This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between copy number variation 31 focal events and 12 clinical features across 269 patients, 127 significant findings detected with Q value < 0.25.
-
amp_2p23.2 cnv correlated to 'PATHOLOGY_N_STAGE' and 'PATHOLOGY_M_STAGE'.
-
amp_2q32.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'PATHOLOGY_M_STAGE'.
-
amp_3q27.1 cnv correlated to 'PATHOLOGY_M_STAGE'.
-
amp_5q35.2 cnv correlated to 'NEOPLASM_DISEASESTAGE'.
-
amp_7q31.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.
-
amp_17q25.2 cnv correlated to 'GENDER' and 'RACE'.
-
amp_19p13.2 cnv correlated to 'YEARS_TO_BIRTH' and 'PATHOLOGY_T_STAGE'.
-
del_1p36.31 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
-
del_2p12 cnv correlated to 'NEOPLASM_DISEASESTAGE' and 'PATHOLOGY_T_STAGE'.
-
del_2q22.1 cnv correlated to 'NEOPLASM_DISEASESTAGE' and 'PATHOLOGY_T_STAGE'.
-
del_2q37.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'GENDER'.
-
del_3p22.1 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.
-
del_4q34.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'GENDER', and 'RACE'.
-
del_5p15.33 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
-
del_5q35.2 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
-
del_6p12.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.
-
del_6q22.31 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
-
del_6q25.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'GENDER'.
-
del_9p21.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
-
del_10q21.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.
-
del_11q22.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'PATHOLOGY_M_STAGE'.
-
del_11q23.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'PATHOLOGY_M_STAGE'.
-
del_14q11.2 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
-
del_14q24.2 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.
-
del_15q13.3 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
-
del_16q24.1 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', and 'PATHOLOGY_T_STAGE'.
-
del_19p13.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
-
del_19q13.42 cnv correlated to 'NEOPLASM_DISEASESTAGE' and 'PATHOLOGY_T_STAGE'.
-
del_22q12.2 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'GENDER'.
-
del_xp11.4 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'RACE'.
-
del_xq28 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'RACE'.
Clinical Features |
Time to Death |
YEARS TO BIRTH |
NEOPLASM DISEASESTAGE |
PATHOLOGY T STAGE |
PATHOLOGY N STAGE |
PATHOLOGY M STAGE |
GENDER |
KARNOFSKY PERFORMANCE SCORE |
NUMBER PACK YEARS SMOKED |
YEAR OF TOBACCO SMOKING ONSET |
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 | Wilcoxon-test | Wilcoxon-test | Wilcoxon-test | Fisher's exact test | Fisher's exact test | |
del 9p21 3 | 38 (14%) | 231 |
1.91e-07 (3.56e-05) |
0.55 (0.819) |
1e-05 (0.000266) |
1e-05 (0.000266) |
0.00022 (0.00292) |
0.0215 (0.0929) |
0.00483 (0.0264) |
0.00947 (0.0476) |
0.35 (0.64) |
0.64 (0.858) |
0.143 (0.374) |
1 (1.00) |
del 14q24 2 | 47 (17%) | 222 |
0.00158 (0.0128) |
0.964 (1.00) |
0.00155 (0.0128) |
0.00021 (0.00289) |
0.0146 (0.0677) |
0.182 (0.442) |
0.0286 (0.113) |
0.0732 (0.23) |
0.265 (0.543) |
0.0369 (0.136) |
0.957 (1.00) |
0.697 (0.892) |
del 22q12 2 | 60 (22%) | 209 |
0.0398 (0.143) |
0.0559 (0.187) |
1e-05 (0.000266) |
1e-05 (0.000266) |
0.00195 (0.0144) |
0.0596 (0.195) |
0.00158 (0.0128) |
0.164 (0.409) |
0.879 (1.00) |
0.135 (0.361) |
0.208 (0.479) |
0.713 (0.899) |
del xq28 | 25 (9%) | 244 |
4.42e-05 (0.000865) |
0.0253 (0.104) |
0.00073 (0.00734) |
0.00317 (0.0203) |
0.0221 (0.0935) |
0.592 (0.842) |
0.0171 (0.0768) |
0.153 (0.389) |
0.658 (0.868) |
0.168 (0.413) |
0.085 (0.249) |
0.606 (0.842) |
del 1p36 31 | 50 (19%) | 219 |
0.0182 (0.08) |
0.16 (0.404) |
1e-05 (0.000266) |
1e-05 (0.000266) |
0.00346 (0.0215) |
0.368 (0.644) |
0.0528 (0.182) |
0.00253 (0.0175) |
0.68 (0.888) |
0.2 (0.464) |
0.527 (0.796) |
0.697 (0.892) |
del 5q35 2 | 11 (4%) | 258 |
8.06e-05 (0.00125) |
0.00481 (0.0264) |
0.00028 (0.00347) |
3e-05 (0.000656) |
0.0733 (0.23) |
0.321 (0.619) |
0.00979 (0.0486) |
0.762 (0.932) |
0.314 (0.615) |
|||
del 15q13 3 | 33 (12%) | 236 |
0.000304 (0.00353) |
0.0746 (0.231) |
0.0004 (0.00438) |
8e-05 (0.00125) |
0.00281 (0.0187) |
0.0937 (0.268) |
0.402 (0.665) |
0.00476 (0.0264) |
0.843 (0.982) |
1 (1.00) |
0.539 (0.806) |
1 (1.00) |
del xp11 4 | 30 (11%) | 239 |
0.00181 (0.0141) |
0.169 (0.413) |
1e-05 (0.000266) |
5e-05 (0.000886) |
0.0787 (0.236) |
1 (1.00) |
0.0147 (0.0677) |
0.431 (0.685) |
0.704 (0.896) |
0.214 (0.488) |
0.0132 (0.063) |
0.611 (0.842) |
amp 7q31 2 | 165 (61%) | 104 |
0.236 (0.508) |
0.388 (0.647) |
0.0005 (0.00517) |
0.0328 (0.123) |
0.369 (0.644) |
0.728 (0.902) |
0.00477 (0.0264) |
0.0812 (0.242) |
0.764 (0.932) |
0.00359 (0.0216) |
0.325 (0.62) |
0.369 (0.644) |
del 3p22 1 | 23 (9%) | 246 |
0.00217 (0.0152) |
0.0343 (0.128) |
1e-05 (0.000266) |
2e-05 (0.000465) |
0.078 (0.236) |
0.0914 (0.266) |
1 (1.00) |
0.153 (0.389) |
0.806 (0.957) |
0.294 (0.594) |
0.576 (0.842) |
0.606 (0.842) |
del 4q34 3 | 30 (11%) | 239 |
0.00153 (0.0128) |
0.489 (0.758) |
2e-05 (0.000465) |
8e-05 (0.00125) |
0.108 (0.295) |
0.611 (0.842) |
0.0147 (0.0677) |
0.431 (0.685) |
0.791 (0.95) |
0.935 (1.00) |
0.0283 (0.113) |
0.358 (0.644) |
del 11q22 3 | 30 (11%) | 239 |
0.00095 (0.00906) |
0.354 (0.64) |
1e-05 (0.000266) |
1e-05 (0.000266) |
0.00197 (0.0144) |
0.0758 (0.231) |
0.666 (0.874) |
0.0967 (0.27) |
0.441 (0.698) |
0.324 (0.62) |
0.191 (0.451) |
0.372 (0.645) |
del 11q23 3 | 28 (10%) | 241 |
4.06e-05 (0.00084) |
0.354 (0.64) |
1e-05 (0.000266) |
1e-05 (0.000266) |
0.00203 (0.0145) |
0.0598 (0.195) |
1 (1.00) |
0.0967 (0.27) |
0.937 (1.00) |
0.727 (0.902) |
0.137 (0.364) |
0.614 (0.842) |
del 14q11 2 | 48 (18%) | 221 |
0.00498 (0.0269) |
0.811 (0.961) |
0.00647 (0.0339) |
0.00162 (0.0128) |
0.0423 (0.15) |
0.395 (0.656) |
0.0317 (0.12) |
0.144 (0.376) |
0.366 (0.644) |
0.188 (0.446) |
1 (1.00) |
0.698 (0.892) |
del 19p13 3 | 20 (7%) | 249 |
0.0106 (0.052) |
0.762 (0.932) |
0.00139 (0.0126) |
0.00029 (0.00348) |
0.0315 (0.12) |
0.386 (0.646) |
0.794 (0.95) |
0.00532 (0.0283) |
0.355 (0.64) |
0.539 (0.806) |
0.606 (0.842) |
|
del 5p15 33 | 13 (5%) | 256 |
0.163 (0.409) |
0.184 (0.442) |
0.0382 (0.139) |
0.0218 (0.0933) |
0.00272 (0.0184) |
0.386 (0.646) |
0.047 (0.163) |
0.216 (0.489) |
0.904 (1.00) |
1 (1.00) |
0.385 (0.646) |
|
del 6q22 31 | 27 (10%) | 242 |
0.419 (0.684) |
0.773 (0.94) |
0.00357 (0.0216) |
0.00048 (0.0051) |
0.0754 (0.231) |
1 (1.00) |
0.0117 (0.0566) |
0.431 (0.685) |
0.581 (0.842) |
0.366 (0.644) |
0.125 (0.339) |
0.608 (0.842) |
amp 2q32 1 | 51 (19%) | 218 |
0.496 (0.758) |
0.493 (0.758) |
0.0269 (0.11) |
0.0841 (0.248) |
0.0997 (0.275) |
0.0154 (0.0697) |
0.725 (0.902) |
0.381 (0.646) |
0.827 (0.974) |
0.618 (0.842) |
0.593 (0.842) |
1 (1.00) |
del 2q37 3 | 11 (4%) | 258 |
0.857 (0.99) |
0.79 (0.95) |
0.00905 (0.0461) |
0.00403 (0.0234) |
1 (1.00) |
1 (1.00) |
0.0737 (0.23) |
0.497 (0.758) |
0.837 (0.982) |
0.781 (0.947) |
1 (1.00) |
|
del 6p12 3 | 23 (9%) | 246 |
0.234 (0.508) |
0.429 (0.685) |
0.00162 (0.0128) |
0.00198 (0.0144) |
0.0598 (0.195) |
0.592 (0.842) |
0.459 (0.724) |
0.847 (0.982) |
0.226 (0.501) |
0.847 (0.982) |
0.246 (0.526) |
0.606 (0.842) |
del 6q25 3 | 29 (11%) | 240 |
0.497 (0.758) |
0.711 (0.899) |
0.00025 (0.00321) |
5e-05 (0.000886) |
0.0982 (0.273) |
0.595 (0.842) |
0.00303 (0.0197) |
0.299 (0.598) |
0.581 (0.842) |
0.366 (0.644) |
0.138 (0.364) |
0.614 (0.842) |
del 10q21 1 | 17 (6%) | 252 |
0.308 (0.606) |
0.422 (0.685) |
9e-05 (0.00134) |
0.00079 (0.00773) |
0.0314 (0.12) |
1 (1.00) |
0.168 (0.413) |
0.153 (0.389) |
0.743 (0.918) |
0.649 (0.86) |
0.381 (0.646) |
1 (1.00) |
del 16q24 1 | 11 (4%) | 258 |
1.05e-08 (3.91e-06) |
0.409 (0.673) |
0.00381 (0.0225) |
0.00733 (0.0379) |
0.13 (0.35) |
0.321 (0.619) |
0.492 (0.758) |
0.571 (0.842) |
0.707 (0.897) |
0.795 (0.95) |
0.255 (0.527) |
1 (1.00) |
amp 2p23 2 | 42 (16%) | 227 |
0.533 (0.803) |
0.338 (0.636) |
0.266 (0.543) |
0.418 (0.684) |
0.0183 (0.08) |
0.028 (0.113) |
0.343 (0.64) |
0.516 (0.783) |
0.344 (0.64) |
0.726 (0.902) |
0.647 (0.86) |
1 (1.00) |
amp 17q25 2 | 189 (70%) | 80 |
0.87 (0.999) |
0.188 (0.446) |
0.219 (0.491) |
0.308 (0.606) |
0.84 (0.982) |
1 (1.00) |
0.0247 (0.103) |
0.696 (0.892) |
0.347 (0.64) |
0.231 (0.505) |
0.0428 (0.15) |
0.329 (0.625) |
amp 19p13 2 | 30 (11%) | 239 |
0.621 (0.844) |
0.0542 (0.185) |
0.977 (1.00) |
0.0653 (0.209) |
1 (1.00) |
1 (1.00) |
1 (1.00) |
0.884 (1.00) |
0.716 (0.9) |
0.383 (0.646) |
0.469 (0.734) |
0.636 (0.857) |
del 2p12 | 6 (2%) | 263 |
0.608 (0.842) |
0.431 (0.685) |
0.04 (0.143) |
0.0307 (0.12) |
1 (1.00) |
0.251 (0.527) |
1 (1.00) |
0.691 (0.892) |
1 (1.00) |
|||
del 2q22 1 | 9 (3%) | 260 |
0.252 (0.527) |
0.667 (0.874) |
0.0012 (0.0112) |
0.00346 (0.0215) |
0.198 (0.464) |
0.321 (0.619) |
0.255 (0.527) |
0.299 (0.598) |
0.816 (0.964) |
0.561 (0.832) |
0.745 (0.918) |
1 (1.00) |
del 19q13 42 | 19 (7%) | 250 |
0.201 (0.465) |
0.618 (0.842) |
0.00035 (0.00395) |
0.0002 (0.00286) |
0.218 (0.491) |
1 (1.00) |
0.599 (0.842) |
0.0967 (0.27) |
0.989 (1.00) |
0.222 (0.494) |
0.251 (0.527) |
0.606 (0.842) |
amp 3q27 1 | 93 (35%) | 176 |
0.864 (0.995) |
0.29 (0.589) |
0.333 (0.628) |
0.236 (0.508) |
1 (1.00) |
0.0549 (0.186) |
0.47 (0.734) |
0.228 (0.502) |
0.354 (0.64) |
0.385 (0.646) |
0.183 (0.442) |
1 (1.00) |
amp 5q35 2 | 35 (13%) | 234 |
0.934 (1.00) |
0.641 (0.858) |
0.0644 (0.208) |
0.0927 (0.267) |
1 (1.00) |
0.65 (0.86) |
0.685 (0.89) |
0.307 (0.606) |
0.634 (0.857) |
0.804 (0.957) |
0.252 (0.527) |
0.373 (0.645) |
P value = 0.0183 (Fisher's exact test), Q value = 0.08
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
AMP PEAK 1(2P23.2) MUTATED | 4 | 8 | 1 |
AMP PEAK 1(2P23.2) WILD-TYPE | 41 | 14 | 3 |
P value = 0.028 (Fisher's exact test), Q value = 0.11
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
AMP PEAK 1(2P23.2) MUTATED | 11 | 4 |
AMP PEAK 1(2P23.2) WILD-TYPE | 79 | 5 |
P value = 0.0269 (Fisher's exact test), Q value = 0.11
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 3 | 12 | 7 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 139 | 18 | 37 | 7 |
P value = 0.0841 (Fisher's exact test), Q value = 0.25
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 7 | 16 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 148 | 22 | 40 |
P value = 0.0154 (Fisher's exact test), Q value = 0.07
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
AMP PEAK 2(2Q32.1) MUTATED | 15 | 5 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 75 | 4 |
P value = 0.0549 (Fisher's exact test), Q value = 0.19
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
AMP PEAK 3(3Q27.1) MUTATED | 29 | 0 |
AMP PEAK 3(3Q27.1) WILD-TYPE | 61 | 9 |
P value = 0.0644 (Fisher's exact test), Q value = 0.21
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
AMP PEAK 4(5Q35.2) MUTATED | 16 | 2 | 11 | 3 |
AMP PEAK 4(5Q35.2) WILD-TYPE | 151 | 19 | 38 | 11 |
P value = 5e-04 (Fisher's exact test), Q value = 0.0052
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
AMP PEAK 5(7Q31.2) MUTATED | 113 | 11 | 18 | 11 |
AMP PEAK 5(7Q31.2) WILD-TYPE | 54 | 10 | 31 | 3 |
P value = 0.0328 (Fisher's exact test), Q value = 0.12
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
AMP PEAK 5(7Q31.2) MUTATED | 116 | 19 | 26 |
AMP PEAK 5(7Q31.2) WILD-TYPE | 60 | 10 | 30 |
P value = 0.00477 (Fisher's exact test), Q value = 0.026
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
AMP PEAK 5(7Q31.2) MUTATED | 34 | 131 |
AMP PEAK 5(7Q31.2) WILD-TYPE | 38 | 66 |
P value = 0.0812 (Wilcoxon-test), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
AMP PEAK 5(7Q31.2) MUTATED | 42 | 95.0 (7.1) |
AMP PEAK 5(7Q31.2) WILD-TYPE | 18 | 85.0 (25.5) |
P value = 0.00359 (Wilcoxon-test), Q value = 0.022
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 51 | 1972.4 (15.9) |
AMP PEAK 5(7Q31.2) MUTATED | 29 | 1966.8 (14.7) |
AMP PEAK 5(7Q31.2) WILD-TYPE | 22 | 1979.7 (14.8) |
P value = 0.0247 (Fisher's exact test), Q value = 0.1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
AMP PEAK 6(17Q25.2) MUTATED | 43 | 146 |
AMP PEAK 6(17Q25.2) WILD-TYPE | 29 | 51 |
P value = 0.0428 (Fisher's exact test), Q value = 0.15
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 60 | 187 |
AMP PEAK 6(17Q25.2) MUTATED | 2 | 4 | 34 | 139 |
AMP PEAK 6(17Q25.2) WILD-TYPE | 0 | 1 | 26 | 48 |
P value = 0.0542 (Wilcoxon-test), Q value = 0.19
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
AMP PEAK 7(19P13.2) MUTATED | 29 | 57.1 (12.6) |
AMP PEAK 7(19P13.2) WILD-TYPE | 235 | 61.8 (12.1) |
P value = 0.0653 (Fisher's exact test), Q value = 0.21
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
AMP PEAK 7(19P13.2) MUTATED | 18 | 7 | 4 |
AMP PEAK 7(19P13.2) WILD-TYPE | 158 | 22 | 52 |
P value = 0.0182 (logrank test), Q value = 0.08
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 1(1P36.31) MUTATED | 50 | 11 | 0.1 - 123.6 (16.3) |
DEL PEAK 1(1P36.31) WILD-TYPE | 206 | 23 | 0.1 - 194.8 (23.3) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 1(1P36.31) MUTATED | 16 | 3 | 22 | 4 |
DEL PEAK 1(1P36.31) WILD-TYPE | 151 | 18 | 27 | 10 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 1(1P36.31) MUTATED | 19 | 5 | 24 |
DEL PEAK 1(1P36.31) WILD-TYPE | 157 | 24 | 32 |
P value = 0.00346 (Fisher's exact test), Q value = 0.021
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 1(1P36.31) MUTATED | 7 | 12 | 1 |
DEL PEAK 1(1P36.31) WILD-TYPE | 38 | 10 | 3 |
P value = 0.0528 (Fisher's exact test), Q value = 0.18
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 1(1P36.31) MUTATED | 19 | 31 |
DEL PEAK 1(1P36.31) WILD-TYPE | 53 | 166 |
P value = 0.00253 (Wilcoxon-test), Q value = 0.017
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
DEL PEAK 1(1P36.31) MUTATED | 13 | 83.1 (25.6) |
DEL PEAK 1(1P36.31) WILD-TYPE | 47 | 94.5 (10.6) |
P value = 0.04 (Fisher's exact test), Q value = 0.14
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 2(2P12) MUTATED | 1 | 0 | 3 | 1 |
DEL PEAK 2(2P12) WILD-TYPE | 166 | 21 | 46 | 13 |
P value = 0.0307 (Fisher's exact test), Q value = 0.12
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 2(2P12) MUTATED | 1 | 2 | 2 |
DEL PEAK 2(2P12) WILD-TYPE | 175 | 27 | 54 |
P value = 0.0012 (Fisher's exact test), Q value = 0.011
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 3(2Q22.1) MUTATED | 1 | 0 | 6 | 1 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 166 | 21 | 43 | 13 |
P value = 0.00346 (Fisher's exact test), Q value = 0.021
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 3(2Q22.1) MUTATED | 2 | 0 | 6 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 174 | 29 | 50 |
P value = 0.00905 (Fisher's exact test), Q value = 0.046
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 4(2Q37.3) MUTATED | 2 | 2 | 5 | 0 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 165 | 19 | 44 | 14 |
P value = 0.00403 (Fisher's exact test), Q value = 0.023
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 4(2Q37.3) MUTATED | 2 | 3 | 5 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 174 | 26 | 51 |
P value = 0.0737 (Fisher's exact test), Q value = 0.23
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 4(2Q37.3) MUTATED | 6 | 5 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 66 | 192 |
P value = 0.00217 (logrank test), Q value = 0.015
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 5(3P22.1) MUTATED | 23 | 7 | 0.1 - 86.3 (14.1) |
DEL PEAK 5(3P22.1) WILD-TYPE | 233 | 27 | 0.1 - 194.8 (22.1) |
P value = 0.0343 (Wilcoxon-test), Q value = 0.13
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
DEL PEAK 5(3P22.1) MUTATED | 22 | 55.4 (12.6) |
DEL PEAK 5(3P22.1) WILD-TYPE | 242 | 61.8 (12.1) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 5(3P22.1) MUTATED | 5 | 1 | 14 | 3 |
DEL PEAK 5(3P22.1) WILD-TYPE | 162 | 20 | 35 | 11 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00046
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 3 | 14 |
DEL PEAK 5(3P22.1) WILD-TYPE | 170 | 26 | 42 |
P value = 0.078 (Fisher's exact test), Q value = 0.24
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 8 | 1 |
DEL PEAK 5(3P22.1) WILD-TYPE | 39 | 14 | 3 |
P value = 0.00153 (logrank test), Q value = 0.013
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 6(4Q34.3) MUTATED | 29 | 8 | 0.1 - 79.9 (13.7) |
DEL PEAK 6(4Q34.3) WILD-TYPE | 227 | 26 | 0.1 - 194.8 (22.3) |
P value = 2e-05 (Fisher's exact test), Q value = 0.00046
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 6(4Q34.3) MUTATED | 7 | 2 | 16 | 2 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 160 | 19 | 33 | 12 |
P value = 8e-05 (Fisher's exact test), Q value = 0.0012
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 6(4Q34.3) MUTATED | 9 | 4 | 15 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 167 | 25 | 41 |
P value = 0.0147 (Fisher's exact test), Q value = 0.068
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 6(4Q34.3) MUTATED | 14 | 16 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 58 | 181 |
P value = 0.0283 (Fisher's exact test), Q value = 0.11
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 60 | 187 |
DEL PEAK 6(4Q34.3) MUTATED | 0 | 3 | 6 | 17 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 2 | 2 | 54 | 170 |
P value = 0.0382 (Fisher's exact test), Q value = 0.14
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 7(5P15.33) MUTATED | 5 | 0 | 5 | 2 |
DEL PEAK 7(5P15.33) WILD-TYPE | 162 | 21 | 44 | 12 |
P value = 0.0218 (Fisher's exact test), Q value = 0.093
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 7(5P15.33) MUTATED | 5 | 1 | 7 |
DEL PEAK 7(5P15.33) WILD-TYPE | 171 | 28 | 49 |
P value = 0.00272 (Fisher's exact test), Q value = 0.018
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 7(5P15.33) MUTATED | 0 | 5 | 1 |
DEL PEAK 7(5P15.33) WILD-TYPE | 45 | 17 | 3 |
P value = 0.047 (Fisher's exact test), Q value = 0.16
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 7(5P15.33) MUTATED | 7 | 6 |
DEL PEAK 7(5P15.33) WILD-TYPE | 65 | 191 |
P value = 8.06e-05 (logrank test), Q value = 0.0012
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 8(5Q35.2) MUTATED | 10 | 5 | 2.8 - 79.9 (18.9) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 246 | 29 | 0.1 - 194.8 (21.5) |
P value = 0.00481 (Wilcoxon-test), Q value = 0.026
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
DEL PEAK 8(5Q35.2) MUTATED | 10 | 46.8 (17.3) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 254 | 61.9 (11.7) |
P value = 0.00028 (Fisher's exact test), Q value = 0.0035
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 7 | 1 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 166 | 20 | 42 | 13 |
P value = 3e-05 (Fisher's exact test), Q value = 0.00066
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 9 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 175 | 28 | 47 |
P value = 0.0733 (Fisher's exact test), Q value = 0.23
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 4 | 0 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 44 | 18 | 4 |
P value = 0.00979 (Fisher's exact test), Q value = 0.049
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 8(5Q35.2) MUTATED | 7 | 4 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 65 | 193 |
P value = 0.00162 (Fisher's exact test), Q value = 0.013
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 9(6P12.3) MUTATED | 9 | 0 | 11 | 2 |
DEL PEAK 9(6P12.3) WILD-TYPE | 158 | 21 | 38 | 12 |
P value = 0.00198 (Fisher's exact test), Q value = 0.014
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 9(6P12.3) MUTATED | 10 | 1 | 12 |
DEL PEAK 9(6P12.3) WILD-TYPE | 166 | 28 | 44 |
P value = 0.0598 (Fisher's exact test), Q value = 0.2
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 9(6P12.3) MUTATED | 5 | 1 | 2 |
DEL PEAK 9(6P12.3) WILD-TYPE | 40 | 21 | 2 |
P value = 0.00357 (Fisher's exact test), Q value = 0.022
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 10(6Q22.31) MUTATED | 12 | 0 | 11 | 3 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 155 | 21 | 38 | 11 |
P value = 0.00048 (Fisher's exact test), Q value = 0.0051
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 10(6Q22.31) MUTATED | 12 | 1 | 14 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 164 | 28 | 42 |
P value = 0.0754 (Fisher's exact test), Q value = 0.23
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 10(6Q22.31) MUTATED | 4 | 4 | 2 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 41 | 18 | 2 |
P value = 0.0117 (Fisher's exact test), Q value = 0.057
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 10(6Q22.31) MUTATED | 13 | 14 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 59 | 183 |
P value = 0.00025 (Fisher's exact test), Q value = 0.0032
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 11(6Q25.3) MUTATED | 12 | 0 | 14 | 2 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 155 | 21 | 35 | 12 |
P value = 5e-05 (Fisher's exact test), Q value = 0.00089
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 11(6Q25.3) MUTATED | 12 | 1 | 16 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 164 | 28 | 40 |
P value = 0.00303 (Fisher's exact test), Q value = 0.02
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 11(6Q25.3) MUTATED | 15 | 14 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 57 | 183 |
P value = 1.91e-07 (logrank test), Q value = 3.6e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 12(9P21.3) MUTATED | 36 | 14 | 0.1 - 93.3 (16.5) |
DEL PEAK 12(9P21.3) WILD-TYPE | 220 | 20 | 0.1 - 194.8 (23.3) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 12(9P21.3) MUTATED | 10 | 0 | 18 | 6 |
DEL PEAK 12(9P21.3) WILD-TYPE | 157 | 21 | 31 | 8 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 12(9P21.3) MUTATED | 11 | 3 | 22 |
DEL PEAK 12(9P21.3) WILD-TYPE | 165 | 26 | 34 |
P value = 0.00022 (Fisher's exact test), Q value = 0.0029
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 12(9P21.3) MUTATED | 6 | 13 | 2 |
DEL PEAK 12(9P21.3) WILD-TYPE | 39 | 9 | 2 |
P value = 0.0215 (Fisher's exact test), Q value = 0.093
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
DEL PEAK 12(9P21.3) MUTATED | 10 | 4 |
DEL PEAK 12(9P21.3) WILD-TYPE | 80 | 5 |
P value = 0.00483 (Fisher's exact test), Q value = 0.026
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 12(9P21.3) MUTATED | 18 | 20 |
DEL PEAK 12(9P21.3) WILD-TYPE | 54 | 177 |
P value = 0.00947 (Wilcoxon-test), Q value = 0.048
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
DEL PEAK 12(9P21.3) MUTATED | 12 | 83.3 (26.7) |
DEL PEAK 12(9P21.3) WILD-TYPE | 48 | 94.2 (10.7) |
P value = 9e-05 (Fisher's exact test), Q value = 0.0013
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 13(10Q21.1) MUTATED | 4 | 0 | 11 | 1 |
DEL PEAK 13(10Q21.1) WILD-TYPE | 163 | 21 | 38 | 13 |
P value = 0.00079 (Fisher's exact test), Q value = 0.0077
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 13(10Q21.1) MUTATED | 6 | 0 | 10 |
DEL PEAK 13(10Q21.1) WILD-TYPE | 170 | 29 | 46 |
P value = 0.0314 (Fisher's exact test), Q value = 0.12
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 13(10Q21.1) MUTATED | 2 | 5 | 1 |
DEL PEAK 13(10Q21.1) WILD-TYPE | 43 | 17 | 3 |
P value = 0.00095 (logrank test), Q value = 0.0091
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 14(11Q22.3) MUTATED | 28 | 9 | 0.1 - 123.6 (13.1) |
DEL PEAK 14(11Q22.3) WILD-TYPE | 228 | 25 | 0.1 - 194.8 (22.4) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 14(11Q22.3) MUTATED | 7 | 3 | 14 | 5 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 160 | 18 | 35 | 9 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 14(11Q22.3) MUTATED | 8 | 5 | 16 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 168 | 24 | 40 |
P value = 0.00197 (Fisher's exact test), Q value = 0.014
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 14(11Q22.3) MUTATED | 3 | 8 | 2 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 42 | 14 | 2 |
P value = 0.0758 (Fisher's exact test), Q value = 0.23
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
DEL PEAK 14(11Q22.3) MUTATED | 9 | 3 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 81 | 6 |
P value = 4.06e-05 (logrank test), Q value = 0.00084
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 15(11Q23.3) MUTATED | 26 | 10 | 0.1 - 123.6 (13.1) |
DEL PEAK 15(11Q23.3) WILD-TYPE | 230 | 24 | 0.1 - 194.8 (22.2) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 15(11Q23.3) MUTATED | 5 | 2 | 15 | 5 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 162 | 19 | 34 | 9 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 15(11Q23.3) MUTATED | 6 | 4 | 17 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 170 | 25 | 39 |
P value = 0.00203 (Fisher's exact test), Q value = 0.015
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 15(11Q23.3) MUTATED | 3 | 8 | 2 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 42 | 14 | 2 |
P value = 0.0598 (Fisher's exact test), Q value = 0.2
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
DEL PEAK 15(11Q23.3) MUTATED | 8 | 3 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 82 | 6 |
P value = 0.00498 (logrank test), Q value = 0.027
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 16(14Q11.2) MUTATED | 47 | 10 | 0.1 - 80.9 (17.3) |
DEL PEAK 16(14Q11.2) WILD-TYPE | 209 | 24 | 0.1 - 194.8 (22.3) |
P value = 0.00647 (Fisher's exact test), Q value = 0.034
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 16(14Q11.2) MUTATED | 22 | 3 | 14 | 6 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 145 | 18 | 35 | 8 |
P value = 0.00162 (Fisher's exact test), Q value = 0.013
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 16(14Q11.2) MUTATED | 24 | 4 | 20 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 152 | 25 | 36 |
P value = 0.0423 (Fisher's exact test), Q value = 0.15
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 16(14Q11.2) MUTATED | 9 | 8 | 3 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 36 | 14 | 1 |
P value = 0.0317 (Fisher's exact test), Q value = 0.12
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 16(14Q11.2) MUTATED | 19 | 29 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 53 | 168 |
P value = 0.00158 (logrank test), Q value = 0.013
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 17(14Q24.2) MUTATED | 47 | 11 | 0.1 - 80.9 (17.3) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 209 | 23 | 0.1 - 194.8 (22.5) |
P value = 0.00155 (Fisher's exact test), Q value = 0.013
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 17(14Q24.2) MUTATED | 20 | 3 | 15 | 6 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 147 | 18 | 34 | 8 |
P value = 0.00021 (Fisher's exact test), Q value = 0.0029
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 17(14Q24.2) MUTATED | 22 | 4 | 21 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 154 | 25 | 35 |
P value = 0.0146 (Fisher's exact test), Q value = 0.068
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 17(14Q24.2) MUTATED | 8 | 9 | 3 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 37 | 13 | 1 |
P value = 0.0286 (Fisher's exact test), Q value = 0.11
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 17(14Q24.2) MUTATED | 19 | 28 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 53 | 169 |
P value = 0.0732 (Wilcoxon-test), Q value = 0.23
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
DEL PEAK 17(14Q24.2) MUTATED | 12 | 85.0 (27.1) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 48 | 93.8 (10.8) |
P value = 0.0369 (Wilcoxon-test), Q value = 0.14
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 51 | 1972.4 (15.9) |
DEL PEAK 17(14Q24.2) MUTATED | 8 | 1983.8 (15.3) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 43 | 1970.3 (15.3) |
P value = 0.000304 (logrank test), Q value = 0.0035
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 18(15Q13.3) MUTATED | 32 | 9 | 0.1 - 194.8 (13.0) |
DEL PEAK 18(15Q13.3) WILD-TYPE | 224 | 25 | 0.1 - 129.9 (23.6) |
P value = 0.0746 (Wilcoxon-test), Q value = 0.23
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
DEL PEAK 18(15Q13.3) MUTATED | 32 | 57.0 (14.6) |
DEL PEAK 18(15Q13.3) WILD-TYPE | 232 | 61.9 (11.8) |
P value = 4e-04 (Fisher's exact test), Q value = 0.0044
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 18(15Q13.3) MUTATED | 12 | 1 | 12 | 5 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 155 | 20 | 37 | 9 |
P value = 8e-05 (Fisher's exact test), Q value = 0.0012
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 18(15Q13.3) MUTATED | 14 | 1 | 17 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 162 | 28 | 39 |
P value = 0.00281 (Fisher's exact test), Q value = 0.019
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 18(15Q13.3) MUTATED | 4 | 10 | 1 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 41 | 12 | 3 |
P value = 0.00476 (Wilcoxon-test), Q value = 0.026
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
DEL PEAK 18(15Q13.3) MUTATED | 8 | 78.8 (31.8) |
DEL PEAK 18(15Q13.3) WILD-TYPE | 52 | 94.0 (10.5) |
P value = 1.05e-08 (logrank test), Q value = 3.9e-06
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 19(16Q24.1) MUTATED | 10 | 6 | 0.4 - 51.5 (14.9) |
DEL PEAK 19(16Q24.1) WILD-TYPE | 246 | 28 | 0.1 - 194.8 (22.0) |
P value = 0.00381 (Fisher's exact test), Q value = 0.022
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 19(16Q24.1) MUTATED | 3 | 0 | 6 | 2 |
DEL PEAK 19(16Q24.1) WILD-TYPE | 164 | 21 | 43 | 12 |
P value = 0.00733 (Fisher's exact test), Q value = 0.038
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 19(16Q24.1) MUTATED | 4 | 0 | 7 |
DEL PEAK 19(16Q24.1) WILD-TYPE | 172 | 29 | 49 |
P value = 0.0106 (logrank test), Q value = 0.052
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 20(19P13.3) MUTATED | 20 | 4 | 0.1 - 54.6 (13.5) |
DEL PEAK 20(19P13.3) WILD-TYPE | 236 | 30 | 0.1 - 194.8 (22.7) |
P value = 0.00139 (Fisher's exact test), Q value = 0.013
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 20(19P13.3) MUTATED | 6 | 1 | 10 | 2 |
DEL PEAK 20(19P13.3) WILD-TYPE | 161 | 20 | 39 | 12 |
P value = 0.00029 (Fisher's exact test), Q value = 0.0035
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 20(19P13.3) MUTATED | 7 | 1 | 12 |
DEL PEAK 20(19P13.3) WILD-TYPE | 169 | 28 | 44 |
P value = 0.0315 (Fisher's exact test), Q value = 0.12
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 20(19P13.3) MUTATED | 2 | 5 | 1 |
DEL PEAK 20(19P13.3) WILD-TYPE | 43 | 17 | 3 |
P value = 0.00532 (Wilcoxon-test), Q value = 0.028
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 60 | 92.0 (15.6) |
DEL PEAK 20(19P13.3) MUTATED | 8 | 77.5 (32.0) |
DEL PEAK 20(19P13.3) WILD-TYPE | 52 | 94.2 (10.2) |
P value = 0.00035 (Fisher's exact test), Q value = 0.0039
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 21(19Q13.42) MUTATED | 5 | 1 | 11 | 1 |
DEL PEAK 21(19Q13.42) WILD-TYPE | 162 | 20 | 38 | 13 |
P value = 2e-04 (Fisher's exact test), Q value = 0.0029
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 21(19Q13.42) MUTATED | 6 | 1 | 12 |
DEL PEAK 21(19Q13.42) WILD-TYPE | 170 | 28 | 44 |
P value = 0.0398 (logrank test), Q value = 0.14
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 22(22Q12.2) MUTATED | 59 | 12 | 0.1 - 123.6 (18.2) |
DEL PEAK 22(22Q12.2) WILD-TYPE | 197 | 22 | 0.1 - 194.8 (22.3) |
P value = 0.0559 (Wilcoxon-test), Q value = 0.19
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
DEL PEAK 22(22Q12.2) MUTATED | 58 | 58.1 (13.6) |
DEL PEAK 22(22Q12.2) WILD-TYPE | 206 | 62.2 (11.7) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 22(22Q12.2) MUTATED | 21 | 3 | 25 | 7 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 146 | 18 | 24 | 7 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 22(22Q12.2) MUTATED | 23 | 6 | 29 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 153 | 23 | 27 |
P value = 0.00195 (Fisher's exact test), Q value = 0.014
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 22(22Q12.2) MUTATED | 10 | 14 | 2 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 35 | 8 | 2 |
P value = 0.0596 (Fisher's exact test), Q value = 0.2
nPatients | 0 | 1 |
---|---|---|
ALL | 90 | 9 |
DEL PEAK 22(22Q12.2) MUTATED | 22 | 5 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 68 | 4 |
P value = 0.00158 (Fisher's exact test), Q value = 0.013
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 22(22Q12.2) MUTATED | 26 | 34 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 46 | 163 |
P value = 0.00181 (logrank test), Q value = 0.014
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 23(XP11.4) MUTATED | 29 | 9 | 0.1 - 86.3 (18.0) |
DEL PEAK 23(XP11.4) WILD-TYPE | 227 | 25 | 0.1 - 194.8 (22.3) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00027
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 23(XP11.4) MUTATED | 8 | 1 | 16 | 2 |
DEL PEAK 23(XP11.4) WILD-TYPE | 159 | 20 | 33 | 12 |
P value = 5e-05 (Fisher's exact test), Q value = 0.00089
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 23(XP11.4) MUTATED | 10 | 3 | 16 |
DEL PEAK 23(XP11.4) WILD-TYPE | 166 | 26 | 40 |
P value = 0.0787 (Fisher's exact test), Q value = 0.24
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 23(XP11.4) MUTATED | 5 | 7 | 1 |
DEL PEAK 23(XP11.4) WILD-TYPE | 40 | 15 | 3 |
P value = 0.0147 (Fisher's exact test), Q value = 0.068
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 23(XP11.4) MUTATED | 14 | 16 |
DEL PEAK 23(XP11.4) WILD-TYPE | 58 | 181 |
P value = 0.0132 (Fisher's exact test), Q value = 0.063
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 60 | 187 |
DEL PEAK 23(XP11.4) MUTATED | 0 | 3 | 9 | 16 |
DEL PEAK 23(XP11.4) WILD-TYPE | 2 | 2 | 51 | 171 |
P value = 4.42e-05 (logrank test), Q value = 0.00086
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 256 | 34 | 0.1 - 194.8 (21.4) |
DEL PEAK 24(XQ28) MUTATED | 24 | 9 | 0.1 - 86.3 (15.5) |
DEL PEAK 24(XQ28) WILD-TYPE | 232 | 25 | 0.1 - 194.8 (22.4) |
P value = 0.0253 (Wilcoxon-test), Q value = 0.1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 264 | 61.3 (12.2) |
DEL PEAK 24(XQ28) MUTATED | 24 | 55.0 (13.9) |
DEL PEAK 24(XQ28) WILD-TYPE | 240 | 61.9 (11.9) |
P value = 0.00073 (Fisher's exact test), Q value = 0.0073
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 167 | 21 | 49 | 14 |
DEL PEAK 24(XQ28) MUTATED | 8 | 1 | 12 | 2 |
DEL PEAK 24(XQ28) WILD-TYPE | 159 | 20 | 37 | 12 |
P value = 0.00317 (Fisher's exact test), Q value = 0.02
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 176 | 29 | 56 |
DEL PEAK 24(XQ28) MUTATED | 10 | 2 | 12 |
DEL PEAK 24(XQ28) WILD-TYPE | 166 | 27 | 44 |
P value = 0.0221 (Fisher's exact test), Q value = 0.093
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 45 | 22 | 4 |
DEL PEAK 24(XQ28) MUTATED | 3 | 7 | 1 |
DEL PEAK 24(XQ28) WILD-TYPE | 42 | 15 | 3 |
P value = 0.0171 (Fisher's exact test), Q value = 0.077
nPatients | FEMALE | MALE |
---|---|---|
ALL | 72 | 197 |
DEL PEAK 24(XQ28) MUTATED | 12 | 13 |
DEL PEAK 24(XQ28) WILD-TYPE | 60 | 184 |
P value = 0.085 (Fisher's exact test), Q value = 0.25
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 60 | 187 |
DEL PEAK 24(XQ28) MUTATED | 0 | 2 | 7 | 14 |
DEL PEAK 24(XQ28) WILD-TYPE | 2 | 3 | 53 | 173 |
-
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/KIRP-TP/15087100/transformed.cor.cli.txt
-
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/KIRP-TP/15081779/KIRP-TP.merged_data.txt
-
Number of patients = 269
-
Number of significantly focal cnvs = 31
-
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 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.