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 287 patients, 139 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_3q27.1 cnv correlated to 'PATHOLOGY_M_STAGE'.
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amp_5q35.2 cnv correlated to 'PATHOLOGIC_STAGE' and 'PATHOLOGY_T_STAGE'.
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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_17q25.2 cnv correlated to 'GENDER' and 'RACE'.
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amp_19p13.2 cnv correlated to 'YEARS_TO_BIRTH'.
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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_6q22.31 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'GENDER', 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', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_10q21.1 cnv correlated to 'Time to Death', '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_16q24.1 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', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
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del_xp11.4 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', and 'RACE'.
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del_xq28 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'GENDER', and 'KARNOFSKY_PERFORMANCE_SCORE'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 31 focal events and 12 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 139 significant findings detected.
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 | 39 (14%) | 248 |
5.46e-11 (2.03e-08) |
0.486 (0.739) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.0002 (0.00213) |
0.0193 (0.0781) |
0.00147 (0.00911) |
0.00303 (0.0163) |
0.388 (0.647) |
0.478 (0.736) |
0.139 (0.342) |
1 (1.00) |
del 14q24 2 | 50 (17%) | 237 |
6.65e-05 (0.000883) |
0.703 (0.883) |
0.00268 (0.0147) |
8e-05 (0.00093) |
0.00526 (0.0257) |
0.17 (0.403) |
0.00826 (0.0389) |
0.00896 (0.0411) |
0.476 (0.735) |
0.0756 (0.213) |
0.959 (1.00) |
0.697 (0.882) |
del xp11 4 | 34 (12%) | 253 |
0.000231 (0.00239) |
0.133 (0.331) |
2e-05 (0.000323) |
5e-05 (0.000689) |
0.0557 (0.163) |
1 (1.00) |
0.0212 (0.0844) |
0.0213 (0.0844) |
0.968 (1.00) |
0.354 (0.623) |
0.0239 (0.0916) |
0.62 (0.82) |
del xq28 | 28 (10%) | 259 |
1.16e-06 (7.19e-05) |
0.0292 (0.102) |
0.00051 (0.00395) |
0.00145 (0.00911) |
0.00695 (0.0336) |
0.58 (0.818) |
0.0218 (0.0855) |
0.00491 (0.0247) |
1 (1.00) |
0.308 (0.578) |
0.114 (0.295) |
0.609 (0.818) |
del 1p36 31 | 55 (19%) | 232 |
3.06e-05 (0.000455) |
0.215 (0.466) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.00125 (0.00845) |
0.363 (0.629) |
0.0404 (0.134) |
0.00146 (0.00911) |
0.848 (0.974) |
0.201 (0.453) |
0.583 (0.818) |
0.699 (0.882) |
del 3p22 1 | 25 (9%) | 262 |
2.44e-07 (2.73e-05) |
0.0272 (0.0993) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.0443 (0.141) |
0.0866 (0.237) |
0.816 (0.958) |
0.264 (0.523) |
0.648 (0.842) |
0.3 (0.573) |
0.644 (0.84) |
0.608 (0.818) |
del 4q34 3 | 32 (11%) | 255 |
4e-07 (2.98e-05) |
0.399 (0.662) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.0343 (0.117) |
0.607 (0.818) |
0.00962 (0.0431) |
0.2 (0.453) |
0.577 (0.818) |
0.959 (1.00) |
0.0294 (0.102) |
0.359 (0.629) |
del 5q35 2 | 11 (4%) | 276 |
7.56e-05 (0.00093) |
0.00448 (0.0228) |
0.00046 (0.00372) |
1e-05 (0.000177) |
0.0873 (0.237) |
0.313 (0.578) |
0.00926 (0.042) |
0.754 (0.924) |
0.293 (0.567) |
|||
del 11q22 3 | 31 (11%) | 256 |
2.44e-05 (0.000378) |
0.424 (0.686) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.00033 (0.00307) |
0.0702 (0.199) |
0.518 (0.774) |
0.044 (0.141) |
0.417 (0.68) |
0.503 (0.757) |
0.173 (0.406) |
0.62 (0.82) |
del 11q23 3 | 29 (10%) | 258 |
2.93e-07 (2.73e-05) |
0.423 (0.686) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.00051 (0.00395) |
0.0553 (0.163) |
0.828 (0.964) |
0.044 (0.141) |
0.897 (1.00) |
0.967 (1.00) |
0.144 (0.352) |
0.612 (0.819) |
del 14q11 2 | 51 (18%) | 236 |
0.000374 (0.00324) |
0.572 (0.818) |
0.0115 (0.0487) |
0.00046 (0.00372) |
0.0111 (0.0475) |
0.386 (0.647) |
0.0135 (0.0556) |
0.0224 (0.0867) |
0.659 (0.851) |
0.315 (0.578) |
1 (1.00) |
0.698 (0.882) |
del 15q13 3 | 35 (12%) | 252 |
0.000318 (0.00304) |
0.115 (0.296) |
0.00017 (0.00186) |
4e-05 (0.000572) |
0.00106 (0.00744) |
0.087 (0.237) |
0.307 (0.578) |
0.0278 (0.1) |
0.914 (1.00) |
0.985 (1.00) |
0.539 (0.788) |
1 (1.00) |
del 22q12 2 | 63 (22%) | 224 |
0.00127 (0.00847) |
0.101 (0.268) |
1e-05 (0.000177) |
1e-05 (0.000177) |
0.00261 (0.0145) |
0.11 (0.286) |
0.00188 (0.0111) |
0.00113 (0.00781) |
0.468 (0.728) |
0.216 (0.466) |
0.205 (0.454) |
0.714 (0.894) |
del 6q25 3 | 32 (11%) | 255 |
0.198 (0.451) |
0.921 (1.00) |
0.00014 (0.00158) |
2e-05 (0.000323) |
0.0457 (0.142) |
0.599 (0.818) |
0.00256 (0.0144) |
0.0429 (0.14) |
0.941 (1.00) |
0.572 (0.818) |
0.126 (0.318) |
0.62 (0.82) |
del 19p13 3 | 23 (8%) | 264 |
0.000729 (0.00542) |
0.778 (0.931) |
0.00063 (0.00478) |
7e-05 (0.000898) |
0.0405 (0.134) |
0.434 (0.696) |
0.335 (0.607) |
0.00144 (0.00911) |
0.104 (0.273) |
0.516 (0.774) |
0.608 (0.818) |
|
amp 2q32 1 | 53 (18%) | 234 |
0.315 (0.578) |
0.487 (0.739) |
0.0463 (0.142) |
0.0516 (0.155) |
0.0536 (0.16) |
0.0135 (0.0556) |
0.495 (0.748) |
0.251 (0.505) |
0.989 (1.00) |
0.591 (0.818) |
0.752 (0.924) |
1 (1.00) |
amp 7q31 2 | 177 (62%) | 110 |
0.308 (0.578) |
0.538 (0.788) |
0.00248 (0.0142) |
0.104 (0.273) |
0.329 (0.6) |
0.728 (0.906) |
0.00876 (0.0407) |
0.0843 (0.236) |
0.76 (0.924) |
0.0042 (0.0217) |
0.368 (0.63) |
0.365 (0.629) |
del 5p15 33 | 13 (5%) | 274 |
0.18 (0.413) |
0.177 (0.41) |
0.0456 (0.142) |
0.0257 (0.0957) |
0.00371 (0.0194) |
0.376 (0.636) |
0.0463 (0.142) |
0.245 (0.498) |
0.882 (1.00) |
1 (1.00) |
0.361 (0.629) |
|
del 6p12 3 | 26 (9%) | 261 |
0.159 (0.382) |
0.81 (0.954) |
0.0009 (0.00656) |
0.00035 (0.0031) |
0.0106 (0.0464) |
0.592 (0.818) |
0.353 (0.623) |
0.0364 (0.123) |
0.65 (0.843) |
0.929 (1.00) |
0.202 (0.453) |
0.608 (0.818) |
del 6q22 31 | 29 (10%) | 258 |
0.341 (0.613) |
0.792 (0.941) |
0.00164 (0.00984) |
0.00034 (0.00308) |
0.148 (0.359) |
1 (1.00) |
0.0256 (0.0957) |
0.0506 (0.153) |
0.941 (1.00) |
0.572 (0.818) |
0.134 (0.333) |
0.609 (0.818) |
del 10q21 1 | 19 (7%) | 268 |
0.0686 (0.196) |
0.949 (1.00) |
8e-05 (0.00093) |
0.00096 (0.00687) |
0.117 (0.298) |
1 (1.00) |
0.29 (0.566) |
0.0496 (0.151) |
0.262 (0.52) |
0.644 (0.84) |
0.401 (0.662) |
1 (1.00) |
del 19q13 42 | 19 (7%) | 268 |
0.0564 (0.164) |
0.598 (0.818) |
0.0004 (0.00338) |
0.00026 (0.00261) |
0.242 (0.498) |
1 (1.00) |
0.596 (0.818) |
0.0267 (0.0984) |
0.924 (1.00) |
0.227 (0.482) |
0.235 (0.496) |
1 (1.00) |
del 2q22 1 | 10 (3%) | 277 |
0.452 (0.719) |
0.402 (0.662) |
0.00031 (0.00303) |
0.00353 (0.0188) |
0.0864 (0.237) |
0.313 (0.578) |
0.464 (0.726) |
0.455 (0.719) |
0.765 (0.926) |
0.571 (0.818) |
0.756 (0.924) |
1 (1.00) |
del 2q37 3 | 12 (4%) | 275 |
0.911 (1.00) |
0.521 (0.776) |
0.0073 (0.0348) |
0.00513 (0.0254) |
0.695 (0.882) |
1 (1.00) |
0.0887 (0.237) |
0.567 (0.818) |
0.834 (0.967) |
0.79 (0.941) |
1 (1.00) |
|
del 16q24 1 | 12 (4%) | 275 |
2.9e-08 (5.4e-06) |
0.212 (0.465) |
0.00155 (0.00945) |
0.00219 (0.0127) |
0.243 (0.498) |
0.376 (0.636) |
0.524 (0.777) |
0.153 (0.371) |
0.31 (0.578) |
0.96 (1.00) |
0.273 (0.535) |
1 (1.00) |
amp 2p23 2 | 45 (16%) | 242 |
0.365 (0.629) |
0.253 (0.507) |
0.299 (0.573) |
0.344 (0.616) |
0.0108 (0.0466) |
0.0252 (0.0956) |
0.272 (0.535) |
0.294 (0.567) |
0.237 (0.498) |
0.772 (0.929) |
0.769 (0.929) |
1 (1.00) |
amp 5q35 2 | 37 (13%) | 250 |
0.487 (0.739) |
0.529 (0.781) |
0.0418 (0.138) |
0.0293 (0.102) |
0.54 (0.788) |
0.643 (0.84) |
0.844 (0.973) |
0.177 (0.41) |
0.939 (1.00) |
0.804 (0.95) |
0.251 (0.505) |
0.373 (0.636) |
amp 17q25 2 | 200 (70%) | 87 |
0.727 (0.906) |
0.243 (0.498) |
0.164 (0.392) |
0.172 (0.406) |
0.473 (0.733) |
0.737 (0.911) |
0.0285 (0.102) |
0.82 (0.959) |
0.776 (0.931) |
0.239 (0.498) |
0.0883 (0.237) |
0.339 (0.612) |
del 2p12 | 8 (3%) | 279 |
0.414 (0.679) |
0.731 (0.907) |
0.00981 (0.0434) |
0.0136 (0.0556) |
0.694 (0.882) |
0.244 (0.498) |
0.686 (0.88) |
0.447 (0.713) |
0.216 (0.466) |
1 (1.00) |
1 (1.00) |
|
amp 3q27 1 | 100 (35%) | 187 |
0.684 (0.88) |
0.351 (0.623) |
0.221 (0.472) |
0.205 (0.454) |
0.76 (0.924) |
0.0572 (0.165) |
0.575 (0.818) |
0.596 (0.818) |
0.433 (0.696) |
0.456 (0.719) |
0.211 (0.464) |
1 (1.00) |
amp 19p13 2 | 31 (11%) | 256 |
0.799 (0.947) |
0.0312 (0.107) |
1 (1.00) |
0.131 (0.329) |
0.845 (0.973) |
1 (1.00) |
0.829 (0.964) |
0.861 (0.986) |
0.591 (0.818) |
0.386 (0.647) |
0.462 (0.726) |
0.63 (0.83) |
P value = 0.0108 (Fisher's exact test), Q value = 0.047
Table S1. Gene #1: 'amp_2p23.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
AMP PEAK 1(2P23.2) MUTATED | 4 | 8 | 2 |
AMP PEAK 1(2P23.2) WILD-TYPE | 44 | 16 | 3 |
Figure S1. Get High-res Image Gene #1: 'amp_2p23.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D1V5.png)
P value = 0.0252 (Fisher's exact test), Q value = 0.096
Table S2. Gene #1: 'amp_2p23.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
AMP PEAK 1(2P23.2) MUTATED | 11 | 4 |
AMP PEAK 1(2P23.2) WILD-TYPE | 82 | 5 |
Figure S2. Get High-res Image Gene #1: 'amp_2p23.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D1V6.png)
P value = 0.0463 (Fisher's exact test), Q value = 0.14
Table S3. Gene #2: 'amp_2q32.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 4 | 12 | 7 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 143 | 18 | 40 | 8 |
Figure S3. Get High-res Image Gene #2: 'amp_2q32.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D2V3.png)
P value = 0.0516 (Fisher's exact test), Q value = 0.15
Table S4. Gene #2: 'amp_2q32.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
AMP PEAK 2(2Q32.1) MUTATED | 28 | 8 | 17 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 162 | 25 | 45 |
Figure S4. Get High-res Image Gene #2: 'amp_2q32.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D2V4.png)
P value = 0.0536 (Fisher's exact test), Q value = 0.16
Table S5. Gene #2: 'amp_2q32.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
AMP PEAK 2(2Q32.1) MUTATED | 9 | 9 | 3 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 39 | 15 | 2 |
Figure S5. Get High-res Image Gene #2: 'amp_2q32.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D2V5.png)
P value = 0.0135 (Fisher's exact test), Q value = 0.056
Table S6. Gene #2: 'amp_2q32.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
AMP PEAK 2(2Q32.1) MUTATED | 15 | 5 |
AMP PEAK 2(2Q32.1) WILD-TYPE | 78 | 4 |
Figure S6. Get High-res Image Gene #2: 'amp_2q32.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D2V6.png)
P value = 0.0572 (Fisher's exact test), Q value = 0.16
Table S7. Gene #3: 'amp_3q27.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
AMP PEAK 3(3Q27.1) MUTATED | 29 | 0 |
AMP PEAK 3(3Q27.1) WILD-TYPE | 64 | 9 |
Figure S7. Get High-res Image Gene #3: 'amp_3q27.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D3V6.png)
P value = 0.0418 (Fisher's exact test), Q value = 0.14
Table S8. Gene #4: 'amp_5q35.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
AMP PEAK 4(5Q35.2) MUTATED | 16 | 2 | 11 | 4 |
AMP PEAK 4(5Q35.2) WILD-TYPE | 155 | 20 | 41 | 11 |
Figure S8. Get High-res Image Gene #4: 'amp_5q35.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D4V3.png)
P value = 0.0293 (Fisher's exact test), Q value = 0.1
Table S9. Gene #4: 'amp_5q35.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
AMP PEAK 4(5Q35.2) MUTATED | 18 | 5 | 14 |
AMP PEAK 4(5Q35.2) WILD-TYPE | 172 | 28 | 48 |
Figure S9. Get High-res Image Gene #4: 'amp_5q35.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D4V4.png)
P value = 0.00248 (Fisher's exact test), Q value = 0.014
Table S10. Gene #5: 'amp_7q31.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
AMP PEAK 5(7Q31.2) MUTATED | 114 | 12 | 21 | 12 |
AMP PEAK 5(7Q31.2) WILD-TYPE | 57 | 10 | 31 | 3 |
Figure S10. Get High-res Image Gene #5: 'amp_7q31.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D5V3.png)
P value = 0.00876 (Fisher's exact test), Q value = 0.041
Table S11. Gene #5: 'amp_7q31.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
AMP PEAK 5(7Q31.2) MUTATED | 37 | 140 |
AMP PEAK 5(7Q31.2) WILD-TYPE | 39 | 71 |
Figure S11. Get High-res Image Gene #5: 'amp_7q31.2' versus Clinical Feature #7: 'GENDER'
![](D5V7.png)
P value = 0.0843 (Wilcoxon-test), Q value = 0.24
Table S12. Gene #5: 'amp_7q31.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
AMP PEAK 5(7Q31.2) MUTATED | 54 | 89.8 (19.6) |
AMP PEAK 5(7Q31.2) WILD-TYPE | 22 | 81.8 (26.8) |
Figure S12. Get High-res Image Gene #5: 'amp_7q31.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D5V8.png)
P value = 0.0042 (Wilcoxon-test), Q value = 0.022
Table S13. Gene #5: 'amp_7q31.2' versus Clinical Feature #10: 'YEAR_OF_TOBACCO_SMOKING_ONSET'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 54 | 1972.5 (15.7) |
AMP PEAK 5(7Q31.2) MUTATED | 32 | 1967.6 (14.5) |
AMP PEAK 5(7Q31.2) WILD-TYPE | 22 | 1979.7 (14.8) |
Figure S13. Get High-res Image Gene #5: 'amp_7q31.2' versus Clinical Feature #10: 'YEAR_OF_TOBACCO_SMOKING_ONSET'
![](D5V10.png)
P value = 0.0285 (Fisher's exact test), Q value = 0.1
Table S14. Gene #6: 'amp_17q25.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
AMP PEAK 6(17Q25.2) MUTATED | 45 | 155 |
AMP PEAK 6(17Q25.2) WILD-TYPE | 31 | 56 |
Figure S14. Get High-res Image Gene #6: 'amp_17q25.2' versus Clinical Feature #7: 'GENDER'
![](D6V7.png)
P value = 0.0883 (Fisher's exact test), Q value = 0.24
Table S15. Gene #6: 'amp_17q25.2' versus Clinical Feature #11: 'RACE'
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 61 | 204 |
AMP PEAK 6(17Q25.2) MUTATED | 2 | 4 | 35 | 149 |
AMP PEAK 6(17Q25.2) WILD-TYPE | 0 | 1 | 26 | 55 |
Figure S15. Get High-res Image Gene #6: 'amp_17q25.2' versus Clinical Feature #11: 'RACE'
![](D6V11.png)
P value = 0.0312 (Wilcoxon-test), Q value = 0.11
Table S16. Gene #7: 'amp_19p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 282 | 61.4 (12.1) |
AMP PEAK 7(19P13.2) MUTATED | 30 | 56.9 (12.4) |
AMP PEAK 7(19P13.2) WILD-TYPE | 252 | 61.9 (12.0) |
Figure S16. Get High-res Image Gene #7: 'amp_19p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
![](D7V2.png)
P value = 3.06e-05 (logrank test), Q value = 0.00045
Table S17. Gene #8: 'del_1p36.31' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 1(1P36.31) MUTATED | 55 | 17 | 0.1 - 123.6 (19.4) |
DEL PEAK 1(1P36.31) WILD-TYPE | 227 | 27 | 0.1 - 194.8 (25.6) |
Figure S17. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #1: 'Time to Death'
![](D8V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S18. Gene #8: 'del_1p36.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 1(1P36.31) MUTATED | 17 | 3 | 22 | 5 |
DEL PEAK 1(1P36.31) WILD-TYPE | 154 | 19 | 30 | 10 |
Figure S18. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D8V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S19. Gene #8: 'del_1p36.31' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 1(1P36.31) MUTATED | 21 | 7 | 27 |
DEL PEAK 1(1P36.31) WILD-TYPE | 169 | 26 | 35 |
Figure S19. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D8V4.png)
P value = 0.00125 (Fisher's exact test), Q value = 0.0085
Table S20. Gene #8: 'del_1p36.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 1(1P36.31) MUTATED | 7 | 13 | 2 |
DEL PEAK 1(1P36.31) WILD-TYPE | 41 | 11 | 3 |
Figure S20. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D8V5.png)
P value = 0.0404 (Fisher's exact test), Q value = 0.13
Table S21. Gene #8: 'del_1p36.31' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 1(1P36.31) MUTATED | 21 | 34 |
DEL PEAK 1(1P36.31) WILD-TYPE | 55 | 177 |
Figure S21. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #7: 'GENDER'
![](D8V7.png)
P value = 0.00146 (Wilcoxon-test), Q value = 0.0091
Table S22. Gene #8: 'del_1p36.31' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 1(1P36.31) MUTATED | 16 | 73.1 (33.8) |
DEL PEAK 1(1P36.31) WILD-TYPE | 60 | 91.3 (16.0) |
Figure S22. Get High-res Image Gene #8: 'del_1p36.31' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D8V8.png)
P value = 0.00981 (Fisher's exact test), Q value = 0.043
Table S23. Gene #9: 'del_2p12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 2(2P12) MUTATED | 1 | 0 | 3 | 2 |
DEL PEAK 2(2P12) WILD-TYPE | 170 | 22 | 49 | 13 |
Figure S23. Get High-res Image Gene #9: 'del_2p12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D9V3.png)
P value = 0.0136 (Fisher's exact test), Q value = 0.056
Table S24. Gene #9: 'del_2p12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 2(2P12) MUTATED | 2 | 3 | 3 |
DEL PEAK 2(2P12) WILD-TYPE | 188 | 30 | 59 |
Figure S24. Get High-res Image Gene #9: 'del_2p12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D9V4.png)
P value = 0.00031 (Fisher's exact test), Q value = 0.003
Table S25. Gene #10: 'del_2q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 3(2Q22.1) MUTATED | 1 | 0 | 6 | 2 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 170 | 22 | 46 | 13 |
Figure S25. Get High-res Image Gene #10: 'del_2q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D10V3.png)
P value = 0.00353 (Fisher's exact test), Q value = 0.019
Table S26. Gene #10: 'del_2q22.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 3(2Q22.1) MUTATED | 3 | 0 | 7 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 187 | 33 | 55 |
Figure S26. Get High-res Image Gene #10: 'del_2q22.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D10V4.png)
P value = 0.0864 (Fisher's exact test), Q value = 0.24
Table S27. Gene #10: 'del_2q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 3(2Q22.1) MUTATED | 1 | 4 | 0 |
DEL PEAK 3(2Q22.1) WILD-TYPE | 47 | 20 | 5 |
Figure S27. Get High-res Image Gene #10: 'del_2q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D10V5.png)
P value = 0.0073 (Fisher's exact test), Q value = 0.035
Table S28. Gene #11: 'del_2q37.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 4(2Q37.3) MUTATED | 2 | 2 | 5 | 1 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 169 | 20 | 47 | 14 |
Figure S28. Get High-res Image Gene #11: 'del_2q37.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D11V3.png)
P value = 0.00513 (Fisher's exact test), Q value = 0.025
Table S29. Gene #11: 'del_2q37.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 4(2Q37.3) MUTATED | 3 | 3 | 6 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 187 | 30 | 56 |
Figure S29. Get High-res Image Gene #11: 'del_2q37.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D11V4.png)
P value = 0.0887 (Fisher's exact test), Q value = 0.24
Table S30. Gene #11: 'del_2q37.3' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 4(2Q37.3) MUTATED | 6 | 6 |
DEL PEAK 4(2Q37.3) WILD-TYPE | 70 | 205 |
Figure S30. Get High-res Image Gene #11: 'del_2q37.3' versus Clinical Feature #7: 'GENDER'
![](D11V7.png)
P value = 2.44e-07 (logrank test), Q value = 2.7e-05
Table S31. Gene #12: 'del_3p22.1' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 5(3P22.1) MUTATED | 25 | 11 | 2.0 - 86.3 (15.5) |
DEL PEAK 5(3P22.1) WILD-TYPE | 257 | 33 | 0.1 - 194.8 (25.4) |
Figure S31. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #1: 'Time to Death'
![](D12V1.png)
P value = 0.0272 (Wilcoxon-test), Q value = 0.099
Table S32. Gene #12: 'del_3p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 282 | 61.4 (12.1) |
DEL PEAK 5(3P22.1) MUTATED | 24 | 55.7 (12.1) |
DEL PEAK 5(3P22.1) WILD-TYPE | 258 | 61.9 (12.0) |
Figure S32. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
![](D12V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S33. Gene #12: 'del_3p22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 5(3P22.1) MUTATED | 5 | 1 | 14 | 3 |
DEL PEAK 5(3P22.1) WILD-TYPE | 166 | 21 | 38 | 12 |
Figure S33. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D12V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S34. Gene #12: 'del_3p22.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 4 | 15 |
DEL PEAK 5(3P22.1) WILD-TYPE | 184 | 29 | 47 |
Figure S34. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D12V4.png)
P value = 0.0443 (Fisher's exact test), Q value = 0.14
Table S35. Gene #12: 'del_3p22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 5(3P22.1) MUTATED | 6 | 8 | 2 |
DEL PEAK 5(3P22.1) WILD-TYPE | 42 | 16 | 3 |
Figure S35. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D12V5.png)
P value = 0.0866 (Fisher's exact test), Q value = 0.24
Table S36. Gene #12: 'del_3p22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
DEL PEAK 5(3P22.1) MUTATED | 4 | 2 |
DEL PEAK 5(3P22.1) WILD-TYPE | 89 | 7 |
Figure S36. Get High-res Image Gene #12: 'del_3p22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D12V6.png)
P value = 4e-07 (logrank test), Q value = 3e-05
Table S37. Gene #13: 'del_4q34.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 6(4Q34.3) MUTATED | 31 | 12 | 0.4 - 79.9 (18.0) |
DEL PEAK 6(4Q34.3) WILD-TYPE | 251 | 32 | 0.1 - 194.8 (25.4) |
Figure S37. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #1: 'Time to Death'
![](D13V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S38. Gene #13: 'del_4q34.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 6(4Q34.3) MUTATED | 7 | 2 | 17 | 3 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 164 | 20 | 35 | 12 |
Figure S38. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D13V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S39. Gene #13: 'del_4q34.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 6(4Q34.3) MUTATED | 9 | 5 | 18 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 181 | 28 | 44 |
Figure S39. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D13V4.png)
P value = 0.0343 (Fisher's exact test), Q value = 0.12
Table S40. Gene #13: 'del_4q34.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 6(4Q34.3) MUTATED | 7 | 10 | 1 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 41 | 14 | 4 |
Figure S40. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D13V5.png)
P value = 0.00962 (Fisher's exact test), Q value = 0.043
Table S41. Gene #13: 'del_4q34.3' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 6(4Q34.3) MUTATED | 15 | 17 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 61 | 194 |
Figure S41. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #7: 'GENDER'
![](D13V7.png)
P value = 0.0294 (Fisher's exact test), Q value = 0.1
Table S42. Gene #13: 'del_4q34.3' versus Clinical Feature #11: 'RACE'
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 61 | 204 |
DEL PEAK 6(4Q34.3) MUTATED | 0 | 3 | 6 | 19 |
DEL PEAK 6(4Q34.3) WILD-TYPE | 2 | 2 | 55 | 185 |
Figure S42. Get High-res Image Gene #13: 'del_4q34.3' versus Clinical Feature #11: 'RACE'
![](D13V11.png)
P value = 0.0456 (Fisher's exact test), Q value = 0.14
Table S43. Gene #14: 'del_5p15.33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 7(5P15.33) MUTATED | 5 | 0 | 5 | 2 |
DEL PEAK 7(5P15.33) WILD-TYPE | 166 | 22 | 47 | 13 |
Figure S43. Get High-res Image Gene #14: 'del_5p15.33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D14V3.png)
P value = 0.0257 (Fisher's exact test), Q value = 0.096
Table S44. Gene #14: 'del_5p15.33' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 7(5P15.33) MUTATED | 5 | 1 | 7 |
DEL PEAK 7(5P15.33) WILD-TYPE | 185 | 32 | 55 |
Figure S44. Get High-res Image Gene #14: 'del_5p15.33' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D14V4.png)
P value = 0.00371 (Fisher's exact test), Q value = 0.019
Table S45. Gene #14: 'del_5p15.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 7(5P15.33) MUTATED | 0 | 5 | 1 |
DEL PEAK 7(5P15.33) WILD-TYPE | 48 | 19 | 4 |
Figure S45. Get High-res Image Gene #14: 'del_5p15.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D14V5.png)
P value = 0.0463 (Fisher's exact test), Q value = 0.14
Table S46. Gene #14: 'del_5p15.33' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 7(5P15.33) MUTATED | 7 | 6 |
DEL PEAK 7(5P15.33) WILD-TYPE | 69 | 205 |
Figure S46. Get High-res Image Gene #14: 'del_5p15.33' versus Clinical Feature #7: 'GENDER'
![](D14V7.png)
P value = 7.56e-05 (logrank test), Q value = 0.00093
Table S47. Gene #15: 'del_5q35.2' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 8(5Q35.2) MUTATED | 10 | 5 | 2.8 - 79.9 (18.9) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 272 | 39 | 0.1 - 194.8 (25.0) |
Figure S47. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #1: 'Time to Death'
![](D15V1.png)
P value = 0.00448 (Wilcoxon-test), Q value = 0.023
Table S48. Gene #15: 'del_5q35.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 282 | 61.4 (12.1) |
DEL PEAK 8(5Q35.2) MUTATED | 10 | 46.8 (17.3) |
DEL PEAK 8(5Q35.2) WILD-TYPE | 272 | 62.0 (11.6) |
Figure S48. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
![](D15V2.png)
P value = 0.00046 (Fisher's exact test), Q value = 0.0037
Table S49. Gene #15: 'del_5q35.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 7 | 1 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 170 | 21 | 45 | 14 |
Figure S49. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D15V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S50. Gene #15: 'del_5q35.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 1 | 9 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 189 | 32 | 53 |
Figure S50. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D15V4.png)
P value = 0.0873 (Fisher's exact test), Q value = 0.24
Table S51. Gene #15: 'del_5q35.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 8(5Q35.2) MUTATED | 1 | 4 | 0 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 47 | 20 | 5 |
Figure S51. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D15V5.png)
P value = 0.00926 (Fisher's exact test), Q value = 0.042
Table S52. Gene #15: 'del_5q35.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 8(5Q35.2) MUTATED | 7 | 4 |
DEL PEAK 8(5Q35.2) WILD-TYPE | 69 | 207 |
Figure S52. Get High-res Image Gene #15: 'del_5q35.2' versus Clinical Feature #7: 'GENDER'
![](D15V7.png)
P value = 9e-04 (Fisher's exact test), Q value = 0.0066
Table S53. Gene #16: 'del_6p12.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 9(6P12.3) MUTATED | 9 | 0 | 12 | 2 |
DEL PEAK 9(6P12.3) WILD-TYPE | 162 | 22 | 40 | 13 |
Figure S53. Get High-res Image Gene #16: 'del_6p12.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D16V3.png)
P value = 0.00035 (Fisher's exact test), Q value = 0.0031
Table S54. Gene #16: 'del_6p12.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 9(6P12.3) MUTATED | 11 | 1 | 14 |
DEL PEAK 9(6P12.3) WILD-TYPE | 179 | 32 | 48 |
Figure S54. Get High-res Image Gene #16: 'del_6p12.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D16V4.png)
P value = 0.0106 (Fisher's exact test), Q value = 0.046
Table S55. Gene #16: 'del_6p12.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 9(6P12.3) MUTATED | 6 | 1 | 3 |
DEL PEAK 9(6P12.3) WILD-TYPE | 42 | 23 | 2 |
Figure S55. Get High-res Image Gene #16: 'del_6p12.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D16V5.png)
P value = 0.0364 (Wilcoxon-test), Q value = 0.12
Table S56. Gene #16: 'del_6p12.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
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) |
Figure S56. Get High-res Image Gene #16: 'del_6p12.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D16V8.png)
P value = 0.00164 (Fisher's exact test), Q value = 0.0098
Table S57. Gene #17: 'del_6q22.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 10(6Q22.31) MUTATED | 12 | 0 | 12 | 3 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 159 | 22 | 40 | 12 |
Figure S57. Get High-res Image Gene #17: 'del_6q22.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D17V3.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.0031
Table S58. Gene #17: 'del_6q22.31' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 10(6Q22.31) MUTATED | 13 | 1 | 15 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 177 | 32 | 47 |
Figure S58. Get High-res Image Gene #17: 'del_6q22.31' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D17V4.png)
P value = 0.0256 (Fisher's exact test), Q value = 0.096
Table S59. Gene #17: 'del_6q22.31' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 10(6Q22.31) MUTATED | 13 | 16 |
DEL PEAK 10(6Q22.31) WILD-TYPE | 63 | 195 |
Figure S59. Get High-res Image Gene #17: 'del_6q22.31' versus Clinical Feature #7: 'GENDER'
![](D17V7.png)
P value = 0.0506 (Wilcoxon-test), Q value = 0.15
Table S60. Gene #17: 'del_6q22.31' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 10(6Q22.31) MUTATED | 11 | 71.8 (36.0) |
DEL PEAK 10(6Q22.31) WILD-TYPE | 65 | 90.2 (17.8) |
Figure S60. Get High-res Image Gene #17: 'del_6q22.31' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D17V8.png)
P value = 0.00014 (Fisher's exact test), Q value = 0.0016
Table S61. Gene #18: 'del_6q25.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 11(6Q25.3) MUTATED | 12 | 0 | 15 | 2 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 159 | 22 | 37 | 13 |
Figure S61. Get High-res Image Gene #18: 'del_6q25.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D18V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
Table S62. Gene #18: 'del_6q25.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 11(6Q25.3) MUTATED | 13 | 1 | 18 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 177 | 32 | 44 |
Figure S62. Get High-res Image Gene #18: 'del_6q25.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D18V4.png)
P value = 0.0457 (Fisher's exact test), Q value = 0.14
Table S63. Gene #18: 'del_6q25.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 11(6Q25.3) MUTATED | 6 | 4 | 3 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 42 | 20 | 2 |
Figure S63. Get High-res Image Gene #18: 'del_6q25.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D18V5.png)
P value = 0.00256 (Fisher's exact test), Q value = 0.014
Table S64. Gene #18: 'del_6q25.3' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 11(6Q25.3) MUTATED | 16 | 16 |
DEL PEAK 11(6Q25.3) WILD-TYPE | 60 | 195 |
Figure S64. Get High-res Image Gene #18: 'del_6q25.3' versus Clinical Feature #7: 'GENDER'
![](D18V7.png)
P value = 0.0429 (Wilcoxon-test), Q value = 0.14
Table S65. Gene #18: 'del_6q25.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 11(6Q25.3) MUTATED | 12 | 73.3 (34.7) |
DEL PEAK 11(6Q25.3) WILD-TYPE | 64 | 90.2 (17.9) |
Figure S65. Get High-res Image Gene #18: 'del_6q25.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D18V8.png)
P value = 5.46e-11 (logrank test), Q value = 2e-08
Table S66. Gene #19: 'del_9p21.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 12(9P21.3) MUTATED | 37 | 17 | 2.0 - 93.3 (18.0) |
DEL PEAK 12(9P21.3) WILD-TYPE | 245 | 27 | 0.1 - 194.8 (26.0) |
Figure S66. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #1: 'Time to Death'
![](D19V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S67. Gene #19: 'del_9p21.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 12(9P21.3) MUTATED | 10 | 0 | 19 | 7 |
DEL PEAK 12(9P21.3) WILD-TYPE | 161 | 22 | 33 | 8 |
Figure S67. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D19V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S68. Gene #19: 'del_9p21.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 12(9P21.3) MUTATED | 11 | 3 | 25 |
DEL PEAK 12(9P21.3) WILD-TYPE | 179 | 30 | 37 |
Figure S68. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D19V4.png)
P value = 2e-04 (Fisher's exact test), Q value = 0.0021
Table S69. Gene #19: 'del_9p21.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 12(9P21.3) MUTATED | 7 | 14 | 3 |
DEL PEAK 12(9P21.3) WILD-TYPE | 41 | 10 | 2 |
Figure S69. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D19V5.png)
P value = 0.0193 (Fisher's exact test), Q value = 0.078
Table S70. Gene #19: 'del_9p21.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
DEL PEAK 12(9P21.3) MUTATED | 10 | 4 |
DEL PEAK 12(9P21.3) WILD-TYPE | 83 | 5 |
Figure S70. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D19V6.png)
P value = 0.00147 (Fisher's exact test), Q value = 0.0091
Table S71. Gene #19: 'del_9p21.3' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 12(9P21.3) MUTATED | 19 | 20 |
DEL PEAK 12(9P21.3) WILD-TYPE | 57 | 191 |
Figure S71. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #7: 'GENDER'
![](D19V7.png)
P value = 0.00303 (Wilcoxon-test), Q value = 0.016
Table S72. Gene #19: 'del_9p21.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 12(9P21.3) MUTATED | 14 | 69.3 (36.3) |
DEL PEAK 12(9P21.3) WILD-TYPE | 62 | 91.6 (15.0) |
Figure S72. Get High-res Image Gene #19: 'del_9p21.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D19V8.png)
P value = 0.0686 (logrank test), Q value = 0.2
Table S73. Gene #20: 'del_10q21.1' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 13(10Q21.1) MUTATED | 18 | 6 | 2.1 - 99.8 (21.1) |
DEL PEAK 13(10Q21.1) WILD-TYPE | 264 | 38 | 0.1 - 194.8 (25.0) |
Figure S73. Get High-res Image Gene #20: 'del_10q21.1' versus Clinical Feature #1: 'Time to Death'
![](D20V1.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.00093
Table S74. Gene #20: 'del_10q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 13(10Q21.1) MUTATED | 5 | 0 | 12 | 1 |
DEL PEAK 13(10Q21.1) WILD-TYPE | 166 | 22 | 40 | 14 |
Figure S74. Get High-res Image Gene #20: 'del_10q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D20V3.png)
P value = 0.00096 (Fisher's exact test), Q value = 0.0069
Table S75. Gene #20: 'del_10q21.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 13(10Q21.1) MUTATED | 8 | 0 | 11 |
DEL PEAK 13(10Q21.1) WILD-TYPE | 182 | 33 | 51 |
Figure S75. Get High-res Image Gene #20: 'del_10q21.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D20V4.png)
P value = 0.0496 (Wilcoxon-test), Q value = 0.15
Table S76. Gene #20: 'del_10q21.1' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 13(10Q21.1) MUTATED | 7 | 57.1 (45.0) |
DEL PEAK 13(10Q21.1) WILD-TYPE | 69 | 90.6 (15.9) |
Figure S76. Get High-res Image Gene #20: 'del_10q21.1' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D20V8.png)
P value = 2.44e-05 (logrank test), Q value = 0.00038
Table S77. Gene #21: 'del_11q22.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 14(11Q22.3) MUTATED | 29 | 11 | 0.4 - 123.6 (18.6) |
DEL PEAK 14(11Q22.3) WILD-TYPE | 253 | 33 | 0.1 - 194.8 (25.4) |
Figure S77. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #1: 'Time to Death'
![](D21V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S78. Gene #21: 'del_11q22.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 14(11Q22.3) MUTATED | 7 | 3 | 14 | 6 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 164 | 19 | 38 | 9 |
Figure S78. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D21V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S79. Gene #21: 'del_11q22.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 14(11Q22.3) MUTATED | 8 | 5 | 18 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 182 | 28 | 44 |
Figure S79. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D21V4.png)
P value = 0.00033 (Fisher's exact test), Q value = 0.0031
Table S80. Gene #21: 'del_11q22.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 14(11Q22.3) MUTATED | 3 | 9 | 3 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 45 | 15 | 2 |
Figure S80. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D21V5.png)
P value = 0.0702 (Fisher's exact test), Q value = 0.2
Table S81. Gene #21: 'del_11q22.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
DEL PEAK 14(11Q22.3) MUTATED | 9 | 3 |
DEL PEAK 14(11Q22.3) WILD-TYPE | 84 | 6 |
Figure S81. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D21V6.png)
P value = 0.044 (Wilcoxon-test), Q value = 0.14
Table S82. Gene #21: 'del_11q22.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 14(11Q22.3) MUTATED | 8 | 73.8 (33.4) |
DEL PEAK 14(11Q22.3) WILD-TYPE | 68 | 89.1 (20.1) |
Figure S82. Get High-res Image Gene #21: 'del_11q22.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D21V8.png)
P value = 2.93e-07 (logrank test), Q value = 2.7e-05
Table S83. Gene #22: 'del_11q23.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 15(11Q23.3) MUTATED | 27 | 12 | 0.4 - 123.6 (16.9) |
DEL PEAK 15(11Q23.3) WILD-TYPE | 255 | 32 | 0.1 - 194.8 (25.3) |
Figure S83. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #1: 'Time to Death'
![](D22V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S84. Gene #22: 'del_11q23.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 15(11Q23.3) MUTATED | 5 | 2 | 15 | 6 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 166 | 20 | 37 | 9 |
Figure S84. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D22V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S85. Gene #22: 'del_11q23.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 15(11Q23.3) MUTATED | 6 | 4 | 19 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 184 | 29 | 43 |
Figure S85. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D22V4.png)
P value = 0.00051 (Fisher's exact test), Q value = 0.004
Table S86. Gene #22: 'del_11q23.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 15(11Q23.3) MUTATED | 3 | 9 | 3 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 45 | 15 | 2 |
Figure S86. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D22V5.png)
P value = 0.0553 (Fisher's exact test), Q value = 0.16
Table S87. Gene #22: 'del_11q23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
DEL PEAK 15(11Q23.3) MUTATED | 8 | 3 |
DEL PEAK 15(11Q23.3) WILD-TYPE | 85 | 6 |
Figure S87. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D22V6.png)
P value = 0.044 (Wilcoxon-test), Q value = 0.14
Table S88. Gene #22: 'del_11q23.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 15(11Q23.3) MUTATED | 8 | 73.8 (33.4) |
DEL PEAK 15(11Q23.3) WILD-TYPE | 68 | 89.1 (20.1) |
Figure S88. Get High-res Image Gene #22: 'del_11q23.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D22V8.png)
P value = 0.000374 (logrank test), Q value = 0.0032
Table S89. Gene #23: 'del_14q11.2' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 16(14Q11.2) MUTATED | 50 | 14 | 0.1 - 80.9 (20.1) |
DEL PEAK 16(14Q11.2) WILD-TYPE | 232 | 30 | 0.1 - 194.8 (25.2) |
Figure S89. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #1: 'Time to Death'
![](D23V1.png)
P value = 0.0115 (Fisher's exact test), Q value = 0.049
Table S90. Gene #23: 'del_14q11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 16(14Q11.2) MUTATED | 22 | 3 | 14 | 6 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 149 | 19 | 38 | 9 |
Figure S90. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D23V3.png)
P value = 0.00046 (Fisher's exact test), Q value = 0.0037
Table S91. Gene #23: 'del_14q11.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 16(14Q11.2) MUTATED | 24 | 5 | 22 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 166 | 28 | 40 |
Figure S91. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D23V4.png)
P value = 0.0111 (Fisher's exact test), Q value = 0.047
Table S92. Gene #23: 'del_14q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 16(14Q11.2) MUTATED | 9 | 8 | 4 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 39 | 16 | 1 |
Figure S92. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D23V5.png)
P value = 0.0135 (Fisher's exact test), Q value = 0.056
Table S93. Gene #23: 'del_14q11.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 16(14Q11.2) MUTATED | 21 | 30 |
DEL PEAK 16(14Q11.2) WILD-TYPE | 55 | 181 |
Figure S93. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #7: 'GENDER'
![](D23V7.png)
P value = 0.0224 (Wilcoxon-test), Q value = 0.087
Table S94. Gene #23: 'del_14q11.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 16(14Q11.2) MUTATED | 16 | 73.1 (35.3) |
DEL PEAK 16(14Q11.2) WILD-TYPE | 60 | 91.3 (15.1) |
Figure S94. Get High-res Image Gene #23: 'del_14q11.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D23V8.png)
P value = 6.65e-05 (logrank test), Q value = 0.00088
Table S95. Gene #24: 'del_14q24.2' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 17(14Q24.2) MUTATED | 50 | 15 | 0.1 - 80.9 (19.5) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 232 | 29 | 0.1 - 194.8 (25.3) |
Figure S95. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #1: 'Time to Death'
![](D24V1.png)
P value = 0.00268 (Fisher's exact test), Q value = 0.015
Table S96. Gene #24: 'del_14q24.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 17(14Q24.2) MUTATED | 20 | 3 | 15 | 6 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 151 | 19 | 37 | 9 |
Figure S96. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D24V3.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.00093
Table S97. Gene #24: 'del_14q24.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 17(14Q24.2) MUTATED | 22 | 5 | 23 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 168 | 28 | 39 |
Figure S97. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D24V4.png)
P value = 0.00526 (Fisher's exact test), Q value = 0.026
Table S98. Gene #24: 'del_14q24.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 17(14Q24.2) MUTATED | 8 | 9 | 4 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 40 | 15 | 1 |
Figure S98. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D24V5.png)
P value = 0.00826 (Fisher's exact test), Q value = 0.039
Table S99. Gene #24: 'del_14q24.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 17(14Q24.2) MUTATED | 21 | 29 |
DEL PEAK 17(14Q24.2) WILD-TYPE | 55 | 182 |
Figure S99. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #7: 'GENDER'
![](D24V7.png)
P value = 0.00896 (Wilcoxon-test), Q value = 0.041
Table S100. Gene #24: 'del_14q24.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 17(14Q24.2) MUTATED | 15 | 71.3 (35.8) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 61 | 91.5 (15.0) |
Figure S100. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D24V8.png)
P value = 0.0756 (Wilcoxon-test), Q value = 0.21
Table S101. Gene #24: 'del_14q24.2' versus Clinical Feature #10: 'YEAR_OF_TOBACCO_SMOKING_ONSET'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 54 | 1972.5 (15.7) |
DEL PEAK 17(14Q24.2) MUTATED | 9 | 1981.7 (15.6) |
DEL PEAK 17(14Q24.2) WILD-TYPE | 45 | 1970.7 (15.2) |
Figure S101. Get High-res Image Gene #24: 'del_14q24.2' versus Clinical Feature #10: 'YEAR_OF_TOBACCO_SMOKING_ONSET'
![](D24V10.png)
P value = 0.000318 (logrank test), Q value = 0.003
Table S102. Gene #25: 'del_15q13.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 18(15Q13.3) MUTATED | 34 | 11 | 0.1 - 194.8 (17.6) |
DEL PEAK 18(15Q13.3) WILD-TYPE | 248 | 33 | 0.1 - 129.9 (26.0) |
Figure S102. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #1: 'Time to Death'
![](D25V1.png)
P value = 0.00017 (Fisher's exact test), Q value = 0.0019
Table S103. Gene #25: 'del_15q13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 18(15Q13.3) MUTATED | 12 | 1 | 12 | 6 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 159 | 21 | 40 | 9 |
Figure S103. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D25V3.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.00057
Table S104. Gene #25: 'del_15q13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 18(15Q13.3) MUTATED | 14 | 2 | 19 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 176 | 31 | 43 |
Figure S104. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D25V4.png)
P value = 0.00106 (Fisher's exact test), Q value = 0.0074
Table S105. Gene #25: 'del_15q13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 18(15Q13.3) MUTATED | 4 | 11 | 2 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 44 | 13 | 3 |
Figure S105. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D25V5.png)
P value = 0.087 (Fisher's exact test), Q value = 0.24
Table S106. Gene #25: 'del_15q13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
nPatients | 0 | 1 |
---|---|---|
ALL | 93 | 9 |
DEL PEAK 18(15Q13.3) MUTATED | 10 | 3 |
DEL PEAK 18(15Q13.3) WILD-TYPE | 83 | 6 |
Figure S106. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'
![](D25V6.png)
P value = 0.0278 (Wilcoxon-test), Q value = 0.1
Table S107. Gene #25: 'del_15q13.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 18(15Q13.3) MUTATED | 10 | 72.0 (38.2) |
DEL PEAK 18(15Q13.3) WILD-TYPE | 66 | 89.8 (17.8) |
Figure S107. Get High-res Image Gene #25: 'del_15q13.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D25V8.png)
P value = 2.9e-08 (logrank test), Q value = 5.4e-06
Table S108. Gene #26: 'del_16q24.1' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 19(16Q24.1) MUTATED | 11 | 6 | 0.4 - 51.5 (13.0) |
DEL PEAK 19(16Q24.1) WILD-TYPE | 271 | 38 | 0.1 - 194.8 (25.3) |
Figure S108. Get High-res Image Gene #26: 'del_16q24.1' versus Clinical Feature #1: 'Time to Death'
![](D26V1.png)
P value = 0.00155 (Fisher's exact test), Q value = 0.0095
Table S109. Gene #26: 'del_16q24.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 19(16Q24.1) MUTATED | 3 | 0 | 7 | 2 |
DEL PEAK 19(16Q24.1) WILD-TYPE | 168 | 22 | 45 | 13 |
Figure S109. Get High-res Image Gene #26: 'del_16q24.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D26V3.png)
P value = 0.00219 (Fisher's exact test), Q value = 0.013
Table S110. Gene #26: 'del_16q24.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 19(16Q24.1) MUTATED | 4 | 0 | 8 |
DEL PEAK 19(16Q24.1) WILD-TYPE | 186 | 33 | 54 |
Figure S110. Get High-res Image Gene #26: 'del_16q24.1' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D26V4.png)
P value = 0.000729 (logrank test), Q value = 0.0054
Table S111. Gene #27: 'del_19p13.3' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 20(19P13.3) MUTATED | 23 | 7 | 0.9 - 99.0 (16.9) |
DEL PEAK 20(19P13.3) WILD-TYPE | 259 | 37 | 0.1 - 194.8 (25.4) |
Figure S111. Get High-res Image Gene #27: 'del_19p13.3' versus Clinical Feature #1: 'Time to Death'
![](D27V1.png)
P value = 0.00063 (Fisher's exact test), Q value = 0.0048
Table S112. Gene #27: 'del_19p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 20(19P13.3) MUTATED | 6 | 1 | 11 | 2 |
DEL PEAK 20(19P13.3) WILD-TYPE | 165 | 21 | 41 | 13 |
Figure S112. Get High-res Image Gene #27: 'del_19p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D27V3.png)
P value = 7e-05 (Fisher's exact test), Q value = 9e-04
Table S113. Gene #27: 'del_19p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 20(19P13.3) MUTATED | 8 | 1 | 14 |
DEL PEAK 20(19P13.3) WILD-TYPE | 182 | 32 | 48 |
Figure S113. Get High-res Image Gene #27: 'del_19p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D27V4.png)
P value = 0.0405 (Fisher's exact test), Q value = 0.13
Table S114. Gene #27: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 20(19P13.3) MUTATED | 3 | 5 | 2 |
DEL PEAK 20(19P13.3) WILD-TYPE | 45 | 19 | 3 |
Figure S114. Get High-res Image Gene #27: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D27V5.png)
P value = 0.00144 (Wilcoxon-test), Q value = 0.0091
Table S115. Gene #27: 'del_19p13.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 20(19P13.3) MUTATED | 11 | 64.5 (39.8) |
DEL PEAK 20(19P13.3) WILD-TYPE | 65 | 91.4 (14.7) |
Figure S115. Get High-res Image Gene #27: 'del_19p13.3' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D27V8.png)
P value = 0.0564 (logrank test), Q value = 0.16
Table S116. Gene #28: 'del_19q13.42' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 21(19Q13.42) MUTATED | 19 | 5 | 0.9 - 93.3 (19.6) |
DEL PEAK 21(19Q13.42) WILD-TYPE | 263 | 39 | 0.1 - 194.8 (24.6) |
Figure S116. Get High-res Image Gene #28: 'del_19q13.42' versus Clinical Feature #1: 'Time to Death'
![](D28V1.png)
P value = 4e-04 (Fisher's exact test), Q value = 0.0034
Table S117. Gene #28: 'del_19q13.42' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 21(19Q13.42) MUTATED | 5 | 1 | 11 | 1 |
DEL PEAK 21(19Q13.42) WILD-TYPE | 166 | 21 | 41 | 14 |
Figure S117. Get High-res Image Gene #28: 'del_19q13.42' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D28V3.png)
P value = 0.00026 (Fisher's exact test), Q value = 0.0026
Table S118. Gene #28: 'del_19q13.42' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 21(19Q13.42) MUTATED | 6 | 1 | 12 |
DEL PEAK 21(19Q13.42) WILD-TYPE | 184 | 32 | 50 |
Figure S118. Get High-res Image Gene #28: 'del_19q13.42' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D28V4.png)
P value = 0.0267 (Wilcoxon-test), Q value = 0.098
Table S119. Gene #28: 'del_19q13.42' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 21(19Q13.42) MUTATED | 9 | 77.8 (29.9) |
DEL PEAK 21(19Q13.42) WILD-TYPE | 67 | 88.8 (20.7) |
Figure S119. Get High-res Image Gene #28: 'del_19q13.42' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D28V8.png)
P value = 0.00127 (logrank test), Q value = 0.0085
Table S120. Gene #29: 'del_22q12.2' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 22(22Q12.2) MUTATED | 62 | 16 | 0.9 - 123.6 (19.3) |
DEL PEAK 22(22Q12.2) WILD-TYPE | 220 | 28 | 0.1 - 194.8 (25.5) |
Figure S120. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #1: 'Time to Death'
![](D29V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S121. Gene #29: 'del_22q12.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 22(22Q12.2) MUTATED | 22 | 3 | 26 | 8 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 149 | 19 | 26 | 7 |
Figure S121. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D29V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00018
Table S122. Gene #29: 'del_22q12.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 22(22Q12.2) MUTATED | 25 | 7 | 31 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 165 | 26 | 31 |
Figure S122. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D29V4.png)
P value = 0.00261 (Fisher's exact test), Q value = 0.014
Table S123. Gene #29: 'del_22q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 22(22Q12.2) MUTATED | 11 | 15 | 2 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 37 | 9 | 3 |
Figure S123. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D29V5.png)
P value = 0.00188 (Fisher's exact test), Q value = 0.011
Table S124. Gene #29: 'del_22q12.2' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 22(22Q12.2) MUTATED | 27 | 36 |
DEL PEAK 22(22Q12.2) WILD-TYPE | 49 | 175 |
Figure S124. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #7: 'GENDER'
![](D29V7.png)
P value = 0.00113 (Wilcoxon-test), Q value = 0.0078
Table S125. Gene #29: 'del_22q12.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 22(22Q12.2) MUTATED | 19 | 70.5 (35.5) |
DEL PEAK 22(22Q12.2) WILD-TYPE | 57 | 93.2 (10.7) |
Figure S125. Get High-res Image Gene #29: 'del_22q12.2' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D29V8.png)
P value = 0.000231 (logrank test), Q value = 0.0024
Table S126. Gene #30: 'del_xp11.4' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 23(XP11.4) MUTATED | 33 | 12 | 0.4 - 91.7 (19.6) |
DEL PEAK 23(XP11.4) WILD-TYPE | 249 | 32 | 0.1 - 194.8 (25.6) |
Figure S126. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #1: 'Time to Death'
![](D30V1.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
Table S127. Gene #30: 'del_xp11.4' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 23(XP11.4) MUTATED | 8 | 1 | 16 | 3 |
DEL PEAK 23(XP11.4) WILD-TYPE | 163 | 21 | 36 | 12 |
Figure S127. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D30V3.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.00069
Table S128. Gene #30: 'del_xp11.4' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 23(XP11.4) MUTATED | 12 | 4 | 18 |
DEL PEAK 23(XP11.4) WILD-TYPE | 178 | 29 | 44 |
Figure S128. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D30V4.png)
P value = 0.0557 (Fisher's exact test), Q value = 0.16
Table S129. Gene #30: 'del_xp11.4' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 23(XP11.4) MUTATED | 5 | 8 | 1 |
DEL PEAK 23(XP11.4) WILD-TYPE | 43 | 16 | 4 |
Figure S129. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D30V5.png)
P value = 0.0212 (Fisher's exact test), Q value = 0.084
Table S130. Gene #30: 'del_xp11.4' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 23(XP11.4) MUTATED | 15 | 19 |
DEL PEAK 23(XP11.4) WILD-TYPE | 61 | 192 |
Figure S130. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #7: 'GENDER'
![](D30V7.png)
P value = 0.0213 (Wilcoxon-test), Q value = 0.084
Table S131. Gene #30: 'del_xp11.4' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 23(XP11.4) MUTATED | 9 | 76.7 (25.5) |
DEL PEAK 23(XP11.4) WILD-TYPE | 67 | 89.0 (21.3) |
Figure S131. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D30V8.png)
P value = 0.0239 (Fisher's exact test), Q value = 0.092
Table S132. Gene #30: 'del_xp11.4' versus Clinical Feature #11: 'RACE'
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 5 | 61 | 204 |
DEL PEAK 23(XP11.4) MUTATED | 0 | 3 | 9 | 20 |
DEL PEAK 23(XP11.4) WILD-TYPE | 2 | 2 | 52 | 184 |
Figure S132. Get High-res Image Gene #30: 'del_xp11.4' versus Clinical Feature #11: 'RACE'
![](D30V11.png)
P value = 1.16e-06 (logrank test), Q value = 7.2e-05
Table S133. Gene #31: 'del_xq28' versus Clinical Feature #1: 'Time to Death'
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 282 | 44 | 0.1 - 194.8 (24.5) |
DEL PEAK 24(XQ28) MUTATED | 27 | 12 | 0.1 - 91.7 (18.2) |
DEL PEAK 24(XQ28) WILD-TYPE | 255 | 32 | 0.1 - 194.8 (25.6) |
Figure S133. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #1: 'Time to Death'
![](D31V1.png)
P value = 0.0292 (Wilcoxon-test), Q value = 0.1
Table S134. Gene #31: 'del_xq28' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 282 | 61.4 (12.1) |
DEL PEAK 24(XQ28) MUTATED | 27 | 55.8 (13.8) |
DEL PEAK 24(XQ28) WILD-TYPE | 255 | 62.0 (11.8) |
Figure S134. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #2: 'YEARS_TO_BIRTH'
![](D31V2.png)
P value = 0.00051 (Fisher's exact test), Q value = 0.004
Table S135. Gene #31: 'del_xq28' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 171 | 22 | 52 | 15 |
DEL PEAK 24(XQ28) MUTATED | 8 | 1 | 12 | 3 |
DEL PEAK 24(XQ28) WILD-TYPE | 163 | 21 | 40 | 12 |
Figure S135. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'
![](D31V3.png)
P value = 0.00145 (Fisher's exact test), Q value = 0.0091
Table S136. Gene #31: 'del_xq28' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 190 | 33 | 62 |
DEL PEAK 24(XQ28) MUTATED | 11 | 3 | 14 |
DEL PEAK 24(XQ28) WILD-TYPE | 179 | 30 | 48 |
Figure S136. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'
![](D31V4.png)
P value = 0.00695 (Fisher's exact test), Q value = 0.034
Table S137. Gene #31: 'del_xq28' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 48 | 24 | 5 |
DEL PEAK 24(XQ28) MUTATED | 3 | 8 | 1 |
DEL PEAK 24(XQ28) WILD-TYPE | 45 | 16 | 4 |
Figure S137. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'
![](D31V5.png)
P value = 0.0218 (Fisher's exact test), Q value = 0.086
Table S138. Gene #31: 'del_xq28' versus Clinical Feature #7: 'GENDER'
nPatients | FEMALE | MALE |
---|---|---|
ALL | 76 | 211 |
DEL PEAK 24(XQ28) MUTATED | 13 | 15 |
DEL PEAK 24(XQ28) WILD-TYPE | 63 | 196 |
Figure S138. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #7: 'GENDER'
![](D31V7.png)
P value = 0.00491 (Wilcoxon-test), Q value = 0.025
Table S139. Gene #31: 'del_xq28' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 76 | 87.5 (22.0) |
DEL PEAK 24(XQ28) MUTATED | 10 | 69.0 (34.1) |
DEL PEAK 24(XQ28) WILD-TYPE | 66 | 90.3 (18.4) |
Figure S139. Get High-res Image Gene #31: 'del_xq28' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'
![](D31V8.png)
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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/19781624/transformed.cor.cli.txt
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Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/KIRP-TP/19775272/KIRP-TP.merged_data.txt
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Number of patients = 287
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Number of significantly focal cnvs = 31
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Number of selected clinical features = 12
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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.