This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between copy number variation 76 focal events and 12 clinical features across 583 patients, 47 significant findings detected with Q value < 0.25.
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AMP PEAK 5(6P21.1) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE'.
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AMP PEAK 6(7P21.3) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE'.
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AMP PEAK 14(13Q12.13) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE' and 'HISTOLOGICAL.TYPE'.
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AMP PEAK 15(13Q12.2) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE' and 'HISTOLOGICAL.TYPE'.
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AMP PEAK 16(13Q22.1) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE' and 'HISTOLOGICAL.TYPE'.
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AMP PEAK 18(16P11.2) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE'.
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AMP PEAK 24(20Q11.21) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE' and 'HISTOLOGICAL.TYPE'.
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AMP PEAK 25(20Q12) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'NEOPLASM.DISEASESTAGE', and 'HISTOLOGICAL.TYPE'.
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AMP PEAK 26(20Q13.32) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE' and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 10(4P16.1) MUTATION ANALYSIS cnv correlated to 'RADIATIONS.RADIATION.REGIMENINDICATION'.
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DEL PEAK 18(8P23.3) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'PATHOLOGY.N.STAGE', and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 19(8P23.2) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'PATHOLOGY.N.STAGE', and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 20(8P22) MUTATION ANALYSIS cnv correlated to 'NEOPLASM.DISEASESTAGE', 'PATHOLOGY.N.STAGE', 'HISTOLOGICAL.TYPE', and 'NUMBER.OF.LYMPH.NODES'.
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DEL PEAK 30(14Q11.2) MUTATION ANALYSIS cnv correlated to 'HISTOLOGICAL.TYPE'.
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DEL PEAK 31(14Q31.1) MUTATION ANALYSIS cnv correlated to 'HISTOLOGICAL.TYPE'.
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DEL PEAK 32(14Q31.1) MUTATION ANALYSIS cnv correlated to 'HISTOLOGICAL.TYPE'.
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DEL PEAK 36(16P13.3) MUTATION ANALYSIS cnv correlated to 'Time to Death'.
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DEL PEAK 38(17P12) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE' and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 40(18P11.31) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE' and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 41(18Q12.2) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'PATHOLOGY.N.STAGE', and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 42(18Q21.2) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'NEOPLASM.DISEASESTAGE', 'PATHOLOGY.N.STAGE', and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 43(18Q22.1) MUTATION ANALYSIS cnv correlated to 'PRIMARY.SITE.OF.DISEASE', 'NEOPLASM.DISEASESTAGE', 'PATHOLOGY.N.STAGE', and 'HISTOLOGICAL.TYPE'.
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DEL PEAK 44(19P13.3) MUTATION ANALYSIS cnv correlated to 'PATHOLOGY.N.STAGE'.
Clinical Features |
Time to Death |
AGE |
PRIMARY SITE OF DISEASE |
NEOPLASM DISEASESTAGE |
PATHOLOGY T STAGE |
PATHOLOGY N STAGE |
PATHOLOGY M STAGE |
GENDER |
HISTOLOGICAL TYPE |
RADIATIONS RADIATION REGIMENINDICATION |
COMPLETENESS OF RESECTION |
NUMBER OF LYMPH NODES |
||
nCNV (%) | nWild-Type | logrank test | t-test | Fisher's exact test | Chi-square 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 | t-test | |
DEL PEAK 20(8P22) MUTATION ANALYSIS | 289 (50%) | 294 |
0.347 (1.00) |
0.326 (1.00) |
0.000394 (0.339) |
0.000142 (0.123) |
0.0734 (1.00) |
7.22e-07 (0.000648) |
0.00301 (1.00) |
0.213 (1.00) |
0.000182 (0.158) |
0.0196 (1.00) |
0.0123 (1.00) |
0.000145 (0.126) |
DEL PEAK 42(18Q21 2) MUTATION ANALYSIS | 409 (70%) | 174 |
0.739 (1.00) |
0.127 (1.00) |
1.22e-09 (1.1e-06) |
5.52e-05 (0.0485) |
0.325 (1.00) |
2.32e-06 (0.00208) |
0.00129 (1.00) |
0.102 (1.00) |
1.05e-16 (9.56e-14) |
0.0638 (1.00) |
0.0495 (1.00) |
0.00247 (1.00) |
DEL PEAK 43(18Q22 1) MUTATION ANALYSIS | 404 (69%) | 179 |
0.545 (1.00) |
0.306 (1.00) |
2.14e-07 (0.000193) |
0.000123 (0.107) |
0.48 (1.00) |
2.84e-05 (0.0251) |
0.00191 (1.00) |
0.151 (1.00) |
5.8e-16 (5.27e-13) |
0.0632 (1.00) |
0.0933 (1.00) |
0.00431 (1.00) |
AMP PEAK 25(20Q12) MUTATION ANALYSIS | 447 (77%) | 136 |
0.415 (1.00) |
0.897 (1.00) |
5.02e-06 (0.00448) |
0.000207 (0.18) |
0.383 (1.00) |
0.00126 (1.00) |
0.00129 (1.00) |
0.241 (1.00) |
1.57e-13 (1.43e-10) |
0.693 (1.00) |
0.0517 (1.00) |
0.499 (1.00) |
DEL PEAK 18(8P23 3) MUTATION ANALYSIS | 276 (47%) | 307 |
0.882 (1.00) |
0.248 (1.00) |
1.09e-05 (0.00966) |
0.0017 (1.00) |
0.0848 (1.00) |
2.98e-05 (0.0263) |
0.0171 (1.00) |
0.157 (1.00) |
1.93e-05 (0.0171) |
0.0155 (1.00) |
0.0219 (1.00) |
0.000548 (0.468) |
DEL PEAK 19(8P23 2) MUTATION ANALYSIS | 276 (47%) | 307 |
0.732 (1.00) |
0.209 (1.00) |
2.55e-05 (0.0226) |
0.000515 (0.441) |
0.0773 (1.00) |
1.68e-05 (0.0149) |
0.00808 (1.00) |
0.0807 (1.00) |
2.14e-05 (0.019) |
0.0155 (1.00) |
0.00866 (1.00) |
0.000547 (0.468) |
DEL PEAK 41(18Q12 2) MUTATION ANALYSIS | 392 (67%) | 191 |
0.836 (1.00) |
0.123 (1.00) |
1.82e-09 (1.64e-06) |
0.000596 (0.508) |
0.365 (1.00) |
0.000131 (0.114) |
0.00369 (1.00) |
0.332 (1.00) |
2.48e-18 (2.26e-15) |
0.0343 (1.00) |
0.0488 (1.00) |
0.0168 (1.00) |
AMP PEAK 14(13Q12 13) MUTATION ANALYSIS | 377 (65%) | 206 |
0.204 (1.00) |
0.246 (1.00) |
0.00254 (1.00) |
0.000334 (0.289) |
0.78 (1.00) |
3.71e-05 (0.0326) |
0.00923 (1.00) |
0.544 (1.00) |
5.03e-10 (4.55e-07) |
1 (1.00) |
0.0498 (1.00) |
0.0474 (1.00) |
AMP PEAK 15(13Q12 2) MUTATION ANALYSIS | 372 (64%) | 211 |
0.166 (1.00) |
0.185 (1.00) |
0.00197 (1.00) |
0.000879 (0.744) |
0.778 (1.00) |
7.73e-05 (0.0677) |
0.0214 (1.00) |
0.388 (1.00) |
1.16e-09 (1.05e-06) |
1 (1.00) |
0.0901 (1.00) |
0.0489 (1.00) |
AMP PEAK 16(13Q22 1) MUTATION ANALYSIS | 377 (65%) | 206 |
0.143 (1.00) |
0.358 (1.00) |
0.0255 (1.00) |
0.00714 (1.00) |
0.899 (1.00) |
0.000115 (0.0999) |
0.0226 (1.00) |
0.141 (1.00) |
1.43e-08 (1.29e-05) |
0.504 (1.00) |
0.27 (1.00) |
0.228 (1.00) |
AMP PEAK 24(20Q11 21) MUTATION ANALYSIS | 445 (76%) | 138 |
0.448 (1.00) |
0.994 (1.00) |
9.63e-06 (0.00857) |
0.000764 (0.647) |
0.29 (1.00) |
0.0017 (1.00) |
0.00538 (1.00) |
0.242 (1.00) |
2.57e-12 (2.33e-09) |
0.693 (1.00) |
0.0508 (1.00) |
0.445 (1.00) |
AMP PEAK 26(20Q13 32) MUTATION ANALYSIS | 450 (77%) | 133 |
0.521 (1.00) |
0.828 (1.00) |
2.27e-05 (0.0201) |
0.000763 (0.647) |
0.359 (1.00) |
0.00203 (1.00) |
0.00422 (1.00) |
0.429 (1.00) |
2.71e-12 (2.46e-09) |
0.692 (1.00) |
0.0516 (1.00) |
0.332 (1.00) |
DEL PEAK 38(17P12) MUTATION ANALYSIS | 345 (59%) | 238 |
0.641 (1.00) |
0.151 (1.00) |
0.00125 (1.00) |
0.00188 (1.00) |
0.478 (1.00) |
0.000112 (0.0974) |
0.0242 (1.00) |
0.447 (1.00) |
3.44e-08 (3.1e-05) |
0.322 (1.00) |
0.158 (1.00) |
0.00347 (1.00) |
DEL PEAK 40(18P11 31) MUTATION ANALYSIS | 347 (60%) | 236 |
0.995 (1.00) |
0.0844 (1.00) |
2.95e-06 (0.00264) |
0.00169 (1.00) |
0.939 (1.00) |
0.0148 (1.00) |
0.000485 (0.417) |
0.8 (1.00) |
5.23e-17 (4.76e-14) |
0.324 (1.00) |
0.0192 (1.00) |
0.573 (1.00) |
AMP PEAK 5(6P21 1) MUTATION ANALYSIS | 148 (25%) | 435 |
0.954 (1.00) |
0.617 (1.00) |
0.0318 (1.00) |
0.0269 (1.00) |
0.219 (1.00) |
9.3e-05 (0.0813) |
0.144 (1.00) |
0.154 (1.00) |
0.00195 (1.00) |
0.00136 (1.00) |
0.144 (1.00) |
0.00311 (1.00) |
AMP PEAK 6(7P21 3) MUTATION ANALYSIS | 343 (59%) | 240 |
0.765 (1.00) |
0.0867 (1.00) |
0.0372 (1.00) |
0.000359 (0.31) |
0.937 (1.00) |
8.75e-06 (0.0078) |
0.0284 (1.00) |
0.8 (1.00) |
0.000743 (0.631) |
0.0889 (1.00) |
0.266 (1.00) |
0.0307 (1.00) |
AMP PEAK 18(16P11 2) MUTATION ANALYSIS | 162 (28%) | 421 |
0.903 (1.00) |
0.339 (1.00) |
0.917 (1.00) |
0.00197 (1.00) |
0.788 (1.00) |
6.89e-05 (0.0604) |
0.161 (1.00) |
0.643 (1.00) |
0.0022 (1.00) |
0.714 (1.00) |
0.246 (1.00) |
0.0204 (1.00) |
DEL PEAK 10(4P16 1) MUTATION ANALYSIS | 185 (32%) | 398 |
0.12 (1.00) |
0.971 (1.00) |
0.0572 (1.00) |
0.00306 (1.00) |
0.99 (1.00) |
0.000424 (0.365) |
0.00812 (1.00) |
0.0904 (1.00) |
0.023 (1.00) |
2.85e-05 (0.0251) |
0.0679 (1.00) |
0.0019 (1.00) |
DEL PEAK 30(14Q11 2) MUTATION ANALYSIS | 193 (33%) | 390 |
0.15 (1.00) |
0.518 (1.00) |
0.0131 (1.00) |
0.765 (1.00) |
0.494 (1.00) |
0.0215 (1.00) |
0.262 (1.00) |
1 (1.00) |
6.9e-06 (0.00615) |
0.488 (1.00) |
0.915 (1.00) |
0.681 (1.00) |
DEL PEAK 31(14Q31 1) MUTATION ANALYSIS | 198 (34%) | 385 |
0.48 (1.00) |
0.28 (1.00) |
0.0183 (1.00) |
0.309 (1.00) |
0.374 (1.00) |
0.023 (1.00) |
0.0253 (1.00) |
0.255 (1.00) |
2.27e-06 (0.00204) |
0.725 (1.00) |
0.686 (1.00) |
0.352 (1.00) |
DEL PEAK 32(14Q31 1) MUTATION ANALYSIS | 202 (35%) | 381 |
0.279 (1.00) |
0.402 (1.00) |
0.0142 (1.00) |
0.284 (1.00) |
0.287 (1.00) |
0.0332 (1.00) |
0.0425 (1.00) |
0.339 (1.00) |
3.95e-06 (0.00353) |
0.726 (1.00) |
0.704 (1.00) |
0.341 (1.00) |
DEL PEAK 36(16P13 3) MUTATION ANALYSIS | 59 (10%) | 524 |
7.04e-05 (0.0617) |
0.22 (1.00) |
0.36 (1.00) |
0.0485 (1.00) |
0.0552 (1.00) |
0.187 (1.00) |
0.513 (1.00) |
1 (1.00) |
0.414 (1.00) |
0.609 (1.00) |
0.761 (1.00) |
0.0675 (1.00) |
DEL PEAK 44(19P13 3) MUTATION ANALYSIS | 93 (16%) | 490 |
0.769 (1.00) |
0.179 (1.00) |
0.0304 (1.00) |
0.00143 (1.00) |
0.386 (1.00) |
5.85e-05 (0.0514) |
0.0143 (1.00) |
0.652 (1.00) |
0.0608 (1.00) |
0.641 (1.00) |
0.163 (1.00) |
0.00283 (1.00) |
AMP PEAK 1(1Q31 1) MUTATION ANALYSIS | 136 (23%) | 447 |
0.615 (1.00) |
0.312 (1.00) |
0.0274 (1.00) |
0.428 (1.00) |
0.405 (1.00) |
0.0863 (1.00) |
0.203 (1.00) |
0.202 (1.00) |
0.0863 (1.00) |
0.0359 (1.00) |
0.68 (1.00) |
0.0169 (1.00) |
AMP PEAK 2(2Q33 1) MUTATION ANALYSIS | 125 (21%) | 458 |
0.0656 (1.00) |
0.353 (1.00) |
0.0318 (1.00) |
0.0189 (1.00) |
0.718 (1.00) |
0.00277 (1.00) |
0.344 (1.00) |
0.84 (1.00) |
0.0051 (1.00) |
0.104 (1.00) |
0.495 (1.00) |
0.0319 (1.00) |
AMP PEAK 3(5P12) MUTATION ANALYSIS | 108 (19%) | 475 |
0.0895 (1.00) |
0.35 (1.00) |
0.151 (1.00) |
0.272 (1.00) |
0.323 (1.00) |
0.0797 (1.00) |
0.352 (1.00) |
0.749 (1.00) |
0.0513 (1.00) |
0.378 (1.00) |
0.0289 (1.00) |
0.081 (1.00) |
AMP PEAK 4(5Q22 3) MUTATION ANALYSIS | 60 (10%) | 523 |
0.354 (1.00) |
0.957 (1.00) |
0.447 (1.00) |
0.62 (1.00) |
0.915 (1.00) |
0.272 (1.00) |
0.0413 (1.00) |
1 (1.00) |
0.3 (1.00) |
1 (1.00) |
0.0698 (1.00) |
0.546 (1.00) |
AMP PEAK 7(8P11 23) MUTATION ANALYSIS | 199 (34%) | 384 |
0.279 (1.00) |
0.89 (1.00) |
0.625 (1.00) |
0.21 (1.00) |
0.41 (1.00) |
0.616 (1.00) |
0.355 (1.00) |
0.484 (1.00) |
0.207 (1.00) |
0.499 (1.00) |
0.155 (1.00) |
0.758 (1.00) |
AMP PEAK 8(8P11 21) MUTATION ANALYSIS | 241 (41%) | 342 |
0.741 (1.00) |
0.743 (1.00) |
0.637 (1.00) |
0.126 (1.00) |
0.507 (1.00) |
0.359 (1.00) |
0.316 (1.00) |
0.207 (1.00) |
0.103 (1.00) |
0.742 (1.00) |
0.0443 (1.00) |
0.535 (1.00) |
AMP PEAK 9(8Q12 1) MUTATION ANALYSIS | 312 (54%) | 271 |
0.791 (1.00) |
0.289 (1.00) |
0.263 (1.00) |
0.119 (1.00) |
0.166 (1.00) |
0.165 (1.00) |
0.0299 (1.00) |
0.617 (1.00) |
0.00726 (1.00) |
0.0418 (1.00) |
0.1 (1.00) |
0.0465 (1.00) |
AMP PEAK 10(8Q24 21) MUTATION ANALYSIS | 349 (60%) | 234 |
0.494 (1.00) |
0.331 (1.00) |
0.0868 (1.00) |
0.188 (1.00) |
0.147 (1.00) |
0.235 (1.00) |
0.0726 (1.00) |
0.352 (1.00) |
0.00814 (1.00) |
0.0926 (1.00) |
0.223 (1.00) |
0.102 (1.00) |
AMP PEAK 11(10Q22 3) MUTATION ANALYSIS | 36 (6%) | 547 |
0.871 (1.00) |
0.385 (1.00) |
1 (1.00) |
0.574 (1.00) |
0.278 (1.00) |
0.0162 (1.00) |
0.904 (1.00) |
0.608 (1.00) |
0.925 (1.00) |
0.439 (1.00) |
0.923 (1.00) |
0.0971 (1.00) |
AMP PEAK 12(11P15 5) MUTATION ANALYSIS | 130 (22%) | 453 |
0.715 (1.00) |
0.0668 (1.00) |
0.144 (1.00) |
0.98 (1.00) |
0.273 (1.00) |
0.656 (1.00) |
0.338 (1.00) |
0.618 (1.00) |
0.00118 (0.994) |
0.117 (1.00) |
0.891 (1.00) |
0.463 (1.00) |
AMP PEAK 13(12P13 32) MUTATION ANALYSIS | 144 (25%) | 439 |
0.274 (1.00) |
0.0449 (1.00) |
0.914 (1.00) |
0.165 (1.00) |
0.331 (1.00) |
0.11 (1.00) |
0.124 (1.00) |
0.631 (1.00) |
0.457 (1.00) |
0.696 (1.00) |
0.778 (1.00) |
0.45 (1.00) |
AMP PEAK 17(15Q26 1) MUTATION ANALYSIS | 43 (7%) | 540 |
0.265 (1.00) |
0.56 (1.00) |
0.287 (1.00) |
0.159 (1.00) |
0.118 (1.00) |
0.00221 (1.00) |
0.615 (1.00) |
0.114 (1.00) |
0.395 (1.00) |
0.137 (1.00) |
0.571 (1.00) |
0.0494 (1.00) |
AMP PEAK 19(17Q12) MUTATION ANALYSIS | 145 (25%) | 438 |
0.565 (1.00) |
0.358 (1.00) |
0.52 (1.00) |
0.203 (1.00) |
0.503 (1.00) |
0.194 (1.00) |
0.0106 (1.00) |
0.0842 (1.00) |
0.429 (1.00) |
0.463 (1.00) |
0.0615 (1.00) |
0.395 (1.00) |
AMP PEAK 20(17Q24 1) MUTATION ANALYSIS | 129 (22%) | 454 |
0.0801 (1.00) |
0.237 (1.00) |
0.911 (1.00) |
0.586 (1.00) |
0.797 (1.00) |
0.889 (1.00) |
0.0479 (1.00) |
0.689 (1.00) |
0.0834 (1.00) |
0.692 (1.00) |
0.187 (1.00) |
0.651 (1.00) |
AMP PEAK 21(19P13 2) MUTATION ANALYSIS | 99 (17%) | 484 |
0.343 (1.00) |
0.596 (1.00) |
0.266 (1.00) |
0.614 (1.00) |
0.508 (1.00) |
0.0391 (1.00) |
0.197 (1.00) |
0.15 (1.00) |
0.0474 (1.00) |
1 (1.00) |
0.121 (1.00) |
0.938 (1.00) |
AMP PEAK 22(19Q12) MUTATION ANALYSIS | 123 (21%) | 460 |
0.568 (1.00) |
0.889 (1.00) |
0.255 (1.00) |
0.835 (1.00) |
0.676 (1.00) |
0.101 (1.00) |
0.12 (1.00) |
0.186 (1.00) |
0.0255 (1.00) |
0.692 (1.00) |
0.46 (1.00) |
0.415 (1.00) |
AMP PEAK 23(20P11 23) MUTATION ANALYSIS | 303 (52%) | 280 |
0.97 (1.00) |
0.788 (1.00) |
0.0153 (1.00) |
0.00356 (1.00) |
0.976 (1.00) |
0.0965 (1.00) |
0.0011 (0.927) |
0.046 (1.00) |
0.000493 (0.423) |
0.179 (1.00) |
0.288 (1.00) |
0.475 (1.00) |
AMP PEAK 27(XQ28) MUTATION ANALYSIS | 124 (21%) | 459 |
0.343 (1.00) |
0.233 (1.00) |
0.426 (1.00) |
0.101 (1.00) |
0.46 (1.00) |
0.0345 (1.00) |
0.261 (1.00) |
0.685 (1.00) |
0.0196 (1.00) |
0.692 (1.00) |
0.281 (1.00) |
0.333 (1.00) |
DEL PEAK 1(1P36 11) MUTATION ANALYSIS | 223 (38%) | 360 |
0.0605 (1.00) |
0.167 (1.00) |
0.104 (1.00) |
0.0336 (1.00) |
0.259 (1.00) |
0.00194 (1.00) |
0.000706 (0.6) |
0.393 (1.00) |
0.00507 (1.00) |
0.738 (1.00) |
0.108 (1.00) |
0.000655 (0.558) |
DEL PEAK 2(1P33) MUTATION ANALYSIS | 156 (27%) | 427 |
0.0364 (1.00) |
0.936 (1.00) |
0.343 (1.00) |
0.0302 (1.00) |
0.23 (1.00) |
0.0106 (1.00) |
0.00981 (1.00) |
1 (1.00) |
0.0725 (1.00) |
0.707 (1.00) |
0.311 (1.00) |
0.0163 (1.00) |
DEL PEAK 3(1P13 2) MUTATION ANALYSIS | 158 (27%) | 425 |
0.193 (1.00) |
0.675 (1.00) |
0.209 (1.00) |
0.00418 (1.00) |
0.136 (1.00) |
0.00208 (1.00) |
0.0015 (1.00) |
0.709 (1.00) |
0.118 (1.00) |
0.262 (1.00) |
0.274 (1.00) |
0.003 (1.00) |
DEL PEAK 4(2P12) MUTATION ANALYSIS | 20 (3%) | 563 |
0.712 (1.00) |
0.167 (1.00) |
0.00334 (1.00) |
0.361 (1.00) |
1 (1.00) |
0.378 (1.00) |
0.542 (1.00) |
0.821 (1.00) |
0.0181 (1.00) |
0.271 (1.00) |
0.884 (1.00) |
0.319 (1.00) |
DEL PEAK 5(2Q22 1) MUTATION ANALYSIS | 34 (6%) | 549 |
0.897 (1.00) |
0.644 (1.00) |
0.843 (1.00) |
0.538 (1.00) |
0.628 (1.00) |
0.715 (1.00) |
0.639 (1.00) |
0.597 (1.00) |
0.982 (1.00) |
1 (1.00) |
1 (1.00) |
0.88 (1.00) |
DEL PEAK 6(2Q37 2) MUTATION ANALYSIS | 30 (5%) | 553 |
0.742 (1.00) |
0.128 (1.00) |
0.834 (1.00) |
0.183 (1.00) |
0.337 (1.00) |
0.175 (1.00) |
0.125 (1.00) |
0.457 (1.00) |
0.936 (1.00) |
1 (1.00) |
0.356 (1.00) |
0.857 (1.00) |
DEL PEAK 7(3P26 3) MUTATION ANALYSIS | 85 (15%) | 498 |
0.0116 (1.00) |
0.859 (1.00) |
0.692 (1.00) |
0.0105 (1.00) |
0.0316 (1.00) |
0.0234 (1.00) |
0.00121 (1.00) |
0.638 (1.00) |
0.182 (1.00) |
0.13 (1.00) |
0.0466 (1.00) |
0.032 (1.00) |
DEL PEAK 8(3P14 2) MUTATION ANALYSIS | 106 (18%) | 477 |
0.367 (1.00) |
0.538 (1.00) |
0.808 (1.00) |
0.148 (1.00) |
0.13 (1.00) |
0.183 (1.00) |
0.0372 (1.00) |
0.52 (1.00) |
0.375 (1.00) |
0.67 (1.00) |
0.205 (1.00) |
0.0271 (1.00) |
DEL PEAK 9(3Q26 31) MUTATION ANALYSIS | 58 (10%) | 525 |
0.608 (1.00) |
0.971 (1.00) |
0.877 (1.00) |
0.00357 (1.00) |
0.00984 (1.00) |
0.48 (1.00) |
0.477 (1.00) |
0.127 (1.00) |
0.0359 (1.00) |
0.223 (1.00) |
0.258 (1.00) |
0.534 (1.00) |
DEL PEAK 11(4Q22 1) MUTATION ANALYSIS | 202 (35%) | 381 |
0.49 (1.00) |
0.393 (1.00) |
0.0045 (1.00) |
0.0315 (1.00) |
0.0959 (1.00) |
0.00138 (1.00) |
0.343 (1.00) |
0.139 (1.00) |
0.00118 (0.991) |
0.00119 (1.00) |
0.792 (1.00) |
0.00351 (1.00) |
DEL PEAK 12(4Q35 1) MUTATION ANALYSIS | 213 (37%) | 370 |
0.543 (1.00) |
0.317 (1.00) |
0.0422 (1.00) |
0.221 (1.00) |
0.502 (1.00) |
0.00406 (1.00) |
0.359 (1.00) |
0.863 (1.00) |
0.0253 (1.00) |
0.00179 (1.00) |
0.724 (1.00) |
0.0302 (1.00) |
DEL PEAK 13(5Q11 2) MUTATION ANALYSIS | 141 (24%) | 442 |
0.177 (1.00) |
0.134 (1.00) |
0.03 (1.00) |
0.0216 (1.00) |
1 (1.00) |
0.00735 (1.00) |
0.0209 (1.00) |
1 (1.00) |
0.0106 (1.00) |
0.000986 (0.833) |
0.69 (1.00) |
0.0278 (1.00) |
DEL PEAK 14(5Q22 2) MUTATION ANALYSIS | 173 (30%) | 410 |
0.145 (1.00) |
0.492 (1.00) |
0.129 (1.00) |
0.0585 (1.00) |
0.769 (1.00) |
0.018 (1.00) |
0.0289 (1.00) |
0.586 (1.00) |
0.0525 (1.00) |
0.000359 (0.31) |
0.197 (1.00) |
0.17 (1.00) |
DEL PEAK 15(6P25 3) MUTATION ANALYSIS | 78 (13%) | 505 |
0.332 (1.00) |
0.0584 (1.00) |
0.891 (1.00) |
0.615 (1.00) |
0.249 (1.00) |
0.455 (1.00) |
0.349 (1.00) |
0.0885 (1.00) |
0.534 (1.00) |
0.344 (1.00) |
0.408 (1.00) |
0.753 (1.00) |
DEL PEAK 16(6Q26) MUTATION ANALYSIS | 90 (15%) | 493 |
0.0636 (1.00) |
0.962 (1.00) |
0.364 (1.00) |
0.0713 (1.00) |
0.0532 (1.00) |
0.00891 (1.00) |
0.0447 (1.00) |
0.302 (1.00) |
0.0438 (1.00) |
0.635 (1.00) |
0.11 (1.00) |
0.00993 (1.00) |
DEL PEAK 17(7Q31 1) MUTATION ANALYSIS | 15 (3%) | 568 |
0.726 (1.00) |
0.343 (1.00) |
1 (1.00) |
0.841 (1.00) |
0.523 (1.00) |
0.633 (1.00) |
0.321 (1.00) |
0.306 (1.00) |
0.521 (1.00) |
1 (1.00) |
0.728 (1.00) |
0.611 (1.00) |
DEL PEAK 21(8Q11 1) MUTATION ANALYSIS | 45 (8%) | 538 |
0.8 (1.00) |
0.426 (1.00) |
0.217 (1.00) |
0.0334 (1.00) |
0.721 (1.00) |
0.0249 (1.00) |
0.00211 (1.00) |
0.161 (1.00) |
0.439 (1.00) |
0.517 (1.00) |
0.347 (1.00) |
0.273 (1.00) |
DEL PEAK 22(9P24 2) MUTATION ANALYSIS | 79 (14%) | 504 |
0.0194 (1.00) |
0.114 (1.00) |
0.497 (1.00) |
0.359 (1.00) |
0.537 (1.00) |
0.103 (1.00) |
0.012 (1.00) |
0.0396 (1.00) |
0.426 (1.00) |
0.35 (1.00) |
0.108 (1.00) |
0.232 (1.00) |
DEL PEAK 23(10P15 3) MUTATION ANALYSIS | 103 (18%) | 480 |
0.4 (1.00) |
0.0297 (1.00) |
0.224 (1.00) |
0.0766 (1.00) |
0.761 (1.00) |
0.00874 (1.00) |
0.194 (1.00) |
1 (1.00) |
0.346 (1.00) |
0.00142 (1.00) |
0.944 (1.00) |
0.05 (1.00) |
DEL PEAK 24(10Q21 1) MUTATION ANALYSIS | 120 (21%) | 463 |
0.824 (1.00) |
0.0167 (1.00) |
0.489 (1.00) |
0.14 (1.00) |
0.709 (1.00) |
0.0927 (1.00) |
0.54 (1.00) |
0.681 (1.00) |
0.105 (1.00) |
0.00331 (1.00) |
0.358 (1.00) |
0.159 (1.00) |
DEL PEAK 25(10Q23 31) MUTATION ANALYSIS | 147 (25%) | 436 |
0.476 (1.00) |
0.0115 (1.00) |
0.0414 (1.00) |
0.0359 (1.00) |
0.245 (1.00) |
0.0108 (1.00) |
0.0362 (1.00) |
0.924 (1.00) |
0.0183 (1.00) |
0.0013 (1.00) |
0.589 (1.00) |
0.208 (1.00) |
DEL PEAK 26(10Q25 2) MUTATION ANALYSIS | 142 (24%) | 441 |
0.976 (1.00) |
0.0802 (1.00) |
0.129 (1.00) |
0.119 (1.00) |
0.171 (1.00) |
0.00735 (1.00) |
0.293 (1.00) |
1 (1.00) |
0.0288 (1.00) |
0.00103 (0.872) |
0.535 (1.00) |
0.158 (1.00) |
DEL PEAK 27(11Q22 3) MUTATION ANALYSIS | 105 (18%) | 478 |
0.288 (1.00) |
0.454 (1.00) |
0.0857 (1.00) |
0.772 (1.00) |
0.388 (1.00) |
0.0778 (1.00) |
0.641 (1.00) |
0.517 (1.00) |
0.0498 (1.00) |
0.0602 (1.00) |
0.624 (1.00) |
0.0527 (1.00) |
DEL PEAK 28(12P13 1) MUTATION ANALYSIS | 79 (14%) | 504 |
0.074 (1.00) |
0.412 (1.00) |
0.0279 (1.00) |
0.577 (1.00) |
0.418 (1.00) |
0.0176 (1.00) |
0.0672 (1.00) |
0.467 (1.00) |
0.000559 (0.477) |
0.35 (1.00) |
0.751 (1.00) |
0.88 (1.00) |
DEL PEAK 29(12Q21 31) MUTATION ANALYSIS | 78 (13%) | 505 |
0.439 (1.00) |
0.538 (1.00) |
0.217 (1.00) |
0.155 (1.00) |
0.623 (1.00) |
0.056 (1.00) |
0.0934 (1.00) |
1 (1.00) |
0.018 (1.00) |
0.344 (1.00) |
0.733 (1.00) |
0.134 (1.00) |
DEL PEAK 33(15Q11 2) MUTATION ANALYSIS | 235 (40%) | 348 |
0.722 (1.00) |
0.748 (1.00) |
0.184 (1.00) |
0.0923 (1.00) |
0.696 (1.00) |
0.00741 (1.00) |
0.207 (1.00) |
0.446 (1.00) |
0.0442 (1.00) |
0.0345 (1.00) |
0.749 (1.00) |
0.0561 (1.00) |
DEL PEAK 34(15Q21 1) MUTATION ANALYSIS | 228 (39%) | 355 |
0.491 (1.00) |
0.78 (1.00) |
0.028 (1.00) |
0.18 (1.00) |
0.794 (1.00) |
0.0159 (1.00) |
0.181 (1.00) |
0.27 (1.00) |
0.0101 (1.00) |
0.0321 (1.00) |
0.453 (1.00) |
0.0529 (1.00) |
DEL PEAK 35(15Q22 33) MUTATION ANALYSIS | 218 (37%) | 365 |
0.621 (1.00) |
0.457 (1.00) |
0.00915 (1.00) |
0.0116 (1.00) |
0.0653 (1.00) |
0.00293 (1.00) |
0.149 (1.00) |
0.668 (1.00) |
0.00417 (1.00) |
0.00214 (1.00) |
0.598 (1.00) |
0.0269 (1.00) |
DEL PEAK 37(16Q23 1) MUTATION ANALYSIS | 73 (13%) | 510 |
0.0344 (1.00) |
0.23 (1.00) |
0.403 (1.00) |
0.261 (1.00) |
0.18 (1.00) |
0.647 (1.00) |
0.952 (1.00) |
0.133 (1.00) |
0.745 (1.00) |
1 (1.00) |
0.971 (1.00) |
0.279 (1.00) |
DEL PEAK 39(17Q24 3) MUTATION ANALYSIS | 85 (15%) | 498 |
0.652 (1.00) |
0.359 (1.00) |
0.793 (1.00) |
0.119 (1.00) |
0.253 (1.00) |
0.0043 (1.00) |
0.385 (1.00) |
0.0992 (1.00) |
0.995 (1.00) |
0.626 (1.00) |
0.372 (1.00) |
0.0417 (1.00) |
DEL PEAK 45(19Q13 43) MUTATION ANALYSIS | 68 (12%) | 515 |
0.414 (1.00) |
0.863 (1.00) |
0.11 (1.00) |
0.00606 (1.00) |
0.438 (1.00) |
0.015 (1.00) |
0.0683 (1.00) |
0.248 (1.00) |
0.369 (1.00) |
0.283 (1.00) |
0.834 (1.00) |
0.0201 (1.00) |
DEL PEAK 46(20P12 1) MUTATION ANALYSIS | 180 (31%) | 403 |
0.0508 (1.00) |
0.481 (1.00) |
0.0352 (1.00) |
0.238 (1.00) |
0.462 (1.00) |
0.219 (1.00) |
0.756 (1.00) |
0.324 (1.00) |
0.115 (1.00) |
0.0632 (1.00) |
0.321 (1.00) |
0.827 (1.00) |
DEL PEAK 47(20P12 1) MUTATION ANALYSIS | 180 (31%) | 403 |
0.0508 (1.00) |
0.481 (1.00) |
0.0352 (1.00) |
0.238 (1.00) |
0.462 (1.00) |
0.219 (1.00) |
0.756 (1.00) |
0.324 (1.00) |
0.115 (1.00) |
0.0632 (1.00) |
0.321 (1.00) |
0.827 (1.00) |
DEL PEAK 48(21Q11 2) MUTATION ANALYSIS | 198 (34%) | 385 |
0.771 (1.00) |
0.732 (1.00) |
0.00571 (1.00) |
0.308 (1.00) |
0.956 (1.00) |
0.052 (1.00) |
0.557 (1.00) |
0.54 (1.00) |
0.000491 (0.422) |
0.176 (1.00) |
0.792 (1.00) |
0.00549 (1.00) |
DEL PEAK 49(22Q13 32) MUTATION ANALYSIS | 209 (36%) | 374 |
0.0795 (1.00) |
0.697 (1.00) |
0.243 (1.00) |
0.0209 (1.00) |
0.401 (1.00) |
0.000511 (0.438) |
0.022 (1.00) |
0.665 (1.00) |
0.00688 (1.00) |
0.728 (1.00) |
0.534 (1.00) |
0.0129 (1.00) |
P value = 9.3e-05 (Fisher's exact test), Q value = 0.081
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 5(6P21.1) MUTATED | 64 | 40 | 43 |
AMP PEAK 5(6P21.1) WILD-TYPE | 265 | 105 | 63 |
P value = 8.75e-06 (Fisher's exact test), Q value = 0.0078
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 6(7P21.3) MUTATED | 165 | 104 | 71 |
AMP PEAK 6(7P21.3) WILD-TYPE | 164 | 41 | 35 |
P value = 3.71e-05 (Fisher's exact test), Q value = 0.033
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 14(13Q12.13) MUTATED | 187 | 109 | 79 |
AMP PEAK 14(13Q12.13) WILD-TYPE | 142 | 36 | 27 |
P value = 5.03e-10 (Fisher's exact test), Q value = 4.6e-07
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 14(13Q12.13) MUTATED | 239 | 16 | 112 | 5 |
AMP PEAK 14(13Q12.13) WILD-TYPE | 125 | 39 | 31 | 8 |
P value = 7.73e-05 (Fisher's exact test), Q value = 0.068
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 15(13Q12.2) MUTATED | 185 | 107 | 78 |
AMP PEAK 15(13Q12.2) WILD-TYPE | 144 | 38 | 28 |
P value = 1.16e-09 (Fisher's exact test), Q value = 1e-06
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 15(13Q12.2) MUTATED | 235 | 16 | 111 | 5 |
AMP PEAK 15(13Q12.2) WILD-TYPE | 129 | 39 | 32 | 8 |
P value = 0.000115 (Fisher's exact test), Q value = 0.1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 16(13Q22.1) MUTATED | 188 | 109 | 77 |
AMP PEAK 16(13Q22.1) WILD-TYPE | 141 | 36 | 29 |
P value = 1.43e-08 (Fisher's exact test), Q value = 1.3e-05
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 16(13Q22.1) MUTATED | 241 | 18 | 109 | 4 |
AMP PEAK 16(13Q22.1) WILD-TYPE | 123 | 37 | 34 | 9 |
P value = 6.89e-05 (Fisher's exact test), Q value = 0.06
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
AMP PEAK 18(16P11.2) MUTATED | 68 | 53 | 40 |
AMP PEAK 18(16P11.2) WILD-TYPE | 261 | 92 | 66 |
P value = 9.63e-06 (Fisher's exact test), Q value = 0.0086
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
AMP PEAK 24(20Q11.21) MUTATED | 301 | 141 |
AMP PEAK 24(20Q11.21) WILD-TYPE | 119 | 18 |
P value = 2.57e-12 (Fisher's exact test), Q value = 2.3e-09
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 24(20Q11.21) MUTATED | 276 | 24 | 132 | 7 |
AMP PEAK 24(20Q11.21) WILD-TYPE | 88 | 31 | 11 | 6 |
P value = 5.02e-06 (Fisher's exact test), Q value = 0.0045
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
AMP PEAK 25(20Q12) MUTATED | 302 | 142 |
AMP PEAK 25(20Q12) WILD-TYPE | 118 | 17 |
P value = 0.000207 (Chi-square test), Q value = 0.18
nPatients | STAGE I | STAGE IA | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV | STAGE IVA | STAGE IVB |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 100 | 1 | 41 | 156 | 10 | 3 | 27 | 22 | 75 | 49 | 59 | 25 | 1 |
AMP PEAK 25(20Q12) MUTATED | 76 | 1 | 24 | 109 | 5 | 3 | 19 | 21 | 59 | 41 | 53 | 24 | 0 |
AMP PEAK 25(20Q12) WILD-TYPE | 24 | 0 | 17 | 47 | 5 | 0 | 8 | 1 | 16 | 8 | 6 | 1 | 1 |
P value = 1.57e-13 (Fisher's exact test), Q value = 1.4e-10
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 25(20Q12) MUTATED | 278 | 23 | 133 | 7 |
AMP PEAK 25(20Q12) WILD-TYPE | 86 | 32 | 10 | 6 |
P value = 2.27e-05 (Fisher's exact test), Q value = 0.02
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
AMP PEAK 26(20Q13.32) MUTATED | 305 | 141 |
AMP PEAK 26(20Q13.32) WILD-TYPE | 115 | 18 |
P value = 2.71e-12 (Fisher's exact test), Q value = 2.5e-09
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
AMP PEAK 26(20Q13.32) MUTATED | 280 | 24 | 132 | 7 |
AMP PEAK 26(20Q13.32) WILD-TYPE | 84 | 31 | 11 | 6 |
P value = 2.85e-05 (Fisher's exact test), Q value = 0.025
nPatients | NO | YES |
---|---|---|
ALL | 9 | 574 |
DEL PEAK 10(4P16.1) MUTATED | 9 | 176 |
DEL PEAK 10(4P16.1) WILD-TYPE | 0 | 398 |
P value = 1.09e-05 (Fisher's exact test), Q value = 0.0097
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 18(8P23.3) MUTATED | 175 | 99 |
DEL PEAK 18(8P23.3) WILD-TYPE | 245 | 60 |
P value = 2.98e-05 (Fisher's exact test), Q value = 0.026
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 18(8P23.3) MUTATED | 130 | 77 | 67 |
DEL PEAK 18(8P23.3) WILD-TYPE | 199 | 68 | 39 |
P value = 1.93e-05 (Fisher's exact test), Q value = 0.017
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 18(8P23.3) MUTATED | 158 | 16 | 90 | 7 |
DEL PEAK 18(8P23.3) WILD-TYPE | 206 | 39 | 53 | 6 |
P value = 2.55e-05 (Fisher's exact test), Q value = 0.023
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 19(8P23.2) MUTATED | 176 | 98 |
DEL PEAK 19(8P23.2) WILD-TYPE | 244 | 61 |
P value = 1.68e-05 (Fisher's exact test), Q value = 0.015
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 19(8P23.2) MUTATED | 129 | 78 | 67 |
DEL PEAK 19(8P23.2) WILD-TYPE | 200 | 67 | 39 |
P value = 2.14e-05 (Fisher's exact test), Q value = 0.019
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 19(8P23.2) MUTATED | 160 | 15 | 89 | 7 |
DEL PEAK 19(8P23.2) WILD-TYPE | 204 | 40 | 54 | 6 |
P value = 0.000142 (Chi-square test), Q value = 0.12
nPatients | STAGE I | STAGE IA | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV | STAGE IVA | STAGE IVB |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 100 | 1 | 41 | 156 | 10 | 3 | 27 | 22 | 75 | 49 | 59 | 25 | 1 |
DEL PEAK 20(8P22) MUTATED | 39 | 0 | 13 | 65 | 3 | 2 | 15 | 13 | 42 | 33 | 42 | 15 | 1 |
DEL PEAK 20(8P22) WILD-TYPE | 61 | 1 | 28 | 91 | 7 | 1 | 12 | 9 | 33 | 16 | 17 | 10 | 0 |
P value = 7.22e-07 (Fisher's exact test), Q value = 0.00065
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 20(8P22) MUTATED | 133 | 82 | 72 |
DEL PEAK 20(8P22) WILD-TYPE | 196 | 63 | 34 |
P value = 0.000182 (Fisher's exact test), Q value = 0.16
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 20(8P22) MUTATED | 172 | 16 | 89 | 7 |
DEL PEAK 20(8P22) WILD-TYPE | 192 | 39 | 54 | 6 |
P value = 0.000145 (t-test), Q value = 0.13
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 549 | 2.2 (4.7) |
DEL PEAK 20(8P22) MUTATED | 277 | 3.0 (5.7) |
DEL PEAK 20(8P22) WILD-TYPE | 272 | 1.4 (3.4) |
P value = 6.9e-06 (Fisher's exact test), Q value = 0.0062
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 30(14Q11.2) MUTATED | 119 | 5 | 63 | 2 |
DEL PEAK 30(14Q11.2) WILD-TYPE | 245 | 50 | 80 | 11 |
P value = 2.27e-06 (Fisher's exact test), Q value = 0.002
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 31(14Q31.1) MUTATED | 124 | 5 | 63 | 1 |
DEL PEAK 31(14Q31.1) WILD-TYPE | 240 | 50 | 80 | 12 |
P value = 3.95e-06 (Fisher's exact test), Q value = 0.0035
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 32(14Q31.1) MUTATED | 125 | 6 | 65 | 1 |
DEL PEAK 32(14Q31.1) WILD-TYPE | 239 | 49 | 78 | 12 |
P value = 7.04e-05 (logrank test), Q value = 0.062
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 467 | 76 | 0.1 - 140.4 (12.3) |
DEL PEAK 36(16P13.3) MUTATED | 45 | 15 | 0.2 - 49.9 (12.6) |
DEL PEAK 36(16P13.3) WILD-TYPE | 422 | 61 | 0.1 - 140.4 (12.2) |
P value = 0.000112 (Fisher's exact test), Q value = 0.097
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 38(17P12) MUTATED | 170 | 97 | 76 |
DEL PEAK 38(17P12) WILD-TYPE | 159 | 48 | 30 |
P value = 3.44e-08 (Fisher's exact test), Q value = 3.1e-05
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 38(17P12) MUTATED | 215 | 14 | 103 | 6 |
DEL PEAK 38(17P12) WILD-TYPE | 149 | 41 | 40 | 7 |
P value = 2.95e-06 (Fisher's exact test), Q value = 0.0026
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 40(18P11.31) MUTATED | 225 | 119 |
DEL PEAK 40(18P11.31) WILD-TYPE | 195 | 40 |
P value = 5.23e-17 (Fisher's exact test), Q value = 4.8e-14
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 40(18P11.31) MUTATED | 217 | 7 | 113 | 6 |
DEL PEAK 40(18P11.31) WILD-TYPE | 147 | 48 | 30 | 7 |
P value = 1.82e-09 (Fisher's exact test), Q value = 1.6e-06
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 41(18Q12.2) MUTATED | 253 | 136 |
DEL PEAK 41(18Q12.2) WILD-TYPE | 167 | 23 |
P value = 0.000131 (Fisher's exact test), Q value = 0.11
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 41(18Q12.2) MUTATED | 197 | 111 | 81 |
DEL PEAK 41(18Q12.2) WILD-TYPE | 132 | 34 | 25 |
P value = 2.48e-18 (Fisher's exact test), Q value = 2.3e-15
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 41(18Q12.2) MUTATED | 241 | 11 | 125 | 10 |
DEL PEAK 41(18Q12.2) WILD-TYPE | 123 | 44 | 18 | 3 |
P value = 1.22e-09 (Fisher's exact test), Q value = 1.1e-06
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 42(18Q21.2) MUTATED | 266 | 140 |
DEL PEAK 42(18Q21.2) WILD-TYPE | 154 | 19 |
P value = 5.52e-05 (Chi-square test), Q value = 0.049
nPatients | STAGE I | STAGE IA | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV | STAGE IVA | STAGE IVB |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 100 | 1 | 41 | 156 | 10 | 3 | 27 | 22 | 75 | 49 | 59 | 25 | 1 |
DEL PEAK 42(18Q21.2) MUTATED | 60 | 0 | 25 | 98 | 4 | 3 | 17 | 18 | 58 | 40 | 53 | 22 | 1 |
DEL PEAK 42(18Q21.2) WILD-TYPE | 40 | 1 | 16 | 58 | 6 | 0 | 10 | 4 | 17 | 9 | 6 | 3 | 0 |
P value = 2.32e-06 (Fisher's exact test), Q value = 0.0021
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 42(18Q21.2) MUTATED | 203 | 115 | 88 |
DEL PEAK 42(18Q21.2) WILD-TYPE | 126 | 30 | 18 |
P value = 1.05e-16 (Fisher's exact test), Q value = 9.6e-14
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 42(18Q21.2) MUTATED | 251 | 14 | 126 | 12 |
DEL PEAK 42(18Q21.2) WILD-TYPE | 113 | 41 | 17 | 1 |
P value = 2.14e-07 (Fisher's exact test), Q value = 0.00019
nPatients | COLON | RECTUM |
---|---|---|
ALL | 420 | 159 |
DEL PEAK 43(18Q22.1) MUTATED | 266 | 135 |
DEL PEAK 43(18Q22.1) WILD-TYPE | 154 | 24 |
P value = 0.000123 (Chi-square test), Q value = 0.11
nPatients | STAGE I | STAGE IA | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV | STAGE IVA | STAGE IVB |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 100 | 1 | 41 | 156 | 10 | 3 | 27 | 22 | 75 | 49 | 59 | 25 | 1 |
DEL PEAK 43(18Q22.1) MUTATED | 60 | 0 | 25 | 98 | 4 | 3 | 15 | 17 | 57 | 40 | 52 | 22 | 1 |
DEL PEAK 43(18Q22.1) WILD-TYPE | 40 | 1 | 16 | 58 | 6 | 0 | 12 | 5 | 18 | 9 | 7 | 3 | 0 |
P value = 2.84e-05 (Fisher's exact test), Q value = 0.025
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 43(18Q22.1) MUTATED | 203 | 111 | 87 |
DEL PEAK 43(18Q22.1) WILD-TYPE | 126 | 34 | 19 |
P value = 5.8e-16 (Fisher's exact test), Q value = 5.3e-13
nPatients | COLON ADENOCARCINOMA | COLON MUCINOUS ADENOCARCINOMA | RECTAL ADENOCARCINOMA | RECTAL MUCINOUS ADENOCARCINOMA |
---|---|---|---|---|
ALL | 364 | 55 | 143 | 13 |
DEL PEAK 43(18Q22.1) MUTATED | 252 | 13 | 124 | 10 |
DEL PEAK 43(18Q22.1) WILD-TYPE | 112 | 42 | 19 | 3 |
P value = 5.85e-05 (Fisher's exact test), Q value = 0.051
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 329 | 145 | 106 |
DEL PEAK 44(19P13.3) MUTATED | 35 | 28 | 30 |
DEL PEAK 44(19P13.3) WILD-TYPE | 294 | 117 | 76 |
-
Copy number data file = transformed.cor.cli.txt
-
Clinical data file = COADREAD-TP.clin.merged.picked.txt
-
Number of patients = 583
-
Number of significantly focal cnvs = 76
-
Number of selected clinical features = 12
-
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 continuous numerical clinical features, two-tailed Student's t test with unequal variance (Lehmann and Romano 2005) was applied to compare the clinical values between tumors with and without gene mutations using 't.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 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 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.