This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between copy number variation 49 focal events and 8 clinical features across 512 patients, 136 significant findings detected with Q value < 0.25.
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amp_1q22 cnv correlated to 'YEARS_TO_BIRTH'.
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amp_1q32.1 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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amp_2p24.3 cnv correlated to 'Time to Death'.
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amp_3q26.33 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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amp_4q12 cnv correlated to 'Time to Death', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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amp_7p11.2 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', 'HISTOLOGICAL_TYPE', and 'RACE'.
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amp_7q31.2 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'GENDER', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', 'HISTOLOGICAL_TYPE', and 'RACE'.
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amp_7q32.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'GENDER', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', 'HISTOLOGICAL_TYPE', and 'RACE'.
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amp_8q24.13 cnv correlated to 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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amp_9q34.3 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.
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amp_10p15.3 cnv correlated to 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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amp_12p13.32 cnv correlated to 'YEARS_TO_BIRTH' and 'RADIATION_THERAPY'.
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amp_12q14.1 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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amp_13q34 cnv correlated to 'KARNOFSKY_PERFORMANCE_SCORE'.
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amp_15q26.3 cnv correlated to 'Time to Death'.
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amp_17q25.1 cnv correlated to 'Time to Death' and 'YEARS_TO_BIRTH'.
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amp_19p13.3 cnv correlated to 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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amp_xp11.22 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.
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amp_xp11.22 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.
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del_1p36.32 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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del_1p32.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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del_2q37.3 cnv correlated to 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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del_3p21.31 cnv correlated to 'RADIATION_THERAPY' and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_3q13.31 cnv correlated to 'Time to Death' and 'RADIATION_THERAPY'.
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del_3q29 cnv correlated to 'Time to Death' and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_5p15.33 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.
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del_5q34 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.
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del_6p25.3 cnv correlated to 'Time to Death' and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_6q22.31 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_6q26 cnv correlated to 'Time to Death', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_9p23 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_9p21.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_10q26.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'GENDER', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_11p15.5 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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del_11p15.1 cnv correlated to 'Time to Death', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_12p13.1 cnv correlated to 'Time to Death'.
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del_12q12 cnv correlated to 'RADIATION_THERAPY', 'HISTOLOGICAL_TYPE', and 'ETHNICITY'.
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del_13q14.2 cnv correlated to 'Time to Death', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
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del_13q34 cnv correlated to 'Time to Death' and 'RADIATION_THERAPY'.
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del_14q24.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', and 'GENDER'.
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del_18q23 cnv correlated to 'YEARS_TO_BIRTH'.
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del_19q13.42 cnv correlated to 'Time to Death', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
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del_22q13.31 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'RADIATION_THERAPY', 'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.
Clinical Features |
Time to Death |
YEARS TO BIRTH |
GENDER |
RADIATION THERAPY |
KARNOFSKY PERFORMANCE SCORE |
HISTOLOGICAL TYPE |
RACE | ETHNICITY | ||
nCNV (%) | nWild-Type | logrank test | Wilcoxon-test | Fisher's exact test | Fisher's exact test | Wilcoxon-test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
amp 7q31 2 | 173 (34%) | 339 |
0.000167 (0.00154) |
3.04e-08 (1.7e-06) |
0.0482 (0.158) |
0.00262 (0.0151) |
0.0253 (0.0912) |
0.0655 (0.202) |
0.00926 (0.0454) |
0.448 (0.697) |
amp 7q32 3 | 181 (35%) | 331 |
8.34e-05 (0.000934) |
5.13e-09 (3.35e-07) |
0.0255 (0.0912) |
0.00152 (0.00944) |
0.036 (0.124) |
0.0707 (0.215) |
0.0176 (0.072) |
0.347 (0.589) |
amp 7p11 2 | 127 (25%) | 385 |
1.81e-10 (1.78e-08) |
3.25e-12 (4.25e-10) |
0.303 (0.533) |
0.000922 (0.00634) |
0.000391 (0.0032) |
0.0793 (0.232) |
0.0288 (0.102) |
1 (1.00) |
del 10q26 3 | 151 (29%) | 361 |
9.55e-15 (3.74e-12) |
6.91e-08 (3.39e-06) |
0.0641 (0.2) |
4.92e-06 (0.000114) |
0.0151 (0.0656) |
2e-05 (0.00027) |
0.238 (0.469) |
0.845 (0.928) |
del 6q22 31 | 77 (15%) | 435 |
1.34e-05 (0.000195) |
0.0803 (0.233) |
0.385 (0.634) |
0.00487 (0.0264) |
0.00186 (0.0112) |
0.0001 (0.00106) |
0.123 (0.318) |
1 (1.00) |
del 9p23 | 149 (29%) | 363 |
1.4e-06 (3.92e-05) |
0.000504 (0.00387) |
0.494 (0.72) |
7.03e-05 (0.000836) |
8.72e-05 (0.00095) |
0.00772 (0.0388) |
0.68 (0.857) |
1 (1.00) |
del 9p21 3 | 175 (34%) | 337 |
5.83e-13 (1.14e-10) |
9.28e-08 (3.64e-06) |
0.191 (0.413) |
8.48e-07 (2.77e-05) |
1.07e-05 (0.000161) |
0.0015 (0.00944) |
0.489 (0.715) |
0.565 (0.772) |
del 22q13 31 | 77 (15%) | 435 |
3.86e-06 (9.46e-05) |
0.000444 (0.00355) |
0.62 (0.805) |
0.0111 (0.051) |
0.0516 (0.166) |
0.00107 (0.00699) |
0.157 (0.363) |
0.603 (0.796) |
amp 1q32 1 | 43 (8%) | 469 |
0.00095 (0.00642) |
8.98e-08 (3.64e-06) |
1 (1.00) |
0.0644 (0.2) |
0.0135 (0.0601) |
0.154 (0.36) |
0.151 (0.36) |
0.0964 (0.268) |
amp 3q26 33 | 21 (4%) | 491 |
1.57e-06 (4.1e-05) |
0.043 (0.143) |
0.825 (0.925) |
0.461 (0.697) |
0.0398 (0.134) |
0.00107 (0.00699) |
0.129 (0.322) |
0.629 (0.809) |
amp 12q14 1 | 37 (7%) | 475 |
1.88e-09 (1.47e-07) |
0.00148 (0.00944) |
0.865 (0.942) |
0.0195 (0.0769) |
0.146 (0.353) |
0.0222 (0.0852) |
0.272 (0.509) |
0.498 (0.722) |
del 1p36 32 | 206 (40%) | 306 |
0.0256 (0.0912) |
8.3e-07 (2.77e-05) |
0.587 (0.79) |
2.38e-05 (0.000311) |
0.479 (0.711) |
1e-05 (0.000157) |
0.283 (0.52) |
1 (1.00) |
del 1p32 3 | 196 (38%) | 316 |
0.00342 (0.0194) |
5.46e-06 (0.000119) |
0.784 (0.901) |
1.13e-06 (3.4e-05) |
0.231 (0.465) |
1e-05 (0.000157) |
0.398 (0.65) |
0.852 (0.933) |
del 6q26 | 81 (16%) | 431 |
0.000379 (0.00316) |
0.106 (0.285) |
0.273 (0.509) |
0.0123 (0.0553) |
0.00944 (0.0457) |
8e-05 (0.000922) |
0.144 (0.35) |
1 (1.00) |
del 11p15 5 | 104 (20%) | 408 |
0.0566 (0.18) |
0.014 (0.0618) |
0.0979 (0.27) |
0.0035 (0.0196) |
0.143 (0.35) |
1e-05 (0.000157) |
0.457 (0.697) |
0.822 (0.925) |
del 11p15 1 | 72 (14%) | 440 |
0.0103 (0.0483) |
0.236 (0.469) |
0.0959 (0.268) |
0.00688 (0.0351) |
0.0509 (0.165) |
0.00016 (0.00154) |
0.72 (0.872) |
1 (1.00) |
del 13q14 2 | 144 (28%) | 368 |
0.0187 (0.0748) |
0.933 (0.992) |
0.237 (0.469) |
0.000169 (0.00154) |
0.00555 (0.0288) |
0.082 (0.236) |
0.114 (0.299) |
0.426 (0.685) |
amp 4q12 | 30 (6%) | 482 |
0.000488 (0.00382) |
0.197 (0.418) |
0.706 (0.871) |
0.0172 (0.0711) |
0.147 (0.353) |
0.00078 (0.00566) |
1 (1.00) |
0.711 (0.871) |
amp 8q24 13 | 99 (19%) | 413 |
0.36 (0.6) |
0.0157 (0.0667) |
0.262 (0.502) |
0.00918 (0.0454) |
0.936 (0.992) |
0.00558 (0.0288) |
0.625 (0.805) |
0.242 (0.47) |
amp 10p15 3 | 71 (14%) | 441 |
0.516 (0.736) |
0.000195 (0.00174) |
0.159 (0.364) |
0.0784 (0.232) |
0.273 (0.509) |
1e-05 (0.000157) |
0.839 (0.928) |
0.174 (0.393) |
amp 19p13 3 | 129 (25%) | 383 |
0.46 (0.697) |
0.0347 (0.12) |
0.539 (0.752) |
0.00514 (0.0272) |
0.537 (0.752) |
1e-05 (0.000157) |
0.723 (0.872) |
0.294 (0.524) |
del 2q37 3 | 77 (15%) | 435 |
0.508 (0.73) |
0.0779 (0.232) |
0.456 (0.697) |
0.0169 (0.0706) |
0.355 (0.597) |
0.0104 (0.0483) |
0.734 (0.874) |
0.322 (0.56) |
del 12q12 | 72 (14%) | 440 |
0.808 (0.916) |
0.522 (0.739) |
0.898 (0.962) |
0.0152 (0.0656) |
0.65 (0.828) |
5e-05 (0.000612) |
0.464 (0.697) |
0.0679 (0.208) |
del 14q24 3 | 122 (24%) | 390 |
0.000126 (0.00127) |
0.0216 (0.0838) |
0.0765 (0.231) |
0.152 (0.36) |
0.27 (0.509) |
0.347 (0.589) |
0.187 (0.413) |
1 (1.00) |
del 19q13 42 | 278 (54%) | 234 |
0.000321 (0.00273) |
0.257 (0.496) |
0.722 (0.872) |
0.000664 (0.00491) |
0.568 (0.772) |
1e-05 (0.000157) |
0.387 (0.635) |
1 (1.00) |
amp 9q34 3 | 46 (9%) | 466 |
0.844 (0.928) |
0.71 (0.871) |
0.0899 (0.256) |
0.00492 (0.0264) |
0.506 (0.73) |
0.0235 (0.087) |
0.0992 (0.272) |
0.193 (0.413) |
amp 12p13 32 | 72 (14%) | 440 |
0.202 (0.423) |
0.0366 (0.125) |
0.127 (0.321) |
0.0232 (0.0867) |
0.559 (0.769) |
0.125 (0.32) |
0.842 (0.928) |
0.6 (0.796) |
amp 17q25 1 | 43 (8%) | 469 |
0.0402 (0.135) |
0.0334 (0.117) |
0.525 (0.74) |
0.743 (0.88) |
0.199 (0.418) |
0.303 (0.533) |
0.153 (0.36) |
0.318 (0.557) |
amp xp11 22 | 48 (9%) | 464 |
0.126 (0.321) |
0.887 (0.958) |
0.761 (0.883) |
0.000651 (0.00491) |
0.624 (0.805) |
0.00249 (0.0146) |
0.281 (0.519) |
0.193 (0.413) |
amp xp11 22 | 63 (12%) | 449 |
0.205 (0.426) |
0.719 (0.872) |
0.343 (0.588) |
0.000878 (0.00615) |
0.451 (0.697) |
3e-05 (0.000379) |
0.676 (0.855) |
0.569 (0.772) |
del 3p21 31 | 49 (10%) | 463 |
0.193 (0.413) |
0.84 (0.928) |
0.764 (0.883) |
0.00418 (0.0231) |
0.0231 (0.0867) |
0.557 (0.769) |
0.787 (0.902) |
0.218 (0.448) |
del 3q13 31 | 39 (8%) | 473 |
0.0183 (0.0738) |
0.839 (0.928) |
0.738 (0.877) |
0.0786 (0.232) |
0.186 (0.413) |
0.547 (0.758) |
0.602 (0.796) |
1 (1.00) |
del 3q29 | 47 (9%) | 465 |
0.0229 (0.0867) |
0.972 (1.00) |
0.878 (0.953) |
0.107 (0.288) |
0.0633 (0.2) |
0.0901 (0.256) |
0.487 (0.715) |
0.516 (0.736) |
del 5p15 33 | 50 (10%) | 462 |
0.423 (0.682) |
0.373 (0.617) |
0.766 (0.883) |
0.000104 (0.00108) |
0.128 (0.322) |
0.00227 (0.0135) |
0.79 (0.902) |
0.759 (0.883) |
del 5q34 | 64 (12%) | 448 |
0.24 (0.469) |
0.595 (0.794) |
0.689 (0.861) |
0.000878 (0.00615) |
0.756 (0.883) |
1e-05 (0.000157) |
0.26 (0.5) |
0.407 (0.659) |
del 6p25 3 | 50 (10%) | 462 |
0.000318 (0.00273) |
0.373 (0.617) |
1 (1.00) |
0.187 (0.413) |
0.0168 (0.0706) |
0.327 (0.567) |
0.173 (0.393) |
0.228 (0.463) |
del 13q34 | 110 (21%) | 402 |
0.0096 (0.0459) |
0.482 (0.711) |
0.449 (0.697) |
0.0123 (0.0553) |
0.193 (0.413) |
0.898 (0.962) |
0.278 (0.517) |
0.826 (0.925) |
amp 1q22 | 42 (8%) | 470 |
0.23 (0.465) |
0.000163 (0.00154) |
1 (1.00) |
0.242 (0.47) |
0.443 (0.697) |
0.223 (0.455) |
0.21 (0.433) |
0.0963 (0.268) |
amp 2p24 3 | 24 (5%) | 488 |
0.0249 (0.0911) |
0.803 (0.913) |
1 (1.00) |
0.655 (0.831) |
0.616 (0.805) |
0.203 (0.424) |
0.749 (0.883) |
0.159 (0.364) |
amp 13q34 | 22 (4%) | 490 |
0.572 (0.773) |
0.765 (0.883) |
0.828 (0.925) |
1 (1.00) |
0.0442 (0.145) |
0.62 (0.805) |
0.732 (0.874) |
0.644 (0.822) |
amp 15q26 3 | 19 (4%) | 493 |
1.57e-05 (0.000219) |
0.953 (1.00) |
0.818 (0.924) |
0.34 (0.587) |
0.189 (0.413) |
0.109 (0.29) |
0.695 (0.862) |
0.343 (0.588) |
del 12p13 1 | 38 (7%) | 474 |
0.00177 (0.0108) |
0.349 (0.59) |
1 (1.00) |
0.859 (0.938) |
0.569 (0.772) |
0.113 (0.298) |
1 (1.00) |
0.155 (0.361) |
del 18q23 | 78 (15%) | 434 |
0.798 (0.91) |
0.0196 (0.0769) |
0.267 (0.507) |
0.695 (0.862) |
0.884 (0.957) |
0.238 (0.469) |
0.195 (0.415) |
0.445 (0.697) |
amp 11q24 1 | 87 (17%) | 425 |
0.437 (0.697) |
0.527 (0.74) |
0.478 (0.711) |
0.903 (0.964) |
0.719 (0.872) |
0.507 (0.73) |
0.617 (0.805) |
1 (1.00) |
del 1q43 | 35 (7%) | 477 |
0.699 (0.865) |
0.689 (0.861) |
0.29 (0.524) |
0.359 (0.6) |
0.927 (0.987) |
0.462 (0.697) |
0.46 (0.697) |
1 (1.00) |
del 4q34 3 | 137 (27%) | 375 |
0.615 (0.805) |
0.131 (0.322) |
0.482 (0.711) |
0.457 (0.697) |
0.728 (0.872) |
0.726 (0.872) |
0.688 (0.861) |
0.543 (0.755) |
del 7p22 3 | 23 (4%) | 489 |
0.11 (0.29) |
0.75 (0.883) |
0.522 (0.739) |
0.177 (0.399) |
0.595 (0.794) |
0.893 (0.961) |
0.293 (0.524) |
0.644 (0.822) |
del 8q24 3 | 29 (6%) | 483 |
0.29 (0.524) |
0.438 (0.697) |
0.447 (0.697) |
0.3 (0.532) |
0.291 (0.524) |
0.286 (0.523) |
0.291 (0.524) |
0.405 (0.659) |
del xq21 1 | 78 (15%) | 434 |
0.13 (0.322) |
0.1 (0.273) |
0.459 (0.697) |
0.119 (0.309) |
0.755 (0.883) |
0.59 (0.792) |
0.469 (0.702) |
1 (1.00) |
P value = 0.000163 (Wilcoxon-test), Q value = 0.0015
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 1(1Q22) MUTATED | 42 | 50.4 (12.8) |
AMP PEAK 1(1Q22) WILD-TYPE | 469 | 42.3 (13.2) |
P value = 0.00095 (logrank test), Q value = 0.0064
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 2(1Q32.1) MUTATED | 43 | 21 | 0.2 - 211.2 (19.9) |
AMP PEAK 2(1Q32.1) WILD-TYPE | 465 | 104 | 0.0 - 182.3 (23.2) |
P value = 8.98e-08 (Wilcoxon-test), Q value = 3.6e-06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 2(1Q32.1) MUTATED | 43 | 53.7 (11.9) |
AMP PEAK 2(1Q32.1) WILD-TYPE | 468 | 42.0 (13.0) |
P value = 0.0644 (Fisher's exact test), Q value = 0.2
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 2(1Q32.1) MUTATED | 10 | 31 |
AMP PEAK 2(1Q32.1) WILD-TYPE | 174 | 264 |
P value = 0.0135 (Wilcoxon-test), Q value = 0.06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 2(1Q32.1) MUTATED | 27 | 81.5 (12.6) |
AMP PEAK 2(1Q32.1) WILD-TYPE | 279 | 87.2 (12.5) |
P value = 0.0249 (logrank test), Q value = 0.091
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 3(2P24.3) MUTATED | 24 | 10 | 0.1 - 94.5 (20.4) |
AMP PEAK 3(2P24.3) WILD-TYPE | 484 | 115 | 0.0 - 211.2 (22.5) |
P value = 1.57e-06 (logrank test), Q value = 4.1e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 4(3Q26.33) MUTATED | 20 | 10 | 0.2 - 47.8 (17.6) |
AMP PEAK 4(3Q26.33) WILD-TYPE | 488 | 115 | 0.0 - 211.2 (23.2) |
P value = 0.043 (Wilcoxon-test), Q value = 0.14
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 4(3Q26.33) MUTATED | 21 | 48.3 (12.0) |
AMP PEAK 4(3Q26.33) WILD-TYPE | 490 | 42.8 (13.4) |
P value = 0.0398 (Wilcoxon-test), Q value = 0.13
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 4(3Q26.33) MUTATED | 14 | 81.4 (11.0) |
AMP PEAK 4(3Q26.33) WILD-TYPE | 292 | 86.9 (12.6) |
P value = 0.00107 (Fisher's exact test), Q value = 0.007
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 4(3Q26.33) MUTATED | 16 | 1 | 4 |
AMP PEAK 4(3Q26.33) WILD-TYPE | 178 | 128 | 185 |
P value = 0.000488 (logrank test), Q value = 0.0038
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 5(4Q12) MUTATED | 30 | 13 | 2.8 - 60.3 (21.4) |
AMP PEAK 5(4Q12) WILD-TYPE | 478 | 112 | 0.0 - 211.2 (22.5) |
P value = 0.0172 (Fisher's exact test), Q value = 0.071
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 5(4Q12) MUTATED | 5 | 24 |
AMP PEAK 5(4Q12) WILD-TYPE | 179 | 271 |
P value = 0.00078 (Fisher's exact test), Q value = 0.0057
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 5(4Q12) MUTATED | 21 | 2 | 7 |
AMP PEAK 5(4Q12) WILD-TYPE | 173 | 127 | 182 |
P value = 1.81e-10 (logrank test), Q value = 1.8e-08
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 6(7P11.2) MUTATED | 127 | 54 | 0.1 - 211.2 (18.6) |
AMP PEAK 6(7P11.2) WILD-TYPE | 381 | 71 | 0.0 - 182.3 (24.9) |
P value = 3.25e-12 (Wilcoxon-test), Q value = 4.2e-10
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 6(7P11.2) MUTATED | 127 | 50.3 (13.1) |
AMP PEAK 6(7P11.2) WILD-TYPE | 384 | 40.6 (12.5) |
P value = 0.000922 (Fisher's exact test), Q value = 0.0063
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 6(7P11.2) MUTATED | 29 | 86 |
AMP PEAK 6(7P11.2) WILD-TYPE | 155 | 209 |
P value = 0.000391 (Wilcoxon-test), Q value = 0.0032
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 6(7P11.2) MUTATED | 77 | 81.8 (15.1) |
AMP PEAK 6(7P11.2) WILD-TYPE | 229 | 88.3 (11.2) |
P value = 0.0793 (Fisher's exact test), Q value = 0.23
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 6(7P11.2) MUTATED | 57 | 33 | 37 |
AMP PEAK 6(7P11.2) WILD-TYPE | 137 | 96 | 152 |
P value = 0.0288 (Fisher's exact test), Q value = 0.1
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 1 | 8 | 21 | 472 |
AMP PEAK 6(7P11.2) MUTATED | 1 | 2 | 10 | 114 |
AMP PEAK 6(7P11.2) WILD-TYPE | 0 | 6 | 11 | 358 |
P value = 0.000167 (logrank test), Q value = 0.0015
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 7(7Q31.2) MUTATED | 173 | 61 | 0.1 - 211.2 (19.6) |
AMP PEAK 7(7Q31.2) WILD-TYPE | 335 | 64 | 0.0 - 182.3 (25.4) |
P value = 3.04e-08 (Wilcoxon-test), Q value = 1.7e-06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 7(7Q31.2) MUTATED | 173 | 47.6 (13.3) |
AMP PEAK 7(7Q31.2) WILD-TYPE | 338 | 40.6 (12.8) |
P value = 0.0482 (Fisher's exact test), Q value = 0.16
nPatients | FEMALE | MALE |
---|---|---|
ALL | 228 | 284 |
AMP PEAK 7(7Q31.2) MUTATED | 88 | 85 |
AMP PEAK 7(7Q31.2) WILD-TYPE | 140 | 199 |
P value = 0.00262 (Fisher's exact test), Q value = 0.015
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 7(7Q31.2) MUTATED | 45 | 112 |
AMP PEAK 7(7Q31.2) WILD-TYPE | 139 | 183 |
P value = 0.0253 (Wilcoxon-test), Q value = 0.091
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 7(7Q31.2) MUTATED | 102 | 83.8 (14.8) |
AMP PEAK 7(7Q31.2) WILD-TYPE | 204 | 88.1 (11.1) |
P value = 0.0655 (Fisher's exact test), Q value = 0.2
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 7(7Q31.2) MUTATED | 74 | 47 | 52 |
AMP PEAK 7(7Q31.2) WILD-TYPE | 120 | 82 | 137 |
P value = 0.00926 (Fisher's exact test), Q value = 0.045
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 1 | 8 | 21 | 472 |
AMP PEAK 7(7Q31.2) MUTATED | 1 | 4 | 13 | 155 |
AMP PEAK 7(7Q31.2) WILD-TYPE | 0 | 4 | 8 | 317 |
P value = 8.34e-05 (logrank test), Q value = 0.00093
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 8(7Q32.3) MUTATED | 181 | 64 | 0.1 - 211.2 (19.3) |
AMP PEAK 8(7Q32.3) WILD-TYPE | 327 | 61 | 0.0 - 182.3 (25.5) |
P value = 5.13e-09 (Wilcoxon-test), Q value = 3.3e-07
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 8(7Q32.3) MUTATED | 181 | 47.6 (13.1) |
AMP PEAK 8(7Q32.3) WILD-TYPE | 330 | 40.4 (12.8) |
P value = 0.0255 (Fisher's exact test), Q value = 0.091
nPatients | FEMALE | MALE |
---|---|---|
ALL | 228 | 284 |
AMP PEAK 8(7Q32.3) MUTATED | 93 | 88 |
AMP PEAK 8(7Q32.3) WILD-TYPE | 135 | 196 |
P value = 0.00152 (Fisher's exact test), Q value = 0.0094
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 8(7Q32.3) MUTATED | 47 | 118 |
AMP PEAK 8(7Q32.3) WILD-TYPE | 137 | 177 |
P value = 0.036 (Wilcoxon-test), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 8(7Q32.3) MUTATED | 107 | 84.1 (14.6) |
AMP PEAK 8(7Q32.3) WILD-TYPE | 199 | 88.0 (11.2) |
P value = 0.0707 (Fisher's exact test), Q value = 0.21
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 8(7Q32.3) MUTATED | 77 | 49 | 55 |
AMP PEAK 8(7Q32.3) WILD-TYPE | 117 | 80 | 134 |
P value = 0.0176 (Fisher's exact test), Q value = 0.072
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 1 | 8 | 21 | 472 |
AMP PEAK 8(7Q32.3) MUTATED | 1 | 4 | 13 | 163 |
AMP PEAK 8(7Q32.3) WILD-TYPE | 0 | 4 | 8 | 309 |
P value = 0.0157 (Wilcoxon-test), Q value = 0.067
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 9(8Q24.13) MUTATED | 99 | 40.3 (13.0) |
AMP PEAK 9(8Q24.13) WILD-TYPE | 412 | 43.6 (13.4) |
P value = 0.00918 (Fisher's exact test), Q value = 0.045
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 9(8Q24.13) MUTATED | 25 | 69 |
AMP PEAK 9(8Q24.13) WILD-TYPE | 159 | 226 |
P value = 0.00558 (Fisher's exact test), Q value = 0.029
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 9(8Q24.13) MUTATED | 47 | 29 | 23 |
AMP PEAK 9(8Q24.13) WILD-TYPE | 147 | 100 | 166 |
P value = 0.00492 (Fisher's exact test), Q value = 0.026
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 10(9Q34.3) MUTATED | 8 | 35 |
AMP PEAK 10(9Q34.3) WILD-TYPE | 176 | 260 |
P value = 0.0235 (Fisher's exact test), Q value = 0.087
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 10(9Q34.3) MUTATED | 24 | 13 | 9 |
AMP PEAK 10(9Q34.3) WILD-TYPE | 170 | 116 | 180 |
P value = 0.000195 (Wilcoxon-test), Q value = 0.0017
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 11(10P15.3) MUTATED | 71 | 37.0 (10.3) |
AMP PEAK 11(10P15.3) WILD-TYPE | 440 | 44.0 (13.5) |
P value = 0.0784 (Fisher's exact test), Q value = 0.23
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 11(10P15.3) MUTATED | 19 | 48 |
AMP PEAK 11(10P15.3) WILD-TYPE | 165 | 247 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 11(10P15.3) MUTATED | 38 | 24 | 9 |
AMP PEAK 11(10P15.3) WILD-TYPE | 156 | 105 | 180 |
P value = 0.0366 (Wilcoxon-test), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 13(12P13.32) MUTATED | 72 | 40.4 (12.9) |
AMP PEAK 13(12P13.32) WILD-TYPE | 439 | 43.4 (13.4) |
P value = 0.0232 (Fisher's exact test), Q value = 0.087
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 13(12P13.32) MUTATED | 18 | 52 |
AMP PEAK 13(12P13.32) WILD-TYPE | 166 | 243 |
P value = 1.88e-09 (logrank test), Q value = 1.5e-07
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 14(12Q14.1) MUTATED | 37 | 21 | 0.2 - 84.3 (17.9) |
AMP PEAK 14(12Q14.1) WILD-TYPE | 471 | 104 | 0.0 - 211.2 (23.2) |
P value = 0.00148 (Wilcoxon-test), Q value = 0.0094
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 14(12Q14.1) MUTATED | 37 | 50.2 (14.3) |
AMP PEAK 14(12Q14.1) WILD-TYPE | 474 | 42.4 (13.1) |
P value = 0.0195 (Fisher's exact test), Q value = 0.077
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 14(12Q14.1) MUTATED | 7 | 28 |
AMP PEAK 14(12Q14.1) WILD-TYPE | 177 | 267 |
P value = 0.0222 (Fisher's exact test), Q value = 0.085
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 14(12Q14.1) MUTATED | 22 | 5 | 10 |
AMP PEAK 14(12Q14.1) WILD-TYPE | 172 | 124 | 179 |
P value = 0.0442 (Wilcoxon-test), Q value = 0.15
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
AMP PEAK 15(13Q34) MUTATED | 14 | 77.1 (18.6) |
AMP PEAK 15(13Q34) WILD-TYPE | 292 | 87.1 (12.1) |
P value = 1.57e-05 (logrank test), Q value = 0.00022
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 16(15Q26.3) MUTATED | 19 | 12 | 2.4 - 51.9 (25.9) |
AMP PEAK 16(15Q26.3) WILD-TYPE | 489 | 113 | 0.0 - 211.2 (22.1) |
P value = 0.0402 (logrank test), Q value = 0.13
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
AMP PEAK 17(17Q25.1) MUTATED | 43 | 14 | 0.2 - 85.5 (23.3) |
AMP PEAK 17(17Q25.1) WILD-TYPE | 465 | 111 | 0.0 - 211.2 (22.3) |
P value = 0.0334 (Wilcoxon-test), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 17(17Q25.1) MUTATED | 43 | 46.7 (12.4) |
AMP PEAK 17(17Q25.1) WILD-TYPE | 468 | 42.7 (13.4) |
P value = 0.0347 (Wilcoxon-test), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
AMP PEAK 18(19P13.3) MUTATED | 128 | 45.1 (13.8) |
AMP PEAK 18(19P13.3) WILD-TYPE | 383 | 42.3 (13.1) |
P value = 0.00514 (Fisher's exact test), Q value = 0.027
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 18(19P13.3) MUTATED | 60 | 62 |
AMP PEAK 18(19P13.3) WILD-TYPE | 124 | 233 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 18(19P13.3) MUTATED | 26 | 29 | 74 |
AMP PEAK 18(19P13.3) WILD-TYPE | 168 | 100 | 115 |
P value = 0.000651 (Fisher's exact test), Q value = 0.0049
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 19(XP11.22) MUTATED | 7 | 38 |
AMP PEAK 19(XP11.22) WILD-TYPE | 177 | 257 |
P value = 0.00249 (Fisher's exact test), Q value = 0.015
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 19(XP11.22) MUTATED | 28 | 12 | 8 |
AMP PEAK 19(XP11.22) WILD-TYPE | 166 | 117 | 181 |
P value = 0.000878 (Fisher's exact test), Q value = 0.0061
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
AMP PEAK 20(XP11.22) MUTATED | 11 | 48 |
AMP PEAK 20(XP11.22) WILD-TYPE | 173 | 247 |
P value = 3e-05 (Fisher's exact test), Q value = 0.00038
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
AMP PEAK 20(XP11.22) MUTATED | 39 | 15 | 9 |
AMP PEAK 20(XP11.22) WILD-TYPE | 155 | 114 | 180 |
P value = 0.0256 (logrank test), Q value = 0.091
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 1(1P36.32) MUTATED | 203 | 38 | 0.1 - 182.3 (21.6) |
DEL PEAK 1(1P36.32) WILD-TYPE | 305 | 87 | 0.0 - 211.2 (23.5) |
P value = 8.3e-07 (Wilcoxon-test), Q value = 2.8e-05
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 1(1P36.32) MUTATED | 205 | 46.3 (12.8) |
DEL PEAK 1(1P36.32) WILD-TYPE | 306 | 40.7 (13.3) |
P value = 2.38e-05 (Fisher's exact test), Q value = 0.00031
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 1(1P36.32) MUTATED | 97 | 97 |
DEL PEAK 1(1P36.32) WILD-TYPE | 87 | 198 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 1(1P36.32) MUTATED | 22 | 46 | 138 |
DEL PEAK 1(1P36.32) WILD-TYPE | 172 | 83 | 51 |
P value = 0.00342 (logrank test), Q value = 0.019
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 2(1P32.3) MUTATED | 193 | 33 | 0.1 - 182.3 (22.4) |
DEL PEAK 2(1P32.3) WILD-TYPE | 315 | 92 | 0.0 - 211.2 (22.3) |
P value = 5.46e-06 (Wilcoxon-test), Q value = 0.00012
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 2(1P32.3) MUTATED | 195 | 46.3 (13.1) |
DEL PEAK 2(1P32.3) WILD-TYPE | 316 | 40.9 (13.1) |
P value = 1.13e-06 (Fisher's exact test), Q value = 3.4e-05
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 2(1P32.3) MUTATED | 95 | 86 |
DEL PEAK 2(1P32.3) WILD-TYPE | 89 | 209 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 2(1P32.3) MUTATED | 16 | 42 | 138 |
DEL PEAK 2(1P32.3) WILD-TYPE | 178 | 87 | 51 |
P value = 0.0779 (Wilcoxon-test), Q value = 0.23
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 4(2Q37.3) MUTATED | 77 | 40.8 (13.3) |
DEL PEAK 4(2Q37.3) WILD-TYPE | 434 | 43.4 (13.3) |
P value = 0.0169 (Fisher's exact test), Q value = 0.071
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 4(2Q37.3) MUTATED | 18 | 53 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 166 | 242 |
P value = 0.0104 (Fisher's exact test), Q value = 0.048
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 4(2Q37.3) MUTATED | 37 | 23 | 17 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 157 | 106 | 172 |
P value = 0.00418 (Fisher's exact test), Q value = 0.023
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 5(3P21.31) MUTATED | 9 | 38 |
DEL PEAK 5(3P21.31) WILD-TYPE | 175 | 257 |
P value = 0.0231 (Wilcoxon-test), Q value = 0.087
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 5(3P21.31) MUTATED | 32 | 81.2 (15.4) |
DEL PEAK 5(3P21.31) WILD-TYPE | 274 | 87.3 (12.1) |
P value = 0.0183 (logrank test), Q value = 0.074
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 6(3Q13.31) MUTATED | 39 | 16 | 0.2 - 117.4 (23.2) |
DEL PEAK 6(3Q13.31) WILD-TYPE | 469 | 109 | 0.0 - 211.2 (22.3) |
P value = 0.0786 (Fisher's exact test), Q value = 0.23
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 6(3Q13.31) MUTATED | 9 | 28 |
DEL PEAK 6(3Q13.31) WILD-TYPE | 175 | 267 |
P value = 0.0229 (logrank test), Q value = 0.087
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 7(3Q29) MUTATED | 47 | 19 | 0.0 - 122.5 (24.3) |
DEL PEAK 7(3Q29) WILD-TYPE | 461 | 106 | 0.1 - 211.2 (21.6) |
P value = 0.0633 (Wilcoxon-test), Q value = 0.2
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 7(3Q29) MUTATED | 33 | 82.7 (14.2) |
DEL PEAK 7(3Q29) WILD-TYPE | 273 | 87.1 (12.3) |
P value = 0.000104 (Fisher's exact test), Q value = 0.0011
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 9(5P15.33) MUTATED | 6 | 40 |
DEL PEAK 9(5P15.33) WILD-TYPE | 178 | 255 |
P value = 0.00227 (Fisher's exact test), Q value = 0.013
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 9(5P15.33) MUTATED | 23 | 19 | 8 |
DEL PEAK 9(5P15.33) WILD-TYPE | 171 | 110 | 181 |
P value = 0.000878 (Fisher's exact test), Q value = 0.0061
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 10(5Q34) MUTATED | 11 | 48 |
DEL PEAK 10(5Q34) WILD-TYPE | 173 | 247 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 10(5Q34) MUTATED | 41 | 14 | 9 |
DEL PEAK 10(5Q34) WILD-TYPE | 153 | 115 | 180 |
P value = 0.000318 (logrank test), Q value = 0.0027
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 11(6P25.3) MUTATED | 49 | 21 | 0.2 - 145.1 (19.3) |
DEL PEAK 11(6P25.3) WILD-TYPE | 459 | 104 | 0.0 - 211.2 (22.4) |
P value = 0.0168 (Wilcoxon-test), Q value = 0.071
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 11(6P25.3) MUTATED | 35 | 82.6 (12.4) |
DEL PEAK 11(6P25.3) WILD-TYPE | 271 | 87.2 (12.5) |
P value = 1.34e-05 (logrank test), Q value = 2e-04
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 12(6Q22.31) MUTATED | 76 | 28 | 0.1 - 117.4 (18.5) |
DEL PEAK 12(6Q22.31) WILD-TYPE | 432 | 97 | 0.0 - 211.2 (23.5) |
P value = 0.0803 (Wilcoxon-test), Q value = 0.23
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 12(6Q22.31) MUTATED | 77 | 45.5 (13.8) |
DEL PEAK 12(6Q22.31) WILD-TYPE | 434 | 42.5 (13.2) |
P value = 0.00487 (Fisher's exact test), Q value = 0.026
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 12(6Q22.31) MUTATED | 16 | 53 |
DEL PEAK 12(6Q22.31) WILD-TYPE | 168 | 242 |
P value = 0.00186 (Wilcoxon-test), Q value = 0.011
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 12(6Q22.31) MUTATED | 51 | 81.6 (13.9) |
DEL PEAK 12(6Q22.31) WILD-TYPE | 255 | 87.7 (12.1) |
P value = 1e-04 (Fisher's exact test), Q value = 0.0011
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 12(6Q22.31) MUTATED | 47 | 11 | 19 |
DEL PEAK 12(6Q22.31) WILD-TYPE | 147 | 118 | 170 |
P value = 0.000379 (logrank test), Q value = 0.0032
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 13(6Q26) MUTATED | 80 | 28 | 0.0 - 145.1 (18.5) |
DEL PEAK 13(6Q26) WILD-TYPE | 428 | 97 | 0.1 - 211.2 (23.6) |
P value = 0.0123 (Fisher's exact test), Q value = 0.055
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 13(6Q26) MUTATED | 18 | 54 |
DEL PEAK 13(6Q26) WILD-TYPE | 166 | 241 |
P value = 0.00944 (Wilcoxon-test), Q value = 0.046
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 13(6Q26) MUTATED | 52 | 82.5 (13.8) |
DEL PEAK 13(6Q26) WILD-TYPE | 254 | 87.5 (12.2) |
P value = 8e-05 (Fisher's exact test), Q value = 0.00092
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 13(6Q26) MUTATED | 48 | 12 | 21 |
DEL PEAK 13(6Q26) WILD-TYPE | 146 | 117 | 168 |
P value = 1.4e-06 (logrank test), Q value = 3.9e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 16(9P23) MUTATED | 148 | 54 | 0.1 - 169.8 (21.8) |
DEL PEAK 16(9P23) WILD-TYPE | 360 | 71 | 0.0 - 211.2 (22.5) |
P value = 0.000504 (Wilcoxon-test), Q value = 0.0039
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 16(9P23) MUTATED | 148 | 46.2 (13.5) |
DEL PEAK 16(9P23) WILD-TYPE | 363 | 41.7 (13.1) |
P value = 7.03e-05 (Fisher's exact test), Q value = 0.00084
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 16(9P23) MUTATED | 33 | 102 |
DEL PEAK 16(9P23) WILD-TYPE | 151 | 193 |
P value = 8.72e-05 (Wilcoxon-test), Q value = 0.00095
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 16(9P23) MUTATED | 96 | 82.6 (13.6) |
DEL PEAK 16(9P23) WILD-TYPE | 210 | 88.5 (11.7) |
P value = 0.00772 (Fisher's exact test), Q value = 0.039
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 16(9P23) MUTATED | 72 | 33 | 44 |
DEL PEAK 16(9P23) WILD-TYPE | 122 | 96 | 145 |
P value = 5.83e-13 (logrank test), Q value = 1.1e-10
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 17(9P21.3) MUTATED | 174 | 69 | 0.1 - 169.8 (20.0) |
DEL PEAK 17(9P21.3) WILD-TYPE | 334 | 56 | 0.0 - 211.2 (24.1) |
P value = 9.28e-08 (Wilcoxon-test), Q value = 3.6e-06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 17(9P21.3) MUTATED | 174 | 47.6 (14.0) |
DEL PEAK 17(9P21.3) WILD-TYPE | 337 | 40.6 (12.4) |
P value = 8.48e-07 (Fisher's exact test), Q value = 2.8e-05
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 17(9P21.3) MUTATED | 36 | 121 |
DEL PEAK 17(9P21.3) WILD-TYPE | 148 | 174 |
P value = 1.07e-05 (Wilcoxon-test), Q value = 0.00016
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 17(9P21.3) MUTATED | 105 | 82.1 (14.3) |
DEL PEAK 17(9P21.3) WILD-TYPE | 201 | 89.1 (10.9) |
P value = 0.0015 (Fisher's exact test), Q value = 0.0094
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 17(9P21.3) MUTATED | 85 | 36 | 54 |
DEL PEAK 17(9P21.3) WILD-TYPE | 109 | 93 | 135 |
P value = 9.55e-15 (logrank test), Q value = 3.7e-12
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 18(10Q26.3) MUTATED | 150 | 68 | 0.1 - 172.8 (18.2) |
DEL PEAK 18(10Q26.3) WILD-TYPE | 358 | 57 | 0.0 - 211.2 (26.1) |
P value = 6.91e-08 (Wilcoxon-test), Q value = 3.4e-06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 18(10Q26.3) MUTATED | 151 | 48.1 (13.9) |
DEL PEAK 18(10Q26.3) WILD-TYPE | 360 | 40.8 (12.5) |
P value = 0.0641 (Fisher's exact test), Q value = 0.2
nPatients | FEMALE | MALE |
---|---|---|
ALL | 228 | 284 |
DEL PEAK 18(10Q26.3) MUTATED | 77 | 74 |
DEL PEAK 18(10Q26.3) WILD-TYPE | 151 | 210 |
P value = 4.92e-06 (Fisher's exact test), Q value = 0.00011
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 18(10Q26.3) MUTATED | 32 | 109 |
DEL PEAK 18(10Q26.3) WILD-TYPE | 152 | 186 |
P value = 0.0151 (Wilcoxon-test), Q value = 0.066
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 18(10Q26.3) MUTATED | 90 | 83.3 (15.0) |
DEL PEAK 18(10Q26.3) WILD-TYPE | 216 | 88.1 (11.2) |
P value = 2e-05 (Fisher's exact test), Q value = 0.00027
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 18(10Q26.3) MUTATED | 81 | 33 | 37 |
DEL PEAK 18(10Q26.3) WILD-TYPE | 113 | 96 | 152 |
P value = 0.0566 (logrank test), Q value = 0.18
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 19(11P15.5) MUTATED | 103 | 31 | 0.1 - 156.2 (20.2) |
DEL PEAK 19(11P15.5) WILD-TYPE | 405 | 94 | 0.0 - 211.2 (23.2) |
P value = 0.014 (Wilcoxon-test), Q value = 0.062
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 19(11P15.5) MUTATED | 104 | 40.1 (11.4) |
DEL PEAK 19(11P15.5) WILD-TYPE | 407 | 43.7 (13.7) |
P value = 0.0035 (Fisher's exact test), Q value = 0.02
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 19(11P15.5) MUTATED | 25 | 73 |
DEL PEAK 19(11P15.5) WILD-TYPE | 159 | 222 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 19(11P15.5) MUTATED | 57 | 30 | 17 |
DEL PEAK 19(11P15.5) WILD-TYPE | 137 | 99 | 172 |
P value = 0.0103 (logrank test), Q value = 0.048
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 20(11P15.1) MUTATED | 71 | 27 | 0.2 - 156.2 (21.5) |
DEL PEAK 20(11P15.1) WILD-TYPE | 437 | 98 | 0.0 - 211.2 (22.4) |
P value = 0.00688 (Fisher's exact test), Q value = 0.035
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 20(11P15.1) MUTATED | 16 | 52 |
DEL PEAK 20(11P15.1) WILD-TYPE | 168 | 243 |
P value = 0.0509 (Wilcoxon-test), Q value = 0.16
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 20(11P15.1) MUTATED | 53 | 84.5 (11.5) |
DEL PEAK 20(11P15.1) WILD-TYPE | 253 | 87.1 (12.8) |
P value = 0.00016 (Fisher's exact test), Q value = 0.0015
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 20(11P15.1) MUTATED | 43 | 15 | 14 |
DEL PEAK 20(11P15.1) WILD-TYPE | 151 | 114 | 175 |
P value = 0.00177 (logrank test), Q value = 0.011
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 21(12P13.1) MUTATED | 37 | 15 | 0.1 - 95.1 (21.4) |
DEL PEAK 21(12P13.1) WILD-TYPE | 471 | 110 | 0.0 - 211.2 (22.5) |
P value = 0.0152 (Fisher's exact test), Q value = 0.066
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 22(12Q12) MUTATED | 17 | 51 |
DEL PEAK 22(12Q12) WILD-TYPE | 167 | 244 |
P value = 5e-05 (Fisher's exact test), Q value = 0.00061
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 22(12Q12) MUTATED | 43 | 16 | 13 |
DEL PEAK 22(12Q12) WILD-TYPE | 151 | 113 | 176 |
P value = 0.0679 (Fisher's exact test), Q value = 0.21
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 32 | 446 |
DEL PEAK 22(12Q12) MUTATED | 1 | 66 |
DEL PEAK 22(12Q12) WILD-TYPE | 31 | 380 |
P value = 0.0187 (logrank test), Q value = 0.075
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 23(13Q14.2) MUTATED | 143 | 49 | 0.1 - 211.2 (20.6) |
DEL PEAK 23(13Q14.2) WILD-TYPE | 365 | 76 | 0.0 - 182.3 (23.5) |
P value = 0.000169 (Fisher's exact test), Q value = 0.0015
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 23(13Q14.2) MUTATED | 34 | 101 |
DEL PEAK 23(13Q14.2) WILD-TYPE | 150 | 194 |
P value = 0.00555 (Wilcoxon-test), Q value = 0.029
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 23(13Q14.2) MUTATED | 91 | 83.6 (13.5) |
DEL PEAK 23(13Q14.2) WILD-TYPE | 215 | 88.0 (12.0) |
P value = 0.082 (Fisher's exact test), Q value = 0.24
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 23(13Q14.2) MUTATED | 64 | 37 | 43 |
DEL PEAK 23(13Q14.2) WILD-TYPE | 130 | 92 | 146 |
P value = 0.0096 (logrank test), Q value = 0.046
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 24(13Q34) MUTATED | 110 | 39 | 0.1 - 211.2 (19.0) |
DEL PEAK 24(13Q34) WILD-TYPE | 398 | 86 | 0.0 - 182.3 (24.2) |
P value = 0.0123 (Fisher's exact test), Q value = 0.055
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 24(13Q34) MUTATED | 29 | 76 |
DEL PEAK 24(13Q34) WILD-TYPE | 155 | 219 |
P value = 0.000126 (logrank test), Q value = 0.0013
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 25(14Q24.3) MUTATED | 121 | 45 | 0.1 - 130.8 (22.3) |
DEL PEAK 25(14Q24.3) WILD-TYPE | 387 | 80 | 0.0 - 211.2 (22.5) |
P value = 0.0216 (Wilcoxon-test), Q value = 0.084
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 25(14Q24.3) MUTATED | 122 | 45.4 (13.1) |
DEL PEAK 25(14Q24.3) WILD-TYPE | 389 | 42.2 (13.3) |
P value = 0.0765 (Fisher's exact test), Q value = 0.23
nPatients | FEMALE | MALE |
---|---|---|
ALL | 228 | 284 |
DEL PEAK 25(14Q24.3) MUTATED | 63 | 59 |
DEL PEAK 25(14Q24.3) WILD-TYPE | 165 | 225 |
P value = 0.0196 (Wilcoxon-test), Q value = 0.077
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 26(18Q23) MUTATED | 78 | 46.7 (14.6) |
DEL PEAK 26(18Q23) WILD-TYPE | 433 | 42.3 (13.0) |
P value = 0.000321 (logrank test), Q value = 0.0027
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 27(19Q13.42) MUTATED | 274 | 54 | 0.0 - 182.3 (24.2) |
DEL PEAK 27(19Q13.42) WILD-TYPE | 234 | 71 | 0.1 - 211.2 (20.6) |
P value = 0.000664 (Fisher's exact test), Q value = 0.0049
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 27(19Q13.42) MUTATED | 119 | 143 |
DEL PEAK 27(19Q13.42) WILD-TYPE | 65 | 152 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 27(19Q13.42) MUTATED | 60 | 64 | 154 |
DEL PEAK 27(19Q13.42) WILD-TYPE | 134 | 65 | 35 |
P value = 3.86e-06 (logrank test), Q value = 9.5e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 508 | 125 | 0.0 - 211.2 (22.4) |
DEL PEAK 28(22Q13.31) MUTATED | 77 | 35 | 0.1 - 156.2 (21.3) |
DEL PEAK 28(22Q13.31) WILD-TYPE | 431 | 90 | 0.0 - 211.2 (22.5) |
P value = 0.000444 (Wilcoxon-test), Q value = 0.0036
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 511 | 43.0 (13.3) |
DEL PEAK 28(22Q13.31) MUTATED | 77 | 48.4 (14.5) |
DEL PEAK 28(22Q13.31) WILD-TYPE | 434 | 42.0 (12.9) |
P value = 0.0111 (Fisher's exact test), Q value = 0.051
nPatients | NO | YES |
---|---|---|
ALL | 184 | 295 |
DEL PEAK 28(22Q13.31) MUTATED | 17 | 52 |
DEL PEAK 28(22Q13.31) WILD-TYPE | 167 | 243 |
P value = 0.0516 (Wilcoxon-test), Q value = 0.17
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 306 | 86.7 (12.6) |
DEL PEAK 28(22Q13.31) MUTATED | 49 | 83.3 (14.3) |
DEL PEAK 28(22Q13.31) WILD-TYPE | 257 | 87.3 (12.2) |
P value = 0.00107 (Fisher's exact test), Q value = 0.007
nPatients | ASTROCYTOMA | OLIGOASTROCYTOMA | OLIGODENDROGLIOMA |
---|---|---|---|
ALL | 194 | 129 | 189 |
DEL PEAK 28(22Q13.31) MUTATED | 44 | 15 | 18 |
DEL PEAK 28(22Q13.31) WILD-TYPE | 150 | 114 | 171 |
-
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/LGG-TP/22533658/transformed.cor.cli.txt
-
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LGG-TP/22506744/LGG-TP.merged_data.txt
-
Number of patients = 512
-
Number of significantly focal cnvs = 49
-
Number of selected clinical features = 8
-
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.