This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between copy number variation 88 focal events and 13 clinical features across 441 patients, 25 significant findings detected with Q value < 0.25.
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amp_1p36.22 cnv correlated to 'GENDER'.
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amp_1q42.3 cnv correlated to 'HISTOLOGICAL_TYPE'.
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amp_5p15.33 cnv correlated to 'PATHOLOGY_T_STAGE'.
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amp_6p21.1 cnv correlated to 'HISTOLOGICAL_TYPE'.
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amp_6q12 cnv correlated to 'HISTOLOGICAL_TYPE'.
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amp_17q12 cnv correlated to 'HISTOLOGICAL_TYPE' and 'RESIDUAL_TUMOR'.
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amp_20q13.2 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_1p36.11 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_4q35.1 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_5q12.1 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_5q23.2 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_8p23.2 cnv correlated to 'NUMBER_OF_LYMPH_NODES'.
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del_10p15.3 cnv correlated to 'NUMBER_OF_LYMPH_NODES'.
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del_10q23.31 cnv correlated to 'YEARS_TO_BIRTH'.
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del_12p13.1 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_14q32.32 cnv correlated to 'PATHOLOGY_M_STAGE'.
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del_15q15.1 cnv correlated to 'RADIATION_THERAPY'.
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del_16q23.1 cnv correlated to 'PATHOLOGY_M_STAGE'.
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del_17p12 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_17q24.3 cnv correlated to 'NUMBER_OF_LYMPH_NODES'.
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del_18q12.2 cnv correlated to 'PATHOLOGY_T_STAGE'.
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del_18q21.2 cnv correlated to 'PATHOLOGY_T_STAGE'.
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del_19p13.3 cnv correlated to 'HISTOLOGICAL_TYPE'.
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del_19q13.11 cnv correlated to 'HISTOLOGICAL_TYPE'.
Clinical Features |
Time to Death |
YEARS TO BIRTH |
PATHOLOGIC STAGE |
PATHOLOGY T STAGE |
PATHOLOGY N STAGE |
PATHOLOGY M STAGE |
GENDER |
RADIATION THERAPY |
HISTOLOGICAL TYPE |
RESIDUAL TUMOR |
NUMBER OF LYMPH NODES |
RACE | ETHNICITY | ||
nCNV (%) | nWild-Type | logrank test | Wilcoxon-test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Wilcoxon-test | Fisher's exact test | Fisher's exact test | |
amp 17q12 | 147 (33%) | 294 |
0.243 (0.813) |
0.329 (0.845) |
0.4 (0.871) |
0.652 (0.968) |
0.533 (0.939) |
0.0405 (0.517) |
0.0456 (0.527) |
0.586 (0.947) |
2e-05 (0.00763) |
0.00011 (0.0196) |
0.506 (0.927) |
0.0236 (0.45) |
1 (1.00) |
amp 1p36 22 | 66 (15%) | 375 |
0.583 (0.947) |
0.731 (0.992) |
0.635 (0.957) |
0.16 (0.768) |
0.846 (1.00) |
0.285 (0.824) |
0.00323 (0.206) |
0.0199 (0.424) |
0.912 (1.00) |
1 (1.00) |
0.153 (0.754) |
0.255 (0.815) |
0.524 (0.937) |
amp 1q42 3 | 150 (34%) | 291 |
0.612 (0.947) |
0.481 (0.913) |
0.705 (0.983) |
0.525 (0.937) |
0.443 (0.896) |
0.841 (1.00) |
0.754 (0.999) |
0.0807 (0.657) |
0.00178 (0.157) |
0.734 (0.992) |
0.499 (0.925) |
0.185 (0.783) |
0.665 (0.968) |
amp 5p15 33 | 130 (29%) | 311 |
0.52 (0.937) |
0.0392 (0.517) |
0.899 (1.00) |
0.00405 (0.232) |
0.569 (0.947) |
1 (1.00) |
0.329 (0.845) |
0.677 (0.97) |
0.0177 (0.389) |
0.629 (0.954) |
0.0331 (0.515) |
0.277 (0.824) |
1 (1.00) |
amp 6p21 1 | 124 (28%) | 317 |
0.416 (0.88) |
0.0134 (0.373) |
0.586 (0.947) |
0.0975 (0.675) |
0.408 (0.873) |
0.207 (0.8) |
0.377 (0.852) |
0.779 (1.00) |
5e-05 (0.0143) |
0.538 (0.94) |
0.59 (0.947) |
0.0604 (0.614) |
0.615 (0.947) |
amp 6q12 | 88 (20%) | 353 |
0.195 (0.798) |
0.995 (1.00) |
0.66 (0.968) |
0.534 (0.939) |
0.718 (0.985) |
1 (1.00) |
0.902 (1.00) |
0.342 (0.845) |
0.00042 (0.0597) |
0.312 (0.834) |
0.481 (0.913) |
0.198 (0.798) |
1 (1.00) |
amp 20q13 2 | 293 (66%) | 148 |
0.479 (0.913) |
0.286 (0.824) |
0.601 (0.947) |
0.322 (0.844) |
0.128 (0.717) |
0.55 (0.944) |
0.0154 (0.383) |
0.343 (0.845) |
1e-05 (0.00572) |
0.453 (0.9) |
0.507 (0.927) |
0.706 (0.983) |
0.66 (0.968) |
del 1p36 11 | 135 (31%) | 306 |
0.304 (0.833) |
0.718 (0.985) |
0.553 (0.946) |
0.125 (0.71) |
0.984 (1.00) |
1 (1.00) |
0.518 (0.937) |
0.0371 (0.517) |
0.0021 (0.16) |
0.113 (0.684) |
0.487 (0.918) |
0.473 (0.911) |
1 (1.00) |
del 4q35 1 | 204 (46%) | 237 |
0.833 (1.00) |
0.126 (0.714) |
0.132 (0.73) |
0.565 (0.947) |
0.919 (1.00) |
0.184 (0.783) |
0.921 (1.00) |
0.0408 (0.517) |
0.00507 (0.241) |
0.0838 (0.657) |
0.358 (0.851) |
0.659 (0.968) |
1 (1.00) |
del 5q12 1 | 170 (39%) | 271 |
0.838 (1.00) |
0.288 (0.824) |
0.435 (0.893) |
0.584 (0.947) |
0.129 (0.722) |
0.567 (0.947) |
0.76 (1.00) |
0.517 (0.937) |
9e-05 (0.0196) |
0.166 (0.769) |
0.109 (0.682) |
0.843 (1.00) |
1 (1.00) |
del 5q23 2 | 158 (36%) | 283 |
0.824 (1.00) |
0.475 (0.911) |
0.317 (0.841) |
0.364 (0.851) |
0.808 (1.00) |
0.326 (0.845) |
0.606 (0.947) |
0.147 (0.752) |
1e-05 (0.00572) |
0.184 (0.783) |
0.98 (1.00) |
0.607 (0.947) |
1 (1.00) |
del 8p23 2 | 122 (28%) | 319 |
0.987 (1.00) |
0.321 (0.844) |
0.109 (0.682) |
0.0901 (0.665) |
0.0653 (0.632) |
0.292 (0.824) |
0.0106 (0.358) |
0.777 (1.00) |
0.056 (0.588) |
0.152 (0.754) |
0.00254 (0.181) |
0.432 (0.893) |
0.603 (0.947) |
del 10p15 3 | 77 (17%) | 364 |
0.0266 (0.469) |
0.195 (0.798) |
0.0763 (0.657) |
0.965 (1.00) |
0.0233 (0.45) |
0.802 (1.00) |
0.242 (0.813) |
0.403 (0.872) |
0.0479 (0.532) |
0.801 (1.00) |
0.00507 (0.241) |
0.757 (1.00) |
0.594 (0.947) |
del 10q23 31 | 116 (26%) | 325 |
0.0802 (0.657) |
0.00526 (0.241) |
0.969 (1.00) |
0.0979 (0.675) |
0.506 (0.927) |
0.832 (1.00) |
0.822 (1.00) |
0.566 (0.947) |
0.0064 (0.271) |
0.898 (1.00) |
0.0941 (0.673) |
0.251 (0.815) |
0.339 (0.845) |
del 12p13 1 | 77 (17%) | 364 |
0.0295 (0.485) |
0.403 (0.872) |
0.223 (0.812) |
0.0172 (0.389) |
0.974 (1.00) |
0.616 (0.947) |
0.897 (1.00) |
0.511 (0.93) |
0.00084 (0.0874) |
0.792 (1.00) |
0.21 (0.801) |
0.727 (0.991) |
0.174 (0.774) |
del 14q32 32 | 133 (30%) | 308 |
0.77 (1.00) |
0.963 (1.00) |
0.263 (0.816) |
0.743 (0.994) |
0.715 (0.985) |
0.00309 (0.206) |
0.59 (0.947) |
0.409 (0.873) |
0.428 (0.892) |
0.311 (0.834) |
0.304 (0.833) |
0.917 (1.00) |
0.328 (0.845) |
del 15q15 1 | 122 (28%) | 319 |
0.788 (1.00) |
0.464 (0.911) |
0.159 (0.768) |
0.0657 (0.632) |
0.683 (0.972) |
0.521 (0.937) |
0.74 (0.993) |
0.00144 (0.137) |
0.0497 (0.547) |
0.474 (0.911) |
0.425 (0.89) |
0.826 (1.00) |
0.62 (0.948) |
del 16q23 1 | 182 (41%) | 259 |
0.888 (1.00) |
0.514 (0.933) |
0.0976 (0.675) |
0.792 (1.00) |
0.537 (0.94) |
0.00358 (0.215) |
0.314 (0.838) |
0.798 (1.00) |
0.134 (0.734) |
0.283 (0.824) |
0.617 (0.947) |
0.924 (1.00) |
1 (1.00) |
del 17p12 | 181 (41%) | 260 |
0.932 (1.00) |
0.724 (0.989) |
0.928 (1.00) |
0.284 (0.824) |
0.707 (0.983) |
0.334 (0.845) |
0.0861 (0.663) |
0.0915 (0.669) |
0.00047 (0.0597) |
0.149 (0.753) |
0.545 (0.942) |
0.749 (0.995) |
1 (1.00) |
del 17q24 3 | 76 (17%) | 365 |
0.141 (0.746) |
0.148 (0.752) |
0.343 (0.845) |
0.0861 (0.663) |
0.107 (0.682) |
0.802 (1.00) |
0.694 (0.975) |
0.113 (0.684) |
0.207 (0.8) |
0.187 (0.785) |
0.00499 (0.241) |
0.109 (0.682) |
1 (1.00) |
del 18q12 2 | 181 (41%) | 260 |
0.545 (0.942) |
0.34 (0.845) |
0.625 (0.95) |
0.00012 (0.0196) |
0.735 (0.992) |
0.703 (0.982) |
0.364 (0.851) |
0.518 (0.937) |
0.15 (0.753) |
0.473 (0.911) |
0.104 (0.682) |
0.252 (0.815) |
0.398 (0.871) |
del 18q21 2 | 204 (46%) | 237 |
0.854 (1.00) |
0.409 (0.873) |
0.885 (1.00) |
0.00197 (0.16) |
0.716 (0.985) |
0.85 (1.00) |
0.321 (0.844) |
0.524 (0.937) |
0.0778 (0.657) |
0.463 (0.91) |
0.0705 (0.655) |
0.191 (0.791) |
0.665 (0.968) |
del 19p13 3 | 162 (37%) | 279 |
0.161 (0.769) |
0.211 (0.801) |
0.981 (1.00) |
0.264 (0.816) |
0.826 (1.00) |
0.845 (1.00) |
0.04 (0.517) |
0.292 (0.824) |
0.00451 (0.241) |
0.271 (0.821) |
0.269 (0.821) |
0.14 (0.741) |
0.667 (0.968) |
del 19q13 11 | 75 (17%) | 366 |
0.368 (0.851) |
0.175 (0.774) |
0.895 (1.00) |
0.83 (1.00) |
0.37 (0.851) |
0.324 (0.845) |
0.692 (0.974) |
0.506 (0.927) |
0.00063 (0.0721) |
0.388 (0.861) |
0.137 (0.735) |
0.493 (0.921) |
0.581 (0.947) |
amp 1q21 3 | 160 (36%) | 281 |
0.97 (1.00) |
0.942 (1.00) |
0.95 (1.00) |
0.386 (0.86) |
0.416 (0.88) |
0.846 (1.00) |
1 (1.00) |
0.0249 (0.462) |
0.113 (0.684) |
0.187 (0.785) |
0.345 (0.845) |
0.398 (0.871) |
0.657 (0.968) |
amp 3q26 2 | 164 (37%) | 277 |
0.881 (1.00) |
0.601 (0.947) |
0.526 (0.937) |
0.169 (0.774) |
0.667 (0.968) |
0.845 (1.00) |
0.918 (1.00) |
0.0123 (0.361) |
0.47 (0.911) |
0.937 (1.00) |
0.144 (0.752) |
0.27 (0.821) |
0.052 (0.556) |
amp 5p13 1 | 126 (29%) | 315 |
0.759 (1.00) |
0.0408 (0.517) |
0.967 (1.00) |
0.229 (0.812) |
0.559 (0.947) |
0.53 (0.939) |
0.827 (1.00) |
0.674 (0.968) |
0.213 (0.803) |
0.442 (0.896) |
0.175 (0.774) |
0.64 (0.959) |
1 (1.00) |
amp 6q21 | 82 (19%) | 359 |
0.0454 (0.527) |
0.788 (1.00) |
0.292 (0.824) |
0.163 (0.769) |
0.362 (0.851) |
0.23 (0.812) |
0.308 (0.834) |
0.872 (1.00) |
0.0435 (0.52) |
0.299 (0.833) |
0.107 (0.682) |
0.12 (0.71) |
1 (1.00) |
amp 7p22 1 | 229 (52%) | 212 |
0.885 (1.00) |
0.189 (0.79) |
0.903 (1.00) |
0.575 (0.947) |
0.389 (0.861) |
0.449 (0.896) |
0.0476 (0.532) |
0.308 (0.834) |
0.00575 (0.253) |
0.916 (1.00) |
0.204 (0.8) |
0.631 (0.955) |
1 (1.00) |
amp 7p11 2 | 214 (49%) | 227 |
0.312 (0.834) |
0.0396 (0.517) |
0.716 (0.985) |
0.344 (0.845) |
0.744 (0.994) |
0.191 (0.791) |
0.0918 (0.669) |
0.524 (0.937) |
0.0174 (0.389) |
0.857 (1.00) |
0.176 (0.775) |
0.173 (0.774) |
0.379 (0.853) |
amp 7q21 2 | 204 (46%) | 237 |
0.888 (1.00) |
0.181 (0.776) |
0.965 (1.00) |
0.782 (1.00) |
0.142 (0.747) |
0.345 (0.845) |
0.0288 (0.485) |
0.609 (0.947) |
0.0727 (0.655) |
0.288 (0.824) |
0.0937 (0.673) |
0.0892 (0.665) |
1 (1.00) |
amp 7q22 1 | 202 (46%) | 239 |
0.954 (1.00) |
0.198 (0.798) |
0.745 (0.994) |
0.807 (1.00) |
0.0204 (0.424) |
0.348 (0.845) |
0.0282 (0.482) |
0.702 (0.982) |
0.174 (0.774) |
0.0953 (0.675) |
0.273 (0.824) |
0.0727 (0.655) |
0.657 (0.968) |
amp 8p23 1 | 177 (40%) | 264 |
0.306 (0.834) |
0.0644 (0.632) |
0.491 (0.921) |
0.255 (0.815) |
0.905 (1.00) |
0.446 (0.896) |
0.0115 (0.358) |
1 (1.00) |
0.745 (0.994) |
0.342 (0.845) |
0.591 (0.947) |
0.934 (1.00) |
0.391 (0.862) |
amp 8q24 21 | 309 (70%) | 132 |
0.912 (1.00) |
0.0331 (0.515) |
0.637 (0.958) |
0.0204 (0.424) |
0.688 (0.972) |
0.837 (1.00) |
0.914 (1.00) |
0.583 (0.947) |
0.263 (0.816) |
0.361 (0.851) |
0.695 (0.976) |
0.042 (0.517) |
1 (1.00) |
amp 9p24 1 | 65 (15%) | 376 |
0.459 (0.907) |
0.979 (1.00) |
0.552 (0.944) |
0.217 (0.804) |
0.435 (0.893) |
1 (1.00) |
1 (1.00) |
0.214 (0.803) |
0.29 (0.824) |
0.686 (0.972) |
0.59 (0.947) |
0.286 (0.824) |
0.163 (0.769) |
amp 9p13 2 | 91 (21%) | 350 |
0.227 (0.812) |
0.848 (1.00) |
0.0235 (0.45) |
0.285 (0.824) |
0.736 (0.992) |
1 (1.00) |
0.462 (0.909) |
0.216 (0.803) |
0.0155 (0.383) |
0.611 (0.947) |
0.579 (0.947) |
1 (1.00) |
0.0514 (0.555) |
amp 9q34 3 | 122 (28%) | 319 |
0.0871 (0.664) |
0.81 (1.00) |
0.348 (0.845) |
0.723 (0.989) |
0.531 (0.939) |
0.833 (1.00) |
0.74 (0.993) |
0.089 (0.665) |
0.0937 (0.673) |
0.352 (0.847) |
0.435 (0.893) |
0.573 (0.947) |
0.118 (0.709) |
amp 10p11 22 | 119 (27%) | 322 |
0.698 (0.978) |
0.422 (0.887) |
0.223 (0.812) |
0.124 (0.71) |
0.865 (1.00) |
1 (1.00) |
0.823 (1.00) |
1 (1.00) |
0.158 (0.768) |
0.709 (0.983) |
0.557 (0.947) |
0.0154 (0.383) |
0.617 (0.947) |
amp 10q22 2 | 86 (20%) | 355 |
0.562 (0.947) |
0.316 (0.84) |
0.108 (0.682) |
0.74 (0.993) |
0.26 (0.816) |
0.233 (0.812) |
0.901 (1.00) |
0.265 (0.816) |
0.441 (0.896) |
0.413 (0.877) |
0.504 (0.927) |
0.248 (0.815) |
0.587 (0.947) |
amp 10q26 13 | 88 (20%) | 353 |
0.373 (0.851) |
0.687 (0.972) |
0.256 (0.815) |
0.381 (0.856) |
0.487 (0.918) |
0.234 (0.812) |
0.711 (0.985) |
0.526 (0.937) |
0.175 (0.774) |
0.811 (1.00) |
0.717 (0.985) |
0.244 (0.813) |
0.589 (0.947) |
amp 11p13 | 88 (20%) | 353 |
0.433 (0.893) |
0.847 (1.00) |
0.165 (0.769) |
0.0416 (0.517) |
0.301 (0.833) |
0.63 (0.955) |
0.214 (0.803) |
0.2 (0.798) |
0.5 (0.925) |
0.244 (0.813) |
0.0776 (0.657) |
0.324 (0.845) |
0.242 (0.813) |
amp 11p11 2 | 92 (21%) | 349 |
0.807 (1.00) |
0.907 (1.00) |
0.136 (0.735) |
0.605 (0.947) |
0.194 (0.798) |
1 (1.00) |
0.392 (0.863) |
0.0836 (0.657) |
0.208 (0.8) |
0.31 (0.834) |
0.153 (0.754) |
0.364 (0.851) |
0.235 (0.812) |
amp 11q13 3 | 115 (26%) | 326 |
0.849 (1.00) |
0.18 (0.776) |
0.668 (0.968) |
0.466 (0.911) |
0.0632 (0.632) |
0.283 (0.824) |
0.652 (0.968) |
0.244 (0.813) |
0.624 (0.95) |
0.73 (0.992) |
0.128 (0.717) |
0.148 (0.752) |
1 (1.00) |
amp 12p12 1 | 128 (29%) | 313 |
0.551 (0.944) |
0.833 (1.00) |
0.815 (1.00) |
0.0259 (0.462) |
0.327 (0.845) |
0.837 (1.00) |
1 (1.00) |
0.782 (1.00) |
0.252 (0.815) |
0.492 (0.921) |
0.466 (0.911) |
0.835 (1.00) |
0.643 (0.96) |
amp 12q15 | 109 (25%) | 332 |
0.351 (0.846) |
0.172 (0.774) |
0.942 (1.00) |
0.781 (1.00) |
0.283 (0.824) |
0.828 (1.00) |
0.565 (0.947) |
0.378 (0.852) |
0.207 (0.8) |
0.558 (0.947) |
0.981 (1.00) |
0.301 (0.833) |
0.603 (0.947) |
amp 13q12 3 | 170 (39%) | 271 |
0.372 (0.851) |
0.574 (0.947) |
0.794 (1.00) |
0.545 (0.942) |
0.784 (1.00) |
1 (1.00) |
0.359 (0.851) |
1 (1.00) |
0.218 (0.804) |
0.675 (0.969) |
0.242 (0.813) |
0.242 (0.813) |
1 (1.00) |
amp 13q22 1 | 181 (41%) | 260 |
0.309 (0.834) |
0.9 (1.00) |
0.767 (1.00) |
0.222 (0.812) |
0.435 (0.893) |
1 (1.00) |
0.0339 (0.517) |
1 (1.00) |
0.0137 (0.374) |
0.496 (0.923) |
0.411 (0.874) |
0.62 (0.948) |
1 (1.00) |
amp 14q21 3 | 54 (12%) | 387 |
0.369 (0.851) |
0.881 (1.00) |
0.159 (0.768) |
0.674 (0.968) |
0.668 (0.968) |
0.239 (0.813) |
0.88 (1.00) |
0.445 (0.896) |
0.0675 (0.644) |
0.0606 (0.614) |
0.301 (0.833) |
0.41 (0.873) |
0.103 (0.682) |
amp 15q26 1 | 113 (26%) | 328 |
0.767 (1.00) |
0.793 (1.00) |
0.124 (0.71) |
0.501 (0.927) |
0.0863 (0.663) |
0.384 (0.859) |
0.172 (0.774) |
0.04 (0.517) |
0.18 (0.776) |
0.245 (0.813) |
0.31 (0.834) |
0.152 (0.754) |
1 (1.00) |
amp 18q11 2 | 140 (32%) | 301 |
0.362 (0.851) |
0.253 (0.815) |
0.873 (1.00) |
0.468 (0.911) |
0.837 (1.00) |
0.542 (0.941) |
0.915 (1.00) |
0.681 (0.972) |
0.0169 (0.389) |
0.407 (0.873) |
0.447 (0.896) |
0.885 (1.00) |
0.336 (0.845) |
amp 19q12 | 130 (29%) | 311 |
0.64 (0.959) |
0.849 (1.00) |
0.803 (1.00) |
0.0832 (0.657) |
0.504 (0.927) |
1 (1.00) |
0.745 (0.994) |
0.124 (0.71) |
0.568 (0.947) |
0.729 (0.992) |
0.154 (0.756) |
0.0749 (0.657) |
1 (1.00) |
amp 19q13 32 | 111 (25%) | 330 |
0.854 (1.00) |
0.943 (1.00) |
0.46 (0.907) |
0.287 (0.824) |
0.123 (0.71) |
1 (1.00) |
0.568 (0.947) |
0.0779 (0.657) |
0.816 (1.00) |
0.439 (0.896) |
0.137 (0.735) |
0.234 (0.812) |
0.343 (0.845) |
amp xq27 3 | 83 (19%) | 358 |
0.216 (0.803) |
0.276 (0.824) |
0.377 (0.852) |
0.606 (0.947) |
0.51 (0.93) |
1 (1.00) |
0.899 (1.00) |
0.871 (1.00) |
0.0819 (0.657) |
0.877 (1.00) |
0.227 (0.812) |
0.69 (0.973) |
0.223 (0.812) |
del 1p13 2 | 93 (21%) | 348 |
0.351 (0.846) |
0.958 (1.00) |
0.937 (1.00) |
0.107 (0.682) |
0.199 (0.798) |
0.818 (1.00) |
0.224 (0.812) |
0.535 (0.94) |
0.00751 (0.307) |
0.0985 (0.675) |
0.493 (0.921) |
0.418 (0.88) |
0.587 (0.947) |
del 1q44 | 25 (6%) | 416 |
0.598 (0.947) |
0.665 (0.968) |
0.815 (1.00) |
0.684 (0.972) |
0.584 (0.947) |
0.686 (0.972) |
0.203 (0.8) |
0.78 (1.00) |
0.542 (0.941) |
0.387 (0.861) |
0.0985 (0.675) |
0.799 (1.00) |
1 (1.00) |
del 2q32 1 | 64 (15%) | 377 |
0.265 (0.816) |
0.759 (1.00) |
0.773 (1.00) |
0.933 (1.00) |
0.297 (0.83) |
0.599 (0.947) |
0.888 (1.00) |
0.857 (1.00) |
0.349 (0.845) |
0.798 (1.00) |
0.466 (0.911) |
0.796 (1.00) |
1 (1.00) |
del 2q33 3 | 49 (11%) | 392 |
0.557 (0.947) |
0.673 (0.968) |
0.764 (1.00) |
0.303 (0.833) |
0.425 (0.89) |
1 (1.00) |
0.639 (0.959) |
0.842 (1.00) |
0.0682 (0.645) |
0.0803 (0.657) |
0.398 (0.871) |
0.349 (0.845) |
1 (1.00) |
del 2q37 2 | 72 (16%) | 369 |
0.678 (0.97) |
0.657 (0.968) |
0.784 (1.00) |
0.923 (1.00) |
0.911 (1.00) |
0.2 (0.798) |
0.107 (0.682) |
0.736 (0.992) |
0.104 (0.682) |
0.047 (0.532) |
0.321 (0.844) |
0.967 (1.00) |
1 (1.00) |
del 3p26 1 | 143 (32%) | 298 |
0.578 (0.947) |
0.227 (0.812) |
0.892 (1.00) |
0.968 (1.00) |
0.0276 (0.479) |
0.417 (0.88) |
0.204 (0.8) |
0.785 (1.00) |
0.0433 (0.52) |
0.431 (0.893) |
0.436 (0.893) |
0.43 (0.893) |
1 (1.00) |
del 3p21 1 | 153 (35%) | 288 |
0.663 (0.968) |
0.812 (1.00) |
0.58 (0.947) |
0.669 (0.968) |
0.0831 (0.657) |
0.163 (0.769) |
1 (1.00) |
0.594 (0.947) |
0.261 (0.816) |
0.234 (0.812) |
0.584 (0.947) |
0.235 (0.812) |
0.664 (0.968) |
del 3p14 2 | 157 (36%) | 284 |
0.106 (0.682) |
0.372 (0.851) |
0.718 (0.985) |
0.862 (1.00) |
0.183 (0.783) |
0.236 (0.812) |
0.756 (1.00) |
0.288 (0.824) |
0.0355 (0.517) |
0.011 (0.358) |
0.793 (1.00) |
0.169 (0.774) |
1 (1.00) |
del 3q26 31 | 49 (11%) | 392 |
0.405 (0.873) |
0.335 (0.845) |
0.791 (1.00) |
0.277 (0.824) |
0.166 (0.769) |
0.23 (0.812) |
0.752 (0.998) |
0.837 (1.00) |
0.123 (0.71) |
0.376 (0.852) |
0.81 (1.00) |
0.749 (0.995) |
1 (1.00) |
del 4p16 3 | 169 (38%) | 272 |
0.99 (1.00) |
0.453 (0.9) |
0.58 (0.947) |
0.0352 (0.517) |
0.622 (0.949) |
0.083 (0.657) |
0.263 (0.816) |
0.604 (0.947) |
0.213 (0.803) |
0.459 (0.907) |
0.707 (0.983) |
0.572 (0.947) |
1 (1.00) |
del 4q22 1 | 193 (44%) | 248 |
0.292 (0.824) |
0.39 (0.862) |
0.563 (0.947) |
0.147 (0.752) |
0.469 (0.911) |
0.258 (0.816) |
0.549 (0.944) |
0.0719 (0.655) |
0.164 (0.769) |
0.367 (0.851) |
0.0349 (0.517) |
0.262 (0.816) |
1 (1.00) |
del 6p25 3 | 115 (26%) | 326 |
0.967 (1.00) |
0.15 (0.753) |
0.988 (1.00) |
0.54 (0.941) |
0.921 (1.00) |
0.131 (0.728) |
0.735 (0.992) |
0.389 (0.861) |
0.00819 (0.312) |
0.255 (0.815) |
0.485 (0.918) |
0.903 (1.00) |
1 (1.00) |
del 6q14 1 | 89 (20%) | 352 |
0.955 (1.00) |
0.32 (0.844) |
0.91 (1.00) |
0.181 (0.776) |
0.863 (1.00) |
0.48 (0.913) |
0.173 (0.774) |
0.08 (0.657) |
0.684 (0.972) |
0.486 (0.918) |
0.446 (0.896) |
0.494 (0.922) |
1 (1.00) |
del 6q24 3 | 78 (18%) | 363 |
0.14 (0.741) |
0.372 (0.851) |
0.765 (1.00) |
0.0526 (0.557) |
0.709 (0.983) |
0.0419 (0.517) |
0.0902 (0.665) |
0.736 (0.992) |
0.0724 (0.655) |
0.964 (1.00) |
0.11 (0.683) |
0.0839 (0.657) |
1 (1.00) |
del 6q26 | 102 (23%) | 339 |
0.21 (0.801) |
0.449 (0.896) |
0.327 (0.845) |
0.0473 (0.532) |
0.271 (0.821) |
0.652 (0.968) |
0.346 (0.845) |
0.88 (1.00) |
0.0311 (0.501) |
0.374 (0.851) |
0.0112 (0.358) |
0.671 (0.968) |
1 (1.00) |
del 7q31 1 | 71 (16%) | 370 |
0.836 (1.00) |
0.158 (0.768) |
0.0727 (0.655) |
0.103 (0.682) |
0.0379 (0.517) |
0.199 (0.798) |
0.104 (0.682) |
0.863 (1.00) |
0.294 (0.824) |
0.407 (0.873) |
0.337 (0.845) |
0.088 (0.665) |
1 (1.00) |
del 7q36 3 | 98 (22%) | 343 |
0.799 (1.00) |
0.98 (1.00) |
0.0437 (0.52) |
0.374 (0.851) |
0.0635 (0.632) |
0.824 (1.00) |
0.635 (0.957) |
0.289 (0.824) |
0.406 (0.873) |
0.231 (0.812) |
0.0117 (0.358) |
0.93 (1.00) |
1 (1.00) |
del 9p23 | 195 (44%) | 246 |
0.472 (0.911) |
0.0827 (0.657) |
0.542 (0.941) |
0.288 (0.824) |
0.335 (0.845) |
0.447 (0.896) |
0.617 (0.947) |
0.611 (0.947) |
0.0782 (0.657) |
0.747 (0.995) |
0.0297 (0.485) |
0.349 (0.845) |
1 (1.00) |
del 9p21 3 | 193 (44%) | 248 |
0.798 (1.00) |
0.0395 (0.517) |
0.677 (0.97) |
0.253 (0.815) |
0.558 (0.947) |
0.452 (0.9) |
0.69 (0.973) |
0.371 (0.851) |
0.0126 (0.361) |
0.256 (0.815) |
0.401 (0.871) |
0.345 (0.845) |
1 (1.00) |
del 9q21 11 | 113 (26%) | 328 |
0.178 (0.776) |
0.655 (0.968) |
0.612 (0.947) |
0.441 (0.896) |
0.842 (1.00) |
0.286 (0.824) |
0.363 (0.851) |
0.885 (1.00) |
0.233 (0.812) |
0.846 (1.00) |
0.251 (0.815) |
0.201 (0.798) |
1 (1.00) |
del 10q22 3 | 79 (18%) | 362 |
0.11 (0.683) |
0.00812 (0.312) |
0.945 (1.00) |
0.237 (0.812) |
0.368 (0.851) |
0.804 (1.00) |
0.606 (0.947) |
0.869 (1.00) |
0.0333 (0.515) |
0.883 (1.00) |
0.0119 (0.358) |
0.162 (0.769) |
0.198 (0.798) |
del 11p15 5 | 97 (22%) | 344 |
0.608 (0.947) |
0.106 (0.682) |
0.385 (0.86) |
0.0172 (0.389) |
0.58 (0.947) |
0.823 (1.00) |
0.403 (0.872) |
0.125 (0.71) |
0.021 (0.429) |
0.224 (0.812) |
0.111 (0.684) |
0.578 (0.947) |
1 (1.00) |
del 11q23 2 | 99 (22%) | 342 |
0.119 (0.709) |
0.374 (0.851) |
0.642 (0.96) |
0.666 (0.968) |
0.302 (0.833) |
0.247 (0.815) |
0.475 (0.911) |
0.647 (0.964) |
0.471 (0.911) |
0.286 (0.824) |
0.381 (0.856) |
1 (1.00) |
0.293 (0.824) |
del 12q12 | 59 (13%) | 382 |
0.349 (0.845) |
0.616 (0.947) |
0.976 (1.00) |
0.689 (0.972) |
0.932 (1.00) |
0.782 (1.00) |
0.563 (0.947) |
0.146 (0.752) |
0.556 (0.947) |
0.871 (1.00) |
0.52 (0.937) |
0.818 (1.00) |
0.479 (0.913) |
del 13q12 11 | 63 (14%) | 378 |
0.17 (0.774) |
0.268 (0.818) |
0.964 (1.00) |
0.179 (0.776) |
0.643 (0.96) |
0.784 (1.00) |
0.0157 (0.383) |
0.859 (1.00) |
0.77 (1.00) |
0.656 (0.968) |
0.548 (0.944) |
0.964 (1.00) |
0.532 (0.939) |
del 14q23 3 | 136 (31%) | 305 |
0.684 (0.972) |
0.938 (1.00) |
0.252 (0.815) |
0.568 (0.947) |
0.108 (0.682) |
0.04 (0.517) |
0.334 (0.845) |
0.584 (0.947) |
0.0251 (0.462) |
0.119 (0.709) |
0.812 (1.00) |
0.857 (1.00) |
1 (1.00) |
del 15q11 2 | 120 (27%) | 321 |
0.371 (0.851) |
0.215 (0.803) |
0.523 (0.937) |
0.079 (0.657) |
0.739 (0.993) |
0.831 (1.00) |
0.911 (1.00) |
0.0214 (0.429) |
0.0648 (0.632) |
0.344 (0.845) |
0.835 (1.00) |
0.61 (0.947) |
0.33 (0.845) |
del 16p13 3 | 98 (22%) | 343 |
0.949 (1.00) |
0.134 (0.734) |
0.0971 (0.675) |
0.208 (0.8) |
0.477 (0.912) |
0.261 (0.816) |
0.235 (0.812) |
0.294 (0.824) |
0.0443 (0.522) |
0.801 (1.00) |
0.853 (1.00) |
0.00912 (0.337) |
0.589 (0.947) |
del 20p12 1 | 39 (9%) | 402 |
0.342 (0.845) |
0.828 (1.00) |
0.672 (0.968) |
0.781 (1.00) |
0.925 (1.00) |
0.734 (0.992) |
0.488 (0.918) |
0.0146 (0.383) |
0.497 (0.923) |
0.633 (0.957) |
0.66 (0.968) |
0.778 (1.00) |
1 (1.00) |
del 21q11 2 | 182 (41%) | 259 |
0.714 (0.985) |
0.0117 (0.358) |
0.925 (1.00) |
0.455 (0.901) |
0.287 (0.824) |
0.443 (0.896) |
0.364 (0.851) |
0.198 (0.798) |
0.0575 (0.598) |
0.293 (0.824) |
0.782 (1.00) |
0.547 (0.944) |
1 (1.00) |
del 21q22 13 | 196 (44%) | 245 |
0.354 (0.849) |
0.139 (0.741) |
0.809 (1.00) |
0.617 (0.947) |
0.671 (0.968) |
0.447 (0.896) |
0.92 (1.00) |
0.308 (0.834) |
0.0507 (0.552) |
0.531 (0.939) |
0.503 (0.927) |
0.536 (0.94) |
1 (1.00) |
del 22q13 31 | 161 (37%) | 280 |
0.4 (0.871) |
0.624 (0.95) |
0.341 (0.845) |
0.511 (0.93) |
0.146 (0.752) |
0.121 (0.71) |
0.258 (0.816) |
0.238 (0.813) |
0.0365 (0.517) |
0.597 (0.947) |
0.0258 (0.462) |
0.542 (0.941) |
1 (1.00) |
del xp22 2 | 85 (19%) | 356 |
0.725 (0.989) |
0.698 (0.978) |
0.136 (0.735) |
0.774 (1.00) |
0.571 (0.947) |
1 (1.00) |
0.208 (0.8) |
0.874 (1.00) |
0.202 (0.798) |
0.61 (0.947) |
0.42 (0.884) |
0.369 (0.851) |
0.267 (0.818) |
del xp21 1 | 76 (17%) | 365 |
0.761 (1.00) |
0.604 (0.947) |
0.531 (0.939) |
0.922 (1.00) |
0.724 (0.989) |
0.802 (1.00) |
0.295 (0.824) |
0.62 (0.948) |
0.339 (0.845) |
0.361 (0.851) |
0.265 (0.816) |
0.495 (0.923) |
0.186 (0.785) |
del xq21 33 | 57 (13%) | 384 |
0.431 (0.893) |
0.864 (1.00) |
0.595 (0.947) |
0.859 (1.00) |
0.81 (1.00) |
0.783 (1.00) |
0.236 (0.812) |
0.0604 (0.614) |
0.841 (1.00) |
0.428 (0.892) |
0.949 (1.00) |
1 (1.00) |
0.47 (0.911) |
P value = 0.00323 (Fisher's exact test), Q value = 0.21
nPatients | FEMALE | MALE |
---|---|---|
ALL | 158 | 283 |
AMP PEAK 1(1P36.22) MUTATED | 13 | 53 |
AMP PEAK 1(1P36.22) WILD-TYPE | 145 | 230 |
P value = 0.00178 (Fisher's exact test), Q value = 0.16
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
AMP PEAK 3(1Q42.3) MUTATED | 5 | 12 | 52 | 7 | 29 | 3 | 40 |
AMP PEAK 3(1Q42.3) WILD-TYPE | 8 | 60 | 111 | 14 | 53 | 5 | 39 |
P value = 0.00405 (Fisher's exact test), Q value = 0.23
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 23 | 93 | 196 | 119 |
AMP PEAK 5(5P15.33) MUTATED | 2 | 30 | 70 | 25 |
AMP PEAK 5(5P15.33) WILD-TYPE | 21 | 63 | 126 | 94 |
P value = 5e-05 (Fisher's exact test), Q value = 0.014
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
AMP PEAK 7(6P21.1) MUTATED | 2 | 5 | 52 | 3 | 30 | 2 | 30 |
AMP PEAK 7(6P21.1) WILD-TYPE | 11 | 67 | 111 | 18 | 52 | 6 | 49 |
P value = 0.00042 (Fisher's exact test), Q value = 0.06
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
AMP PEAK 8(6Q12) MUTATED | 2 | 4 | 38 | 1 | 27 | 1 | 15 |
AMP PEAK 8(6Q12) WILD-TYPE | 11 | 68 | 125 | 20 | 55 | 7 | 64 |
P value = 2e-05 (Fisher's exact test), Q value = 0.0076
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
AMP PEAK 31(17Q12) MUTATED | 6 | 9 | 47 | 6 | 35 | 4 | 38 |
AMP PEAK 31(17Q12) WILD-TYPE | 7 | 63 | 116 | 15 | 47 | 4 | 41 |
P value = 0.00011 (Fisher's exact test), Q value = 0.02
nPatients | R0 | R1 | R2 | RX |
---|---|---|---|---|
ALL | 349 | 18 | 19 | 25 |
AMP PEAK 31(17Q12) MUTATED | 121 | 1 | 12 | 3 |
AMP PEAK 31(17Q12) WILD-TYPE | 228 | 17 | 7 | 22 |
P value = 1e-05 (Fisher's exact test), Q value = 0.0057
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
AMP PEAK 35(20Q13.2) MUTATED | 9 | 32 | 101 | 13 | 64 | 6 | 65 |
AMP PEAK 35(20Q13.2) WILD-TYPE | 4 | 40 | 62 | 8 | 18 | 2 | 14 |
P value = 0.0021 (Fisher's exact test), Q value = 0.16
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 1(1P36.11) MUTATED | 5 | 12 | 41 | 7 | 31 | 2 | 36 |
DEL PEAK 1(1P36.11) WILD-TYPE | 8 | 60 | 122 | 14 | 51 | 6 | 43 |
P value = 0.00507 (Fisher's exact test), Q value = 0.24
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 13(4Q35.1) MUTATED | 7 | 21 | 69 | 9 | 49 | 4 | 43 |
DEL PEAK 13(4Q35.1) WILD-TYPE | 6 | 51 | 94 | 12 | 33 | 4 | 36 |
P value = 9e-05 (Fisher's exact test), Q value = 0.02
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 14(5Q12.1) MUTATED | 4 | 12 | 61 | 10 | 33 | 4 | 45 |
DEL PEAK 14(5Q12.1) WILD-TYPE | 9 | 60 | 102 | 11 | 49 | 4 | 34 |
P value = 1e-05 (Fisher's exact test), Q value = 0.0057
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 15(5Q23.2) MUTATED | 4 | 9 | 56 | 7 | 32 | 3 | 46 |
DEL PEAK 15(5Q23.2) WILD-TYPE | 9 | 63 | 107 | 14 | 50 | 5 | 33 |
P value = 0.00254 (Wilcoxon-test), Q value = 0.18
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 391 | 5.6 (8.4) |
DEL PEAK 22(8P23.2) MUTATED | 107 | 7.6 (10.4) |
DEL PEAK 22(8P23.2) WILD-TYPE | 284 | 4.9 (7.4) |
P value = 0.00507 (Wilcoxon-test), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 391 | 5.6 (8.4) |
DEL PEAK 26(10P15.3) MUTATED | 66 | 7.3 (9.2) |
DEL PEAK 26(10P15.3) WILD-TYPE | 325 | 5.3 (8.2) |
P value = 0.00526 (Wilcoxon-test), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 432 | 65.8 (10.8) |
DEL PEAK 28(10Q23.31) MUTATED | 115 | 68.1 (9.9) |
DEL PEAK 28(10Q23.31) WILD-TYPE | 317 | 64.9 (10.9) |
P value = 0.00084 (Fisher's exact test), Q value = 0.087
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 31(12P13.1) MUTATED | 2 | 4 | 32 | 0 | 15 | 4 | 20 |
DEL PEAK 31(12P13.1) WILD-TYPE | 11 | 68 | 131 | 21 | 67 | 4 | 59 |
P value = 0.00309 (Fisher's exact test), Q value = 0.21
nPatients | 0 | 1 |
---|---|---|
ALL | 389 | 30 |
DEL PEAK 35(14Q32.32) MUTATED | 121 | 2 |
DEL PEAK 35(14Q32.32) WILD-TYPE | 268 | 28 |
P value = 0.00144 (Fisher's exact test), Q value = 0.14
nPatients | NO | YES |
---|---|---|
ALL | 322 | 76 |
DEL PEAK 37(15Q15.1) MUTATED | 75 | 32 |
DEL PEAK 37(15Q15.1) WILD-TYPE | 247 | 44 |
P value = 0.00358 (Fisher's exact test), Q value = 0.22
nPatients | 0 | 1 |
---|---|---|
ALL | 389 | 30 |
DEL PEAK 39(16Q23.1) MUTATED | 170 | 5 |
DEL PEAK 39(16Q23.1) WILD-TYPE | 219 | 25 |
P value = 0.00047 (Fisher's exact test), Q value = 0.06
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 40(17P12) MUTATED | 8 | 16 | 59 | 9 | 42 | 4 | 42 |
DEL PEAK 40(17P12) WILD-TYPE | 5 | 56 | 104 | 12 | 40 | 4 | 37 |
P value = 0.00499 (Wilcoxon-test), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 391 | 5.6 (8.4) |
DEL PEAK 41(17Q24.3) MUTATED | 63 | 9.7 (13.3) |
DEL PEAK 41(17Q24.3) WILD-TYPE | 328 | 4.9 (6.9) |
P value = 0.00012 (Fisher's exact test), Q value = 0.02
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 23 | 93 | 196 | 119 |
DEL PEAK 42(18Q12.2) MUTATED | 6 | 38 | 101 | 33 |
DEL PEAK 42(18Q12.2) WILD-TYPE | 17 | 55 | 95 | 86 |
P value = 0.00197 (Fisher's exact test), Q value = 0.16
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 23 | 93 | 196 | 119 |
DEL PEAK 43(18Q21.2) MUTATED | 7 | 43 | 109 | 42 |
DEL PEAK 43(18Q21.2) WILD-TYPE | 16 | 50 | 87 | 77 |
P value = 0.00451 (Fisher's exact test), Q value = 0.24
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 44(19P13.3) MUTATED | 4 | 16 | 56 | 5 | 41 | 5 | 34 |
DEL PEAK 44(19P13.3) WILD-TYPE | 9 | 56 | 107 | 16 | 41 | 3 | 45 |
P value = 0.00063 (Fisher's exact test), Q value = 0.072
nPatients | STOMACH ADENOCARCINOMA, SIGNET RING TYPE | STOMACH, ADENOCARCINOMA, DIFFUSE TYPE | STOMACH, ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, MUCINOUS TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, NOT OTHERWISE SPECIFIED (NOS) | STOMACH, INTESTINAL ADENOCARCINOMA, PAPILLARY TYPE | STOMACH, INTESTINAL ADENOCARCINOMA, TUBULAR TYPE |
---|---|---|---|---|---|---|---|
ALL | 13 | 72 | 163 | 21 | 82 | 8 | 79 |
DEL PEAK 45(19Q13.11) MUTATED | 1 | 5 | 23 | 1 | 17 | 2 | 26 |
DEL PEAK 45(19Q13.11) WILD-TYPE | 12 | 67 | 140 | 20 | 65 | 6 | 53 |
-
Copy number data file = all_lesions.txt from GISTIC pipeline
-
Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/STAD-TP/22533932/transformed.cor.cli.txt
-
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/STAD-TP/22507291/STAD-TP.merged_data.txt
-
Number of patients = 441
-
Number of significantly focal cnvs = 88
-
Number of selected clinical features = 13
-
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.