Correlation between copy number variation genes (focal events) and molecular subtypes
Thyroid Adenocarcinoma (Primary solid tumor)
15 January 2014 | analyses__2014_01_15
Maintainer Information
Citation Information
doi:10.7908/C1TT4PFD
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Correlation between copy number variation genes (focal events) and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1TT4PFD
Overview
Introduction

This pipeline computes the correlation between significant copy number variation (cnv focal) genes and molecular subtypes.

Summary

Testing the association between copy number variation 40 focal events and 10 molecular subtypes across 494 patients, 199 significant findings detected with P value < 0.05 and Q value < 0.25.

- 1p cnv correlated to 'CN_CNMF'.

- 1q cnv correlated to 'CN_CNMF'.

- 2p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 2q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 3p cnv correlated to 'CN_CNMF'.

- 3q cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 4p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

- 4q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

- 5p cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

- 5q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 6p cnv correlated to 'CN_CNMF'.

- 6q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 7p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 7q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 8p cnv correlated to 'CN_CNMF'.

- 8q cnv correlated to 'CN_CNMF'.

- 9p cnv correlated to 'CN_CNMF'.

- 9q cnv correlated to 'CN_CNMF'.

- 10p cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 10q cnv correlated to 'CN_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 11p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 11q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 12p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 12q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 13q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

- 14q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 15q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 16p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 16q cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

- 17p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 17q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 18p cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.

- 18q cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.

- 19p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 19q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 20p cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 20q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- 21q cnv correlated to 'CN_CNMF'.

- 22q cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

- xq cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.

Results
Overview of the results

Table 1. Get Full Table Overview of the association between significant copy number variation of 40 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, 199 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
7q | 20 (4%) | 474 | 6.92e-25 (2.76e-22) | 9.82e-06 (0.00311) | 0.571 (1.00) | 0.000676 (0.149) | 6.01e-05 (0.0171) | 1.13e-06 (0.000398) | 0.000144 (0.0382) | 1.15e-05 (0.00362) | 4.38e-05 (0.0126) | 9.06e-06 (0.00293)
17p | 24 (5%) | 470 | 5.12e-15 (1.99e-12) | 2.14e-06 (0.000733) | 0.689 (1.00) | 0.000558 (0.127) | 3.35e-05 (0.00989) | 3.94e-07 (0.00014) | 1.8e-05 (0.00557) | 2.07e-06 (0.000711) | 1.38e-05 (0.00433) | 1.46e-06 (0.000507)
2p | 12 (2%) | 482 | 5.86e-14 (2.25e-11) | 3.38e-05 (0.00995) | 0.603 (1.00) | 0.00943 (1.00) | 0.000142 (0.0378) | 1.54e-05 (0.00482) | 2.57e-05 (0.00777) | 2.21e-06 (0.000754) | 3.13e-06 (0.00104) | 2.71e-06 (0.000911)
2q | 11 (2%) | 483 | 2.99e-14 (1.15e-11) | 0.000161 (0.0421) | 0.562 (1.00) | 0.068 (1.00) | 0.000424 (0.0996) | 7.22e-05 (0.0201) | 6.45e-05 (0.0181) | 7.03e-06 (0.00228) | 0.000188 (0.0484) | 7.44e-06 (0.00241)
5q | 17 (3%) | 477 | 1.76e-22 (7.01e-20) | 3.39e-05 (0.00995) | 0.85 (1.00) | 0.00745 (1.00) | 0.000338 (0.082) | 9.22e-06 (0.00297) | 0.000344 (0.0826) | 4.11e-05 (0.012) | 9.6e-05 (0.026) | 3.18e-05 (0.00944)
7p | 18 (4%) | 476 | 6.29e-24 (2.5e-21) | 7.19e-05 (0.0201) | 0.66 (1.00) | 0.00219 (0.401) | 0.000338 (0.082) | 9.22e-06 (0.00297) | 0.00105 (0.217) | 0.000121 (0.0327) | 0.000259 (0.0644) | 7.61e-05 (0.0211)
11p | 13 (3%) | 481 | 1.81e-11 (6.88e-09) | 0.000186 (0.0479) | 0.39 (1.00) | 0.432 (1.00) | 0.000259 (0.0644) | 9.26e-05 (0.0253) | 0.000157 (0.0412) | 2.6e-05 (0.00786) | 2.48e-05 (0.00754) | 2.63e-05 (0.00792)
12p | 15 (3%) | 479 | 2.14e-16 (8.38e-14) | 1.32e-06 (0.000461) | 0.85 (1.00) | 0.00745 (1.00) | 9.29e-06 (0.00297) | 3.61e-07 (0.00013) | 2.24e-05 (0.00686) | 2.87e-06 (0.000959) | 3.63e-06 (0.0012) | 2.66e-06 (0.000898)
12q | 15 (3%) | 479 | 2.14e-16 (8.38e-14) | 1.32e-06 (0.000461) | 0.85 (1.00) | 0.00745 (1.00) | 9.29e-06 (0.00297) | 3.61e-07 (0.00013) | 2.24e-05 (0.00686) | 2.87e-06 (0.000959) | 3.63e-06 (0.0012) | 2.66e-06 (0.000898)
14q | 12 (2%) | 482 | 2.13e-11 (8.1e-09) | 3.38e-05 (0.00995) | 1 (1.00) | 0.079 (1.00) | 0.000235 (0.0591) | 1.54e-05 (0.00482) | 0.000146 (0.0386) | 4.8e-05 (0.0137) | 0.000508 (0.117) | 4.25e-05 (0.0123)
15q | 8 (2%) | 486 | 5.63e-05 (0.0161) | 0.000139 (0.0372) | 0.193 (1.00) | 0.126 (1.00) | 0.000723 (0.158) | 4.14e-05 (0.012) | 6.43e-05 (0.0181) | 1.99e-05 (0.00612) | 0.000242 (0.0607) | 1.75e-05 (0.00542)
16p | 16 (3%) | 478 | 3.09e-19 (1.22e-16) | 0.000102 (0.0276) | 0.432 (1.00) | 0.0444 (1.00) | 0.00049 (0.114) | 3.11e-05 (0.00927) | 0.000519 (0.118) | 0.000129 (0.0347) | 6.95e-05 (0.0195) | 9.3e-05 (0.0253)
17q | 22 (4%) | 472 | 5.67e-15 (2.19e-12) | 2.22e-06 (0.000759) | 0.633 (1.00) | 0.00271 (0.486) | 2.92e-05 (0.00877) | 3.64e-07 (0.00013) | 2.05e-05 (0.0063) | 2.03e-06 (0.000699) | 1.06e-05 (0.00336) | 1.64e-06 (0.000566)
19p | 13 (3%) | 481 | 1.08e-10 (4.08e-08) | 3.34e-07 (0.00012) | 1 (1.00) | 0.0433 (1.00) | 2.45e-06 (0.000831) | 1.1e-07 (3.97e-05) | 4.06e-07 (0.000144) | 4.32e-08 (1.58e-05) | 1.25e-06 (0.000436) | 4.37e-08 (1.6e-05)
19q | 11 (2%) | 483 | 1.08e-12 (4.15e-10) | 4.68e-06 (0.00153) | 0.56 (1.00) | 0.0521 (1.00) | 2.99e-05 (0.00894) | 1.05e-06 (0.000368) | 2.82e-06 (0.000946) | 3.1e-07 (0.000112) | 7e-06 (0.00228) | 4.37e-07 (0.000155)
22q | 88 (18%) | 406 | 1.9e-90 (7.58e-88) | 1.13e-05 (0.00357) | 0.123 (1.00) | 0.15 (1.00) | 6.03e-09 (2.23e-06) | 3.33e-05 (0.00986) | 0.000792 (0.169) | 0.000262 (0.0647) | 2.39e-06 (0.000813) | 0.000155 (0.0408)
11q | 14 (3%) | 480 | 2.24e-10 (8.43e-08) | 0.000746 (0.161) | 0.446 (1.00) | 0.257 (1.00) | 0.00234 (0.426) | 0.000248 (0.0621) | 6.05e-05 (0.0171) | 8.62e-05 (0.0237) | 9.65e-06 (0.00307) | 7.61e-05 (0.0211)
10p | 9 (2%) | 485 | 1.17e-11 (4.47e-09) | 0.00199 (0.379) | 1 (1.00) | 0.25 (1.00) | 0.0033 (0.567) | 0.000679 (0.149) | 0.000352 (0.0837) | 0.000164 (0.0427) | 0.00122 (0.246) | 0.000171 (0.0442)
20p | 12 (2%) | 482 | 1.42e-15 (5.55e-13) | 0.000376 (0.0892) | 0.795 (1.00) | 0.0193 (1.00) | 0.00319 (0.557) | 0.000202 (0.0513) | 0.00466 (0.773) | 0.00111 (0.226) | 0.000508 (0.117) | 0.000981 (0.205)
20q | 12 (2%) | 482 | 1.42e-15 (5.55e-13) | 0.000376 (0.0892) | 0.795 (1.00) | 0.0193 (1.00) | 0.00319 (0.557) | 0.000202 (0.0513) | 0.00466 (0.773) | 0.00111 (0.226) | 0.000508 (0.117) | 0.000981 (0.205)
3q | 6 (1%) | 488 | 6.87e-08 (2.5e-05) | 0.00139 (0.278) | 1 (1.00) | 0.25 (1.00) | 0.0049 (0.804) | 0.000909 (0.193) | 0.000739 (0.16) | 0.000308 (0.0755) | 0.00237 (0.428) | 0.00028 (0.069)
6q | 8 (2%) | 486 | 3.98e-06 (0.00131) | 0.000975 (0.205) | 0.0774 (1.00) | 0.432 (1.00) | 0.0119 (1.00) | 0.00198 (0.379) | 0.00106 (0.219) | 0.000573 (0.13) | 0.00344 (0.588) | 0.000587 (0.131)
10q | 8 (2%) | 486 | 2.19e-10 (8.26e-08) | 0.00369 (0.623) | 1 (1.00) | 0.284 (1.00) | 0.00878 (1.00) | 0.00198 (0.379) | 0.00106 (0.219) | 0.000573 (0.13) | 0.00344 (0.588) | 0.000587 (0.131)
13q | 19 (4%) | 475 | 5.97e-07 (0.000211) | 0.000735 (0.16) | 0.391 (1.00) | 0.288 (1.00) | 0.000309 (0.0755) | 8.69e-05 (0.0238) | 0.00702 (1.00) | 0.00197 (0.379) | 0.00508 (0.823) | 0.00198 (0.379)
4p | 7 (1%) | 487 | 3.94e-09 (1.47e-06) | 0.000343 (0.0826) | 0.321 (1.00) | 0.118 (1.00) | 0.00165 (0.328) | 0.00019 (0.0487) | 0.00316 (0.557) | 0.00196 (0.379) | 0.00954 (1.00) | 0.00199 (0.379)
4q | 7 (1%) | 487 | 3.94e-09 (1.47e-06) | 0.000343 (0.0826) | 0.321 (1.00) | 0.118 (1.00) | 0.00165 (0.328) | 0.00019 (0.0487) | 0.00316 (0.557) | 0.00196 (0.379) | 0.00954 (1.00) | 0.00199 (0.379)
16q | 15 (3%) | 479 | 4.09e-17 (1.61e-14) | 0.00165 (0.328) | 0.633 (1.00) | 0.374 (1.00) | 0.00286 (0.506) | 0.000772 (0.165) | 0.00674 (1.00) | 0.00181 (0.353) | 0.000618 (0.137) | 0.00167 (0.328)
5p | 22 (4%) | 472 | 3.27e-22 (1.29e-19) | 0.00265 (0.478) | 0.53 (1.00) | 0.0969 (1.00) | 0.0184 (1.00) | 0.000768 (0.165) | 0.0122 (1.00) | 0.00206 (0.379) | 0.0045 (0.751) | 0.00137 (0.275)
18p | 10 (2%) | 484 | 3.56e-10 (1.34e-07) | 0.0256 (1.00) | 0.635 (1.00) | 0.126 (1.00) | 0.0115 (1.00) | 0.00797 (1.00) | 0.0465 (1.00) | 0.0104 (1.00) | 0.000426 (0.0998) | 0.0079 (1.00)
18q | 10 (2%) | 484 | 3.56e-10 (1.34e-07) | 0.0256 (1.00) | 0.635 (1.00) | 0.126 (1.00) | 0.0115 (1.00) | 0.00797 (1.00) | 0.0465 (1.00) | 0.0104 (1.00) | 0.000426 (0.0998) | 0.0079 (1.00)
xq | 12 (2%) | 482 | 4.08e-09 (1.51e-06) | 0.000947 (0.2) | 0.707 (1.00) | 0.0425 (1.00) | 0.00873 (1.00) | 0.00185 (0.359) | 0.0385 (1.00) | 0.00969 (1.00) | 0.0587 (1.00) | 0.0106 (1.00)
1p | 7 (1%) | 487 | 4.62e-05 (0.0133) | 0.242 (1.00) | 0.78 (1.00) | 0.284 (1.00) | 0.417 (1.00) | 0.264 (1.00) | 0.0648 (1.00) | 0.084 (1.00) | 0.105 (1.00) | 0.0705 (1.00)
1q | 27 (5%) | 467 | 1.64e-08 (6.01e-06) | 0.314 (1.00) | 0.00837 (1.00) | 0.251 (1.00) | 0.012 (1.00) | 0.0219 (1.00) | 0.235 (1.00) | 0.179 (1.00) | 0.191 (1.00) | 0.139 (1.00)
3p | 6 (1%) | 488 | 6.87e-08 (2.5e-05) | 0.0263 (1.00) | 1 (1.00) | 0.655 (1.00) | 0.0524 (1.00) | 0.0128 (1.00) | 0.00929 (1.00) | 0.00658 (1.00) | 0.0259 (1.00) | 0.00664 (1.00)
6p | 6 (1%) | 488 | 6.61e-06 (0.00216) | 0.00505 (0.822) | 0.457 (1.00) | 0.655 (1.00) | 0.0741 (1.00) | 0.0128 (1.00) | 0.00929 (1.00) | 0.00658 (1.00) | 0.0259 (1.00) | 0.00664 (1.00)
8p | 10 (2%) | 484 | 1.58e-08 (5.8e-06) | 0.0256 (1.00) | 0.879 (1.00) | 0.246 (1.00) | 0.0866 (1.00) | 0.0162 (1.00) | 0.0465 (1.00) | 0.0104 (1.00) | 0.00771 (1.00) | 0.0079 (1.00)
8q | 11 (2%) | 483 | 7.23e-10 (2.71e-07) | 0.0243 (1.00) | 0.879 (1.00) | 0.246 (1.00) | 0.187 (1.00) | 0.033 (1.00) | 0.0688 (1.00) | 0.026 (1.00) | 0.0304 (1.00) | 0.0305 (1.00)
9p | 22 (4%) | 472 | 1.79e-14 (6.91e-12) | 0.0134 (1.00) | 0.629 (1.00) | 0.492 (1.00) | 0.0137 (1.00) | 0.00274 (0.487) | 0.015 (1.00) | 0.00624 (1.00) | 0.0203 (1.00) | 0.00422 (0.709)
9q | 28 (6%) | 466 | 1.13e-16 (4.45e-14) | 0.0476 (1.00) | 0.432 (1.00) | 0.102 (1.00) | 0.0951 (1.00) | 0.00622 (1.00) | 0.0416 (1.00) | 0.0284 (1.00) | 0.0523 (1.00) | 0.0182 (1.00)
21q | 13 (3%) | 481 | 3.8e-09 (1.42e-06) | 0.0562 (1.00) | 1 (1.00) | 0.079 (1.00) | 0.0868 (1.00) | 0.069 (1.00) | 0.0478 (1.00) | 0.105 (1.00) | 0.00715 (1.00) | 0.0366 (1.00)

'1p' versus 'CN_CNMF'

P value = 4.62e-05 (Fisher's exact test), Q value = 0.013

Table S1. Gene #1: '1p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
1P MUTATED | 5 | 2 | 0
1P WILD-TYPE | 29 | 381 | 77

Figure S1. Get High-res Image Gene #1: '1p' versus Molecular Subtype #1: 'CN_CNMF'

'1q' versus 'CN_CNMF'

P value = 1.64e-08 (Fisher's exact test), Q value = 6e-06

Table S2. Gene #2: '1q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
1Q MUTATED | 12 | 14 | 1
1Q WILD-TYPE | 22 | 369 | 76

Figure S2. Get High-res Image Gene #2: '1q' versus Molecular Subtype #1: 'CN_CNMF'

'2p' versus 'CN_CNMF'

P value = 5.86e-14 (Fisher's exact test), Q value = 2.2e-11

Table S3. Gene #3: '2p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
2P MUTATED | 11 | 0 | 1
2P WILD-TYPE | 23 | 383 | 76

Figure S3. Get High-res Image Gene #3: '2p' versus Molecular Subtype #1: 'CN_CNMF'

'2p' versus 'METHLYATION_CNMF'

P value = 3.38e-05 (Fisher's exact test), Q value = 0.0099

Table S4. Gene #3: '2p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
2P MUTATED | 11 | 0 | 1
2P WILD-TYPE | 140 | 83 | 259

Figure S4. Get High-res Image Gene #3: '2p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'2p' versus 'MRNASEQ_CNMF'

P value = 0.000142 (Fisher's exact test), Q value = 0.038

Table S5. Gene #3: '2p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
2P MUTATED | 11 | 0 | 1 | 0
2P WILD-TYPE | 141 | 53 | 117 | 163

Figure S5. Get High-res Image Gene #3: '2p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'2p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.54e-05 (Fisher's exact test), Q value = 0.0048

Table S6. Gene #3: '2p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
2P MUTATED | 11 | 1 | 0
2P WILD-TYPE | 123 | 287 | 64

Figure S6. Get High-res Image Gene #3: '2p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'2p' versus 'MIRSEQ_CNMF'

P value = 2.57e-05 (Fisher's exact test), Q value = 0.0078

Table S7. Gene #3: '2p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
2P MUTATED | 11 | 1 | 0
2P WILD-TYPE | 139 | 172 | 170

Figure S7. Get High-res Image Gene #3: '2p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'2p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.21e-06 (Fisher's exact test), Q value = 0.00075

Table S8. Gene #3: '2p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
2P MUTATED | 1 | 11 | 0
2P WILD-TYPE | 154 | 119 | 208

Figure S8. Get High-res Image Gene #3: '2p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'2p' versus 'MIRSEQ_MATURE_CNMF'

P value = 3.13e-06 (Fisher's exact test), Q value = 0.001

Table S9. Gene #3: '2p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
2P MUTATED | 12 | 0 | 0
2P WILD-TYPE | 151 | 169 | 161

Figure S9. Get High-res Image Gene #3: '2p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'2p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2.71e-06 (Fisher's exact test), Q value = 0.00091

Table S10. Gene #3: '2p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
2P MUTATED | 0 | 11 | 1
2P WILD-TYPE | 199 | 117 | 165

Figure S10. Get High-res Image Gene #3: '2p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'2q' versus 'CN_CNMF'

P value = 2.99e-14 (Fisher's exact test), Q value = 1.2e-11

Table S11. Gene #4: '2q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
2Q MUTATED | 11 | 0 | 0
2Q WILD-TYPE | 23 | 383 | 77

Figure S11. Get High-res Image Gene #4: '2q' versus Molecular Subtype #1: 'CN_CNMF'

'2q' versus 'METHLYATION_CNMF'

P value = 0.000161 (Fisher's exact test), Q value = 0.042

Table S12. Gene #4: '2q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
2Q MUTATED | 10 | 0 | 1
2Q WILD-TYPE | 141 | 83 | 259

Figure S12. Get High-res Image Gene #4: '2q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'2q' versus 'MRNASEQ_CNMF'

P value = 0.000424 (Fisher's exact test), Q value = 0.1

Table S13. Gene #4: '2q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
2Q MUTATED | 10 | 0 | 1 | 0
2Q WILD-TYPE | 142 | 53 | 117 | 163

Figure S13. Get High-res Image Gene #4: '2q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'2q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 7.22e-05 (Fisher's exact test), Q value = 0.02

Table S14. Gene #4: '2q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
2Q MUTATED | 10 | 1 | 0
2Q WILD-TYPE | 124 | 287 | 64

Figure S14. Get High-res Image Gene #4: '2q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'2q' versus 'MIRSEQ_CNMF'

P value = 6.45e-05 (Fisher's exact test), Q value = 0.018

Table S15. Gene #4: '2q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
2Q MUTATED | 10 | 1 | 0
2Q WILD-TYPE | 140 | 172 | 170

Figure S15. Get High-res Image Gene #4: '2q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'2q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7.03e-06 (Fisher's exact test), Q value = 0.0023

Table S16. Gene #4: '2q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
2Q MUTATED | 1 | 10 | 0
2Q WILD-TYPE | 154 | 120 | 208

Figure S16. Get High-res Image Gene #4: '2q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'2q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000188 (Fisher's exact test), Q value = 0.048

Table S17. Gene #4: '2q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
2Q MUTATED | 10 | 1 | 0
2Q WILD-TYPE | 153 | 168 | 161

Figure S17. Get High-res Image Gene #4: '2q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'2q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7.44e-06 (Fisher's exact test), Q value = 0.0024

Table S18. Gene #4: '2q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
2Q MUTATED | 0 | 10 | 1
2Q WILD-TYPE | 199 | 118 | 165

Figure S18. Get High-res Image Gene #4: '2q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'3p' versus 'CN_CNMF'

P value = 6.87e-08 (Fisher's exact test), Q value = 2.5e-05

Table S19. Gene #5: '3p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
3P MUTATED | 6 | 0 | 0
3P WILD-TYPE | 28 | 383 | 77

Figure S19. Get High-res Image Gene #5: '3p' versus Molecular Subtype #1: 'CN_CNMF'

'3q' versus 'CN_CNMF'

P value = 6.87e-08 (Fisher's exact test), Q value = 2.5e-05

Table S20. Gene #6: '3q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
3Q MUTATED | 6 | 0 | 0
3Q WILD-TYPE | 28 | 383 | 77

Figure S20. Get High-res Image Gene #6: '3q' versus Molecular Subtype #1: 'CN_CNMF'

'3q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000909 (Fisher's exact test), Q value = 0.19

Table S21. Gene #6: '3q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
3Q MUTATED | 6 | 0 | 0
3Q WILD-TYPE | 128 | 288 | 64

Figure S21. Get High-res Image Gene #6: '3q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'3q' versus 'MIRSEQ_CNMF'

P value = 0.000739 (Fisher's exact test), Q value = 0.16

Table S22. Gene #6: '3q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
3Q MUTATED | 6 | 0 | 0
3Q WILD-TYPE | 144 | 173 | 170

Figure S22. Get High-res Image Gene #6: '3q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'3q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000308 (Fisher's exact test), Q value = 0.076

Table S23. Gene #6: '3q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
3Q MUTATED | 0 | 6 | 0
3Q WILD-TYPE | 155 | 124 | 208

Figure S23. Get High-res Image Gene #6: '3q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'3q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00028 (Fisher's exact test), Q value = 0.069

Table S24. Gene #6: '3q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
3Q MUTATED | 0 | 6 | 0
3Q WILD-TYPE | 199 | 122 | 166

Figure S24. Get High-res Image Gene #6: '3q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'4p' versus 'CN_CNMF'

P value = 3.94e-09 (Fisher's exact test), Q value = 1.5e-06

Table S25. Gene #7: '4p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
4P MUTATED | 7 | 0 | 0
4P WILD-TYPE | 27 | 383 | 77

Figure S25. Get High-res Image Gene #7: '4p' versus Molecular Subtype #1: 'CN_CNMF'

'4p' versus 'METHLYATION_CNMF'

P value = 0.000343 (Fisher's exact test), Q value = 0.083

Table S26. Gene #7: '4p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
4P MUTATED | 7 | 0 | 0
4P WILD-TYPE | 144 | 83 | 260

Figure S26. Get High-res Image Gene #7: '4p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'4p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00019 (Fisher's exact test), Q value = 0.049

Table S27. Gene #7: '4p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
4P MUTATED | 7 | 0 | 0
4P WILD-TYPE | 127 | 288 | 64

Figure S27. Get High-res Image Gene #7: '4p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'4q' versus 'CN_CNMF'

P value = 3.94e-09 (Fisher's exact test), Q value = 1.5e-06

Table S28. Gene #8: '4q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
4Q MUTATED | 7 | 0 | 0
4Q WILD-TYPE | 27 | 383 | 77

Figure S28. Get High-res Image Gene #8: '4q' versus Molecular Subtype #1: 'CN_CNMF'

'4q' versus 'METHLYATION_CNMF'

P value = 0.000343 (Fisher's exact test), Q value = 0.083

Table S29. Gene #8: '4q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
4Q MUTATED | 7 | 0 | 0
4Q WILD-TYPE | 144 | 83 | 260

Figure S29. Get High-res Image Gene #8: '4q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'4q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00019 (Fisher's exact test), Q value = 0.049

Table S30. Gene #8: '4q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
4Q MUTATED | 7 | 0 | 0
4Q WILD-TYPE | 127 | 288 | 64

Figure S30. Get High-res Image Gene #8: '4q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'5p' versus 'CN_CNMF'

P value = 3.27e-22 (Fisher's exact test), Q value = 1.3e-19

Table S31. Gene #9: '5p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
5P MUTATED | 19 | 3 | 0
5P WILD-TYPE | 15 | 380 | 77

Figure S31. Get High-res Image Gene #9: '5p' versus Molecular Subtype #1: 'CN_CNMF'

'5p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000768 (Fisher's exact test), Q value = 0.17

Table S32. Gene #9: '5p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
5P MUTATED | 14 | 8 | 0
5P WILD-TYPE | 120 | 280 | 64

Figure S32. Get High-res Image Gene #9: '5p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'5q' versus 'CN_CNMF'

P value = 1.76e-22 (Fisher's exact test), Q value = 7e-20

Table S33. Gene #10: '5q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
5Q MUTATED | 17 | 0 | 0
5Q WILD-TYPE | 17 | 383 | 77

Figure S33. Get High-res Image Gene #10: '5q' versus Molecular Subtype #1: 'CN_CNMF'

'5q' versus 'METHLYATION_CNMF'

P value = 3.39e-05 (Fisher's exact test), Q value = 0.0099

Table S34. Gene #10: '5q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
5Q MUTATED | 14 | 1 | 2
5Q WILD-TYPE | 137 | 82 | 258

Figure S34. Get High-res Image Gene #10: '5q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'5q' versus 'MRNASEQ_CNMF'

P value = 0.000338 (Fisher's exact test), Q value = 0.082

Table S35. Gene #10: '5q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
5Q MUTATED | 14 | 0 | 1 | 2
5Q WILD-TYPE | 138 | 53 | 117 | 161

Figure S35. Get High-res Image Gene #10: '5q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'5q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 9.22e-06 (Fisher's exact test), Q value = 0.003

Table S36. Gene #10: '5q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
5Q MUTATED | 14 | 3 | 0
5Q WILD-TYPE | 120 | 285 | 64

Figure S36. Get High-res Image Gene #10: '5q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'5q' versus 'MIRSEQ_CNMF'

P value = 0.000344 (Fisher's exact test), Q value = 0.083

Table S37. Gene #10: '5q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
5Q MUTATED | 13 | 2 | 2
5Q WILD-TYPE | 137 | 171 | 168

Figure S37. Get High-res Image Gene #10: '5q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'5q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.11e-05 (Fisher's exact test), Q value = 0.012

Table S38. Gene #10: '5q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
5Q MUTATED | 1 | 13 | 3
5Q WILD-TYPE | 154 | 117 | 205

Figure S38. Get High-res Image Gene #10: '5q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'5q' versus 'MIRSEQ_MATURE_CNMF'

P value = 9.6e-05 (Fisher's exact test), Q value = 0.026

Table S39. Gene #10: '5q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
5Q MUTATED | 14 | 1 | 2
5Q WILD-TYPE | 149 | 168 | 159

Figure S39. Get High-res Image Gene #10: '5q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'5q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3.18e-05 (Fisher's exact test), Q value = 0.0094

Table S40. Gene #10: '5q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
5Q MUTATED | 3 | 13 | 1
5Q WILD-TYPE | 196 | 115 | 165

Figure S40. Get High-res Image Gene #10: '5q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'6p' versus 'CN_CNMF'

P value = 6.61e-06 (Fisher's exact test), Q value = 0.0022

Table S41. Gene #11: '6p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
6P MUTATED | 5 | 1 | 0
6P WILD-TYPE | 29 | 382 | 77

Figure S41. Get High-res Image Gene #11: '6p' versus Molecular Subtype #1: 'CN_CNMF'

'6q' versus 'CN_CNMF'

P value = 3.98e-06 (Fisher's exact test), Q value = 0.0013

Table S42. Gene #12: '6q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
6Q MUTATED | 6 | 2 | 0
6Q WILD-TYPE | 28 | 381 | 77

Figure S42. Get High-res Image Gene #12: '6q' versus Molecular Subtype #1: 'CN_CNMF'

'6q' versus 'METHLYATION_CNMF'

P value = 0.000975 (Fisher's exact test), Q value = 0.2

Table S43. Gene #12: '6q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
6Q MUTATED | 7 | 1 | 0
6Q WILD-TYPE | 144 | 82 | 260

Figure S43. Get High-res Image Gene #12: '6q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'6q' versus 'MIRSEQ_CNMF'

P value = 0.00106 (Fisher's exact test), Q value = 0.22

Table S44. Gene #12: '6q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
6Q MUTATED | 7 | 0 | 1
6Q WILD-TYPE | 143 | 173 | 169

Figure S44. Get High-res Image Gene #12: '6q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'6q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000573 (Fisher's exact test), Q value = 0.13

Table S45. Gene #12: '6q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
6Q MUTATED | 0 | 7 | 1
6Q WILD-TYPE | 155 | 123 | 207

Figure S45. Get High-res Image Gene #12: '6q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'6q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000587 (Fisher's exact test), Q value = 0.13

Table S46. Gene #12: '6q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
6Q MUTATED | 1 | 7 | 0
6Q WILD-TYPE | 198 | 121 | 166

Figure S46. Get High-res Image Gene #12: '6q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'7p' versus 'CN_CNMF'

P value = 6.29e-24 (Fisher's exact test), Q value = 2.5e-21

Table S47. Gene #13: '7p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
7P MUTATED | 18 | 0 | 0
7P WILD-TYPE | 16 | 383 | 77

Figure S47. Get High-res Image Gene #13: '7p' versus Molecular Subtype #1: 'CN_CNMF'

'7p' versus 'METHLYATION_CNMF'

P value = 7.19e-05 (Fisher's exact test), Q value = 0.02

Table S48. Gene #13: '7p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
7P MUTATED | 14 | 2 | 2
7P WILD-TYPE | 137 | 81 | 258

Figure S48. Get High-res Image Gene #13: '7p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'7p' versus 'MRNASEQ_CNMF'

P value = 0.000338 (Fisher's exact test), Q value = 0.082

Table S49. Gene #13: '7p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
7P MUTATED | 14 | 0 | 1 | 2
7P WILD-TYPE | 138 | 53 | 117 | 161

Figure S49. Get High-res Image Gene #13: '7p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'7p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 9.22e-06 (Fisher's exact test), Q value = 0.003

Table S50. Gene #13: '7p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
7P MUTATED | 14 | 3 | 0
7P WILD-TYPE | 120 | 285 | 64

Figure S50. Get High-res Image Gene #13: '7p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'7p' versus 'MIRSEQ_CNMF'

P value = 0.00105 (Fisher's exact test), Q value = 0.22

Table S51. Gene #13: '7p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
7P MUTATED | 13 | 2 | 3
7P WILD-TYPE | 137 | 171 | 167

Figure S51. Get High-res Image Gene #13: '7p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'7p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000121 (Fisher's exact test), Q value = 0.033

Table S52. Gene #13: '7p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
7P MUTATED | 1 | 13 | 4
7P WILD-TYPE | 154 | 117 | 204

Figure S52. Get High-res Image Gene #13: '7p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'7p' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000259 (Fisher's exact test), Q value = 0.064

Table S53. Gene #13: '7p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
7P MUTATED | 14 | 1 | 3
7P WILD-TYPE | 149 | 168 | 158

Figure S53. Get High-res Image Gene #13: '7p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'7p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7.61e-05 (Fisher's exact test), Q value = 0.021

Table S54. Gene #13: '7p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
7P MUTATED | 4 | 13 | 1
7P WILD-TYPE | 195 | 115 | 165

Figure S54. Get High-res Image Gene #13: '7p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'7q' versus 'CN_CNMF'

P value = 6.92e-25 (Fisher's exact test), Q value = 2.8e-22

Table S55. Gene #14: '7q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
7Q MUTATED | 19 | 0 | 1
7Q WILD-TYPE | 15 | 383 | 76

Figure S55. Get High-res Image Gene #14: '7q' versus Molecular Subtype #1: 'CN_CNMF'

'7q' versus 'METHLYATION_CNMF'

P value = 9.82e-06 (Fisher's exact test), Q value = 0.0031

Table S56. Gene #14: '7q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
7Q MUTATED | 16 | 2 | 2
7Q WILD-TYPE | 135 | 81 | 258

Figure S56. Get High-res Image Gene #14: '7q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'7q' versus 'RPPA_CHIERARCHICAL'

P value = 0.000676 (Fisher's exact test), Q value = 0.15

Table S57. Gene #14: '7q' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 31 | 94 | 96
7Q MUTATED | 5 | 0 | 7
7Q WILD-TYPE | 26 | 94 | 89

Figure S57. Get High-res Image Gene #14: '7q' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'7q' versus 'MRNASEQ_CNMF'

P value = 6.01e-05 (Fisher's exact test), Q value = 0.017

Table S58. Gene #14: '7q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
7Q MUTATED | 16 | 0 | 1 | 2
7Q WILD-TYPE | 136 | 53 | 117 | 161

Figure S58. Get High-res Image Gene #14: '7q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'7q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.13e-06 (Fisher's exact test), Q value = 4e-04

Table S59. Gene #14: '7q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
7Q MUTATED | 16 | 3 | 0
7Q WILD-TYPE | 118 | 285 | 64

Figure S59. Get High-res Image Gene #14: '7q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'7q' versus 'MIRSEQ_CNMF'

P value = 0.000144 (Fisher's exact test), Q value = 0.038

Table S60. Gene #14: '7q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
7Q MUTATED | 15 | 2 | 3
7Q WILD-TYPE | 135 | 171 | 167

Figure S60. Get High-res Image Gene #14: '7q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'7q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.15e-05 (Fisher's exact test), Q value = 0.0036

Table S61. Gene #14: '7q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
7Q MUTATED | 1 | 15 | 4
7Q WILD-TYPE | 154 | 115 | 204

Figure S61. Get High-res Image Gene #14: '7q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'7q' versus 'MIRSEQ_MATURE_CNMF'

P value = 4.38e-05 (Fisher's exact test), Q value = 0.013

Table S62. Gene #14: '7q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
7Q MUTATED | 16 | 1 | 3
7Q WILD-TYPE | 147 | 168 | 158

Figure S62. Get High-res Image Gene #14: '7q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'7q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 9.06e-06 (Fisher's exact test), Q value = 0.0029

Table S63. Gene #14: '7q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
7Q MUTATED | 4 | 15 | 1
7Q WILD-TYPE | 195 | 113 | 165

Figure S63. Get High-res Image Gene #14: '7q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'8p' versus 'CN_CNMF'

P value = 1.58e-08 (Fisher's exact test), Q value = 5.8e-06

Table S64. Gene #15: '8p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
8P MUTATED | 8 | 2 | 0
8P WILD-TYPE | 26 | 381 | 77

Figure S64. Get High-res Image Gene #15: '8p' versus Molecular Subtype #1: 'CN_CNMF'

'8q' versus 'CN_CNMF'

P value = 7.23e-10 (Fisher's exact test), Q value = 2.7e-07

Table S65. Gene #16: '8q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
8Q MUTATED | 9 | 2 | 0
8Q WILD-TYPE | 25 | 381 | 77

Figure S65. Get High-res Image Gene #16: '8q' versus Molecular Subtype #1: 'CN_CNMF'

'9p' versus 'CN_CNMF'

P value = 1.79e-14 (Fisher's exact test), Q value = 6.9e-12

Table S66. Gene #17: '9p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
9P MUTATED | 15 | 5 | 2
9P WILD-TYPE | 19 | 378 | 75

Figure S66. Get High-res Image Gene #17: '9p' versus Molecular Subtype #1: 'CN_CNMF'

'9q' versus 'CN_CNMF'

P value = 1.13e-16 (Fisher's exact test), Q value = 4.4e-14

Table S67. Gene #18: '9q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
9Q MUTATED | 18 | 8 | 2
9Q WILD-TYPE | 16 | 375 | 75

Figure S67. Get High-res Image Gene #18: '9q' versus Molecular Subtype #1: 'CN_CNMF'

'10p' versus 'CN_CNMF'

P value = 1.17e-11 (Fisher's exact test), Q value = 4.5e-09

Table S68. Gene #19: '10p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
10P MUTATED | 9 | 0 | 0
10P WILD-TYPE | 25 | 383 | 77

Figure S68. Get High-res Image Gene #19: '10p' versus Molecular Subtype #1: 'CN_CNMF'

'10p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000679 (Fisher's exact test), Q value = 0.15

Table S69. Gene #19: '10p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
10P MUTATED | 8 | 1 | 0
10P WILD-TYPE | 126 | 287 | 64

Figure S69. Get High-res Image Gene #19: '10p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'10p' versus 'MIRSEQ_CNMF'

P value = 0.000352 (Fisher's exact test), Q value = 0.084

Table S70. Gene #19: '10p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
10P MUTATED | 8 | 0 | 1
10P WILD-TYPE | 142 | 173 | 169

Figure S70. Get High-res Image Gene #19: '10p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'10p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000164 (Fisher's exact test), Q value = 0.043

Table S71. Gene #19: '10p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
10P MUTATED | 0 | 8 | 1
10P WILD-TYPE | 155 | 122 | 207

Figure S71. Get High-res Image Gene #19: '10p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'10p' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00122 (Fisher's exact test), Q value = 0.25

Table S72. Gene #19: '10p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
10P MUTATED | 8 | 0 | 1
10P WILD-TYPE | 155 | 169 | 160

Figure S72. Get High-res Image Gene #19: '10p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'10p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000171 (Fisher's exact test), Q value = 0.044

Table S73. Gene #19: '10p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
10P MUTATED | 1 | 8 | 0
10P WILD-TYPE | 198 | 120 | 166

Figure S73. Get High-res Image Gene #19: '10p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'10q' versus 'CN_CNMF'

P value = 2.19e-10 (Fisher's exact test), Q value = 8.3e-08

Table S74. Gene #20: '10q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
10Q MUTATED | 8 | 0 | 0
10Q WILD-TYPE | 26 | 383 | 77

Figure S74. Get High-res Image Gene #20: '10q' versus Molecular Subtype #1: 'CN_CNMF'

'10q' versus 'MIRSEQ_CNMF'

P value = 0.00106 (Fisher's exact test), Q value = 0.22

Table S75. Gene #20: '10q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
10Q MUTATED | 7 | 0 | 1
10Q WILD-TYPE | 143 | 173 | 169

Figure S75. Get High-res Image Gene #20: '10q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'10q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000573 (Fisher's exact test), Q value = 0.13

Table S76. Gene #20: '10q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
10Q MUTATED | 0 | 7 | 1
10Q WILD-TYPE | 155 | 123 | 207

Figure S76. Get High-res Image Gene #20: '10q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'10q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000587 (Fisher's exact test), Q value = 0.13

Table S77. Gene #20: '10q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
10Q MUTATED | 1 | 7 | 0
10Q WILD-TYPE | 198 | 121 | 166

Figure S77. Get High-res Image Gene #20: '10q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'11p' versus 'CN_CNMF'

P value = 1.81e-11 (Fisher's exact test), Q value = 6.9e-09

Table S78. Gene #21: '11p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
11P MUTATED | 10 | 1 | 2
11P WILD-TYPE | 24 | 382 | 75

Figure S78. Get High-res Image Gene #21: '11p' versus Molecular Subtype #1: 'CN_CNMF'

'11p' versus 'METHLYATION_CNMF'

P value = 0.000186 (Fisher's exact test), Q value = 0.048

Table S79. Gene #21: '11p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
11P MUTATED | 11 | 0 | 2
11P WILD-TYPE | 140 | 83 | 258

Figure S79. Get High-res Image Gene #21: '11p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'11p' versus 'MRNASEQ_CNMF'

P value = 0.000259 (Fisher's exact test), Q value = 0.064

Table S80. Gene #21: '11p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
11P MUTATED | 11 | 1 | 1 | 0
11P WILD-TYPE | 141 | 52 | 117 | 163

Figure S80. Get High-res Image Gene #21: '11p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'11p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 9.26e-05 (Fisher's exact test), Q value = 0.025

Table S81. Gene #21: '11p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
11P MUTATED | 11 | 2 | 0
11P WILD-TYPE | 123 | 286 | 64

Figure S81. Get High-res Image Gene #21: '11p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'11p' versus 'MIRSEQ_CNMF'

P value = 0.000157 (Fisher's exact test), Q value = 0.041

Table S82. Gene #21: '11p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
11P MUTATED | 11 | 1 | 1
11P WILD-TYPE | 139 | 172 | 169

Figure S82. Get High-res Image Gene #21: '11p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'11p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.6e-05 (Fisher's exact test), Q value = 0.0079

Table S83. Gene #21: '11p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
11P MUTATED | 1 | 11 | 1
11P WILD-TYPE | 154 | 119 | 207

Figure S83. Get High-res Image Gene #21: '11p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'11p' versus 'MIRSEQ_MATURE_CNMF'

P value = 2.48e-05 (Fisher's exact test), Q value = 0.0075

Table S84. Gene #21: '11p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
11P MUTATED | 12 | 0 | 1
11P WILD-TYPE | 151 | 169 | 160

Figure S84. Get High-res Image Gene #21: '11p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'11p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2.63e-05 (Fisher's exact test), Q value = 0.0079

Table S85. Gene #21: '11p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
11P MUTATED | 1 | 11 | 1
11P WILD-TYPE | 198 | 117 | 165

Figure S85. Get High-res Image Gene #21: '11p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'11q' versus 'CN_CNMF'

P value = 2.24e-10 (Fisher's exact test), Q value = 8.4e-08

Table S86. Gene #22: '11q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
11Q MUTATED | 10 | 2 | 2
11Q WILD-TYPE | 24 | 381 | 75

Figure S86. Get High-res Image Gene #22: '11q' versus Molecular Subtype #1: 'CN_CNMF'

'11q' versus 'METHLYATION_CNMF'

P value = 0.000746 (Fisher's exact test), Q value = 0.16

Table S87. Gene #22: '11q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
11Q MUTATED | 11 | 0 | 3
11Q WILD-TYPE | 140 | 83 | 257

Figure S87. Get High-res Image Gene #22: '11q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'11q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000248 (Fisher's exact test), Q value = 0.062

Table S88. Gene #22: '11q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
11Q MUTATED | 11 | 3 | 0
11Q WILD-TYPE | 123 | 285 | 64

Figure S88. Get High-res Image Gene #22: '11q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'11q' versus 'MIRSEQ_CNMF'

P value = 6.05e-05 (Fisher's exact test), Q value = 0.017

Table S89. Gene #22: '11q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
11Q MUTATED | 12 | 1 | 1
11Q WILD-TYPE | 138 | 172 | 169

Figure S89. Get High-res Image Gene #22: '11q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'11q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 8.62e-05 (Fisher's exact test), Q value = 0.024

Table S90. Gene #22: '11q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
11Q MUTATED | 2 | 11 | 1
11Q WILD-TYPE | 153 | 119 | 207

Figure S90. Get High-res Image Gene #22: '11q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'11q' versus 'MIRSEQ_MATURE_CNMF'

P value = 9.65e-06 (Fisher's exact test), Q value = 0.0031

Table S91. Gene #22: '11q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
11Q MUTATED | 13 | 0 | 1
11Q WILD-TYPE | 150 | 169 | 160

Figure S91. Get High-res Image Gene #22: '11q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'11q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7.61e-05 (Fisher's exact test), Q value = 0.021

Table S92. Gene #22: '11q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
11Q MUTATED | 1 | 11 | 2
11Q WILD-TYPE | 198 | 117 | 164

Figure S92. Get High-res Image Gene #22: '11q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'12p' versus 'CN_CNMF'

P value = 2.14e-16 (Fisher's exact test), Q value = 8.4e-14

Table S93. Gene #23: '12p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
12P MUTATED | 13 | 0 | 2
12P WILD-TYPE | 21 | 383 | 75

Figure S93. Get High-res Image Gene #23: '12p' versus Molecular Subtype #1: 'CN_CNMF'

'12p' versus 'METHLYATION_CNMF'

P value = 1.32e-06 (Fisher's exact test), Q value = 0.00046

Table S94. Gene #23: '12p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
12P MUTATED | 14 | 0 | 1
12P WILD-TYPE | 137 | 83 | 259

Figure S94. Get High-res Image Gene #23: '12p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'12p' versus 'MRNASEQ_CNMF'

P value = 9.29e-06 (Fisher's exact test), Q value = 0.003

Table S95. Gene #23: '12p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
12P MUTATED | 14 | 0 | 1 | 0
12P WILD-TYPE | 138 | 53 | 117 | 163

Figure S95. Get High-res Image Gene #23: '12p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'12p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.61e-07 (Fisher's exact test), Q value = 0.00013

Table S96. Gene #23: '12p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
12P MUTATED | 14 | 1 | 0
12P WILD-TYPE | 120 | 287 | 64

Figure S96. Get High-res Image Gene #23: '12p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'12p' versus 'MIRSEQ_CNMF'

P value = 2.24e-05 (Fisher's exact test), Q value = 0.0069

Table S97. Gene #23: '12p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
12P MUTATED | 13 | 1 | 1
12P WILD-TYPE | 137 | 172 | 169

Figure S97. Get High-res Image Gene #23: '12p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'12p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.87e-06 (Fisher's exact test), Q value = 0.00096

Table S98. Gene #23: '12p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
12P MUTATED | 1 | 13 | 1
12P WILD-TYPE | 154 | 117 | 207

Figure S98. Get High-res Image Gene #23: '12p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'12p' versus 'MIRSEQ_MATURE_CNMF'

P value = 3.63e-06 (Fisher's exact test), Q value = 0.0012

Table S99. Gene #23: '12p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
12P MUTATED | 14 | 0 | 1
12P WILD-TYPE | 149 | 169 | 160

Figure S99. Get High-res Image Gene #23: '12p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'12p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2.66e-06 (Fisher's exact test), Q value = 9e-04

Table S100. Gene #23: '12p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
12P MUTATED | 1 | 13 | 1
12P WILD-TYPE | 198 | 115 | 165

Figure S100. Get High-res Image Gene #23: '12p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'12q' versus 'CN_CNMF'

P value = 2.14e-16 (Fisher's exact test), Q value = 8.4e-14

Table S101. Gene #24: '12q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
12Q MUTATED | 13 | 0 | 2
12Q WILD-TYPE | 21 | 383 | 75

Figure S101. Get High-res Image Gene #24: '12q' versus Molecular Subtype #1: 'CN_CNMF'

'12q' versus 'METHLYATION_CNMF'

P value = 1.32e-06 (Fisher's exact test), Q value = 0.00046

Table S102. Gene #24: '12q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
12Q MUTATED | 14 | 0 | 1
12Q WILD-TYPE | 137 | 83 | 259

Figure S102. Get High-res Image Gene #24: '12q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'12q' versus 'MRNASEQ_CNMF'

P value = 9.29e-06 (Fisher's exact test), Q value = 0.003

Table S103. Gene #24: '12q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
12Q MUTATED | 14 | 0 | 1 | 0
12Q WILD-TYPE | 138 | 53 | 117 | 163

Figure S103. Get High-res Image Gene #24: '12q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'12q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.61e-07 (Fisher's exact test), Q value = 0.00013

Table S104. Gene #24: '12q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
12Q MUTATED | 14 | 1 | 0
12Q WILD-TYPE | 120 | 287 | 64

Figure S104. Get High-res Image Gene #24: '12q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'12q' versus 'MIRSEQ_CNMF'

P value = 2.24e-05 (Fisher's exact test), Q value = 0.0069

Table S105. Gene #24: '12q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
12Q MUTATED | 13 | 1 | 1
12Q WILD-TYPE | 137 | 172 | 169

Figure S105. Get High-res Image Gene #24: '12q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'12q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.87e-06 (Fisher's exact test), Q value = 0.00096

Table S106. Gene #24: '12q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
12Q MUTATED | 1 | 13 | 1
12Q WILD-TYPE | 154 | 117 | 207

Figure S106. Get High-res Image Gene #24: '12q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'12q' versus 'MIRSEQ_MATURE_CNMF'

P value = 3.63e-06 (Fisher's exact test), Q value = 0.0012

Table S107. Gene #24: '12q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
12Q MUTATED | 14 | 0 | 1
12Q WILD-TYPE | 149 | 169 | 160

Figure S107. Get High-res Image Gene #24: '12q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'12q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2.66e-06 (Fisher's exact test), Q value = 9e-04

Table S108. Gene #24: '12q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
12Q MUTATED | 1 | 13 | 1
12Q WILD-TYPE | 198 | 115 | 165

Figure S108. Get High-res Image Gene #24: '12q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'13q' versus 'CN_CNMF'

P value = 5.97e-07 (Fisher's exact test), Q value = 0.00021

Table S109. Gene #25: '13q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
13Q MUTATED | 9 | 7 | 3
13Q WILD-TYPE | 25 | 376 | 74

Figure S109. Get High-res Image Gene #25: '13q' versus Molecular Subtype #1: 'CN_CNMF'

'13q' versus 'METHLYATION_CNMF'

P value = 0.000735 (Fisher's exact test), Q value = 0.16

Table S110. Gene #25: '13q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
13Q MUTATED | 13 | 3 | 3
13Q WILD-TYPE | 138 | 80 | 257

Figure S110. Get High-res Image Gene #25: '13q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'13q' versus 'MRNASEQ_CNMF'

P value = 0.000309 (Fisher's exact test), Q value = 0.076

Table S111. Gene #25: '13q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
13Q MUTATED | 13 | 1 | 3 | 0
13Q WILD-TYPE | 139 | 52 | 115 | 163

Figure S111. Get High-res Image Gene #25: '13q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'13q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 8.69e-05 (Fisher's exact test), Q value = 0.024

Table S112. Gene #25: '13q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
13Q MUTATED | 13 | 4 | 0
13Q WILD-TYPE | 121 | 284 | 64

Figure S112. Get High-res Image Gene #25: '13q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'14q' versus 'CN_CNMF'

P value = 2.13e-11 (Fisher's exact test), Q value = 8.1e-09

Table S113. Gene #26: '14q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
14Q MUTATED | 10 | 1 | 1
14Q WILD-TYPE | 24 | 382 | 76

Figure S113. Get High-res Image Gene #26: '14q' versus Molecular Subtype #1: 'CN_CNMF'

'14q' versus 'METHLYATION_CNMF'

P value = 3.38e-05 (Fisher's exact test), Q value = 0.0099

Table S114. Gene #26: '14q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
14Q MUTATED | 11 | 0 | 1
14Q WILD-TYPE | 140 | 83 | 259

Figure S114. Get High-res Image Gene #26: '14q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'14q' versus 'MRNASEQ_CNMF'

P value = 0.000235 (Fisher's exact test), Q value = 0.059

Table S115. Gene #26: '14q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
14Q MUTATED | 11 | 0 | 0 | 1
14Q WILD-TYPE | 141 | 53 | 118 | 162

Figure S115. Get High-res Image Gene #26: '14q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'14q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.54e-05 (Fisher's exact test), Q value = 0.0048

Table S116. Gene #26: '14q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
14Q MUTATED | 11 | 1 | 0
14Q WILD-TYPE | 123 | 287 | 64

Figure S116. Get High-res Image Gene #26: '14q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'14q' versus 'MIRSEQ_CNMF'

P value = 0.000146 (Fisher's exact test), Q value = 0.039

Table S117. Gene #26: '14q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
14Q MUTATED | 10 | 0 | 2
14Q WILD-TYPE | 140 | 173 | 168

Figure S117. Get High-res Image Gene #26: '14q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'14q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.8e-05 (Fisher's exact test), Q value = 0.014

Table S118. Gene #26: '14q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
14Q MUTATED | 0 | 10 | 2
14Q WILD-TYPE | 155 | 120 | 206

Figure S118. Get High-res Image Gene #26: '14q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'14q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000508 (Fisher's exact test), Q value = 0.12

Table S119. Gene #26: '14q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
14Q MUTATED | 10 | 0 | 2
14Q WILD-TYPE | 153 | 169 | 159

Figure S119. Get High-res Image Gene #26: '14q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'14q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4.25e-05 (Fisher's exact test), Q value = 0.012

Table S120. Gene #26: '14q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
14Q MUTATED | 2 | 10 | 0
14Q WILD-TYPE | 197 | 118 | 166

Figure S120. Get High-res Image Gene #26: '14q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'15q' versus 'CN_CNMF'

P value = 5.63e-05 (Fisher's exact test), Q value = 0.016

Table S121. Gene #27: '15q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
15Q MUTATED | 5 | 2 | 1
15Q WILD-TYPE | 29 | 381 | 76

Figure S121. Get High-res Image Gene #27: '15q' versus Molecular Subtype #1: 'CN_CNMF'

'15q' versus 'METHLYATION_CNMF'

P value = 0.000139 (Fisher's exact test), Q value = 0.037

Table S122. Gene #27: '15q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
15Q MUTATED | 8 | 0 | 0
15Q WILD-TYPE | 143 | 83 | 260

Figure S122. Get High-res Image Gene #27: '15q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'15q' versus 'MRNASEQ_CNMF'

P value = 0.000723 (Fisher's exact test), Q value = 0.16

Table S123. Gene #27: '15q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
15Q MUTATED | 8 | 0 | 0 | 0
15Q WILD-TYPE | 144 | 53 | 118 | 163

Figure S123. Get High-res Image Gene #27: '15q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'15q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4.14e-05 (Fisher's exact test), Q value = 0.012

Table S124. Gene #27: '15q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
15Q MUTATED | 8 | 0 | 0
15Q WILD-TYPE | 126 | 288 | 64

Figure S124. Get High-res Image Gene #27: '15q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'15q' versus 'MIRSEQ_CNMF'

P value = 6.43e-05 (Fisher's exact test), Q value = 0.018

Table S125. Gene #27: '15q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
15Q MUTATED | 8 | 0 | 0
15Q WILD-TYPE | 142 | 173 | 170

Figure S125. Get High-res Image Gene #27: '15q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'15q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.99e-05 (Fisher's exact test), Q value = 0.0061

Table S126. Gene #27: '15q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
15Q MUTATED | 0 | 8 | 0
15Q WILD-TYPE | 155 | 122 | 208

Figure S126. Get High-res Image Gene #27: '15q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'15q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000242 (Fisher's exact test), Q value = 0.061

Table S127. Gene #27: '15q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
15Q MUTATED | 8 | 0 | 0
15Q WILD-TYPE | 155 | 169 | 161

Figure S127. Get High-res Image Gene #27: '15q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'15q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1.75e-05 (Fisher's exact test), Q value = 0.0054

Table S128. Gene #27: '15q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
15Q MUTATED | 0 | 8 | 0
15Q WILD-TYPE | 199 | 120 | 166

Figure S128. Get High-res Image Gene #27: '15q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'16p' versus 'CN_CNMF'

P value = 3.09e-19 (Fisher's exact test), Q value = 1.2e-16

Table S129. Gene #28: '16p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
16P MUTATED | 15 | 0 | 1
16P WILD-TYPE | 19 | 383 | 76

Figure S129. Get High-res Image Gene #28: '16p' versus Molecular Subtype #1: 'CN_CNMF'

'16p' versus 'METHLYATION_CNMF'

P value = 0.000102 (Fisher's exact test), Q value = 0.028

Table S130. Gene #28: '16p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
16P MUTATED | 13 | 1 | 2
16P WILD-TYPE | 138 | 82 | 258

Figure S130. Get High-res Image Gene #28: '16p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'16p' versus 'MRNASEQ_CNMF'

P value = 0.00049 (Fisher's exact test), Q value = 0.11

Table S131. Gene #28: '16p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
16P MUTATED | 13 | 1 | 1 | 1
16P WILD-TYPE | 139 | 52 | 117 | 162

Figure S131. Get High-res Image Gene #28: '16p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'16p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.11e-05 (Fisher's exact test), Q value = 0.0093

Table S132. Gene #28: '16p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
16P MUTATED | 13 | 3 | 0
16P WILD-TYPE | 121 | 285 | 64

Figure S132. Get High-res Image Gene #28: '16p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'16p' versus 'MIRSEQ_CNMF'

P value = 0.000519 (Fisher's exact test), Q value = 0.12

Table S133. Gene #28: '16p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
16P MUTATED | 12 | 1 | 3
16P WILD-TYPE | 138 | 172 | 167

Figure S133. Get High-res Image Gene #28: '16p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'16p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000129 (Fisher's exact test), Q value = 0.035

Table S134. Gene #28: '16p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
16P MUTATED | 1 | 12 | 3
16P WILD-TYPE | 154 | 118 | 205

Figure S134. Get High-res Image Gene #28: '16p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'16p' versus 'MIRSEQ_MATURE_CNMF'

P value = 6.95e-05 (Fisher's exact test), Q value = 0.019

Table S135. Gene #28: '16p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
16P MUTATED | 13 | 0 | 3
16P WILD-TYPE | 150 | 169 | 158

Figure S135. Get High-res Image Gene #28: '16p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'16p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 9.3e-05 (Fisher's exact test), Q value = 0.025

Table S136. Gene #28: '16p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
16P MUTATED | 3 | 12 | 1
16P WILD-TYPE | 196 | 116 | 165

Figure S136. Get High-res Image Gene #28: '16p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'16q' versus 'CN_CNMF'

P value = 4.09e-17 (Fisher's exact test), Q value = 1.6e-14

Table S137. Gene #29: '16q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
16Q MUTATED | 14 | 1 | 0
16Q WILD-TYPE | 20 | 382 | 77

Figure S137. Get High-res Image Gene #29: '16q' versus Molecular Subtype #1: 'CN_CNMF'

'16q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000772 (Fisher's exact test), Q value = 0.17

Table S138. Gene #29: '16q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
16Q MUTATED | 11 | 4 | 0
16Q WILD-TYPE | 123 | 284 | 64

Figure S138. Get High-res Image Gene #29: '16q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'16q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000618 (Fisher's exact test), Q value = 0.14

Table S139. Gene #29: '16q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
16Q MUTATED | 11 | 0 | 4
16Q WILD-TYPE | 152 | 169 | 157

Figure S139. Get High-res Image Gene #29: '16q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'17p' versus 'CN_CNMF'

P value = 5.12e-15 (Fisher's exact test), Q value = 2e-12

Table S140. Gene #30: '17p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
17P MUTATED | 16 | 6 | 2
17P WILD-TYPE | 18 | 377 | 75

Figure S140. Get High-res Image Gene #30: '17p' versus Molecular Subtype #1: 'CN_CNMF'

'17p' versus 'METHLYATION_CNMF'

P value = 2.14e-06 (Fisher's exact test), Q value = 0.00073

Table S141. Gene #30: '17p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
17P MUTATED | 19 | 0 | 5
17P WILD-TYPE | 132 | 83 | 255

Figure S141. Get High-res Image Gene #30: '17p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'17p' versus 'RPPA_CHIERARCHICAL'

P value = 0.000558 (Fisher's exact test), Q value = 0.13

Table S142. Gene #30: '17p' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 31 | 94 | 96
17P MUTATED | 5 | 0 | 6
17P WILD-TYPE | 26 | 94 | 90

Figure S142. Get High-res Image Gene #30: '17p' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'17p' versus 'MRNASEQ_CNMF'

P value = 3.35e-05 (Fisher's exact test), Q value = 0.0099

Table S143. Gene #30: '17p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
17P MUTATED | 19 | 0 | 2 | 3
17P WILD-TYPE | 133 | 53 | 116 | 160

Figure S143. Get High-res Image Gene #30: '17p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'17p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.94e-07 (Fisher's exact test), Q value = 0.00014

Table S144. Gene #30: '17p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
17P MUTATED | 19 | 5 | 0
17P WILD-TYPE | 115 | 283 | 64

Figure S144. Get High-res Image Gene #30: '17p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'17p' versus 'MIRSEQ_CNMF'

P value = 1.8e-05 (Fisher's exact test), Q value = 0.0056

Table S145. Gene #30: '17p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
17P MUTATED | 18 | 2 | 4
17P WILD-TYPE | 132 | 171 | 166

Figure S145. Get High-res Image Gene #30: '17p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'17p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.07e-06 (Fisher's exact test), Q value = 0.00071

Table S146. Gene #30: '17p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
17P MUTATED | 2 | 18 | 4
17P WILD-TYPE | 153 | 112 | 204

Figure S146. Get High-res Image Gene #30: '17p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'17p' versus 'MIRSEQ_MATURE_CNMF'

P value = 1.38e-05 (Fisher's exact test), Q value = 0.0043

Table S147. Gene #30: '17p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
17P MUTATED | 19 | 2 | 3
17P WILD-TYPE | 144 | 167 | 158

Figure S147. Get High-res Image Gene #30: '17p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'17p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1.46e-06 (Fisher's exact test), Q value = 0.00051

Table S148. Gene #30: '17p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
17P MUTATED | 4 | 18 | 2
17P WILD-TYPE | 195 | 110 | 164

Figure S148. Get High-res Image Gene #30: '17p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'17q' versus 'CN_CNMF'

P value = 5.67e-15 (Fisher's exact test), Q value = 2.2e-12

Table S149. Gene #31: '17q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
17Q MUTATED | 15 | 4 | 3
17Q WILD-TYPE | 19 | 379 | 74

Figure S149. Get High-res Image Gene #31: '17q' versus Molecular Subtype #1: 'CN_CNMF'

'17q' versus 'METHLYATION_CNMF'

P value = 2.22e-06 (Fisher's exact test), Q value = 0.00076

Table S150. Gene #31: '17q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
17Q MUTATED | 18 | 0 | 4
17Q WILD-TYPE | 133 | 83 | 256

Figure S150. Get High-res Image Gene #31: '17q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'17q' versus 'MRNASEQ_CNMF'

P value = 2.92e-05 (Fisher's exact test), Q value = 0.0088

Table S151. Gene #31: '17q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
17Q MUTATED | 18 | 0 | 2 | 2
17Q WILD-TYPE | 134 | 53 | 116 | 161

Figure S151. Get High-res Image Gene #31: '17q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'17q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.64e-07 (Fisher's exact test), Q value = 0.00013

Table S152. Gene #31: '17q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
17Q MUTATED | 18 | 4 | 0
17Q WILD-TYPE | 116 | 284 | 64

Figure S152. Get High-res Image Gene #31: '17q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'17q' versus 'MIRSEQ_CNMF'

P value = 2.05e-05 (Fisher's exact test), Q value = 0.0063

Table S153. Gene #31: '17q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
17Q MUTATED | 17 | 2 | 3
17Q WILD-TYPE | 133 | 171 | 167

Figure S153. Get High-res Image Gene #31: '17q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'17q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.03e-06 (Fisher's exact test), Q value = 7e-04

Table S154. Gene #31: '17q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
17Q MUTATED | 2 | 17 | 3
17Q WILD-TYPE | 153 | 113 | 205

Figure S154. Get High-res Image Gene #31: '17q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'17q' versus 'MIRSEQ_MATURE_CNMF'

P value = 1.06e-05 (Fisher's exact test), Q value = 0.0034

Table S155. Gene #31: '17q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
17Q MUTATED | 18 | 2 | 2
17Q WILD-TYPE | 145 | 167 | 159

Figure S155. Get High-res Image Gene #31: '17q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'17q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1.64e-06 (Fisher's exact test), Q value = 0.00057

Table S156. Gene #31: '17q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
17Q MUTATED | 3 | 17 | 2
17Q WILD-TYPE | 196 | 111 | 164

Figure S156. Get High-res Image Gene #31: '17q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'18p' versus 'CN_CNMF'

P value = 3.56e-10 (Fisher's exact test), Q value = 1.3e-07

Table S157. Gene #32: '18p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
18P MUTATED | 8 | 0 | 2
18P WILD-TYPE | 26 | 383 | 75

Figure S157. Get High-res Image Gene #32: '18p' versus Molecular Subtype #1: 'CN_CNMF'

'18p' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000426 (Fisher's exact test), Q value = 0.1

Table S158. Gene #32: '18p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
18P MUTATED | 9 | 0 | 1
18P WILD-TYPE | 154 | 169 | 160

Figure S158. Get High-res Image Gene #32: '18p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'18q' versus 'CN_CNMF'

P value = 3.56e-10 (Fisher's exact test), Q value = 1.3e-07

Table S159. Gene #33: '18q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
18Q MUTATED | 8 | 0 | 2
18Q WILD-TYPE | 26 | 383 | 75

Figure S159. Get High-res Image Gene #33: '18q' versus Molecular Subtype #1: 'CN_CNMF'

'18q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000426 (Fisher's exact test), Q value = 0.1

Table S160. Gene #33: '18q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
18Q MUTATED | 9 | 0 | 1
18Q WILD-TYPE | 154 | 169 | 160

Figure S160. Get High-res Image Gene #33: '18q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'19p' versus 'CN_CNMF'

P value = 1.08e-10 (Fisher's exact test), Q value = 4.1e-08

Table S161. Gene #34: '19p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
19P MUTATED | 10 | 2 | 1
19P WILD-TYPE | 24 | 381 | 76

Figure S161. Get High-res Image Gene #34: '19p' versus Molecular Subtype #1: 'CN_CNMF'

'19p' versus 'METHLYATION_CNMF'

P value = 3.34e-07 (Fisher's exact test), Q value = 0.00012

Table S162. Gene #34: '19p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
19P MUTATED | 13 | 0 | 0
19P WILD-TYPE | 138 | 83 | 260

Figure S162. Get High-res Image Gene #34: '19p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'19p' versus 'MRNASEQ_CNMF'

P value = 2.45e-06 (Fisher's exact test), Q value = 0.00083

Table S163. Gene #34: '19p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
19P MUTATED | 13 | 0 | 0 | 0
19P WILD-TYPE | 139 | 53 | 118 | 163

Figure S163. Get High-res Image Gene #34: '19p' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'19p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.1e-07 (Fisher's exact test), Q value = 4e-05

Table S164. Gene #34: '19p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
19P MUTATED | 13 | 0 | 0
19P WILD-TYPE | 121 | 288 | 64

Figure S164. Get High-res Image Gene #34: '19p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'19p' versus 'MIRSEQ_CNMF'

P value = 4.06e-07 (Fisher's exact test), Q value = 0.00014

Table S165. Gene #34: '19p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
19P MUTATED | 13 | 0 | 0
19P WILD-TYPE | 137 | 173 | 170

Figure S165. Get High-res Image Gene #34: '19p' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'19p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.32e-08 (Fisher's exact test), Q value = 1.6e-05

Table S166. Gene #34: '19p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
19P MUTATED | 0 | 13 | 0
19P WILD-TYPE | 155 | 117 | 208

Figure S166. Get High-res Image Gene #34: '19p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'19p' versus 'MIRSEQ_MATURE_CNMF'

P value = 1.25e-06 (Fisher's exact test), Q value = 0.00044

Table S167. Gene #34: '19p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
19P MUTATED | 13 | 0 | 0
19P WILD-TYPE | 150 | 169 | 161

Figure S167. Get High-res Image Gene #34: '19p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'19p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4.37e-08 (Fisher's exact test), Q value = 1.6e-05

Table S168. Gene #34: '19p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
19P MUTATED | 0 | 13 | 0
19P WILD-TYPE | 199 | 115 | 166

Figure S168. Get High-res Image Gene #34: '19p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'19q' versus 'CN_CNMF'

P value = 1.08e-12 (Fisher's exact test), Q value = 4.2e-10

Table S169. Gene #35: '19q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
19Q MUTATED | 10 | 0 | 1
19Q WILD-TYPE | 24 | 383 | 76

Figure S169. Get High-res Image Gene #35: '19q' versus Molecular Subtype #1: 'CN_CNMF'

'19q' versus 'METHLYATION_CNMF'

P value = 4.68e-06 (Fisher's exact test), Q value = 0.0015

Table S170. Gene #35: '19q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
19Q MUTATED | 11 | 0 | 0
19Q WILD-TYPE | 140 | 83 | 260

Figure S170. Get High-res Image Gene #35: '19q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'19q' versus 'MRNASEQ_CNMF'

P value = 2.99e-05 (Fisher's exact test), Q value = 0.0089

Table S171. Gene #35: '19q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
19Q MUTATED | 11 | 0 | 0 | 0
19Q WILD-TYPE | 141 | 53 | 118 | 163

Figure S171. Get High-res Image Gene #35: '19q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'19q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.05e-06 (Fisher's exact test), Q value = 0.00037

Table S172. Gene #35: '19q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
19Q MUTATED | 11 | 0 | 0
19Q WILD-TYPE | 123 | 288 | 64

Figure S172. Get High-res Image Gene #35: '19q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'19q' versus 'MIRSEQ_CNMF'

P value = 2.82e-06 (Fisher's exact test), Q value = 0.00095

Table S173. Gene #35: '19q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
19Q MUTATED | 11 | 0 | 0
19Q WILD-TYPE | 139 | 173 | 170

Figure S173. Get High-res Image Gene #35: '19q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'19q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.1e-07 (Fisher's exact test), Q value = 0.00011

Table S174. Gene #35: '19q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
19Q MUTATED | 0 | 11 | 0
19Q WILD-TYPE | 155 | 119 | 208

Figure S174. Get High-res Image Gene #35: '19q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'19q' versus 'MIRSEQ_MATURE_CNMF'

P value = 7e-06 (Fisher's exact test), Q value = 0.0023

Table S175. Gene #35: '19q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
19Q MUTATED | 11 | 0 | 0
19Q WILD-TYPE | 152 | 169 | 161

Figure S175. Get High-res Image Gene #35: '19q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'19q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4.37e-07 (Fisher's exact test), Q value = 0.00015

Table S176. Gene #35: '19q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
19Q MUTATED | 0 | 11 | 0
19Q WILD-TYPE | 199 | 117 | 166

Figure S176. Get High-res Image Gene #35: '19q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'20p' versus 'CN_CNMF'

P value = 1.42e-15 (Fisher's exact test), Q value = 5.5e-13

Table S177. Gene #36: '20p' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
20P MUTATED | 12 | 0 | 0
20P WILD-TYPE | 22 | 383 | 77

Figure S177. Get High-res Image Gene #36: '20p' versus Molecular Subtype #1: 'CN_CNMF'

'20p' versus 'METHLYATION_CNMF'

P value = 0.000376 (Fisher's exact test), Q value = 0.089

Table S178. Gene #36: '20p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
20P MUTATED | 10 | 1 | 1
20P WILD-TYPE | 141 | 82 | 259

Figure S178. Get High-res Image Gene #36: '20p' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'20p' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000202 (Fisher's exact test), Q value = 0.051

Table S179. Gene #36: '20p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
20P MUTATED | 10 | 2 | 0
20P WILD-TYPE | 124 | 286 | 64

Figure S179. Get High-res Image Gene #36: '20p' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'20p' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00111 (Fisher's exact test), Q value = 0.23

Table S180. Gene #36: '20p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
20P MUTATED | 1 | 9 | 2
20P WILD-TYPE | 154 | 121 | 206

Figure S180. Get High-res Image Gene #36: '20p' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'20p' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000508 (Fisher's exact test), Q value = 0.12

Table S181. Gene #36: '20p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
20P MUTATED | 10 | 0 | 2
20P WILD-TYPE | 153 | 169 | 159

Figure S181. Get High-res Image Gene #36: '20p' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'20p' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000981 (Fisher's exact test), Q value = 0.21

Table S182. Gene #36: '20p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
20P MUTATED | 2 | 9 | 1
20P WILD-TYPE | 197 | 119 | 165

Figure S182. Get High-res Image Gene #36: '20p' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'20q' versus 'CN_CNMF'

P value = 1.42e-15 (Fisher's exact test), Q value = 5.5e-13

Table S183. Gene #37: '20q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
20Q MUTATED | 12 | 0 | 0
20Q WILD-TYPE | 22 | 383 | 77

Figure S183. Get High-res Image Gene #37: '20q' versus Molecular Subtype #1: 'CN_CNMF'

'20q' versus 'METHLYATION_CNMF'

P value = 0.000376 (Fisher's exact test), Q value = 0.089

Table S184. Gene #37: '20q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
20Q MUTATED | 10 | 1 | 1
20Q WILD-TYPE | 141 | 82 | 259

Figure S184. Get High-res Image Gene #37: '20q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'20q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000202 (Fisher's exact test), Q value = 0.051

Table S185. Gene #37: '20q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
20Q MUTATED | 10 | 2 | 0
20Q WILD-TYPE | 124 | 286 | 64

Figure S185. Get High-res Image Gene #37: '20q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'20q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00111 (Fisher's exact test), Q value = 0.23

Table S186. Gene #37: '20q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
20Q MUTATED | 1 | 9 | 2
20Q WILD-TYPE | 154 | 121 | 206

Figure S186. Get High-res Image Gene #37: '20q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'20q' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.000508 (Fisher's exact test), Q value = 0.12

Table S187. Gene #37: '20q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
20Q MUTATED | 10 | 0 | 2
20Q WILD-TYPE | 153 | 169 | 159

Figure S187. Get High-res Image Gene #37: '20q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'20q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000981 (Fisher's exact test), Q value = 0.21

Table S188. Gene #37: '20q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
20Q MUTATED | 2 | 9 | 1
20Q WILD-TYPE | 197 | 119 | 165

Figure S188. Get High-res Image Gene #37: '20q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'21q' versus 'CN_CNMF'

P value = 3.8e-09 (Fisher's exact test), Q value = 1.4e-06

Table S189. Gene #38: '21q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
21Q MUTATED | 9 | 2 | 2
21Q WILD-TYPE | 25 | 381 | 75

Figure S189. Get High-res Image Gene #38: '21q' versus Molecular Subtype #1: 'CN_CNMF'

'22q' versus 'CN_CNMF'

P value = 1.9e-90 (Fisher's exact test), Q value = 7.6e-88

Table S190. Gene #39: '22q' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
22Q MUTATED | 11 | 0 | 77
22Q WILD-TYPE | 23 | 383 | 0

Figure S190. Get High-res Image Gene #39: '22q' versus Molecular Subtype #1: 'CN_CNMF'

'22q' versus 'METHLYATION_CNMF'

P value = 1.13e-05 (Fisher's exact test), Q value = 0.0036

Table S191. Gene #39: '22q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
22Q MUTATED | 46 | 8 | 34
22Q WILD-TYPE | 105 | 75 | 226

Figure S191. Get High-res Image Gene #39: '22q' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'22q' versus 'MRNASEQ_CNMF'

P value = 6.03e-09 (Fisher's exact test), Q value = 2.2e-06

Table S192. Gene #39: '22q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4
--- | --- | --- | --- | ---
ALL | 152 | 53 | 118 | 163
22Q MUTATED | 44 | 7 | 27 | 7
22Q WILD-TYPE | 108 | 46 | 91 | 156

Figure S192. Get High-res Image Gene #39: '22q' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'22q' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.33e-05 (Fisher's exact test), Q value = 0.0099

Table S193. Gene #39: '22q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 134 | 288 | 64
22Q MUTATED | 41 | 35 | 9
22Q WILD-TYPE | 93 | 253 | 55

Figure S193. Get High-res Image Gene #39: '22q' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'22q' versus 'MIRSEQ_CNMF'

P value = 0.000792 (Fisher's exact test), Q value = 0.17

Table S194. Gene #39: '22q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 150 | 173 | 170
22Q MUTATED | 42 | 24 | 22
22Q WILD-TYPE | 108 | 149 | 148

Figure S194. Get High-res Image Gene #39: '22q' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'22q' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000262 (Fisher's exact test), Q value = 0.065

Table S195. Gene #39: '22q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 155 | 130 | 208
22Q MUTATED | 22 | 39 | 27
22Q WILD-TYPE | 133 | 91 | 181

Figure S195. Get High-res Image Gene #39: '22q' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'22q' versus 'MIRSEQ_MATURE_CNMF'

P value = 2.39e-06 (Fisher's exact test), Q value = 0.00081

Table S196. Gene #39: '22q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 163 | 169 | 161
22Q MUTATED | 50 | 18 | 20
22Q WILD-TYPE | 113 | 151 | 141

Figure S196. Get High-res Image Gene #39: '22q' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'22q' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.000155 (Fisher's exact test), Q value = 0.041

Table S197. Gene #39: '22q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 199 | 128 | 166
22Q MUTATED | 25 | 39 | 24
22Q WILD-TYPE | 174 | 89 | 142

Figure S197. Get High-res Image Gene #39: '22q' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'xq' versus 'CN_CNMF'

P value = 4.08e-09 (Fisher's exact test), Q value = 1.5e-06

Table S198. Gene #40: 'xq' versus Molecular Subtype #1: 'CN_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 34 | 383 | 77
XQ MUTATED | 9 | 3 | 0
XQ WILD-TYPE | 25 | 380 | 77

Figure S198. Get High-res Image Gene #40: 'xq' versus Molecular Subtype #1: 'CN_CNMF'

'xq' versus 'METHLYATION_CNMF'

P value = 0.000947 (Fisher's exact test), Q value = 0.2

Table S199. Gene #40: 'xq' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients | CLUS_1 | CLUS_2 | CLUS_3
--- | --- | --- | ---
ALL | 151 | 83 | 260
XQ MUTATED | 9 | 2 | 1
XQ WILD-TYPE | 142 | 81 | 259

Figure S199. Get High-res Image Gene #40: 'xq' versus Molecular Subtype #2: 'METHLYATION_CNMF'

Methods & Data
Input

- Copy number data file = transformed.cor.cli.txt

- Molecular subtype file = THCA-TP.transferedmergedcluster.txt

- Number of patients = 494

- Number of significantly focal cnvs = 40

- Number of molecular subtypes = 10

- Exclude genes that fewer than K tumors have alterations, K = 3

Fisher's exact test

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

Q value calculation

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.

Download Results

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.

- Analysis Results (MD5 checksum)

- Auxiliary Data (MD5 checksum)

- MAGE-TAB File (MD5 checksum)

References
[1] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)
[2] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)
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