
0.527 (0.906) |
C14ORF166B | 9 (4%) | 239 |
0.205 (0.857) |
0.0284 (0.857) |
0.455 (0.876) |
1 (1.00) |
ATM | 29 (12%) | 219 |
0.0161 (0.745) |
0.312 (0.857) |
0.0745 (0.857) |
0.903 (1.00) |
RAE1 | 11 (4%) | 237 |
0.172 (0.857) |
0.0595 (0.857) |
0.743 (0.949) |
1 (1.00) |
ZNF485 | 9 (4%) | 239 |
0.84 (0.998) |
0.161 (0.857) |
0.456 (0.876) |
0.0691 (0.857) |
POLE | 27 (11%) | 221 |
0.276 (0.857) |
0.291 (0.857) |
0.127 (0.857) |
0.399 (0.876) |
AHCYL1 | 6 (2%) | 242 |
0.295 (0.857) |
1 (1.00) |
0.632 (0.906) |
0.396 (0.876) |
ZNF334 | 17 (7%) | 231 |
0.467 (0.876) |
0.609 (0.906) |
0.807 (0.98) |
0.599 (0.906) |
SACS | 26 (10%) | 222 |
0.0915 (0.857) |
0.668 (0.926) |
0.122 (0.857) |
0.626 (0.906) |
MSH4 | 15 (6%) | 233 |
0.0891 (0.857) |
0.582 (0.906) |
0.142 (0.857) |
0.628 (0.906) |
SLC26A8 | 12 (5%) | 236 |
0.184 (0.857) |
0.544 (0.906) |
0.288 (0.857) |
0.689 (0.937) |
KIF20B | 21 (8%) | 227 |
0.212 (0.857) |
0.486 (0.876) |
0.0654 (0.857) |
0.904 (1.00) |
RRAS2 | 4 (2%) | 244 |
0.485 (0.876) |
0.626 (0.906) |
1 (1.00) |
0.43 (0.876) |
CTNND1 | 19 (8%) | 229 |
0.559 (0.906) |
1 (1.00) |
0.43 (0.876) |
0.377 (0.876) |
NFE2L3 | 12 (5%) | 236 |
0.956 (1.00) |
0.365 (0.865) |
0.218 (0.857) |
0.407 (0.876) |
FAM65B | 16 (6%) | 232 |
0.0806 (0.857) |
0.791 (0.966) |
0.478 (0.876) |
0.863 (1.00) |
RNF43 | 12 (5%) | 236 |
0.148 (0.857) |
0.0343 (0.857) |
0.288 (0.857) |
0.638 (0.906) |
MRPL47 | 6 (2%) | 242 |
0.372 (0.871) |
0.419 (0.876) |
1 (1.00) |
0.467 (0.876) |
TIGD4 | 13 (5%) | 235 |
0.147 (0.857) |
0.773 (0.958) |
0.3 (0.857) |
0.592 (0.906) |
FILIP1 | 16 (6%) | 232 |
0.0656 (0.857) |
1 (1.00) |
0.473 (0.876) |
0.594 (0.906) |
SLC1A3 | 12 (5%) | 236 |
0.528 (0.906) |
1 (1.00) |
1 (1.00) |
0.64 (0.907) |
UFSP2 | 11 (4%) | 237 |
0.144 (0.857) |
1 (1.00) |
0.351 (0.857) |
0.683 (0.935) |
WBP4 | 8 (3%) | 240 |
0.339 (0.857) |
0.264 (0.857) |
0.438 (0.876) |
1 (1.00) |
TRIM59 | 9 (4%) | 239 |
0.242 (0.857) |
0.492 (0.876) |
0.454 (0.876) |
1 (1.00) |
RSBN1L | 12 (5%) | 236 |
0.106 (0.857) |
0.544 (0.906) |
0.754 (0.949) |
0.156 (0.857) |
SERHL2 | 6 (2%) | 242 |
0.239 (0.857) |
0.196 (0.857) |
0.635 (0.906) |
1 (1.00) |
OR52I2 | 8 (3%) | 240 |
0.731 (0.949) |
1 (1.00) |
0.156 (0.857) |
0.78 (0.958) |
SGK1 | 13 (5%) | 235 |
0.519 (0.906) |
1 (1.00) |
0.572 (0.906) |
0.0486 (0.857) |
LNX2 | 14 (6%) | 234 |
0.119 (0.857) |
0.09 (0.857) |
0.171 (0.857) |
0.763 (0.952) |
ALPK2 | 19 (8%) | 229 |
0.0396 (0.857) |
0.33 (0.857) |
0.429 (0.876) |
0.24 (0.857) |
REV3L | 20 (8%) | 228 |
0.0612 (0.857) |
0.336 (0.857) |
0.0691 (0.857) |
0.916 (1.00) |
CAB39L | 8 (3%) | 240 |
0.228 (0.857) |
0.264 (0.857) |
0.437 (0.876) |
1 (1.00) |
ERBB3 | 17 (7%) | 231 |
0.121 (0.857) |
0.795 (0.97) |
0.492 (0.876) |
0.274 (0.857) |
INPP4B | 12 (5%) | 236 |
0.399 (0.876) |
0.00453 (0.298) |
0.289 (0.857) |
0.167 (0.857) |
C1ORF100 | 9 (4%) | 239 |
0.131 (0.857) |
1 (1.00) |
0.456 (0.876) |
0.466 (0.876) |
IL20 | 7 (3%) | 241 |
0.232 (0.857) |
0.71 (0.949) |
0.424 (0.876) |
0.103 (0.857) |
SLC44A3 | 6 (2%) | 242 |
0.297 (0.857) |
1 (1.00) |
0.634 (0.906) |
0.609 (0.906) |
TAP1 | 8 (3%) | 240 |
0.61 (0.906) |
0.714 (0.949) |
0.434 (0.876) |
1 (1.00) |
RHBDD3 | 4 (2%) | 244 |
0.394 (0.876) |
0.626 (0.906) |
1 (1.00) |
1 (1.00) |
BRDT | 14 (6%) | 234 |
0.121 (0.857) |
0.09 (0.857) |
0.171 (0.857) |
0.631 (0.906) |
RB1 | 20 (8%) | 228 |
0.179 (0.857) |
0.146 (0.857) |
0.0688 (0.857) |
0.866 (1.00) |
MFAP5 | 9 (4%) | 239 |
0.232 (0.857) |
1 (1.00) |
1 (1.00) |
0.529 (0.906) |
NAA15 | 14 (6%) | 234 |
0.304 (0.857) |
0.776 (0.958) |
0.584 (0.906) |
0.763 (0.952) |
ZRANB3 | 7 (3%) | 241 |
0.204 (0.857) |
0.71 (0.949) |
1 (1.00) |
1 (1.00) |
SLC34A3 | 6 (2%) | 242 |
0.367 (0.865) |
0.672 (0.929) |
0.63 (0.906) |
1 (1.00) |
MLH3 | 17 (7%) | 231 |
0.37 (0.869) |
0.609 (0.906) |
0.491 (0.876) |
0.24 (0.857) |
CCDC147 | 15 (6%) | 233 |
0.13 (0.857) |
0.268 (0.857) |
0.468 (0.876) |
0.589 (0.906) |
ZNF662 | 13 (5%) | 235 |
0.107 (0.857) |
0.773 (0.958) |
0.578 (0.906) |
0.637 (0.906) |
PSMC4 | 11 (4%) | 237 |
0.198 (0.857) |
1 (1.00) |
0.351 (0.857) |
0.847 (0.998) |
CCDC160 | 11 (4%) | 237 |
0.148 (0.857) |
0.751 (0.949) |
0.35 (0.857) |
0.832 (0.996) |
PPIL4 | 11 (4%) | 237 |
0.207 (0.857) |
0.538 (0.906) |
0.745 (0.949) |
0.593 (0.906) |
CCDC144A | 18 (7%) | 230 |
0.314 (0.857) |
0.215 (0.857) |
0.66 (0.921) |
0.294 (0.857) |
TUBGCP6 | 20 (8%) | 228 |
0.426 (0.876) |
0.632 (0.906) |
0.0682 (0.857) |
0.377 (0.876) |
TTC39C | 7 (3%) | 241 |
0.255 (0.857) |
0.0495 (0.857) |
0.427 (0.876) |
1 (1.00) |
COL8A1 | 10 (4%) | 238 |
0.67 (0.928) |
1 (1.00) |
0.335 (0.857) |
0.467 (0.876) |
PER3 | 12 (5%) | 236 |
0.154 (0.857) |
0.544 (0.906) |
0.288 (0.857) |
1 (1.00) |
MGA | 26 (10%) | 222 |
0.966 (1.00) |
1 (1.00) |
0.35 (0.857) |
0.146 (0.857) |
GPRASP1 | 21 (8%) | 227 |
0.201 (0.857) |
0.817 (0.986) |
0.275 (0.857) |
0.585 (0.906) |
PPM1D | 11 (4%) | 237 |
0.156 (0.857) |
0.0595 (0.857) |
0.352 (0.857) |
0.584 (0.906) |
ZNF674 | 14 (6%) | 234 |
0.083 (0.857) |
0.582 (0.906) |
0.582 (0.906) |
0.518 (0.906) |
LIMK2 | 12 (5%) | 236 |
0.212 (0.857) |
0.544 (0.906) |
0.754 (0.949) |
0.685 (0.935) |
ZNF606 | 16 (6%) | 232 |
0.301 (0.857) |
0.18 (0.857) |
0.12 (0.857) |
0.498 (0.882) |
SFRP4 | 8 (3%) | 240 |
0.197 (0.857) |
0.714 (0.949) |
0.438 (0.876) |
0.336 (0.857) |
TXNRD1 | 8 (3%) | 240 |
0.136 (0.857) |
0.264 (0.857) |
0.436 (0.876) |
0.349 (0.857) |
LETMD1 | 6 (2%) | 242 |
0.195 (0.857) |
1 (1.00) |
0.632 (0.906) |
0.0524 (0.857) |
ZNF721 | 13 (5%) | 235 |
0.16 (0.857) |
0.384 (0.876) |
0.304 (0.857) |
0.634 (0.906) |
RASSF9 | 9 (4%) | 239 |
0.204 (0.857) |
0.161 (0.857) |
0.455 (0.876) |
0.59 (0.906) |
AGXT2 | 11 (4%) | 237 |
0.776 (0.958) |
0.751 (0.949) |
0.351 (0.857) |
0.634 (0.906) |
MECOM | 12 (5%) | 236 |
0.109 (0.857) |
0.544 (0.906) |
0.288 (0.857) |
1 (1.00) |
ATP6V1C2 | 12 (5%) | 236 |
0.136 (0.857) |
1 (1.00) |
0.291 (0.857) |
0.835 (0.998) |
DYM | 10 (4%) | 238 |
0.829 (0.994) |
0.75 (0.949) |
0.745 (0.949) |
1 (1.00) |
TAB3 | 18 (7%) | 230 |
0.0696 (0.857) |
0.46 (0.876) |
0.0864 (0.857) |
0.259 (0.857) |
ZNF649 | 14 (6%) | 234 |
0.117 (0.857) |
0.267 (0.857) |
0.172 (0.857) |
0.761 (0.952) |
FN1 | 24 (10%) | 224 |
0.16 (0.857) |
0.826 (0.992) |
0.0219 (0.857) |
0.373 (0.871) |
CCDC150 | 11 (4%) | 237 |
0.246 (0.857) |
0.751 (0.949) |
0.743 (0.949) |
0.848 (0.998) |
KIF21A | 15 (6%) | 233 |
0.109 (0.857) |
0.0575 (0.857) |
0.14 (0.857) |
0.591 (0.906) |
BHLHB9 | 8 (3%) | 240 |
0.236 (0.857) |
1 (1.00) |
0.435 (0.876) |
0.732 (0.949) |
EXOSC9 | 10 (4%) | 238 |
0.72 (0.949) |
0.333 (0.857) |
0.332 (0.857) |
0.586 (0.906) |
ZKSCAN1 | 7 (3%) | 241 |
0.329 (0.857) |
0.71 (0.949) |
1 (1.00) |
0.736 (0.949) |
OR8B8 | 7 (3%) | 241 |
0.273 (0.857) |
0.428 (0.876) |
0.428 (0.876) |
0.399 (0.876) |
SENP7 | 12 (5%) | 236 |
0.381 (0.876) |
0.544 (0.906) |
0.29 (0.857) |
0.686 (0.935) |
WDR65 | 6 (2%) | 242 |
0.432 (0.876) |
0.419 (0.876) |
0.634 (0.906) |
1 (1.00) |
NRIP1 | 13 (5%) | 235 |
0.417 (0.876) |
0.384 (0.876) |
0.574 (0.906) |
0.407 (0.876) |
MCTP1 | 13 (5%) | 235 |
0.134 (0.857) |
1 (1.00) |
0.576 (0.906) |
0.636 (0.906) |
CCDC146 | 14 (6%) | 234 |
0.125 (0.857) |
0.09 (0.857) |
0.172 (0.857) |
0.635 (0.906) |
ZNF620 | 9 (4%) | 239 |
0.239 (0.857) |
0.492 (0.876) |
0.458 (0.876) |
0.733 (0.949) |
PTPN12 | 10 (4%) | 238 |
0.656 (0.92) |
0.333 (0.857) |
0.335 (0.857) |
0.586 (0.906) |
RIOK3 | 9 (4%) | 239 |
0.239 (0.857) |
0.161 (0.857) |
0.455 (0.876) |
1 (1.00) |
CASP8 | 17 (7%) | 231 |
0.787 (0.964) |
0.609 (0.906) |
0.491 (0.876) |
0.526 (0.906) |
GFAP | 6 (2%) | 242 |
0.341 (0.857) |
1 (1.00) |
0.635 (0.906) |
0.324 (0.857) |
OMA1 | 10 (4%) | 238 |
0.233 (0.857) |
0.0975 (0.857) |
0.333 (0.857) |
0.527 (0.906) |
DENND3 | 15 (6%) | 233 |
0.313 (0.857) |
0.419 (0.876) |
0.474 (0.876) |
0.88 (1.00) |
CHEK2 | 12 (5%) | 236 |
0.556 (0.906) |
0.22 (0.857) |
0.754 (0.949) |
0.134 (0.857) |
ZMYM2 | 17 (7%) | 231 |
0.262 (0.857) |
0.304 (0.857) |
0.0992 (0.857) |
0.662 (0.921) |
EPC2 | 5 (2%) | 243 |
0.295 (0.857) |
0.655 (0.92) |
0.622 (0.906) |
1 (1.00) |
DEPDC1B | 11 (4%) | 237 |
0.778 (0.958) |
1 (1.00) |
0.744 (0.949) |
0.157 (0.857) |
C3AR1 | 7 (3%) | 241 |
0.125 (0.857) |
1 (1.00) |
0.428 (0.876) |
0.53 (0.906) |
STK3 | 10 (4%) | 238 |
0.196 (0.857) |
0.505 (0.89) |
0.338 (0.857) |
1 (1.00) |
FOXJ3 | 10 (4%) | 238 |
0.184 (0.857) |
0.75 (0.949) |
0.335 (0.857) |
0.637 (0.906) |
EPS8 | 12 (5%) | 236 |
0.651 (0.92) |
1 (1.00) |
0.754 (0.949) |
0.684 (0.935) |
ZNF385B | 7 (3%) | 241 |
0.332 (0.857) |
0.428 (0.876) |
0.427 (0.876) |
1 (1.00) |
EFCAB4B | 11 (4%) | 237 |
0.132 (0.857) |
0.751 (0.949) |
0.353 (0.857) |
0.336 (0.857) |
NPRL2 | 5 (2%) | 243 |
0.963 (1.00) |
0.655 (0.92) |
0.622 (0.906) |
0.247 (0.857) |
ATF6 | 14 (6%) | 234 |
0.0996 (0.857) |
1 (1.00) |
0.583 (0.906) |
0.632 (0.906) |
LIMA1 | 8 (3%) | 240 |
0.203 (0.857) |
0.714 (0.949) |
0.439 (0.876) |
1 (1.00) |
PPIG | 16 (6%) | 232 |
0.142 (0.857) |
0.596 (0.906) |
0.119 (0.857) |
0.904 (1.00) |
ZNF774 | 10 (4%) | 238 |
0.194 (0.857) |
0.75 (0.949) |
0.741 (0.949) |
0.586 (0.906) |
MUTED | 7 (3%) | 241 |
0.273 (0.857) |
0.428 (0.876) |
0.426 (0.876) |
1 (1.00) |
TPX2 | 6 (2%) | 242 |
0.346 (0.857) |
1 (1.00) |
0.634 (0.906) |
0.132 (0.857) |
PARG | 9 (4%) | 239 |
0.226 (0.857) |
1 (1.00) |
0.454 (0.876) |
1 (1.00) |
PSMD3 | 11 (4%) | 237 |
0.147 (0.857) |
1 (1.00) |
0.745 (0.949) |
1 (1.00) |
STRN3 | 12 (5%) | 236 |
0.168 (0.857) |
0.544 (0.906) |
0.753 (0.949) |
0.595 (0.906) |
MLL4 | 30 (12%) | 218 |
0.0227 (0.857) |
0.84 (0.998) |
0.0434 (0.857) |
0.572 (0.906) |
MSN | 15 (6%) | 233 |
0.291 (0.857) |
1 (1.00) |
0.598 (0.906) |
0.483 (0.876) |
MAPK8 | 11 (4%) | 237 |
0.147 (0.857) |
0.337 (0.857) |
0.352 (0.857) |
0.309 (0.857) |
RBL2 | 12 (5%) | 236 |
0.458 (0.876) |
1 (1.00) |
0.289 (0.857) |
0.159 (0.857) |
PDGFRA | 12 (5%) | 236 |
0.412 (0.876) |
0.544 (0.906) |
0.287 (0.857) |
1 (1.00) |
TMEM62 | 9 (4%) | 239 |
0.222 (0.857) |
0.492 (0.876) |
0.457 (0.876) |
0.586 (0.906) |
RG9MTD3 | 8 (3%) | 240 |
0.699 (0.948) |
0.264 (0.857) |
0.681 (0.935) |
0.35 (0.857) |
KANK4 | 11 (4%) | 237 |
0.84 (0.998) |
0.751 (0.949) |
0.747 (0.949) |
1 (1.00) |
MYOM1 | 23 (9%) | 225 |
0.779 (0.958) |
0.823 (0.99) |
0.848 (0.998) |
0.439 (0.876) |
MORC3 | 10 (4%) | 238 |
0.176 (0.857) |
1 (1.00) |
0.739 (0.949) |
0.4 (0.876) |
CCDC82 | 12 (5%) | 236 |
0.473 (0.876) |
0.544 (0.906) |
0.29 (0.857) |
0.593 (0.906) |
B3GALT5 | 4 (2%) | 244 |
0.504 (0.89) |
0.3 (0.857) |
1 (1.00) |
1 (1.00) |
NOC3L | 11 (4%) | 237 |
0.155 (0.857) |
0.337 (0.857) |
0.353 (0.857) |
0.638 (0.906) |
NSUN4 | 6 (2%) | 242 |
0.317 (0.857) |
0.419 (0.876) |
1 (1.00) |
0.609 (0.906) |
ASXL2 | 14 (6%) | 234 |
0.103 (0.857) |
0.582 (0.906) |
0.584 (0.906) |
0.204 (0.857) |
CHD4 | 35 (14%) | 213 |
0.695 (0.944) |
0.346 (0.857) |
0.454 (0.876) |
1 (1.00) |
FCN1 | 7 (3%) | 241 |
0.946 (1.00) |
1 (1.00) |
0.427 (0.876) |
1 (1.00) |
NIPA2 | 8 (3%) | 240 |
0.28 (0.857) |
0.714 (0.949) |
1 (1.00) |
1 (1.00) |
C14ORF118 | 13 (5%) | 235 |
0.172 (0.857) |
0.141 (0.857) |
0.302 (0.857) |
0.726 (0.949) |
THAP5 | 6 (2%) | 242 |
0.326 (0.857) |
0.0883 (0.857) |
0.634 (0.906) |
1 (1.00) |
ZNF611 | 12 (5%) | 236 |
0.637 (0.906) |
1 (1.00) |
0.287 (0.857) |
0.166 (0.857) |
ZCCHC18 | 6 (2%) | 242 |
0.348 (0.857) |
0.0883 (0.857) |
0.634 (0.906) |
1 (1.00) |
PRKCE | 9 (4%) | 239 |
0.196 (0.857) |
0.728 (0.949) |
0.456 (0.876) |
1 (1.00) |
BMP2K | 13 (5%) | 235 |
0.161 (0.857) |
0.384 (0.876) |
0.303 (0.857) |
0.685 (0.935) |
PRPF38B | 11 (4%) | 237 |
0.211 (0.857) |
0.751 (0.949) |
0.351 (0.857) |
0.635 (0.906) |
LGMN | 7 (3%) | 241 |
0.361 (0.858) |
0.71 (0.949) |
0.428 (0.876) |
0.28 (0.857) |
SSH2 | 12 (5%) | 236 |
0.176 (0.857) |
0.544 (0.906) |
0.754 (0.949) |
0.593 (0.906) |
EMR1 | 11 (4%) | 237 |
0.18 (0.857) |
0.337 (0.857) |
0.352 (0.857) |
0.587 (0.906) |
OR5AK2 | 5 (2%) | 243 |
0.238 (0.857) |
0.655 (0.92) |
0.622 (0.906) |
0.322 (0.857) |
C1ORF101 | 12 (5%) | 236 |
0.168 (0.857) |
0.544 (0.906) |
0.287 (0.857) |
0.725 (0.949) |
ZNF534 | 9 (4%) | 239 |
0.249 (0.857) |
0.492 (0.876) |
0.456 (0.876) |
0.586 (0.906) |
FAM122A | 6 (2%) | 242 |
0.992 (1.00) |
1 (1.00) |
0.634 (0.906) |
0.282 (0.857) |
P value = 1e-05 (Fisher's exact test), Q value = 0.002
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
PTEN MUTATED | 159 | 1 | 1 |
PTEN WILD-TYPE | 41 | 3 | 43 |
P value = 1e-05 (Fisher's exact test), Q value = 0.002
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
PIK3R1 MUTATED | 79 | 1 | 2 |
PIK3R1 WILD-TYPE | 121 | 3 | 42 |
P value = 1e-05 (Fisher's exact test), Q value = 0.002
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
TP53 MUTATED | 27 | 3 | 39 |
TP53 WILD-TYPE | 173 | 1 | 5 |
P value = 0.00022 (Fisher's exact test), Q value = 0.029
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
CTCF MUTATED | 44 | 0 | 0 |
CTCF WILD-TYPE | 156 | 4 | 44 |
P value = 0.00291 (Fisher's exact test), Q value = 0.23
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
FBXW7 MUTATED | 23 | 1 | 14 |
FBXW7 WILD-TYPE | 177 | 3 | 30 |
P value = 0.00164 (logrank test), Q value = 0.14
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 248 | 33 | 0.6 - 185.8 (35.9) |
ARID1A MUTATED | 83 | 3 | 1.0 - 129.8 (37.5) |
ARID1A WILD-TYPE | 165 | 30 | 0.6 - 185.8 (34.6) |
P value = 7e-05 (Fisher's exact test), Q value = 0.011
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
ARID1A MUTATED | 78 | 1 | 4 |
ARID1A WILD-TYPE | 122 | 3 | 40 |
P value = 0.00031 (Fisher's exact test), Q value = 0.035
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
KRAS MUTATED | 51 | 0 | 1 |
KRAS WILD-TYPE | 149 | 4 | 43 |
P value = 1e-05 (Fisher's exact test), Q value = 0.002
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
CTNNB1 MUTATED | 74 | 0 | 0 |
CTNNB1 WILD-TYPE | 126 | 4 | 44 |
P value = 0.00086 (Fisher's exact test), Q value = 0.085
nPatients | ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA | MIXED SEROUS AND ENDOMETRIOID | SEROUS ENDOMETRIAL ADENOCARCINOMA |
---|---|---|---|
ALL | 200 | 4 | 44 |
PPP2R1A MUTATED | 15 | 1 | 12 |
PPP2R1A WILD-TYPE | 185 | 3 | 32 |
-
Mutation data file = sample_sig_gene_table.txt from Mutsig_2CV pipeline
-
Processed Mutation data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCEC-TP/22815333/transformed.cor.cli.txt
-
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/UCEC-TP/22507145/UCEC-TP.merged_data.txt
-
Number of patients = 248
-
Number of significantly mutated genes = 197
-
Number of selected clinical features = 4
-
Exclude genes that fewer than K tumors have mutations, K = 3
For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' 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.