This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between copy number variation 28 focal events and 12 clinical features across 288 patients, 124 significant findings detected with Q value < 0.25.
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amp_2p23.2 cnv correlated to 'PATHOLOGY_N_STAGE' and 'PATHOLOGY_M_STAGE'.
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amp_2q32.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'PATHOLOGY_M_STAGE'.
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amp_3q26.31 cnv correlated to 'PATHOLOGY_M_STAGE'.
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amp_5q35.3 cnv correlated to 'PATHOLOGIC_STAGE' and 'PATHOLOGY_T_STAGE'.
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amp_7p11.2 cnv correlated to 'PATHOLOGIC_STAGE', 'GENDER', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.
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amp_7q31.2 cnv correlated to 'PATHOLOGIC_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.
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amp_17q23.2 cnv correlated to 'PATHOLOGIC_STAGE' and 'GENDER'.
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del_1p36.31 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_2p12 cnv correlated to 'PATHOLOGIC_STAGE' and 'PATHOLOGY_T_STAGE'.
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del_2q22.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.
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del_2q37.3 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', and 'GENDER'.
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del_3p22.1 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'PATHOLOGY_M_STAGE'.
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del_4q34.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'RACE'.
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del_5p15.33 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
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del_5q35.2 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'GENDER'.
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del_6p12.3 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_6q25.3 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_9p21.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'RACE'.
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del_10q21.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_11q22.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_11q23.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_14q11.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_14q24.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.
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del_15q13.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_16q24.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', and 'PATHOLOGY_T_STAGE'.
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del_19p13.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_19q13.42 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_22q12.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
Clinical Features |
Time to Death |
YEARS TO BIRTH |
PATHOLOGIC STAGE |
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 | 40 (14%) | 248 |
4.65e-10 (1.56e-07) |
0.617 (0.816) |
1e-05 (0.000187) |
1e-05 (0.000187) |
0.00018 (0.00195) |
0.0243 (0.0908) |
0.00187 (0.011) |
0.00303 (0.0159) |
0.388 (0.623) |
0.478 (0.702) |
0.0577 (0.171) |
1 (1.00) |
del 14q24 2 | 50 (17%) | 238 |
5.44e-05 (0.000761) |
0.679 (0.86) |
0.0028 (0.0149) |
0.0001 (0.00116) |
0.00063 (0.00504) |
0.166 (0.399) |
0.00805 (0.0361) |
0.00896 (0.0393) |
0.476 (0.702) |
0.0756 (0.213) |
0.957 (1.00) |
0.697 (0.867) |
del 22q12 2 | 63 (22%) | 225 |
0.00238 (0.0136) |
0.0937 (0.252) |
1e-05 (0.000187) |
1e-05 (0.000187) |
0.00176 (0.0106) |
0.0591 (0.173) |
0.0012 (0.00775) |
0.00113 (0.00747) |
0.468 (0.701) |
0.216 (0.479) |
0.332 (0.58) |
0.713 (0.881) |
del 1p36 31 | 54 (19%) | 234 |
2.28e-05 (0.000349) |
0.225 (0.493) |
1e-05 (0.000187) |
1e-05 (0.000187) |
0.00087 (0.00635) |
0.19 (0.449) |
0.026 (0.0927) |
0.00173 (0.0106) |
0.848 (0.983) |
0.201 (0.462) |
0.681 (0.86) |
0.699 (0.867) |
del 3p22 1 | 25 (9%) | 263 |
2.24e-07 (3.76e-05) |
0.0257 (0.0927) |
1e-05 (0.000187) |
1e-05 (0.000187) |
0.0249 (0.0918) |
0.085 (0.232) |
0.816 (0.962) |
0.264 (0.528) |
0.648 (0.84) |
0.3 (0.548) |
0.672 (0.858) |
0.607 (0.813) |
del 4q34 3 | 32 (11%) | 256 |
2.2e-06 (0.000184) |
0.387 (0.623) |
1e-05 (0.000187) |
2e-05 (0.00032) |
0.0268 (0.0927) |
0.353 (0.605) |
0.00947 (0.0398) |
0.2 (0.462) |
0.577 (0.801) |
0.959 (1.00) |
0.0523 (0.158) |
0.357 (0.609) |
del 5q35 2 | 11 (4%) | 277 |
0.000775 (0.00579) |
0.0044 (0.0211) |
0.0003 (0.0028) |
5e-05 (0.00073) |
0.0708 (0.202) |
0.31 (0.555) |
0.00907 (0.0393) |
0.765 (0.918) |
0.292 (0.544) |
|||
del 11q22 3 | 31 (11%) | 257 |
7.11e-05 (0.000919) |
0.442 (0.681) |
1e-05 (0.000187) |
1e-05 (0.000187) |
0.0001 (0.00116) |
0.0685 (0.198) |
0.517 (0.749) |
0.044 (0.141) |
0.417 (0.657) |
0.503 (0.731) |
0.274 (0.538) |
0.619 (0.816) |
del 11q23 3 | 29 (10%) | 259 |
1.38e-06 (0.000154) |
0.44 (0.681) |
1e-05 (0.000187) |
1e-05 (0.000187) |
9e-05 (0.00112) |
0.0539 (0.162) |
0.828 (0.966) |
0.044 (0.141) |
0.897 (1.00) |
0.967 (1.00) |
0.195 (0.455) |
0.612 (0.816) |
del 14q11 2 | 51 (18%) | 237 |
0.000625 (0.00504) |
0.55 (0.784) |
0.0113 (0.0471) |
0.00046 (0.00396) |
0.00244 (0.0137) |
0.384 (0.623) |
0.0134 (0.0542) |
0.0224 (0.0854) |
0.659 (0.848) |
0.315 (0.56) |
1 (1.00) |
0.698 (0.867) |
del 15q13 3 | 35 (12%) | 253 |
0.00092 (0.00644) |
0.111 (0.281) |
0.00023 (0.00241) |
2e-05 (0.00032) |
0.00029 (0.00278) |
0.0849 (0.232) |
0.306 (0.555) |
0.0278 (0.0952) |
0.914 (1.00) |
0.985 (1.00) |
0.567 (0.797) |
1 (1.00) |
del 6q25 3 | 32 (11%) | 256 |
0.27 (0.536) |
0.94 (1.00) |
0.00024 (0.00244) |
2e-05 (0.00032) |
0.02 (0.0771) |
0.598 (0.811) |
0.00249 (0.0137) |
0.0429 (0.14) |
0.941 (1.00) |
0.572 (0.798) |
0.164 (0.397) |
0.619 (0.816) |
del 19p13 3 | 23 (8%) | 265 |
0.000719 (0.00549) |
0.762 (0.918) |
0.00067 (0.00524) |
0.00012 (0.00134) |
0.0157 (0.062) |
0.431 (0.673) |
0.333 (0.58) |
0.00144 (0.00911) |
0.104 (0.272) |
0.548 (0.783) |
0.607 (0.813) |
|
amp 2q32 1 | 53 (18%) | 235 |
0.288 (0.544) |
0.467 (0.701) |
0.0467 (0.147) |
0.0493 (0.152) |
0.0171 (0.067) |
0.0129 (0.0528) |
0.493 (0.721) |
0.251 (0.511) |
0.989 (1.00) |
0.591 (0.81) |
0.854 (0.986) |
1 (1.00) |
amp 7q31 2 | 177 (61%) | 111 |
0.287 (0.544) |
0.477 (0.702) |
0.00396 (0.0201) |
0.111 (0.281) |
0.106 (0.275) |
0.728 (0.893) |
0.00911 (0.0393) |
0.0843 (0.232) |
0.76 (0.918) |
0.0042 (0.0205) |
0.291 (0.544) |
0.368 (0.62) |
del 5p15 33 | 13 (5%) | 275 |
0.285 (0.544) |
0.173 (0.412) |
0.0285 (0.0969) |
0.0263 (0.0927) |
0.00258 (0.014) |
0.373 (0.62) |
0.0461 (0.146) |
0.245 (0.505) |
0.882 (1.00) |
1 (1.00) |
0.36 (0.611) |
|
del 6p12 3 | 26 (9%) | 262 |
0.238 (0.505) |
0.795 (0.944) |
0.00101 (0.0069) |
0.00051 (0.00428) |
0.00459 (0.0217) |
0.592 (0.81) |
0.352 (0.605) |
0.0364 (0.122) |
0.65 (0.84) |
0.929 (1.00) |
0.245 (0.505) |
0.607 (0.813) |
del 19q13 42 | 19 (7%) | 269 |
0.0489 (0.152) |
0.583 (0.806) |
0.00036 (0.00318) |
0.00026 (0.00257) |
0.209 (0.472) |
1 (1.00) |
0.595 (0.81) |
0.0267 (0.0927) |
0.924 (1.00) |
0.227 (0.494) |
0.25 (0.511) |
1 (1.00) |
amp 7p11 2 | 175 (61%) | 113 |
0.378 (0.62) |
0.372 (0.62) |
0.004 (0.0201) |
0.128 (0.322) |
0.688 (0.863) |
0.294 (0.544) |
0.00103 (0.0069) |
0.0947 (0.253) |
0.956 (1.00) |
0.0072 (0.0332) |
0.236 (0.505) |
0.377 (0.62) |
del 2q22 1 | 10 (3%) | 278 |
0.626 (0.82) |
0.409 (0.651) |
0.00036 (0.00318) |
0.00312 (0.0161) |
0.0708 (0.202) |
0.31 (0.555) |
0.299 (0.548) |
0.455 (0.69) |
0.765 (0.918) |
0.571 (0.798) |
0.763 (0.918) |
1 (1.00) |
del 2q37 3 | 12 (4%) | 276 |
0.75 (0.916) |
0.53 (0.761) |
0.00787 (0.0357) |
0.00421 (0.0205) |
0.674 (0.858) |
1 (1.00) |
0.088 (0.238) |
0.567 (0.797) |
0.834 (0.97) |
0.8 (0.946) |
1 (1.00) |
|
del 10q21 1 | 19 (7%) | 269 |
0.107 (0.276) |
0.937 (1.00) |
6e-05 (0.000806) |
0.00089 (0.00636) |
0.11 (0.281) |
1 (1.00) |
0.289 (0.544) |
0.0496 (0.152) |
0.262 (0.526) |
0.644 (0.838) |
0.429 (0.673) |
1 (1.00) |
del 16q24 2 | 12 (4%) | 276 |
2.88e-06 (0.000187) |
0.216 (0.479) |
0.00177 (0.0106) |
0.00218 (0.0126) |
0.209 (0.472) |
0.373 (0.62) |
0.523 (0.754) |
0.153 (0.379) |
0.31 (0.555) |
0.96 (1.00) |
0.351 (0.605) |
1 (1.00) |
amp 2p23 2 | 45 (16%) | 243 |
0.415 (0.657) |
0.242 (0.505) |
0.287 (0.544) |
0.325 (0.574) |
0.00549 (0.0256) |
0.0243 (0.0908) |
0.271 (0.536) |
0.294 (0.544) |
0.237 (0.505) |
0.772 (0.923) |
0.909 (1.00) |
1 (1.00) |
amp 5q35 3 | 37 (13%) | 251 |
0.161 (0.394) |
0.451 (0.689) |
0.0405 (0.135) |
0.0268 (0.0927) |
0.293 (0.544) |
0.627 (0.82) |
0.554 (0.785) |
0.15 (0.373) |
0.918 (1.00) |
0.918 (1.00) |
0.382 (0.623) |
0.375 (0.62) |
amp 17q23 2 | 199 (69%) | 89 |
0.825 (0.966) |
0.257 (0.519) |
0.0839 (0.232) |
0.203 (0.464) |
0.475 (0.702) |
1 (1.00) |
0.0422 (0.139) |
0.82 (0.963) |
0.776 (0.925) |
0.239 (0.505) |
0.103 (0.272) |
0.191 (0.449) |
del 2p12 | 8 (3%) | 280 |
0.391 (0.625) |
0.722 (0.889) |
0.00928 (0.0395) |
0.0142 (0.0567) |
0.671 (0.858) |
0.242 (0.505) |
0.686 (0.863) |
0.447 (0.685) |
0.216 (0.479) |
1 (1.00) |
1 (1.00) |
|
amp 3q26 31 | 101 (35%) | 187 |
0.927 (1.00) |
0.476 (0.702) |
0.244 (0.505) |
0.282 (0.544) |
1 (1.00) |
0.0581 (0.171) |
0.33 (0.58) |
0.596 (0.81) |
0.433 (0.673) |
0.456 (0.69) |
0.164 (0.397) |
1 (1.00) |
P value = 0.00549 (Fisher's exact test), Q value = 0.026
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
AMP PEAK 1(2P23.2) MUTATED | 4 | 8 | 2 |
AMP PEAK 1(2P23.2) WILD-TYPE | 45 | 16 | 2 |
P value = 0.0243 (Fisher's exact test), Q value = 0.091
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
AMP PEAK 1(2P23.2) MUTATED | 11 | 4 |
AMP PEAK 1(2P23.2) WILD-TYPE | 83 | 5 |
P value = 0.0467 (Fisher's exact test), Q value = 0.15
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 4 | 12 | 7 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 143 | 17 | 40 | 8 |
P value = 0.0493 (Fisher's exact test), Q value = 0.15
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 8 | 17 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 163 | 25 | 45 |
P value = 0.0171 (Fisher's exact test), Q value = 0.067
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
AMP PEAK 2(2Q32.1) MUTATED | 9 | 9 | 3 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 40 | 15 | 1 |
P value = 0.0129 (Fisher's exact test), Q value = 0.053
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
AMP PEAK 2(2Q32.1) MUTATED | 15 | 5 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 79 | 4 |
P value = 0.0581 (Fisher's exact test), Q value = 0.17
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
AMP PEAK 3(3Q26.31) MUTATED | 29 | 0 |
AMP PEAK 3(3Q26.31) WILD-TYPE | 65 | 9 |
P value = 0.0405 (Fisher's exact test), Q value = 0.13
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
AMP PEAK 4(5Q35.3) MUTATED | 16 | 2 | 11 | 4 |
AMP PEAK 4(5Q35.3) WILD-TYPE | 155 | 19 | 41 | 11 |
P value = 0.0268 (Fisher's exact test), Q value = 0.093
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
AMP PEAK 4(5Q35.3) MUTATED | 18 | 5 | 14 |
AMP PEAK 4(5Q35.3) WILD-TYPE | 173 | 28 | 48 |
P value = 0.004 (Fisher's exact test), Q value = 0.02
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
AMP PEAK 5(7P11.2) MUTATED | 113 | 12 | 21 | 12 |
AMP PEAK 5(7P11.2) WILD-TYPE | 58 | 9 | 31 | 3 |
P value = 0.00103 (Fisher's exact test), Q value = 0.0069
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
AMP PEAK 5(7P11.2) MUTATED | 34 | 141 |
AMP PEAK 5(7P11.2) WILD-TYPE | 42 | 71 |
P value = 0.0072 (Wilcoxon-test), Q value = 0.033
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 54 | 1972.5 (15.7) |
AMP PEAK 5(7P11.2) MUTATED | 31 | 1967.6 (14.7) |
AMP PEAK 5(7P11.2) WILD-TYPE | 23 | 1979.0 (14.8) |
P value = 0.00396 (Fisher's exact test), Q value = 0.02
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
AMP PEAK 6(7Q31.2) MUTATED | 113 | 12 | 21 | 12 |
AMP PEAK 6(7Q31.2) WILD-TYPE | 58 | 9 | 31 | 3 |
P value = 0.00911 (Fisher's exact test), Q value = 0.039
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
AMP PEAK 6(7Q31.2) MUTATED | 37 | 140 |
AMP PEAK 6(7Q31.2) WILD-TYPE | 39 | 72 |
P value = 0.0843 (Wilcoxon-test), Q value = 0.23
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
AMP PEAK 6(7Q31.2) MUTATED | 54 | 89.8 (19.6) |
AMP PEAK 6(7Q31.2) WILD-TYPE | 22 | 81.8 (26.8) |
P value = 0.0042 (Wilcoxon-test), Q value = 0.021
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 54 | 1972.5 (15.7) |
AMP PEAK 6(7Q31.2) MUTATED | 32 | 1967.6 (14.5) |
AMP PEAK 6(7Q31.2) WILD-TYPE | 22 | 1979.7 (14.8) |
P value = 0.0839 (Fisher's exact test), Q value = 0.23
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
AMP PEAK 7(17Q23.2) MUTATED | 124 | 17 | 29 | 10 |
AMP PEAK 7(17Q23.2) WILD-TYPE | 47 | 4 | 23 | 5 |
P value = 0.0422 (Fisher's exact test), Q value = 0.14
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
AMP PEAK 7(17Q23.2) MUTATED | 45 | 154 |
AMP PEAK 7(17Q23.2) WILD-TYPE | 31 | 58 |
P value = 2.28e-05 (logrank test), Q value = 0.00035
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 1(1P36.31) MUTATED | 54 | 17 | 0.1 - 123.6 (20.1) |
DEL PEAK 1(1P36.31) WILD-TYPE | 231 | 27 | 0.1 - 194.8 (26.0) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 1(1P36.31) MUTATED | 16 | 3 | 22 | 5 |
DEL PEAK 1(1P36.31) WILD-TYPE | 155 | 18 | 30 | 10 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 1(1P36.31) MUTATED | 20 | 7 | 27 |
DEL PEAK 1(1P36.31) WILD-TYPE | 171 | 26 | 35 |
P value = 0.00087 (Fisher's exact test), Q value = 0.0064
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 1(1P36.31) MUTATED | 7 | 13 | 2 |
DEL PEAK 1(1P36.31) WILD-TYPE | 42 | 11 | 2 |
P value = 0.026 (Fisher's exact test), Q value = 0.093
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 1(1P36.31) MUTATED | 21 | 33 |
DEL PEAK 1(1P36.31) WILD-TYPE | 55 | 179 |
P value = 0.00173 (Wilcoxon-test), Q value = 0.011
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 1(1P36.31) MUTATED | 15 | 72.0 (34.7) |
DEL PEAK 1(1P36.31) WILD-TYPE | 61 | 91.3 (15.9) |
P value = 0.00928 (Fisher's exact test), Q value = 0.039
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 2(2P12) MUTATED | 1 | 0 | 3 | 2 |
DEL PEAK 2(2P12) WILD-TYPE | 170 | 21 | 49 | 13 |
P value = 0.0142 (Fisher's exact test), Q value = 0.057
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 2(2P12) MUTATED | 2 | 3 | 3 |
DEL PEAK 2(2P12) WILD-TYPE | 189 | 30 | 59 |
P value = 0.00036 (Fisher's exact test), Q value = 0.0032
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 3(2Q22.1) MUTATED | 1 | 0 | 6 | 2 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 170 | 21 | 46 | 13 |
P value = 0.00312 (Fisher's exact test), Q value = 0.016
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 3(2Q22.1) MUTATED | 3 | 0 | 7 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 188 | 33 | 55 |
P value = 0.0708 (Fisher's exact test), Q value = 0.2
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 3(2Q22.1) MUTATED | 1 | 4 | 0 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 48 | 20 | 4 |
P value = 0.00787 (Fisher's exact test), Q value = 0.036
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 4(2Q37.3) MUTATED | 2 | 2 | 5 | 1 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 169 | 19 | 47 | 14 |
P value = 0.00421 (Fisher's exact test), Q value = 0.021
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 4(2Q37.3) MUTATED | 3 | 3 | 6 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 188 | 30 | 56 |
P value = 0.088 (Fisher's exact test), Q value = 0.24
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 4(2Q37.3) MUTATED | 6 | 6 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 70 | 206 |
P value = 2.24e-07 (logrank test), Q value = 3.8e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 5(3P22.1) MUTATED | 25 | 11 | 2.0 - 86.3 (15.5) |
DEL PEAK 5(3P22.1) WILD-TYPE | 260 | 33 | 0.1 - 194.8 (26.0) |
P value = 0.0257 (Wilcoxon-test), Q value = 0.093
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 283 | 61.5 (12.1) |
DEL PEAK 5(3P22.1) MUTATED | 24 | 55.7 (12.1) |
DEL PEAK 5(3P22.1) WILD-TYPE | 259 | 62.0 (12.0) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 5(3P22.1) MUTATED | 5 | 1 | 14 | 3 |
DEL PEAK 5(3P22.1) WILD-TYPE | 166 | 20 | 38 | 12 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 4 | 15 |
DEL PEAK 5(3P22.1) WILD-TYPE | 185 | 29 | 47 |
P value = 0.0249 (Fisher's exact test), Q value = 0.092
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 8 | 2 |
DEL PEAK 5(3P22.1) WILD-TYPE | 43 | 16 | 2 |
P value = 0.085 (Fisher's exact test), Q value = 0.23
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 5(3P22.1) MUTATED | 4 | 2 |
DEL PEAK 5(3P22.1) WILD-TYPE | 90 | 7 |
P value = 2.2e-06 (logrank test), Q value = 0.00018
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 6(4Q34.3) MUTATED | 32 | 12 | 0.4 - 79.9 (19.3) |
DEL PEAK 6(4Q34.3) WILD-TYPE | 253 | 32 | 0.1 - 194.8 (25.8) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 6(4Q34.3) MUTATED | 7 | 2 | 17 | 3 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 164 | 19 | 35 | 12 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 6(4Q34.3) MUTATED | 9 | 5 | 18 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 182 | 28 | 44 |
P value = 0.0268 (Fisher's exact test), Q value = 0.093
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 6(4Q34.3) MUTATED | 7 | 10 | 1 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 42 | 14 | 3 |
P value = 0.00947 (Fisher's exact test), Q value = 0.04
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 6(4Q34.3) MUTATED | 15 | 17 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 61 | 195 |
P value = 0.0523 (Fisher's exact test), Q value = 0.16
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 6 | 61 | 204 |
DEL PEAK 6(4Q34.3) MUTATED | 0 | 3 | 6 | 19 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 2 | 3 | 55 | 185 |
P value = 0.0285 (Fisher's exact test), Q value = 0.097
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 7(5P15.33) MUTATED | 4 | 1 | 5 | 2 |
DEL PEAK 7(5P15.33) WILD-TYPE | 167 | 20 | 47 | 13 |
P value = 0.0263 (Fisher's exact test), Q value = 0.093
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 7(5P15.33) MUTATED | 5 | 1 | 7 |
DEL PEAK 7(5P15.33) WILD-TYPE | 186 | 32 | 55 |
P value = 0.00258 (Fisher's exact test), Q value = 0.014
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 7(5P15.33) MUTATED | 0 | 5 | 1 |
DEL PEAK 7(5P15.33) WILD-TYPE | 49 | 19 | 3 |
P value = 0.0461 (Fisher's exact test), Q value = 0.15
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 7(5P15.33) MUTATED | 7 | 6 |
DEL PEAK 7(5P15.33) WILD-TYPE | 69 | 206 |
P value = 0.000775 (logrank test), Q value = 0.0058
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 8(5Q35.2) MUTATED | 11 | 5 | 2.8 - 79.9 (19.6) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 274 | 39 | 0.1 - 194.8 (25.5) |
P value = 0.0044 (Wilcoxon-test), Q value = 0.021
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 283 | 61.5 (12.1) |
DEL PEAK 8(5Q35.2) MUTATED | 10 | 46.8 (17.3) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 273 | 62.0 (11.6) |
P value = 3e-04 (Fisher's exact test), Q value = 0.0028
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 7 | 1 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 170 | 20 | 45 | 14 |
P value = 5e-05 (Fisher's exact test), Q value = 0.00073
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 9 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 190 | 32 | 53 |
P value = 0.0708 (Fisher's exact test), Q value = 0.2
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 4 | 0 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 48 | 20 | 4 |
P value = 0.00907 (Fisher's exact test), Q value = 0.039
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 8(5Q35.2) MUTATED | 7 | 4 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 69 | 208 |
P value = 0.00101 (Fisher's exact test), Q value = 0.0069
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 9(6P12.3) MUTATED | 9 | 0 | 12 | 2 |
DEL PEAK 9(6P12.3) WILD-TYPE | 162 | 21 | 40 | 13 |
P value = 0.00051 (Fisher's exact test), Q value = 0.0043
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 9(6P12.3) MUTATED | 11 | 1 | 14 |
DEL PEAK 9(6P12.3) WILD-TYPE | 180 | 32 | 48 |
P value = 0.00459 (Fisher's exact test), Q value = 0.022
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 9(6P12.3) MUTATED | 6 | 1 | 3 |
DEL PEAK 9(6P12.3) WILD-TYPE | 43 | 23 | 1 |
P value = 0.0364 (Wilcoxon-test), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 9(6P12.3) MUTATED | 10 | 70.0 (37.1) |
DEL PEAK 9(6P12.3) WILD-TYPE | 66 | 90.2 (17.8) |
P value = 0.00024 (Fisher's exact test), Q value = 0.0024
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 10(6Q25.3) MUTATED | 12 | 0 | 15 | 2 |
DEL PEAK 10(6Q25.3) WILD-TYPE | 159 | 21 | 37 | 13 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 10(6Q25.3) MUTATED | 13 | 1 | 18 |
DEL PEAK 10(6Q25.3) WILD-TYPE | 178 | 32 | 44 |
P value = 0.02 (Fisher's exact test), Q value = 0.077
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 10(6Q25.3) MUTATED | 6 | 4 | 3 |
DEL PEAK 10(6Q25.3) WILD-TYPE | 43 | 20 | 1 |
P value = 0.00249 (Fisher's exact test), Q value = 0.014
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 10(6Q25.3) MUTATED | 16 | 16 |
DEL PEAK 10(6Q25.3) WILD-TYPE | 60 | 196 |
P value = 0.0429 (Wilcoxon-test), Q value = 0.14
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 10(6Q25.3) MUTATED | 12 | 73.3 (34.7) |
DEL PEAK 10(6Q25.3) WILD-TYPE | 64 | 90.2 (17.9) |
P value = 4.65e-10 (logrank test), Q value = 1.6e-07
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 11(9P21.3) MUTATED | 39 | 17 | 2.0 - 93.3 (18.2) |
DEL PEAK 11(9P21.3) WILD-TYPE | 246 | 27 | 0.1 - 194.8 (26.1) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 11(9P21.3) MUTATED | 11 | 0 | 19 | 7 |
DEL PEAK 11(9P21.3) WILD-TYPE | 160 | 21 | 33 | 8 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 11(9P21.3) MUTATED | 12 | 3 | 25 |
DEL PEAK 11(9P21.3) WILD-TYPE | 179 | 30 | 37 |
P value = 0.00018 (Fisher's exact test), Q value = 0.002
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 11(9P21.3) MUTATED | 8 | 14 | 3 |
DEL PEAK 11(9P21.3) WILD-TYPE | 41 | 10 | 1 |
P value = 0.0243 (Fisher's exact test), Q value = 0.091
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 11(9P21.3) MUTATED | 11 | 4 |
DEL PEAK 11(9P21.3) WILD-TYPE | 83 | 5 |
P value = 0.00187 (Fisher's exact test), Q value = 0.011
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 11(9P21.3) MUTATED | 19 | 21 |
DEL PEAK 11(9P21.3) WILD-TYPE | 57 | 191 |
P value = 0.00303 (Wilcoxon-test), Q value = 0.016
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 11(9P21.3) MUTATED | 14 | 69.3 (36.3) |
DEL PEAK 11(9P21.3) WILD-TYPE | 62 | 91.6 (15.0) |
P value = 0.0577 (Fisher's exact test), Q value = 0.17
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 6 | 61 | 204 |
DEL PEAK 11(9P21.3) MUTATED | 0 | 3 | 5 | 31 |
DEL PEAK 11(9P21.3) WILD-TYPE | 2 | 3 | 56 | 173 |
P value = 6e-05 (Fisher's exact test), Q value = 0.00081
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 12(10Q21.1) MUTATED | 5 | 0 | 12 | 1 |
DEL PEAK 12(10Q21.1) WILD-TYPE | 166 | 21 | 40 | 14 |
P value = 0.00089 (Fisher's exact test), Q value = 0.0064
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 12(10Q21.1) MUTATED | 8 | 0 | 11 |
DEL PEAK 12(10Q21.1) WILD-TYPE | 183 | 33 | 51 |
P value = 0.0496 (Wilcoxon-test), Q value = 0.15
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 12(10Q21.1) MUTATED | 7 | 57.1 (45.0) |
DEL PEAK 12(10Q21.1) WILD-TYPE | 69 | 90.6 (15.9) |
P value = 7.11e-05 (logrank test), Q value = 0.00092
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 13(11Q22.3) MUTATED | 30 | 11 | 0.4 - 123.6 (18.6) |
DEL PEAK 13(11Q22.3) WILD-TYPE | 255 | 33 | 0.1 - 194.8 (26.0) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 13(11Q22.3) MUTATED | 7 | 3 | 14 | 6 |
DEL PEAK 13(11Q22.3) WILD-TYPE | 164 | 18 | 38 | 9 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 13(11Q22.3) MUTATED | 8 | 5 | 18 |
DEL PEAK 13(11Q22.3) WILD-TYPE | 183 | 28 | 44 |
P value = 1e-04 (Fisher's exact test), Q value = 0.0012
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 13(11Q22.3) MUTATED | 3 | 9 | 3 |
DEL PEAK 13(11Q22.3) WILD-TYPE | 46 | 15 | 1 |
P value = 0.0685 (Fisher's exact test), Q value = 0.2
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 13(11Q22.3) MUTATED | 9 | 3 |
DEL PEAK 13(11Q22.3) WILD-TYPE | 85 | 6 |
P value = 0.044 (Wilcoxon-test), Q value = 0.14
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 13(11Q22.3) MUTATED | 8 | 73.8 (33.4) |
DEL PEAK 13(11Q22.3) WILD-TYPE | 68 | 89.1 (20.1) |
P value = 1.38e-06 (logrank test), Q value = 0.00015
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 14(11Q23.3) MUTATED | 28 | 12 | 0.4 - 123.6 (17.8) |
DEL PEAK 14(11Q23.3) WILD-TYPE | 257 | 32 | 0.1 - 194.8 (26.0) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 14(11Q23.3) MUTATED | 5 | 2 | 15 | 6 |
DEL PEAK 14(11Q23.3) WILD-TYPE | 166 | 19 | 37 | 9 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 14(11Q23.3) MUTATED | 6 | 4 | 19 |
DEL PEAK 14(11Q23.3) WILD-TYPE | 185 | 29 | 43 |
P value = 9e-05 (Fisher's exact test), Q value = 0.0011
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 14(11Q23.3) MUTATED | 3 | 9 | 3 |
DEL PEAK 14(11Q23.3) WILD-TYPE | 46 | 15 | 1 |
P value = 0.0539 (Fisher's exact test), Q value = 0.16
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 14(11Q23.3) MUTATED | 8 | 3 |
DEL PEAK 14(11Q23.3) WILD-TYPE | 86 | 6 |
P value = 0.044 (Wilcoxon-test), Q value = 0.14
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 14(11Q23.3) MUTATED | 8 | 73.8 (33.4) |
DEL PEAK 14(11Q23.3) WILD-TYPE | 68 | 89.1 (20.1) |
P value = 0.000625 (logrank test), Q value = 0.005
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 15(14Q11.2) MUTATED | 51 | 14 | 0.1 - 80.9 (20.6) |
DEL PEAK 15(14Q11.2) WILD-TYPE | 234 | 30 | 0.1 - 194.8 (25.5) |
P value = 0.0113 (Fisher's exact test), Q value = 0.047
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 15(14Q11.2) MUTATED | 22 | 3 | 14 | 6 |
DEL PEAK 15(14Q11.2) WILD-TYPE | 149 | 18 | 38 | 9 |
P value = 0.00046 (Fisher's exact test), Q value = 0.004
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 15(14Q11.2) MUTATED | 24 | 5 | 22 |
DEL PEAK 15(14Q11.2) WILD-TYPE | 167 | 28 | 40 |
P value = 0.00244 (Fisher's exact test), Q value = 0.014
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 15(14Q11.2) MUTATED | 9 | 8 | 4 |
DEL PEAK 15(14Q11.2) WILD-TYPE | 40 | 16 | 0 |
P value = 0.0134 (Fisher's exact test), Q value = 0.054
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 15(14Q11.2) MUTATED | 21 | 30 |
DEL PEAK 15(14Q11.2) WILD-TYPE | 55 | 182 |
P value = 0.0224 (Wilcoxon-test), Q value = 0.085
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 15(14Q11.2) MUTATED | 16 | 73.1 (35.3) |
DEL PEAK 15(14Q11.2) WILD-TYPE | 60 | 91.3 (15.1) |
P value = 5.44e-05 (logrank test), Q value = 0.00076
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 16(14Q24.2) MUTATED | 50 | 15 | 0.1 - 80.9 (19.7) |
DEL PEAK 16(14Q24.2) WILD-TYPE | 235 | 29 | 0.1 - 194.8 (26.0) |
P value = 0.0028 (Fisher's exact test), Q value = 0.015
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 16(14Q24.2) MUTATED | 20 | 3 | 15 | 6 |
DEL PEAK 16(14Q24.2) WILD-TYPE | 151 | 18 | 37 | 9 |
P value = 1e-04 (Fisher's exact test), Q value = 0.0012
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 16(14Q24.2) MUTATED | 22 | 5 | 23 |
DEL PEAK 16(14Q24.2) WILD-TYPE | 169 | 28 | 39 |
P value = 0.00063 (Fisher's exact test), Q value = 0.005
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 16(14Q24.2) MUTATED | 8 | 9 | 4 |
DEL PEAK 16(14Q24.2) WILD-TYPE | 41 | 15 | 0 |
P value = 0.00805 (Fisher's exact test), Q value = 0.036
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 16(14Q24.2) MUTATED | 21 | 29 |
DEL PEAK 16(14Q24.2) WILD-TYPE | 55 | 183 |
P value = 0.00896 (Wilcoxon-test), Q value = 0.039
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 16(14Q24.2) MUTATED | 15 | 71.3 (35.8) |
DEL PEAK 16(14Q24.2) WILD-TYPE | 61 | 91.5 (15.0) |
P value = 0.0756 (Wilcoxon-test), Q value = 0.21
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 54 | 1972.5 (15.7) |
DEL PEAK 16(14Q24.2) MUTATED | 9 | 1981.7 (15.6) |
DEL PEAK 16(14Q24.2) WILD-TYPE | 45 | 1970.7 (15.2) |
P value = 0.00092 (logrank test), Q value = 0.0064
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 17(15Q13.3) MUTATED | 35 | 11 | 0.1 - 194.8 (18.2) |
DEL PEAK 17(15Q13.3) WILD-TYPE | 250 | 33 | 0.1 - 129.9 (26.0) |
P value = 0.00023 (Fisher's exact test), Q value = 0.0024
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 17(15Q13.3) MUTATED | 12 | 1 | 12 | 6 |
DEL PEAK 17(15Q13.3) WILD-TYPE | 159 | 20 | 40 | 9 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 17(15Q13.3) MUTATED | 14 | 2 | 19 |
DEL PEAK 17(15Q13.3) WILD-TYPE | 177 | 31 | 43 |
P value = 0.00029 (Fisher's exact test), Q value = 0.0028
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 17(15Q13.3) MUTATED | 4 | 11 | 2 |
DEL PEAK 17(15Q13.3) WILD-TYPE | 45 | 13 | 2 |
P value = 0.0849 (Fisher's exact test), Q value = 0.23
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 17(15Q13.3) MUTATED | 10 | 3 |
DEL PEAK 17(15Q13.3) WILD-TYPE | 84 | 6 |
P value = 0.0278 (Wilcoxon-test), Q value = 0.095
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 17(15Q13.3) MUTATED | 10 | 72.0 (38.2) |
DEL PEAK 17(15Q13.3) WILD-TYPE | 66 | 89.8 (17.8) |
P value = 2.88e-06 (logrank test), Q value = 0.00019
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 18(16Q24.2) MUTATED | 12 | 6 | 0.4 - 58.2 (14.9) |
DEL PEAK 18(16Q24.2) WILD-TYPE | 273 | 38 | 0.1 - 194.8 (25.8) |
P value = 0.00177 (Fisher's exact test), Q value = 0.011
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 18(16Q24.2) MUTATED | 3 | 0 | 7 | 2 |
DEL PEAK 18(16Q24.2) WILD-TYPE | 168 | 21 | 45 | 13 |
P value = 0.00218 (Fisher's exact test), Q value = 0.013
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 18(16Q24.2) MUTATED | 4 | 0 | 8 |
DEL PEAK 18(16Q24.2) WILD-TYPE | 187 | 33 | 54 |
P value = 0.000719 (logrank test), Q value = 0.0055
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 19(19P13.3) MUTATED | 23 | 7 | 0.9 - 99.0 (16.9) |
DEL PEAK 19(19P13.3) WILD-TYPE | 262 | 37 | 0.1 - 194.8 (26.0) |
P value = 0.00067 (Fisher's exact test), Q value = 0.0052
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 19(19P13.3) MUTATED | 6 | 1 | 11 | 2 |
DEL PEAK 19(19P13.3) WILD-TYPE | 165 | 20 | 41 | 13 |
P value = 0.00012 (Fisher's exact test), Q value = 0.0013
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 19(19P13.3) MUTATED | 8 | 1 | 14 |
DEL PEAK 19(19P13.3) WILD-TYPE | 183 | 32 | 48 |
P value = 0.0157 (Fisher's exact test), Q value = 0.062
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 19(19P13.3) MUTATED | 3 | 5 | 2 |
DEL PEAK 19(19P13.3) WILD-TYPE | 46 | 19 | 2 |
P value = 0.00144 (Wilcoxon-test), Q value = 0.0091
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 19(19P13.3) MUTATED | 11 | 64.5 (39.8) |
DEL PEAK 19(19P13.3) WILD-TYPE | 65 | 91.4 (14.7) |
P value = 0.0489 (logrank test), Q value = 0.15
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 20(19Q13.42) MUTATED | 19 | 5 | 0.9 - 93.3 (19.6) |
DEL PEAK 20(19Q13.42) WILD-TYPE | 266 | 39 | 0.1 - 194.8 (25.3) |
P value = 0.00036 (Fisher's exact test), Q value = 0.0032
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 20(19Q13.42) MUTATED | 5 | 1 | 11 | 1 |
DEL PEAK 20(19Q13.42) WILD-TYPE | 166 | 20 | 41 | 14 |
P value = 0.00026 (Fisher's exact test), Q value = 0.0026
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 20(19Q13.42) MUTATED | 6 | 1 | 12 |
DEL PEAK 20(19Q13.42) WILD-TYPE | 185 | 32 | 50 |
P value = 0.0267 (Wilcoxon-test), Q value = 0.093
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 20(19Q13.42) MUTATED | 9 | 77.8 (29.9) |
DEL PEAK 20(19Q13.42) WILD-TYPE | 67 | 88.8 (20.7) |
P value = 0.00238 (logrank test), Q value = 0.014
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 285 | 44 | 0.1 - 194.8 (25.3) |
DEL PEAK 21(22Q12.2) MUTATED | 63 | 16 | 0.9 - 123.6 (20.5) |
DEL PEAK 21(22Q12.2) WILD-TYPE | 222 | 28 | 0.1 - 194.8 (25.8) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 21 | 52 | 15 |
DEL PEAK 21(22Q12.2) MUTATED | 21 | 4 | 26 | 8 |
DEL PEAK 21(22Q12.2) WILD-TYPE | 150 | 17 | 26 | 7 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00019
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 191 | 33 | 62 |
DEL PEAK 21(22Q12.2) MUTATED | 25 | 7 | 31 |
DEL PEAK 21(22Q12.2) WILD-TYPE | 166 | 26 | 31 |
P value = 0.00176 (Fisher's exact test), Q value = 0.011
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 24 | 4 |
DEL PEAK 21(22Q12.2) MUTATED | 11 | 15 | 2 |
DEL PEAK 21(22Q12.2) WILD-TYPE | 38 | 9 | 2 |
P value = 0.0591 (Fisher's exact test), Q value = 0.17
nPatients | 0 | 1 |
---|---|---|
ALL | 94 | 9 |
DEL PEAK 21(22Q12.2) MUTATED | 23 | 5 |
DEL PEAK 21(22Q12.2) WILD-TYPE | 71 | 4 |
P value = 0.0012 (Fisher's exact test), Q value = 0.0078
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 212 |
DEL PEAK 21(22Q12.2) MUTATED | 27 | 36 |
DEL PEAK 21(22Q12.2) WILD-TYPE | 49 | 176 |
P value = 0.00113 (Wilcoxon-test), Q value = 0.0075
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 21(22Q12.2) MUTATED | 19 | 70.5 (35.5) |
DEL PEAK 21(22Q12.2) WILD-TYPE | 57 | 93.2 (10.7) |
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Copy number data file = all_lesions.txt from GISTIC pipeline
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Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRP-TP/22533930/transformed.cor.cli.txt
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Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/KIRP-TP/22507257/KIRP-TP.merged_data.txt
-
Number of patients = 288
-
Number of significantly focal cnvs = 28
-
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.