This pipeline computes the correlation between significant copy number variation (cnv focal) genes and molecular subtypes.
Testing the association between copy number variation 70 focal events and 10 molecular subtypes across 408 patients, 125 significant findings detected with P value < 0.05 and Q value < 0.25.
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amp_1p34.2 cnv correlated to 'CN_CNMF'.
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amp_1q21.3 cnv correlated to 'CN_CNMF'.
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amp_1q23.3 cnv correlated to 'CN_CNMF'.
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amp_2p25.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_3p25.2 cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_3q26.33 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_4p16.3 cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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amp_4q13.3 cnv correlated to 'CN_CNMF'.
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amp_5p15.33 cnv correlated to 'CN_CNMF' and 'MIRSEQ_CHIERARCHICAL'.
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amp_6p22.3 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_7p21.1 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_7p11.2 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_8p11.23 cnv correlated to 'CN_CNMF'.
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amp_8q22.3 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_9p24.1 cnv correlated to 'CN_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_10p14 cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_11p13 cnv correlated to 'CN_CNMF'.
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amp_11q13.3 cnv correlated to 'CN_CNMF'.
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amp_11q22.2 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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amp_12p12.1 cnv correlated to 'CN_CNMF'.
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amp_12q15 cnv correlated to 'CN_CNMF'.
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amp_13q22.1 cnv correlated to 'CN_CNMF'.
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amp_16p13.2 cnv correlated to 'CN_CNMF'.
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amp_16p11.2 cnv correlated to 'CN_CNMF'.
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amp_17q11.2 cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_17q12 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_17q23.3 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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amp_19q12 cnv correlated to 'CN_CNMF'.
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amp_19q13.43 cnv correlated to 'CN_CNMF'.
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amp_20q11.21 cnv correlated to 'CN_CNMF'.
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amp_22q12.2 cnv correlated to 'CN_CNMF'.
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del_1q32.1 cnv correlated to 'CN_CNMF'.
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del_2q22.1 cnv correlated to 'CN_CNMF'.
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del_2q34 cnv correlated to 'CN_CNMF'.
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del_2q37.1 cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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del_3p14.2 cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_4q22.1 cnv correlated to 'CN_CNMF'.
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del_4q34.2 cnv correlated to 'CN_CNMF'.
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del_5q12.1 cnv correlated to 'CN_CNMF' and 'MIRSEQ_CHIERARCHICAL'.
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del_6p25.3 cnv correlated to 'CN_CNMF'.
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del_6q21 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_6q27 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_7q36.3 cnv correlated to 'CN_CNMF'.
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del_8p23.1 cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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del_9p23 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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del_9p21.3 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_9q33.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_10q23.31 cnv correlated to 'CN_CNMF'.
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del_11p15.5 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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del_11q23.3 cnv correlated to 'CN_CNMF'.
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del_11q25 cnv correlated to 'CN_CNMF'.
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del_12p13.1 cnv correlated to 'MRNASEQ_CHIERARCHICAL'.
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del_12q24.33 cnv correlated to 'CN_CNMF'.
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del_13q14.2 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_14q24.1 cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_15q13.1 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_16p13.3 cnv correlated to 'CN_CNMF'.
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del_16q23.1 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_17p12 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_18q23 cnv correlated to 'CN_CNMF', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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del_19p13.3 cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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del_22q13.32 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 70 focal events and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 125 significant findings detected.
|
Clinical Features |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
| nCNV (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
| del 9q33 2 | 168 (41%) | 240 |
1e-05 (0.007) |
1e-05 (0.007) |
0.0672 (1.00) |
0.00298 (1.00) |
1e-05 (0.007) |
1e-05 (0.007) |
0.0004 (0.232) |
0.00032 (0.186) |
1e-05 (0.007) |
1e-05 (0.007) |
| amp 3p25 2 | 190 (47%) | 218 |
1e-05 (0.007) |
0.0531 (1.00) |
0.079 (1.00) |
0.0109 (1.00) |
1e-05 (0.007) |
1e-05 (0.007) |
0.00019 (0.114) |
1e-05 (0.007) |
1e-05 (0.007) |
1e-05 (0.007) |
| del 3p14 2 | 117 (29%) | 291 |
0.00011 (0.0665) |
0.108 (1.00) |
0.0343 (1.00) |
0.0175 (1.00) |
1e-05 (0.007) |
1e-05 (0.007) |
0.881 (1.00) |
4e-05 (0.0246) |
6e-05 (0.0368) |
1e-05 (0.007) |
| amp 4p16 3 | 74 (18%) | 334 |
0.213 (1.00) |
0.00027 (0.158) |
0.0338 (1.00) |
0.0266 (1.00) |
0.00043 (0.248) |
2e-05 (0.0125) |
1e-05 (0.007) |
0.0258 (1.00) |
0.0581 (1.00) |
0.022 (1.00) |
| amp 2p25 1 | 152 (37%) | 256 |
1e-05 (0.007) |
0.00024 (0.142) |
0.801 (1.00) |
0.613 (1.00) |
0.0365 (1.00) |
0.00139 (0.785) |
0.0238 (1.00) |
0.0163 (1.00) |
0.0163 (1.00) |
3e-05 (0.0187) |
| amp 9p24 1 | 88 (22%) | 320 |
1e-05 (0.007) |
0.0254 (1.00) |
0.674 (1.00) |
0.326 (1.00) |
0.112 (1.00) |
0.0381 (1.00) |
0.693 (1.00) |
0.0442 (1.00) |
0.00012 (0.0725) |
7e-05 (0.0427) |
| amp 10p14 | 182 (45%) | 226 |
1e-05 (0.007) |
0.294 (1.00) |
0.355 (1.00) |
0.422 (1.00) |
0.168 (1.00) |
0.00029 (0.17) |
0.103 (1.00) |
0.154 (1.00) |
0.453 (1.00) |
1e-05 (0.007) |
| amp 17q11 2 | 174 (43%) | 234 |
1e-05 (0.007) |
0.00096 (0.544) |
0.0321 (1.00) |
0.088 (1.00) |
9e-05 (0.0548) |
0.00234 (1.00) |
0.0457 (1.00) |
0.0119 (1.00) |
0.00368 (1.00) |
1e-05 (0.007) |
| del 6q21 | 190 (47%) | 218 |
1e-05 (0.007) |
0.049 (1.00) |
0.883 (1.00) |
0.47 (1.00) |
0.491 (1.00) |
0.0766 (1.00) |
0.0152 (1.00) |
0.00022 (0.131) |
0.238 (1.00) |
1e-05 (0.007) |
| del 6q27 | 190 (47%) | 218 |
1e-05 (0.007) |
0.0269 (1.00) |
0.658 (1.00) |
0.434 (1.00) |
0.417 (1.00) |
0.02 (1.00) |
0.0222 (1.00) |
2e-05 (0.0125) |
0.376 (1.00) |
1e-05 (0.007) |
| del 11p15 5 | 211 (52%) | 197 |
1e-05 (0.007) |
0.0003 (0.175) |
0.365 (1.00) |
0.242 (1.00) |
0.00222 (1.00) |
0.00026 (0.153) |
0.0215 (1.00) |
0.299 (1.00) |
0.0127 (1.00) |
0.0121 (1.00) |
| del 13q14 2 | 156 (38%) | 252 |
1e-05 (0.007) |
0.254 (1.00) |
0.00783 (1.00) |
0.00359 (1.00) |
0.0128 (1.00) |
0.0332 (1.00) |
0.536 (1.00) |
0.0003 (0.175) |
0.00562 (1.00) |
1e-05 (0.007) |
| del 14q24 1 | 137 (34%) | 271 |
1e-05 (0.007) |
0.124 (1.00) |
0.392 (1.00) |
0.346 (1.00) |
0.00365 (1.00) |
1e-05 (0.007) |
0.00708 (1.00) |
0.00102 (0.577) |
0.00333 (1.00) |
3e-05 (0.0187) |
| del 15q13 1 | 159 (39%) | 249 |
1e-05 (0.007) |
0.00654 (1.00) |
0.317 (1.00) |
0.569 (1.00) |
0.701 (1.00) |
0.0946 (1.00) |
0.0262 (1.00) |
6e-05 (0.0368) |
0.0254 (1.00) |
1e-05 (0.007) |
| del 17p12 | 209 (51%) | 199 |
1e-05 (0.007) |
0.0343 (1.00) |
0.201 (1.00) |
0.609 (1.00) |
0.289 (1.00) |
0.00351 (1.00) |
0.605 (1.00) |
0.00019 (0.114) |
0.359 (1.00) |
0.00019 (0.114) |
| del 18q23 | 178 (44%) | 230 |
0.00041 (0.237) |
0.105 (1.00) |
0.632 (1.00) |
0.785 (1.00) |
0.214 (1.00) |
0.616 (1.00) |
1e-05 (0.007) |
1e-05 (0.007) |
0.033 (1.00) |
0.00672 (1.00) |
| del 22q13 32 | 187 (46%) | 221 |
1e-05 (0.007) |
0.00023 (0.136) |
0.549 (1.00) |
0.0162 (1.00) |
0.0141 (1.00) |
0.0301 (1.00) |
0.287 (1.00) |
0.00159 (0.894) |
0.00905 (1.00) |
1e-05 (0.007) |
| amp 3q26 33 | 218 (53%) | 190 |
1e-05 (0.007) |
0.522 (1.00) |
0.353 (1.00) |
0.0927 (1.00) |
0.315 (1.00) |
0.132 (1.00) |
0.54 (1.00) |
0.00564 (1.00) |
0.181 (1.00) |
1e-05 (0.007) |
| amp 5p15 33 | 206 (50%) | 202 |
1e-05 (0.007) |
0.165 (1.00) |
0.0216 (1.00) |
0.178 (1.00) |
0.616 (1.00) |
0.0765 (1.00) |
0.391 (1.00) |
3e-05 (0.0187) |
0.329 (1.00) |
0.00086 (0.489) |
| amp 6p22 3 | 171 (42%) | 237 |
1e-05 (0.007) |
0.103 (1.00) |
0.336 (1.00) |
0.433 (1.00) |
0.428 (1.00) |
0.234 (1.00) |
0.0708 (1.00) |
0.262 (1.00) |
0.26 (1.00) |
1e-05 (0.007) |
| amp 7p21 1 | 201 (49%) | 207 |
1e-05 (0.007) |
0.0232 (1.00) |
0.133 (1.00) |
0.317 (1.00) |
0.673 (1.00) |
0.044 (1.00) |
0.171 (1.00) |
0.00697 (1.00) |
0.401 (1.00) |
1e-05 (0.007) |
| amp 7p11 2 | 190 (47%) | 218 |
1e-05 (0.007) |
0.0279 (1.00) |
0.0898 (1.00) |
0.599 (1.00) |
0.723 (1.00) |
0.166 (1.00) |
0.514 (1.00) |
0.0364 (1.00) |
0.17 (1.00) |
5e-05 (0.0307) |
| amp 8q22 3 | 264 (65%) | 144 |
1e-05 (0.007) |
0.00208 (1.00) |
0.0243 (1.00) |
0.19 (1.00) |
0.231 (1.00) |
0.259 (1.00) |
0.0192 (1.00) |
0.00597 (1.00) |
0.072 (1.00) |
9e-05 (0.0548) |
| amp 11q22 2 | 71 (17%) | 337 |
0.00012 (0.0725) |
0.275 (1.00) |
0.734 (1.00) |
0.412 (1.00) |
0.847 (1.00) |
0.0318 (1.00) |
0.0423 (1.00) |
0.0227 (1.00) |
0.00038 (0.221) |
0.0208 (1.00) |
| amp 17q12 | 165 (40%) | 243 |
1e-05 (0.007) |
0.0271 (1.00) |
0.132 (1.00) |
0.0369 (1.00) |
0.00296 (1.00) |
0.0688 (1.00) |
0.00461 (1.00) |
0.0353 (1.00) |
0.0186 (1.00) |
1e-05 (0.007) |
| amp 17q23 3 | 194 (48%) | 214 |
1e-05 (0.007) |
0.076 (1.00) |
0.108 (1.00) |
0.14 (1.00) |
0.297 (1.00) |
0.693 (1.00) |
0.184 (1.00) |
0.469 (1.00) |
0.145 (1.00) |
0.00015 (0.09) |
| del 2q37 1 | 207 (51%) | 201 |
1e-05 (0.007) |
0.00023 (0.136) |
0.593 (1.00) |
0.442 (1.00) |
0.1 (1.00) |
0.0898 (1.00) |
0.022 (1.00) |
0.0606 (1.00) |
0.184 (1.00) |
0.00549 (1.00) |
| del 5q12 1 | 202 (50%) | 206 |
1e-05 (0.007) |
0.015 (1.00) |
0.935 (1.00) |
0.573 (1.00) |
0.255 (1.00) |
0.0088 (1.00) |
0.0223 (1.00) |
0.00013 (0.0783) |
0.0603 (1.00) |
0.00093 (0.528) |
| del 8p23 1 | 245 (60%) | 163 |
1e-05 (0.007) |
0.0003 (0.175) |
0.59 (1.00) |
0.177 (1.00) |
0.269 (1.00) |
0.0385 (1.00) |
0.0734 (1.00) |
0.0265 (1.00) |
0.161 (1.00) |
0.0724 (1.00) |
| del 9p23 | 177 (43%) | 231 |
1e-05 (0.007) |
0.0268 (1.00) |
0.219 (1.00) |
0.205 (1.00) |
0.268 (1.00) |
0.0359 (1.00) |
0.0653 (1.00) |
0.0167 (1.00) |
3e-05 (0.0187) |
0.00079 (0.452) |
| del 9p21 3 | 239 (59%) | 169 |
1e-05 (0.007) |
0.266 (1.00) |
0.451 (1.00) |
0.00965 (1.00) |
0.232 (1.00) |
0.12 (1.00) |
0.153 (1.00) |
0.0944 (1.00) |
0.0369 (1.00) |
0.0001 (0.0607) |
| del 16q23 1 | 119 (29%) | 289 |
1e-05 (0.007) |
0.0151 (1.00) |
0.502 (1.00) |
0.0637 (1.00) |
0.0572 (1.00) |
0.275 (1.00) |
0.131 (1.00) |
0.0251 (1.00) |
0.0852 (1.00) |
5e-05 (0.0307) |
| del 19p13 3 | 145 (36%) | 263 |
1e-05 (0.007) |
0.822 (1.00) |
0.938 (1.00) |
0.563 (1.00) |
0.0272 (1.00) |
0.00531 (1.00) |
0.334 (1.00) |
0.00918 (1.00) |
0.211 (1.00) |
0.0002 (0.119) |
| amp 1p34 2 | 101 (25%) | 307 |
1e-05 (0.007) |
0.1 (1.00) |
0.182 (1.00) |
0.508 (1.00) |
0.938 (1.00) |
0.29 (1.00) |
0.0351 (1.00) |
0.0192 (1.00) |
0.242 (1.00) |
0.0115 (1.00) |
| amp 1q21 3 | 202 (50%) | 206 |
1e-05 (0.007) |
0.053 (1.00) |
0.392 (1.00) |
0.722 (1.00) |
0.048 (1.00) |
0.00724 (1.00) |
0.14 (1.00) |
0.0431 (1.00) |
0.621 (1.00) |
0.00373 (1.00) |
| amp 1q23 3 | 216 (53%) | 192 |
1e-05 (0.007) |
0.00383 (1.00) |
0.552 (1.00) |
0.886 (1.00) |
0.106 (1.00) |
0.00961 (1.00) |
0.00203 (1.00) |
0.00319 (1.00) |
0.0413 (1.00) |
0.00149 (0.84) |
| amp 4q13 3 | 62 (15%) | 346 |
6e-05 (0.0368) |
0.0269 (1.00) |
0.582 (1.00) |
0.702 (1.00) |
0.265 (1.00) |
0.502 (1.00) |
0.00945 (1.00) |
0.0668 (1.00) |
0.0655 (1.00) |
0.0435 (1.00) |
| amp 8p11 23 | 124 (30%) | 284 |
1e-05 (0.007) |
0.0949 (1.00) |
0.749 (1.00) |
0.791 (1.00) |
0.658 (1.00) |
0.323 (1.00) |
0.0286 (1.00) |
0.513 (1.00) |
0.681 (1.00) |
0.953 (1.00) |
| amp 11p13 | 51 (12%) | 357 |
1e-05 (0.007) |
0.00502 (1.00) |
0.0331 (1.00) |
0.00338 (1.00) |
0.185 (1.00) |
0.0136 (1.00) |
0.253 (1.00) |
0.118 (1.00) |
0.0523 (1.00) |
0.00295 (1.00) |
| amp 11q13 3 | 135 (33%) | 273 |
1e-05 (0.007) |
0.309 (1.00) |
0.232 (1.00) |
0.0779 (1.00) |
0.071 (1.00) |
0.0305 (1.00) |
0.375 (1.00) |
0.174 (1.00) |
0.33 (1.00) |
0.711 (1.00) |
| amp 12p12 1 | 132 (32%) | 276 |
2e-05 (0.0125) |
0.0459 (1.00) |
0.692 (1.00) |
0.469 (1.00) |
0.533 (1.00) |
0.376 (1.00) |
0.822 (1.00) |
0.0277 (1.00) |
0.0749 (1.00) |
0.0385 (1.00) |
| amp 12q15 | 118 (29%) | 290 |
0.00013 (0.0783) |
0.41 (1.00) |
0.0379 (1.00) |
0.0196 (1.00) |
0.00217 (1.00) |
0.00296 (1.00) |
0.215 (1.00) |
0.0211 (1.00) |
0.00755 (1.00) |
0.00044 (0.253) |
| amp 13q22 1 | 128 (31%) | 280 |
0.0001 (0.0607) |
0.352 (1.00) |
0.962 (1.00) |
0.849 (1.00) |
0.978 (1.00) |
0.611 (1.00) |
0.877 (1.00) |
0.556 (1.00) |
0.732 (1.00) |
0.224 (1.00) |
| amp 16p13 2 | 87 (21%) | 321 |
1e-05 (0.007) |
0.122 (1.00) |
0.793 (1.00) |
0.899 (1.00) |
0.514 (1.00) |
0.181 (1.00) |
0.18 (1.00) |
0.0717 (1.00) |
0.229 (1.00) |
0.0225 (1.00) |
| amp 16p11 2 | 97 (24%) | 311 |
3e-05 (0.0187) |
0.149 (1.00) |
0.466 (1.00) |
0.369 (1.00) |
0.934 (1.00) |
0.443 (1.00) |
0.248 (1.00) |
0.311 (1.00) |
0.957 (1.00) |
0.0719 (1.00) |
| amp 19q12 | 165 (40%) | 243 |
1e-05 (0.007) |
0.556 (1.00) |
0.753 (1.00) |
0.781 (1.00) |
0.299 (1.00) |
0.106 (1.00) |
0.222 (1.00) |
0.0106 (1.00) |
0.158 (1.00) |
0.0263 (1.00) |
| amp 19q13 43 | 155 (38%) | 253 |
1e-05 (0.007) |
0.0988 (1.00) |
0.168 (1.00) |
0.304 (1.00) |
0.676 (1.00) |
0.898 (1.00) |
0.418 (1.00) |
0.00263 (1.00) |
0.0167 (1.00) |
0.00281 (1.00) |
| amp 20q11 21 | 263 (64%) | 145 |
1e-05 (0.007) |
0.129 (1.00) |
0.712 (1.00) |
0.0545 (1.00) |
0.682 (1.00) |
0.0354 (1.00) |
0.344 (1.00) |
0.0308 (1.00) |
0.195 (1.00) |
0.00082 (0.467) |
| amp 22q12 2 | 87 (21%) | 321 |
1e-05 (0.007) |
0.00339 (1.00) |
0.416 (1.00) |
0.762 (1.00) |
0.0397 (1.00) |
0.216 (1.00) |
0.129 (1.00) |
0.256 (1.00) |
0.478 (1.00) |
0.0484 (1.00) |
| del 1q32 1 | 71 (17%) | 337 |
0.00024 (0.142) |
0.409 (1.00) |
0.353 (1.00) |
0.605 (1.00) |
0.171 (1.00) |
0.0671 (1.00) |
0.55 (1.00) |
0.277 (1.00) |
0.402 (1.00) |
0.131 (1.00) |
| del 2q22 1 | 134 (33%) | 274 |
0.00042 (0.242) |
0.007 (1.00) |
0.274 (1.00) |
0.943 (1.00) |
0.0986 (1.00) |
0.216 (1.00) |
0.06 (1.00) |
0.25 (1.00) |
0.187 (1.00) |
0.00885 (1.00) |
| del 2q34 | 174 (43%) | 234 |
1e-05 (0.007) |
0.015 (1.00) |
0.751 (1.00) |
0.582 (1.00) |
0.461 (1.00) |
0.453 (1.00) |
0.11 (1.00) |
0.533 (1.00) |
0.487 (1.00) |
0.00067 (0.384) |
| del 4q22 1 | 162 (40%) | 246 |
1e-05 (0.007) |
0.00838 (1.00) |
0.509 (1.00) |
0.505 (1.00) |
0.0679 (1.00) |
0.0192 (1.00) |
0.897 (1.00) |
0.00745 (1.00) |
0.0242 (1.00) |
0.0139 (1.00) |
| del 4q34 2 | 177 (43%) | 231 |
1e-05 (0.007) |
0.0399 (1.00) |
0.487 (1.00) |
0.772 (1.00) |
0.368 (1.00) |
0.201 (1.00) |
0.292 (1.00) |
0.0637 (1.00) |
0.488 (1.00) |
0.0008 (0.457) |
| del 6p25 3 | 106 (26%) | 302 |
1e-05 (0.007) |
0.0482 (1.00) |
0.912 (1.00) |
0.947 (1.00) |
0.543 (1.00) |
0.0527 (1.00) |
0.253 (1.00) |
0.0312 (1.00) |
0.0519 (1.00) |
0.00765 (1.00) |
| del 7q36 3 | 59 (14%) | 349 |
0.0004 (0.232) |
0.617 (1.00) |
0.137 (1.00) |
0.132 (1.00) |
0.437 (1.00) |
0.296 (1.00) |
0.466 (1.00) |
0.00157 (0.884) |
0.0546 (1.00) |
0.00335 (1.00) |
| del 10q23 31 | 167 (41%) | 241 |
1e-05 (0.007) |
0.0536 (1.00) |
0.627 (1.00) |
0.594 (1.00) |
0.128 (1.00) |
0.895 (1.00) |
0.325 (1.00) |
0.093 (1.00) |
0.61 (1.00) |
0.0646 (1.00) |
| del 11q23 3 | 156 (38%) | 252 |
0.0002 (0.119) |
0.00312 (1.00) |
0.656 (1.00) |
0.704 (1.00) |
0.0694 (1.00) |
0.257 (1.00) |
0.236 (1.00) |
0.173 (1.00) |
0.584 (1.00) |
0.519 (1.00) |
| del 11q25 | 144 (35%) | 264 |
3e-05 (0.0187) |
0.00776 (1.00) |
0.773 (1.00) |
0.621 (1.00) |
0.0513 (1.00) |
0.257 (1.00) |
0.381 (1.00) |
0.197 (1.00) |
0.474 (1.00) |
0.292 (1.00) |
| del 12p13 1 | 68 (17%) | 340 |
0.00343 (1.00) |
0.0728 (1.00) |
0.78 (1.00) |
0.662 (1.00) |
0.00731 (1.00) |
0.00025 (0.147) |
0.571 (1.00) |
0.619 (1.00) |
0.0165 (1.00) |
0.212 (1.00) |
| del 12q24 33 | 88 (22%) | 320 |
2e-05 (0.0125) |
0.929 (1.00) |
0.915 (1.00) |
0.32 (1.00) |
0.604 (1.00) |
0.651 (1.00) |
1 (1.00) |
0.627 (1.00) |
0.982 (1.00) |
0.242 (1.00) |
| del 16p13 3 | 173 (42%) | 235 |
1e-05 (0.007) |
0.00795 (1.00) |
0.212 (1.00) |
0.468 (1.00) |
0.644 (1.00) |
0.855 (1.00) |
0.703 (1.00) |
0.0432 (1.00) |
0.522 (1.00) |
0.0121 (1.00) |
| amp 6q21 | 34 (8%) | 374 |
0.00233 (1.00) |
0.824 (1.00) |
0.514 (1.00) |
0.0792 (1.00) |
0.394 (1.00) |
0.255 (1.00) |
0.821 (1.00) |
0.875 (1.00) |
0.382 (1.00) |
0.185 (1.00) |
| amp 6q23 3 | 46 (11%) | 362 |
0.00046 (0.264) |
0.811 (1.00) |
0.945 (1.00) |
0.0696 (1.00) |
0.304 (1.00) |
0.671 (1.00) |
0.14 (1.00) |
0.0998 (1.00) |
0.148 (1.00) |
0.126 (1.00) |
| amp 16q22 1 | 108 (26%) | 300 |
0.00371 (1.00) |
0.276 (1.00) |
0.0429 (1.00) |
0.0235 (1.00) |
0.0317 (1.00) |
0.0375 (1.00) |
0.0431 (1.00) |
0.00845 (1.00) |
0.153 (1.00) |
0.00712 (1.00) |
| amp 17p11 2 | 87 (21%) | 321 |
0.00354 (1.00) |
0.129 (1.00) |
0.682 (1.00) |
0.946 (1.00) |
0.0749 (1.00) |
0.42 (1.00) |
0.637 (1.00) |
0.844 (1.00) |
0.531 (1.00) |
0.342 (1.00) |
| del 1p36 11 | 91 (22%) | 317 |
0.349 (1.00) |
0.0443 (1.00) |
0.165 (1.00) |
0.024 (1.00) |
0.832 (1.00) |
0.888 (1.00) |
0.705 (1.00) |
0.0473 (1.00) |
0.133 (1.00) |
0.253 (1.00) |
| del 10p11 21 | 74 (18%) | 334 |
0.082 (1.00) |
0.395 (1.00) |
0.535 (1.00) |
0.244 (1.00) |
0.00322 (1.00) |
0.00311 (1.00) |
0.782 (1.00) |
0.0573 (1.00) |
0.373 (1.00) |
0.502 (1.00) |
| del xp11 3 | 92 (23%) | 316 |
0.0932 (1.00) |
0.396 (1.00) |
0.735 (1.00) |
0.618 (1.00) |
0.282 (1.00) |
0.948 (1.00) |
0.106 (1.00) |
0.29 (1.00) |
0.518 (1.00) |
0.0329 (1.00) |
| del xq21 33 | 84 (21%) | 324 |
0.0167 (1.00) |
0.0551 (1.00) |
0.98 (1.00) |
0.436 (1.00) |
0.0547 (1.00) |
0.199 (1.00) |
0.0882 (1.00) |
0.0509 (1.00) |
0.0113 (1.00) |
0.0177 (1.00) |
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S1. Gene #1: 'amp_1p34.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 1(1P34.2) MUTATED | 27 | 45 | 16 | 13 |
| AMP PEAK 1(1P34.2) WILD-TYPE | 60 | 58 | 140 | 49 |
Figure S1. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S2. Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 2(1Q21.3) MUTATED | 38 | 85 | 43 | 36 |
| AMP PEAK 2(1Q21.3) WILD-TYPE | 49 | 18 | 113 | 26 |
Figure S2. Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S3. Gene #3: 'amp_1q23.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 3(1Q23.3) MUTATED | 41 | 91 | 53 | 31 |
| AMP PEAK 3(1Q23.3) WILD-TYPE | 46 | 12 | 103 | 31 |
Figure S3. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S4. Gene #4: 'amp_2p25.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 4(2P25.1) MUTATED | 47 | 61 | 27 | 17 |
| AMP PEAK 4(2P25.1) WILD-TYPE | 40 | 42 | 129 | 45 |
Figure S4. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00024 (Fisher's exact test), Q value = 0.14
Table S5. Gene #4: 'amp_2p25.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| AMP PEAK 4(2P25.1) MUTATED | 57 | 66 | 13 |
| AMP PEAK 4(2P25.1) WILD-TYPE | 101 | 71 | 55 |
Figure S5. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S6. Gene #4: 'amp_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 4(2P25.1) MUTATED | 26 | 26 | 46 | 25 | 3 | 22 |
| AMP PEAK 4(2P25.1) WILD-TYPE | 48 | 20 | 47 | 41 | 28 | 62 |
Figure S6. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S7. Gene #5: 'amp_3p25.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 5(3P25.2) MUTATED | 49 | 80 | 37 | 24 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 38 | 23 | 119 | 38 |
Figure S7. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S8. Gene #5: 'amp_3p25.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 98 | 159 | 96 |
| AMP PEAK 5(3P25.2) MUTATED | 54 | 92 | 22 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 44 | 67 | 74 |
Figure S8. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S9. Gene #5: 'amp_3p25.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| AMP PEAK 5(3P25.2) MUTATED | 66 | 59 | 16 | 27 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 35 | 55 | 62 | 33 |
Figure S9. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00019 (Fisher's exact test), Q value = 0.11
Table S10. Gene #5: 'amp_3p25.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 120 | 96 | 189 |
| AMP PEAK 5(3P25.2) MUTATED | 44 | 62 | 83 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 76 | 34 | 106 |
Figure S10. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S11. Gene #5: 'amp_3p25.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| AMP PEAK 5(3P25.2) MUTATED | 27 | 59 | 33 | 42 | 28 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 62 | 40 | 60 | 28 | 26 |
Figure S11. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S12. Gene #5: 'amp_3p25.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| AMP PEAK 5(3P25.2) MUTATED | 30 | 36 | 66 | 53 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 68 | 7 | 68 | 66 |
Figure S12. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S13. Gene #5: 'amp_3p25.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 5(3P25.2) MUTATED | 36 | 34 | 63 | 23 | 2 | 27 |
| AMP PEAK 5(3P25.2) WILD-TYPE | 38 | 12 | 30 | 43 | 29 | 57 |
Figure S13. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S14. Gene #6: 'amp_3q26.33' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 6(3Q26.33) MUTATED | 54 | 74 | 57 | 33 |
| AMP PEAK 6(3Q26.33) WILD-TYPE | 33 | 29 | 99 | 29 |
Figure S14. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S15. Gene #6: 'amp_3q26.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 6(3Q26.33) MUTATED | 36 | 30 | 58 | 42 | 4 | 40 |
| AMP PEAK 6(3Q26.33) WILD-TYPE | 38 | 16 | 35 | 24 | 27 | 44 |
Figure S15. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00027 (Fisher's exact test), Q value = 0.16
Table S16. Gene #7: 'amp_4p16.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| AMP PEAK 7(4P16.3) MUTATED | 16 | 40 | 13 |
| AMP PEAK 7(4P16.3) WILD-TYPE | 142 | 97 | 55 |
Figure S16. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00043 (Fisher's exact test), Q value = 0.25
Table S17. Gene #7: 'amp_4p16.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 98 | 159 | 96 |
| AMP PEAK 7(4P16.3) MUTATED | 9 | 44 | 14 |
| AMP PEAK 7(4P16.3) WILD-TYPE | 89 | 115 | 82 |
Figure S17. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.013
Table S18. Gene #7: 'amp_4p16.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| AMP PEAK 7(4P16.3) MUTATED | 17 | 37 | 11 | 2 |
| AMP PEAK 7(4P16.3) WILD-TYPE | 84 | 77 | 67 | 58 |
Figure S18. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S19. Gene #7: 'amp_4p16.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 120 | 96 | 189 |
| AMP PEAK 7(4P16.3) MUTATED | 6 | 28 | 40 |
| AMP PEAK 7(4P16.3) WILD-TYPE | 114 | 68 | 149 |
Figure S19. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.037
Table S20. Gene #8: 'amp_4q13.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 8(4Q13.3) MUTATED | 19 | 27 | 10 | 6 |
| AMP PEAK 8(4Q13.3) WILD-TYPE | 68 | 76 | 146 | 56 |
Figure S20. Get High-res Image Gene #8: 'amp_4q13.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S21. Gene #9: 'amp_5p15.33' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 9(5P15.33) MUTATED | 51 | 71 | 38 | 46 |
| AMP PEAK 9(5P15.33) WILD-TYPE | 36 | 32 | 118 | 16 |
Figure S21. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S22. Gene #9: 'amp_5p15.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| AMP PEAK 9(5P15.33) MUTATED | 43 | 63 | 27 | 41 | 31 |
| AMP PEAK 9(5P15.33) WILD-TYPE | 46 | 36 | 66 | 29 | 23 |
Figure S22. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S23. Gene #10: 'amp_6p22.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 10(6P22.3) MUTATED | 32 | 79 | 25 | 35 |
| AMP PEAK 10(6P22.3) WILD-TYPE | 55 | 24 | 131 | 27 |
Figure S23. Get High-res Image Gene #10: 'amp_6p22.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S24. Gene #10: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 10(6P22.3) MUTATED | 28 | 19 | 58 | 20 | 4 | 40 |
| AMP PEAK 10(6P22.3) WILD-TYPE | 46 | 27 | 35 | 46 | 27 | 44 |
Figure S24. Get High-res Image Gene #10: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S25. Gene #13: 'amp_7p21.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 13(7P21.1) MUTATED | 54 | 74 | 35 | 38 |
| AMP PEAK 13(7P21.1) WILD-TYPE | 33 | 29 | 121 | 24 |
Figure S25. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S26. Gene #13: 'amp_7p21.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 13(7P21.1) MUTATED | 29 | 21 | 55 | 38 | 2 | 49 |
| AMP PEAK 13(7P21.1) WILD-TYPE | 45 | 25 | 38 | 28 | 29 | 35 |
Figure S26. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S27. Gene #14: 'amp_7p11.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 14(7P11.2) MUTATED | 59 | 61 | 30 | 40 |
| AMP PEAK 14(7P11.2) WILD-TYPE | 28 | 42 | 126 | 22 |
Figure S27. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.031
Table S28. Gene #14: 'amp_7p11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 14(7P11.2) MUTATED | 27 | 21 | 51 | 35 | 3 | 47 |
| AMP PEAK 14(7P11.2) WILD-TYPE | 47 | 25 | 42 | 31 | 28 | 37 |
Figure S28. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S29. Gene #15: 'amp_8p11.23' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 15(8P11.23) MUTATED | 49 | 25 | 35 | 15 |
| AMP PEAK 15(8P11.23) WILD-TYPE | 38 | 78 | 121 | 47 |
Figure S29. Get High-res Image Gene #15: 'amp_8p11.23' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S30. Gene #16: 'amp_8q22.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 16(8Q22.3) MUTATED | 74 | 78 | 75 | 37 |
| AMP PEAK 16(8Q22.3) WILD-TYPE | 13 | 25 | 81 | 25 |
Figure S30. Get High-res Image Gene #16: 'amp_8q22.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 0.055
Table S31. Gene #16: 'amp_8q22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 16(8Q22.3) MUTATED | 42 | 36 | 71 | 43 | 10 | 55 |
| AMP PEAK 16(8Q22.3) WILD-TYPE | 32 | 10 | 22 | 23 | 21 | 29 |
Figure S31. Get High-res Image Gene #16: 'amp_8q22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S32. Gene #17: 'amp_9p24.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 17(9P24.1) MUTATED | 14 | 27 | 17 | 30 |
| AMP PEAK 17(9P24.1) WILD-TYPE | 73 | 76 | 139 | 32 |
Figure S32. Get High-res Image Gene #17: 'amp_9p24.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00012 (Fisher's exact test), Q value = 0.072
Table S33. Gene #17: 'amp_9p24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| AMP PEAK 17(9P24.1) MUTATED | 38 | 7 | 18 | 22 |
| AMP PEAK 17(9P24.1) WILD-TYPE | 60 | 36 | 116 | 97 |
Figure S33. Get High-res Image Gene #17: 'amp_9p24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.043
Table S34. Gene #17: 'amp_9p24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 17(9P24.1) MUTATED | 18 | 8 | 19 | 6 | 2 | 32 |
| AMP PEAK 17(9P24.1) WILD-TYPE | 56 | 38 | 74 | 60 | 29 | 52 |
Figure S34. Get High-res Image Gene #17: 'amp_9p24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S35. Gene #18: 'amp_10p14' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 18(10P14) MUTATED | 55 | 69 | 24 | 34 |
| AMP PEAK 18(10P14) WILD-TYPE | 32 | 34 | 132 | 28 |
Figure S35. Get High-res Image Gene #18: 'amp_10p14' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00029 (Fisher's exact test), Q value = 0.17
Table S36. Gene #18: 'amp_10p14' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| AMP PEAK 18(10P14) MUTATED | 62 | 39 | 28 | 28 |
| AMP PEAK 18(10P14) WILD-TYPE | 39 | 75 | 50 | 32 |
Figure S36. Get High-res Image Gene #18: 'amp_10p14' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S37. Gene #18: 'amp_10p14' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 18(10P14) MUTATED | 35 | 24 | 52 | 32 | 2 | 31 |
| AMP PEAK 18(10P14) WILD-TYPE | 39 | 22 | 41 | 34 | 29 | 53 |
Figure S37. Get High-res Image Gene #18: 'amp_10p14' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S38. Gene #19: 'amp_11p13' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 19(11P13) MUTATED | 9 | 13 | 7 | 22 |
| AMP PEAK 19(11P13) WILD-TYPE | 78 | 90 | 149 | 40 |
Figure S38. Get High-res Image Gene #19: 'amp_11p13' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S39. Gene #20: 'amp_11q13.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 20(11Q13.3) MUTATED | 51 | 35 | 36 | 13 |
| AMP PEAK 20(11Q13.3) WILD-TYPE | 36 | 68 | 120 | 49 |
Figure S39. Get High-res Image Gene #20: 'amp_11q13.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00012 (Fisher's exact test), Q value = 0.072
Table S40. Gene #21: 'amp_11q22.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 21(11Q22.2) MUTATED | 27 | 21 | 13 | 10 |
| AMP PEAK 21(11Q22.2) WILD-TYPE | 60 | 82 | 143 | 52 |
Figure S40. Get High-res Image Gene #21: 'amp_11q22.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00038 (Fisher's exact test), Q value = 0.22
Table S41. Gene #21: 'amp_11q22.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| AMP PEAK 21(11Q22.2) MUTATED | 29 | 12 | 15 | 15 |
| AMP PEAK 21(11Q22.2) WILD-TYPE | 69 | 31 | 119 | 104 |
Figure S41. Get High-res Image Gene #21: 'amp_11q22.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.013
Table S42. Gene #22: 'amp_12p12.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 22(12P12.1) MUTATED | 42 | 38 | 28 | 24 |
| AMP PEAK 22(12P12.1) WILD-TYPE | 45 | 65 | 128 | 38 |
Figure S42. Get High-res Image Gene #22: 'amp_12p12.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00013 (Fisher's exact test), Q value = 0.078
Table S43. Gene #23: 'amp_12q15' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 23(12Q15) MUTATED | 36 | 39 | 34 | 9 |
| AMP PEAK 23(12Q15) WILD-TYPE | 51 | 64 | 122 | 53 |
Figure S43. Get High-res Image Gene #23: 'amp_12q15' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-04 (Fisher's exact test), Q value = 0.061
Table S44. Gene #24: 'amp_13q22.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 24(13Q22.1) MUTATED | 36 | 34 | 30 | 28 |
| AMP PEAK 24(13Q22.1) WILD-TYPE | 51 | 69 | 126 | 34 |
Figure S44. Get High-res Image Gene #24: 'amp_13q22.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S45. Gene #25: 'amp_16p13.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 25(16P13.2) MUTATED | 15 | 43 | 21 | 8 |
| AMP PEAK 25(16P13.2) WILD-TYPE | 72 | 60 | 135 | 54 |
Figure S45. Get High-res Image Gene #25: 'amp_16p13.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S46. Gene #26: 'amp_16p11.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 26(16P11.2) MUTATED | 21 | 42 | 24 | 10 |
| AMP PEAK 26(16P11.2) WILD-TYPE | 66 | 61 | 132 | 52 |
Figure S46. Get High-res Image Gene #26: 'amp_16p11.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S47. Gene #29: 'amp_17q11.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 29(17Q11.2) MUTATED | 54 | 65 | 34 | 21 |
| AMP PEAK 29(17Q11.2) WILD-TYPE | 33 | 38 | 122 | 41 |
Figure S47. Get High-res Image Gene #29: 'amp_17q11.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 0.055
Table S48. Gene #29: 'amp_17q11.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 98 | 159 | 96 |
| AMP PEAK 29(17Q11.2) MUTATED | 40 | 85 | 26 |
| AMP PEAK 29(17Q11.2) WILD-TYPE | 58 | 74 | 70 |
Figure S48. Get High-res Image Gene #29: 'amp_17q11.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S49. Gene #29: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 29(17Q11.2) MUTATED | 27 | 26 | 61 | 27 | 5 | 24 |
| AMP PEAK 29(17Q11.2) WILD-TYPE | 47 | 20 | 32 | 39 | 26 | 60 |
Figure S49. Get High-res Image Gene #29: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S50. Gene #30: 'amp_17q12' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 30(17Q12) MUTATED | 51 | 55 | 38 | 21 |
| AMP PEAK 30(17Q12) WILD-TYPE | 36 | 48 | 118 | 41 |
Figure S50. Get High-res Image Gene #30: 'amp_17q12' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S51. Gene #30: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 30(17Q12) MUTATED | 23 | 25 | 57 | 25 | 5 | 26 |
| AMP PEAK 30(17Q12) WILD-TYPE | 51 | 21 | 36 | 41 | 26 | 58 |
Figure S51. Get High-res Image Gene #30: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S52. Gene #31: 'amp_17q23.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 31(17Q23.3) MUTATED | 56 | 65 | 47 | 26 |
| AMP PEAK 31(17Q23.3) WILD-TYPE | 31 | 38 | 109 | 36 |
Figure S52. Get High-res Image Gene #31: 'amp_17q23.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00015 (Fisher's exact test), Q value = 0.09
Table S53. Gene #31: 'amp_17q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| AMP PEAK 31(17Q23.3) MUTATED | 28 | 27 | 55 | 38 | 6 | 36 |
| AMP PEAK 31(17Q23.3) WILD-TYPE | 46 | 19 | 38 | 28 | 25 | 48 |
Figure S53. Get High-res Image Gene #31: 'amp_17q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S54. Gene #32: 'amp_19q12' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 32(19Q12) MUTATED | 44 | 67 | 33 | 21 |
| AMP PEAK 32(19Q12) WILD-TYPE | 43 | 36 | 123 | 41 |
Figure S54. Get High-res Image Gene #32: 'amp_19q12' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S55. Gene #33: 'amp_19q13.43' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 33(19Q13.43) MUTATED | 44 | 56 | 33 | 22 |
| AMP PEAK 33(19Q13.43) WILD-TYPE | 43 | 47 | 123 | 40 |
Figure S55. Get High-res Image Gene #33: 'amp_19q13.43' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S56. Gene #34: 'amp_20q11.21' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 34(20Q11.21) MUTATED | 70 | 78 | 65 | 50 |
| AMP PEAK 34(20Q11.21) WILD-TYPE | 17 | 25 | 91 | 12 |
Figure S56. Get High-res Image Gene #34: 'amp_20q11.21' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S57. Gene #35: 'amp_22q12.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| AMP PEAK 35(22Q12.2) MUTATED | 27 | 38 | 14 | 8 |
| AMP PEAK 35(22Q12.2) WILD-TYPE | 60 | 65 | 142 | 54 |
Figure S57. Get High-res Image Gene #35: 'amp_22q12.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00024 (Fisher's exact test), Q value = 0.14
Table S58. Gene #37: 'del_1q32.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 2(1Q32.1) MUTATED | 15 | 29 | 13 | 14 |
| DEL PEAK 2(1Q32.1) WILD-TYPE | 72 | 74 | 143 | 48 |
Figure S58. Get High-res Image Gene #37: 'del_1q32.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00042 (Fisher's exact test), Q value = 0.24
Table S59. Gene #38: 'del_2q22.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 3(2Q22.1) MUTATED | 34 | 43 | 32 | 25 |
| DEL PEAK 3(2Q22.1) WILD-TYPE | 53 | 60 | 124 | 37 |
Figure S59. Get High-res Image Gene #38: 'del_2q22.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S60. Gene #39: 'del_2q34' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 4(2Q34) MUTATED | 36 | 65 | 35 | 38 |
| DEL PEAK 4(2Q34) WILD-TYPE | 51 | 38 | 121 | 24 |
Figure S60. Get High-res Image Gene #39: 'del_2q34' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S61. Gene #40: 'del_2q37.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 5(2Q37.1) MUTATED | 48 | 75 | 45 | 39 |
| DEL PEAK 5(2Q37.1) WILD-TYPE | 39 | 28 | 111 | 23 |
Figure S61. Get High-res Image Gene #40: 'del_2q37.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00023 (Fisher's exact test), Q value = 0.14
Table S62. Gene #40: 'del_2q37.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| DEL PEAK 5(2Q37.1) MUTATED | 66 | 89 | 31 |
| DEL PEAK 5(2Q37.1) WILD-TYPE | 92 | 48 | 37 |
Figure S62. Get High-res Image Gene #40: 'del_2q37.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00011 (Fisher's exact test), Q value = 0.067
Table S63. Gene #41: 'del_3p14.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 6(3P14.2) MUTATED | 39 | 35 | 29 | 14 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 48 | 68 | 127 | 48 |
Figure S63. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S64. Gene #41: 'del_3p14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 98 | 159 | 96 |
| DEL PEAK 6(3P14.2) MUTATED | 20 | 30 | 50 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 78 | 129 | 46 |
Figure S64. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S65. Gene #41: 'del_3p14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| DEL PEAK 6(3P14.2) MUTATED | 23 | 18 | 44 | 15 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 78 | 96 | 34 | 45 |
Figure S65. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 4e-05 (Fisher's exact test), Q value = 0.025
Table S66. Gene #41: 'del_3p14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 6(3P14.2) MUTATED | 42 | 25 | 14 | 25 | 11 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 47 | 74 | 79 | 45 | 43 |
Figure S66. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 6e-05 (Fisher's exact test), Q value = 0.037
Table S67. Gene #41: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| DEL PEAK 6(3P14.2) MUTATED | 47 | 10 | 31 | 27 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 51 | 33 | 103 | 92 |
Figure S67. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S68. Gene #41: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 6(3P14.2) MUTATED | 11 | 12 | 29 | 26 | 1 | 36 |
| DEL PEAK 6(3P14.2) WILD-TYPE | 63 | 34 | 64 | 40 | 30 | 48 |
Figure S68. Get High-res Image Gene #41: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S69. Gene #42: 'del_4q22.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 7(4Q22.1) MUTATED | 41 | 49 | 35 | 37 |
| DEL PEAK 7(4Q22.1) WILD-TYPE | 46 | 54 | 121 | 25 |
Figure S69. Get High-res Image Gene #42: 'del_4q22.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S70. Gene #43: 'del_4q34.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 8(4Q34.2) MUTATED | 42 | 57 | 34 | 44 |
| DEL PEAK 8(4Q34.2) WILD-TYPE | 45 | 46 | 122 | 18 |
Figure S70. Get High-res Image Gene #43: 'del_4q34.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S71. Gene #44: 'del_5q12.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 9(5Q12.1) MUTATED | 56 | 71 | 39 | 36 |
| DEL PEAK 9(5Q12.1) WILD-TYPE | 31 | 32 | 117 | 26 |
Figure S71. Get High-res Image Gene #44: 'del_5q12.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00013 (Fisher's exact test), Q value = 0.078
Table S72. Gene #44: 'del_5q12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 9(5Q12.1) MUTATED | 42 | 60 | 28 | 43 | 29 |
| DEL PEAK 9(5Q12.1) WILD-TYPE | 47 | 39 | 65 | 27 | 25 |
Figure S72. Get High-res Image Gene #44: 'del_5q12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S73. Gene #45: 'del_6p25.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 10(6P25.3) MUTATED | 39 | 34 | 13 | 20 |
| DEL PEAK 10(6P25.3) WILD-TYPE | 48 | 69 | 143 | 42 |
Figure S73. Get High-res Image Gene #45: 'del_6p25.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S74. Gene #46: 'del_6q21' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 11(6Q21) MUTATED | 71 | 58 | 32 | 29 |
| DEL PEAK 11(6Q21) WILD-TYPE | 16 | 45 | 124 | 33 |
Figure S74. Get High-res Image Gene #46: 'del_6q21' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00022 (Fisher's exact test), Q value = 0.13
Table S75. Gene #46: 'del_6q21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 11(6Q21) MUTATED | 36 | 60 | 27 | 39 | 27 |
| DEL PEAK 11(6Q21) WILD-TYPE | 53 | 39 | 66 | 31 | 27 |
Figure S75. Get High-res Image Gene #46: 'del_6q21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S76. Gene #46: 'del_6q21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 11(6Q21) MUTATED | 30 | 30 | 54 | 37 | 4 | 32 |
| DEL PEAK 11(6Q21) WILD-TYPE | 44 | 16 | 39 | 29 | 27 | 52 |
Figure S76. Get High-res Image Gene #46: 'del_6q21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S77. Gene #47: 'del_6q27' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 12(6Q27) MUTATED | 67 | 61 | 32 | 30 |
| DEL PEAK 12(6Q27) WILD-TYPE | 20 | 42 | 124 | 32 |
Figure S77. Get High-res Image Gene #47: 'del_6q27' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.013
Table S78. Gene #47: 'del_6q27' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 12(6Q27) MUTATED | 33 | 57 | 28 | 44 | 27 |
| DEL PEAK 12(6Q27) WILD-TYPE | 56 | 42 | 65 | 26 | 27 |
Figure S78. Get High-res Image Gene #47: 'del_6q27' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S79. Gene #47: 'del_6q27' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 12(6Q27) MUTATED | 33 | 28 | 55 | 38 | 3 | 30 |
| DEL PEAK 12(6Q27) WILD-TYPE | 41 | 18 | 38 | 28 | 28 | 54 |
Figure S79. Get High-res Image Gene #47: 'del_6q27' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 4e-04 (Fisher's exact test), Q value = 0.23
Table S80. Gene #48: 'del_7q36.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 13(7Q36.3) MUTATED | 10 | 26 | 11 | 12 |
| DEL PEAK 13(7Q36.3) WILD-TYPE | 77 | 77 | 145 | 50 |
Figure S80. Get High-res Image Gene #48: 'del_7q36.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S81. Gene #49: 'del_8p23.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 14(8P23.1) MUTATED | 47 | 86 | 66 | 46 |
| DEL PEAK 14(8P23.1) WILD-TYPE | 40 | 17 | 90 | 16 |
Figure S81. Get High-res Image Gene #49: 'del_8p23.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.18
Table S82. Gene #49: 'del_8p23.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| DEL PEAK 14(8P23.1) MUTATED | 104 | 89 | 26 |
| DEL PEAK 14(8P23.1) WILD-TYPE | 54 | 48 | 42 |
Figure S82. Get High-res Image Gene #49: 'del_8p23.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S83. Gene #50: 'del_9p23' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 15(9P23) MUTATED | 47 | 50 | 76 | 4 |
| DEL PEAK 15(9P23) WILD-TYPE | 40 | 53 | 80 | 58 |
Figure S83. Get High-res Image Gene #50: 'del_9p23' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S84. Gene #50: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| DEL PEAK 15(9P23) MUTATED | 22 | 25 | 69 | 56 |
| DEL PEAK 15(9P23) WILD-TYPE | 76 | 18 | 65 | 63 |
Figure S84. Get High-res Image Gene #50: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S85. Gene #51: 'del_9p21.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 16(9P21.3) MUTATED | 67 | 57 | 107 | 8 |
| DEL PEAK 16(9P21.3) WILD-TYPE | 20 | 46 | 49 | 54 |
Figure S85. Get High-res Image Gene #51: 'del_9p21.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-04 (Fisher's exact test), Q value = 0.061
Table S86. Gene #51: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 16(9P21.3) MUTATED | 34 | 33 | 52 | 49 | 25 | 39 |
| DEL PEAK 16(9P21.3) WILD-TYPE | 40 | 13 | 41 | 17 | 6 | 45 |
Figure S86. Get High-res Image Gene #51: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S87. Gene #52: 'del_9q33.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 17(9Q33.2) MUTATED | 46 | 45 | 72 | 5 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 41 | 58 | 84 | 57 |
Figure S87. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S88. Gene #52: 'del_9q33.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| DEL PEAK 17(9Q33.2) MUTATED | 44 | 77 | 33 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 114 | 60 | 35 |
Figure S88. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S89. Gene #52: 'del_9q33.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 98 | 159 | 96 |
| DEL PEAK 17(9Q33.2) MUTATED | 35 | 89 | 25 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 63 | 70 | 71 |
Figure S89. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S90. Gene #52: 'del_9q33.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| DEL PEAK 17(9Q33.2) MUTATED | 56 | 62 | 16 | 15 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 45 | 52 | 62 | 45 |
Figure S90. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 4e-04 (Fisher's exact test), Q value = 0.23
Table S91. Gene #52: 'del_9q33.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 120 | 96 | 189 |
| DEL PEAK 17(9Q33.2) MUTATED | 35 | 53 | 80 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 85 | 43 | 109 |
Figure S91. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00032 (Fisher's exact test), Q value = 0.19
Table S92. Gene #52: 'del_9q33.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 17(9Q33.2) MUTATED | 20 | 46 | 40 | 39 | 23 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 69 | 53 | 53 | 31 | 31 |
Figure S92. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S93. Gene #52: 'del_9q33.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 43 | 134 | 119 |
| DEL PEAK 17(9Q33.2) MUTATED | 15 | 27 | 75 | 47 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 83 | 16 | 59 | 72 |
Figure S93. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S94. Gene #52: 'del_9q33.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 17(9Q33.2) MUTATED | 28 | 27 | 44 | 32 | 24 | 9 |
| DEL PEAK 17(9Q33.2) WILD-TYPE | 46 | 19 | 49 | 34 | 7 | 75 |
Figure S94. Get High-res Image Gene #52: 'del_9q33.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S95. Gene #54: 'del_10q23.31' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 19(10Q23.31) MUTATED | 40 | 61 | 32 | 34 |
| DEL PEAK 19(10Q23.31) WILD-TYPE | 47 | 42 | 124 | 28 |
Figure S95. Get High-res Image Gene #54: 'del_10q23.31' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S96. Gene #55: 'del_11p15.5' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 20(11P15.5) MUTATED | 56 | 74 | 62 | 19 |
| DEL PEAK 20(11P15.5) WILD-TYPE | 31 | 29 | 94 | 43 |
Figure S96. Get High-res Image Gene #55: 'del_11p15.5' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.18
Table S97. Gene #55: 'del_11p15.5' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| DEL PEAK 20(11P15.5) MUTATED | 62 | 85 | 39 |
| DEL PEAK 20(11P15.5) WILD-TYPE | 96 | 52 | 29 |
Figure S97. Get High-res Image Gene #55: 'del_11p15.5' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00026 (Fisher's exact test), Q value = 0.15
Table S98. Gene #55: 'del_11p15.5' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| DEL PEAK 20(11P15.5) MUTATED | 65 | 63 | 28 | 23 |
| DEL PEAK 20(11P15.5) WILD-TYPE | 36 | 51 | 50 | 37 |
Figure S98. Get High-res Image Gene #55: 'del_11p15.5' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 2e-04 (Fisher's exact test), Q value = 0.12
Table S99. Gene #56: 'del_11q23.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 21(11Q23.3) MUTATED | 45 | 49 | 42 | 20 |
| DEL PEAK 21(11Q23.3) WILD-TYPE | 42 | 54 | 114 | 42 |
Figure S99. Get High-res Image Gene #56: 'del_11q23.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S100. Gene #57: 'del_11q25' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 22(11Q25) MUTATED | 43 | 47 | 36 | 18 |
| DEL PEAK 22(11Q25) WILD-TYPE | 44 | 56 | 120 | 44 |
Figure S100. Get High-res Image Gene #57: 'del_11q25' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00025 (Fisher's exact test), Q value = 0.15
Table S101. Gene #58: 'del_12p13.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| DEL PEAK 23(12P13.1) MUTATED | 28 | 18 | 5 | 4 |
| DEL PEAK 23(12P13.1) WILD-TYPE | 73 | 96 | 73 | 56 |
Figure S101. Get High-res Image Gene #58: 'del_12p13.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.013
Table S102. Gene #59: 'del_12q24.33' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 24(12Q24.33) MUTATED | 20 | 28 | 15 | 25 |
| DEL PEAK 24(12Q24.33) WILD-TYPE | 67 | 75 | 141 | 37 |
Figure S102. Get High-res Image Gene #59: 'del_12q24.33' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S103. Gene #60: 'del_13q14.2' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 25(13Q14.2) MUTATED | 29 | 56 | 24 | 47 |
| DEL PEAK 25(13Q14.2) WILD-TYPE | 58 | 47 | 132 | 15 |
Figure S103. Get High-res Image Gene #60: 'del_13q14.2' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.18
Table S104. Gene #60: 'del_13q14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 25(13Q14.2) MUTATED | 47 | 42 | 21 | 30 | 16 |
| DEL PEAK 25(13Q14.2) WILD-TYPE | 42 | 57 | 72 | 40 | 38 |
Figure S104. Get High-res Image Gene #60: 'del_13q14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S105. Gene #60: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 25(13Q14.2) MUTATED | 17 | 18 | 48 | 21 | 3 | 47 |
| DEL PEAK 25(13Q14.2) WILD-TYPE | 57 | 28 | 45 | 45 | 28 | 37 |
Figure S105. Get High-res Image Gene #60: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S106. Gene #61: 'del_14q24.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 26(14Q24.1) MUTATED | 35 | 63 | 27 | 12 |
| DEL PEAK 26(14Q24.1) WILD-TYPE | 52 | 40 | 129 | 50 |
Figure S106. Get High-res Image Gene #61: 'del_14q24.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S107. Gene #61: 'del_14q24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 101 | 114 | 78 | 60 |
| DEL PEAK 26(14Q24.1) MUTATED | 55 | 34 | 15 | 12 |
| DEL PEAK 26(14Q24.1) WILD-TYPE | 46 | 80 | 63 | 48 |
Figure S107. Get High-res Image Gene #61: 'del_14q24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.019
Table S108. Gene #61: 'del_14q24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 26(14Q24.1) MUTATED | 22 | 22 | 40 | 31 | 3 | 16 |
| DEL PEAK 26(14Q24.1) WILD-TYPE | 52 | 24 | 53 | 35 | 28 | 68 |
Figure S108. Get High-res Image Gene #61: 'del_14q24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S109. Gene #62: 'del_15q13.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 27(15Q13.1) MUTATED | 41 | 58 | 22 | 38 |
| DEL PEAK 27(15Q13.1) WILD-TYPE | 46 | 45 | 134 | 24 |
Figure S109. Get High-res Image Gene #62: 'del_15q13.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.037
Table S110. Gene #62: 'del_15q13.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 27(15Q13.1) MUTATED | 30 | 51 | 21 | 37 | 20 |
| DEL PEAK 27(15Q13.1) WILD-TYPE | 59 | 48 | 72 | 33 | 34 |
Figure S110. Get High-res Image Gene #62: 'del_15q13.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S111. Gene #62: 'del_15q13.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 27(15Q13.1) MUTATED | 24 | 25 | 45 | 24 | 1 | 37 |
| DEL PEAK 27(15Q13.1) WILD-TYPE | 50 | 21 | 48 | 42 | 30 | 47 |
Figure S111. Get High-res Image Gene #62: 'del_15q13.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S112. Gene #63: 'del_16p13.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 28(16P13.3) MUTATED | 37 | 61 | 28 | 47 |
| DEL PEAK 28(16P13.3) WILD-TYPE | 50 | 42 | 128 | 15 |
Figure S112. Get High-res Image Gene #63: 'del_16p13.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S113. Gene #64: 'del_16q23.1' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 29(16Q23.1) MUTATED | 29 | 40 | 15 | 35 |
| DEL PEAK 29(16Q23.1) WILD-TYPE | 58 | 63 | 141 | 27 |
Figure S113. Get High-res Image Gene #64: 'del_16q23.1' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.031
Table S114. Gene #64: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 29(16Q23.1) MUTATED | 12 | 15 | 37 | 15 | 2 | 34 |
| DEL PEAK 29(16Q23.1) WILD-TYPE | 62 | 31 | 56 | 51 | 29 | 50 |
Figure S114. Get High-res Image Gene #64: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S115. Gene #65: 'del_17p12' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 30(17P12) MUTATED | 67 | 68 | 50 | 24 |
| DEL PEAK 30(17P12) WILD-TYPE | 20 | 35 | 106 | 38 |
Figure S115. Get High-res Image Gene #65: 'del_17p12' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00019 (Fisher's exact test), Q value = 0.11
Table S116. Gene #65: 'del_17p12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 30(17P12) MUTATED | 43 | 51 | 34 | 51 | 28 |
| DEL PEAK 30(17P12) WILD-TYPE | 46 | 48 | 59 | 19 | 26 |
Figure S116. Get High-res Image Gene #65: 'del_17p12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00019 (Fisher's exact test), Q value = 0.11
Table S117. Gene #65: 'del_17p12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 30(17P12) MUTATED | 32 | 26 | 60 | 41 | 7 | 36 |
| DEL PEAK 30(17P12) WILD-TYPE | 42 | 20 | 33 | 25 | 24 | 48 |
Figure S117. Get High-res Image Gene #65: 'del_17p12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00041 (Fisher's exact test), Q value = 0.24
Table S118. Gene #66: 'del_18q23' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 31(18Q23) MUTATED | 42 | 57 | 48 | 31 |
| DEL PEAK 31(18Q23) WILD-TYPE | 45 | 46 | 108 | 31 |
Figure S118. Get High-res Image Gene #66: 'del_18q23' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S119. Gene #66: 'del_18q23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 120 | 96 | 189 |
| DEL PEAK 31(18Q23) MUTATED | 53 | 62 | 62 |
| DEL PEAK 31(18Q23) WILD-TYPE | 67 | 34 | 127 |
Figure S119. Get High-res Image Gene #66: 'del_18q23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S120. Gene #66: 'del_18q23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 89 | 99 | 93 | 70 | 54 |
| DEL PEAK 31(18Q23) MUTATED | 29 | 71 | 29 | 28 | 20 |
| DEL PEAK 31(18Q23) WILD-TYPE | 60 | 28 | 64 | 42 | 34 |
Figure S120. Get High-res Image Gene #66: 'del_18q23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S121. Gene #67: 'del_19p13.3' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 32(19P13.3) MUTATED | 38 | 53 | 33 | 21 |
| DEL PEAK 32(19P13.3) WILD-TYPE | 49 | 50 | 123 | 41 |
Figure S121. Get High-res Image Gene #67: 'del_19p13.3' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-04 (Fisher's exact test), Q value = 0.12
Table S122. Gene #67: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 32(19P13.3) MUTATED | 20 | 18 | 36 | 34 | 2 | 30 |
| DEL PEAK 32(19P13.3) WILD-TYPE | 54 | 28 | 57 | 32 | 29 | 54 |
Figure S122. Get High-res Image Gene #67: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S123. Gene #68: 'del_22q13.32' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 87 | 103 | 156 | 62 |
| DEL PEAK 33(22Q13.32) MUTATED | 32 | 75 | 29 | 51 |
| DEL PEAK 33(22Q13.32) WILD-TYPE | 55 | 28 | 127 | 11 |
Figure S123. Get High-res Image Gene #68: 'del_22q13.32' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00023 (Fisher's exact test), Q value = 0.14
Table S124. Gene #68: 'del_22q13.32' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 158 | 137 | 68 |
| DEL PEAK 33(22Q13.32) MUTATED | 82 | 65 | 16 |
| DEL PEAK 33(22Q13.32) WILD-TYPE | 76 | 72 | 52 |
Figure S124. Get High-res Image Gene #68: 'del_22q13.32' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 0.007
Table S125. Gene #68: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 74 | 46 | 93 | 66 | 31 | 84 |
| DEL PEAK 33(22Q13.32) MUTATED | 29 | 19 | 50 | 34 | 1 | 50 |
| DEL PEAK 33(22Q13.32) WILD-TYPE | 45 | 27 | 43 | 32 | 30 | 34 |
Figure S125. Get High-res Image Gene #68: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
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Copy number data file = transformed.cor.cli.txt
-
Molecular subtype file = BLCA-TP.transferedmergedcluster.txt
-
Number of patients = 408
-
Number of significantly focal cnvs = 70
-
Number of molecular subtypes = 10
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Exclude genes that fewer than K tumors have alterations, K = 3
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.