This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 80 arm-level events and 12 molecular subtypes across 527 patients, 222 significant findings detected with P value < 0.05 and Q value < 0.25.
-
1p gain cnv correlated to 'CN_CNMF'.
-
1q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CNMF'.
-
2p gain cnv correlated to 'CN_CNMF'.
-
2q gain cnv correlated to 'CN_CNMF'.
-
3p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
3q gain cnv correlated to 'CN_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
4p gain cnv correlated to 'MRNASEQ_CNMF' and 'MIRSEQ_CNMF'.
-
4q gain cnv correlated to 'MRNASEQ_CNMF' and 'MIRSEQ_CNMF'.
-
5p gain cnv correlated to 'CN_CNMF'.
-
7p gain cnv correlated to 'CN_CNMF', 'RPPA_CNMF', and 'MRNASEQ_CNMF'.
-
7q gain cnv correlated to 'CN_CNMF', 'RPPA_CNMF', and 'MRNASEQ_CNMF'.
-
8p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
8q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
-
10p gain cnv correlated to 'CN_CNMF'.
-
11p gain cnv correlated to 'CN_CNMF'.
-
11q gain cnv correlated to 'CN_CNMF'.
-
12p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
-
12q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
17p gain cnv correlated to 'CN_CNMF'.
-
17q gain cnv correlated to 'CN_CNMF'.
-
19p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CNMF'.
-
19q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
20p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
20q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
21q gain cnv correlated to 'CN_CNMF'.
-
1p loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
-
1q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
-
2p loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
2q loss cnv correlated to 'MRNA_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
3p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
-
3q loss cnv correlated to 'CN_CNMF'.
-
4p loss cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
-
4q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
-
6p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
6q loss cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
-
8p loss cnv correlated to 'CN_CNMF'.
-
9p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
9q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
10p loss cnv correlated to 'CN_CNMF'.
-
10q loss cnv correlated to 'CN_CNMF'.
-
11p loss cnv correlated to 'CN_CNMF'.
-
11q loss cnv correlated to 'CN_CNMF'.
-
13q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
14q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
-
15q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
-
17p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
17q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
-
18p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
18q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
-
19p loss cnv correlated to 'CN_CNMF'.
-
21q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
-
22q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
-
xq loss cnv correlated to 'CN_CNMF'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 80 arm-level events and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 222 significant findings detected.
Clinical Features |
MRNA CNMF |
MRNA CHIERARCHICAL |
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 | Fisher's exact test | Fisher's exact test | |
14q loss | 216 (41%) | 311 |
2e-05 (0.0151) |
8e-05 (0.0562) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.0019 (1.00) |
12q gain | 122 (23%) | 405 |
0.0134 (1.00) |
0.0329 (1.00) |
1e-05 (0.00889) |
5e-05 (0.0359) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
4e-05 (0.0289) |
1e-05 (0.00889) |
0.00027 (0.183) |
20p gain | 112 (21%) | 415 |
0.117 (1.00) |
0.114 (1.00) |
1e-05 (0.00889) |
2e-05 (0.0151) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
2e-05 (0.0151) |
2e-05 (0.0151) |
0.00015 (0.103) |
20q gain | 115 (22%) | 412 |
0.0416 (1.00) |
0.0742 (1.00) |
1e-05 (0.00889) |
2e-05 (0.0151) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
2e-05 (0.0151) |
6p loss | 100 (19%) | 427 |
0.0109 (1.00) |
0.0145 (1.00) |
1e-05 (0.00889) |
6e-05 (0.0428) |
3e-05 (0.022) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00034 (0.228) |
9p loss | 149 (28%) | 378 |
0.00375 (1.00) |
0.0367 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00016 (0.11) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
8e-05 (0.0562) |
18p loss | 93 (18%) | 434 |
0.0568 (1.00) |
0.457 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
5e-05 (0.0359) |
1e-05 (0.00889) |
18q loss | 95 (18%) | 432 |
0.0453 (1.00) |
0.217 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
3e-05 (0.022) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
2e-05 (0.0151) |
1e-05 (0.00889) |
12p gain | 121 (23%) | 406 |
0.0134 (1.00) |
0.0309 (1.00) |
1e-05 (0.00889) |
3e-05 (0.022) |
1e-05 (0.00889) |
6e-05 (0.0428) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00015 (0.103) |
1e-05 (0.00889) |
0.00038 (0.253) |
9q loss | 150 (28%) | 377 |
0.0103 (1.00) |
0.0581 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
2e-05 (0.0151) |
0.00053 (0.349) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
8e-05 (0.0562) |
13q loss | 71 (13%) | 456 |
0.00336 (1.00) |
0.0466 (1.00) |
1e-05 (0.00889) |
0.0003 (0.202) |
2e-05 (0.0151) |
0.00029 (0.196) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.0733 (1.00) |
0.0003 (0.202) |
8q gain | 62 (12%) | 465 |
0.228 (1.00) |
0.104 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00012 (0.0832) |
0.00998 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
8e-05 (0.0562) |
1e-05 (0.00889) |
0.00039 (0.26) |
2p loss | 14 (3%) | 513 |
6e-05 (0.0428) |
0.00061 (0.397) |
0.00021 (0.143) |
0.662 (1.00) |
6e-05 (0.0428) |
4e-05 (0.0289) |
1e-05 (0.00889) |
1e-05 (0.00889) |
3e-05 (0.022) |
1e-05 (0.00889) |
0.642 (1.00) |
0.0136 (1.00) |
2q loss | 14 (3%) | 513 |
0.00021 (0.143) |
0.00067 (0.431) |
0.0015 (0.936) |
1 (1.00) |
0.00012 (0.0832) |
5e-05 (0.0359) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.644 (1.00) |
0.0138 (1.00) |
17p loss | 46 (9%) | 481 |
0.00014 (0.0966) |
0.00023 (0.156) |
1e-05 (0.00889) |
0.0874 (1.00) |
0.00901 (1.00) |
0.00796 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
1e-05 (0.00889) |
2e-05 (0.0151) |
0.244 (1.00) |
0.0219 (1.00) |
3q gain | 61 (12%) | 466 |
0.0124 (1.00) |
0.0304 (1.00) |
1e-05 (0.00889) |
0.0037 (1.00) |
0.0015 (0.936) |
1e-05 (0.00889) |
3e-05 (0.022) |
2e-05 (0.0151) |
1e-05 (0.00889) |
3e-05 (0.022) |
0.00062 (0.403) |
0.0209 (1.00) |
6q loss | 128 (24%) | 399 |
0.0498 (1.00) |
0.0511 (1.00) |
1e-05 (0.00889) |
0.0059 (1.00) |
2e-05 (0.0151) |
0.00128 (0.803) |
7e-05 (0.0495) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00096 (0.606) |
0.0002 (0.136) |
0.00695 (1.00) |
8p gain | 31 (6%) | 496 |
1e-05 (0.00889) |
0.0003 (0.202) |
0.0121 (1.00) |
0.138 (1.00) |
2e-05 (0.0151) |
3e-05 (0.022) |
1e-05 (0.00889) |
0.0339 (1.00) |
0.00057 (0.373) |
0.00938 (1.00) |
||
17q loss | 28 (5%) | 499 |
0.00072 (0.462) |
0.00043 (0.285) |
0.00034 (0.228) |
0.537 (1.00) |
0.22 (1.00) |
0.0269 (1.00) |
0.00029 (0.196) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.0002 (0.136) |
0.497 (1.00) |
0.124 (1.00) |
19q gain | 57 (11%) | 470 |
0.102 (1.00) |
0.224 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00062 (0.403) |
0.0104 (1.00) |
0.00242 (1.00) |
1e-05 (0.00889) |
2e-05 (0.0151) |
0.288 (1.00) |
0.0461 (1.00) |
0.38 (1.00) |
22q loss | 39 (7%) | 488 |
0.0102 (1.00) |
0.00142 (0.889) |
1e-05 (0.00889) |
0.00348 (1.00) |
0.00426 (1.00) |
0.0881 (1.00) |
1e-05 (0.00889) |
4e-05 (0.0289) |
2e-05 (0.0151) |
0.0223 (1.00) |
0.00882 (1.00) |
0.227 (1.00) |
1q gain | 51 (10%) | 476 |
0.408 (1.00) |
0.9 (1.00) |
1e-05 (0.00889) |
0.014 (1.00) |
0.12 (1.00) |
0.0885 (1.00) |
2e-05 (0.0151) |
0.00876 (1.00) |
2e-05 (0.0151) |
0.146 (1.00) |
0.00222 (1.00) |
0.304 (1.00) |
3p gain | 19 (4%) | 508 |
0.0521 (1.00) |
0.433 (1.00) |
8e-05 (0.0562) |
0.542 (1.00) |
0.0171 (1.00) |
0.00342 (1.00) |
0.0085 (1.00) |
3e-05 (0.022) |
7e-05 (0.0495) |
0.00596 (1.00) |
0.0361 (1.00) |
0.00987 (1.00) |
7p gain | 171 (32%) | 356 |
0.45 (1.00) |
0.859 (1.00) |
1e-05 (0.00889) |
0.00167 (1.00) |
3e-05 (0.022) |
0.0187 (1.00) |
0.00013 (0.0898) |
0.00889 (1.00) |
0.00324 (1.00) |
0.259 (1.00) |
0.0234 (1.00) |
0.554 (1.00) |
7q gain | 172 (33%) | 355 |
0.452 (1.00) |
0.86 (1.00) |
1e-05 (0.00889) |
0.00479 (1.00) |
3e-05 (0.022) |
0.00718 (1.00) |
0.00011 (0.0763) |
0.00418 (1.00) |
0.00228 (1.00) |
0.101 (1.00) |
0.0672 (1.00) |
0.213 (1.00) |
19p gain | 51 (10%) | 476 |
0.227 (1.00) |
0.482 (1.00) |
1e-05 (0.00889) |
7e-05 (0.0495) |
0.00851 (1.00) |
0.0642 (1.00) |
0.00457 (1.00) |
0.00042 (0.279) |
0.0001 (0.0696) |
0.523 (1.00) |
0.116 (1.00) |
0.675 (1.00) |
3p loss | 380 (72%) | 147 |
0.00319 (1.00) |
0.0101 (1.00) |
1e-05 (0.00889) |
0.00074 (0.474) |
0.0238 (1.00) |
0.017 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.0857 (1.00) |
0.00681 (1.00) |
0.165 (1.00) |
0.0105 (1.00) |
4q loss | 65 (12%) | 462 |
0.385 (1.00) |
0.783 (1.00) |
1e-05 (0.00889) |
3e-05 (0.022) |
0.0908 (1.00) |
0.215 (1.00) |
0.00062 (0.403) |
1e-05 (0.00889) |
0.438 (1.00) |
0.024 (1.00) |
0.0484 (1.00) |
0.112 (1.00) |
15q loss | 36 (7%) | 491 |
0.118 (1.00) |
0.332 (1.00) |
1e-05 (0.00889) |
0.00076 (0.485) |
0.0267 (1.00) |
0.23 (1.00) |
1e-05 (0.00889) |
1e-05 (0.00889) |
0.00065 (0.421) |
0.00799 (1.00) |
0.0023 (1.00) |
0.105 (1.00) |
4p gain | 13 (2%) | 514 |
0.354 (1.00) |
0.375 (1.00) |
0.311 (1.00) |
0.0179 (1.00) |
0.00034 (0.228) |
0.00101 (0.636) |
0.0001 (0.0696) |
0.116 (1.00) |
0.367 (1.00) |
0.42 (1.00) |
||
4q gain | 13 (2%) | 514 |
0.354 (1.00) |
0.458 (1.00) |
0.312 (1.00) |
0.147 (1.00) |
0.00034 (0.228) |
0.00952 (1.00) |
0.00018 (0.123) |
0.24 (1.00) |
0.363 (1.00) |
0.423 (1.00) |
||
1p loss | 57 (11%) | 470 |
0.00084 (0.533) |
0.00283 (1.00) |
1e-05 (0.00889) |
0.698 (1.00) |
0.00045 (0.298) |
0.117 (1.00) |
0.132 (1.00) |
0.00016 (0.11) |
0.00725 (1.00) |
0.00052 (0.343) |
0.195 (1.00) |
0.0707 (1.00) |
1q loss | 36 (7%) | 491 |
0.0109 (1.00) |
0.0109 (1.00) |
4e-05 (0.0289) |
0.369 (1.00) |
0.0112 (1.00) |
0.0501 (1.00) |
0.0041 (1.00) |
1e-05 (0.00889) |
0.0104 (1.00) |
0.00074 (0.474) |
0.345 (1.00) |
0.106 (1.00) |
4p loss | 72 (14%) | 455 |
0.531 (1.00) |
0.815 (1.00) |
1e-05 (0.00889) |
0.00019 (0.13) |
0.123 (1.00) |
0.675 (1.00) |
0.0015 (0.936) |
0.00087 (0.551) |
0.84 (1.00) |
0.0608 (1.00) |
0.117 (1.00) |
0.13 (1.00) |
21q loss | 55 (10%) | 472 |
0.0259 (1.00) |
0.0899 (1.00) |
6e-05 (0.0428) |
0.0128 (1.00) |
0.0303 (1.00) |
0.00809 (1.00) |
0.00533 (1.00) |
7e-05 (0.0495) |
0.00351 (1.00) |
0.00381 (1.00) |
0.229 (1.00) |
0.0344 (1.00) |
1p gain | 24 (5%) | 503 |
0.823 (1.00) |
0.925 (1.00) |
1e-05 (0.00889) |
0.0006 (0.391) |
0.00048 (0.317) |
0.0059 (1.00) |
0.00571 (1.00) |
0.00083 (0.527) |
0.00106 (0.667) |
0.019 (1.00) |
0.00382 (1.00) |
0.107 (1.00) |
2p gain | 77 (15%) | 450 |
0.703 (1.00) |
0.46 (1.00) |
1e-05 (0.00889) |
0.0845 (1.00) |
0.00933 (1.00) |
0.329 (1.00) |
0.177 (1.00) |
0.0318 (1.00) |
0.402 (1.00) |
0.0205 (1.00) |
0.131 (1.00) |
0.369 (1.00) |
2q gain | 79 (15%) | 448 |
0.56 (1.00) |
0.267 (1.00) |
1e-05 (0.00889) |
0.176 (1.00) |
0.00946 (1.00) |
0.151 (1.00) |
0.152 (1.00) |
0.0421 (1.00) |
0.541 (1.00) |
0.00586 (1.00) |
0.234 (1.00) |
0.258 (1.00) |
5p gain | 193 (37%) | 334 |
0.879 (1.00) |
0.925 (1.00) |
8e-05 (0.0562) |
0.27 (1.00) |
0.0905 (1.00) |
0.838 (1.00) |
0.0131 (1.00) |
0.0708 (1.00) |
0.0875 (1.00) |
0.731 (1.00) |
0.107 (1.00) |
0.792 (1.00) |
10p gain | 17 (3%) | 510 |
5e-05 (0.0359) |
0.254 (1.00) |
0.36 (1.00) |
0.055 (1.00) |
0.00078 (0.497) |
0.00057 (0.373) |
0.0595 (1.00) |
0.0263 (1.00) |
0.531 (1.00) |
0.0226 (1.00) |
||
11p gain | 31 (6%) | 496 |
0.232 (1.00) |
0.672 (1.00) |
7e-05 (0.0495) |
0.286 (1.00) |
0.112 (1.00) |
0.355 (1.00) |
0.29 (1.00) |
0.13 (1.00) |
0.21 (1.00) |
0.349 (1.00) |
0.568 (1.00) |
0.0419 (1.00) |
11q gain | 29 (6%) | 498 |
0.341 (1.00) |
0.907 (1.00) |
0.00018 (0.123) |
0.526 (1.00) |
0.364 (1.00) |
0.888 (1.00) |
0.566 (1.00) |
0.356 (1.00) |
0.539 (1.00) |
0.556 (1.00) |
0.582 (1.00) |
0.286 (1.00) |
17p gain | 26 (5%) | 501 |
0.0192 (1.00) |
0.00524 (1.00) |
1e-05 (0.00889) |
0.776 (1.00) |
0.295 (1.00) |
0.0811 (1.00) |
0.229 (1.00) |
0.0501 (1.00) |
0.184 (1.00) |
0.424 (1.00) |
0.432 (1.00) |
0.0356 (1.00) |
17q gain | 33 (6%) | 494 |
0.0678 (1.00) |
0.0261 (1.00) |
6e-05 (0.0428) |
0.224 (1.00) |
0.476 (1.00) |
0.0744 (1.00) |
0.139 (1.00) |
0.0224 (1.00) |
0.108 (1.00) |
0.237 (1.00) |
0.174 (1.00) |
0.0113 (1.00) |
21q gain | 50 (9%) | 477 |
0.268 (1.00) |
0.208 (1.00) |
1e-05 (0.00889) |
0.00143 (0.894) |
0.00078 (0.497) |
0.31 (1.00) |
0.0007 (0.45) |
0.0081 (1.00) |
0.00986 (1.00) |
0.34 (1.00) |
0.0646 (1.00) |
0.0807 (1.00) |
3q loss | 99 (19%) | 428 |
0.923 (1.00) |
0.515 (1.00) |
1e-05 (0.00889) |
0.44 (1.00) |
0.153 (1.00) |
0.28 (1.00) |
0.202 (1.00) |
0.025 (1.00) |
0.496 (1.00) |
0.751 (1.00) |
0.316 (1.00) |
0.974 (1.00) |
8p loss | 137 (26%) | 390 |
0.377 (1.00) |
0.167 (1.00) |
2e-05 (0.0151) |
0.277 (1.00) |
0.197 (1.00) |
0.25 (1.00) |
0.069 (1.00) |
0.00071 (0.456) |
0.0351 (1.00) |
0.0711 (1.00) |
0.206 (1.00) |
0.0308 (1.00) |
10p loss | 67 (13%) | 460 |
0.173 (1.00) |
0.405 (1.00) |
1e-05 (0.00889) |
0.0812 (1.00) |
0.774 (1.00) |
0.0325 (1.00) |
0.175 (1.00) |
0.00055 (0.361) |
0.0273 (1.00) |
0.0099 (1.00) |
0.193 (1.00) |
0.178 (1.00) |
10q loss | 89 (17%) | 438 |
0.329 (1.00) |
0.396 (1.00) |
1e-05 (0.00889) |
0.00478 (1.00) |
0.991 (1.00) |
0.0113 (1.00) |
0.111 (1.00) |
0.00087 (0.551) |
0.0513 (1.00) |
0.00738 (1.00) |
0.295 (1.00) |
0.0495 (1.00) |
11p loss | 18 (3%) | 509 |
3e-05 (0.022) |
0.0247 (1.00) |
0.257 (1.00) |
0.0214 (1.00) |
0.155 (1.00) |
0.0271 (1.00) |
0.137 (1.00) |
0.0108 (1.00) |
0.126 (1.00) |
0.00964 (1.00) |
||
11q loss | 23 (4%) | 504 |
0.189 (1.00) |
0.375 (1.00) |
1e-05 (0.00889) |
0.00528 (1.00) |
0.162 (1.00) |
0.0208 (1.00) |
0.0139 (1.00) |
0.00054 (0.355) |
0.0166 (1.00) |
0.00122 (0.766) |
0.0518 (1.00) |
0.00576 (1.00) |
19p loss | 11 (2%) | 516 |
5e-05 (0.0359) |
0.0312 (1.00) |
0.00317 (1.00) |
0.00209 (1.00) |
0.156 (1.00) |
0.00978 (1.00) |
0.218 (1.00) |
0.0566 (1.00) |
0.128 (1.00) |
0.0468 (1.00) |
||
xq loss | 47 (9%) | 480 |
0.024 (1.00) |
0.0643 (1.00) |
2e-05 (0.0151) |
0.0168 (1.00) |
0.176 (1.00) |
0.00882 (1.00) |
0.0546 (1.00) |
0.00336 (1.00) |
0.01 (1.00) |
0.00396 (1.00) |
0.186 (1.00) |
0.029 (1.00) |
5q gain | 207 (39%) | 320 |
0.336 (1.00) |
0.625 (1.00) |
0.00863 (1.00) |
0.462 (1.00) |
0.396 (1.00) |
0.495 (1.00) |
0.0717 (1.00) |
0.21 (1.00) |
0.54 (1.00) |
0.854 (1.00) |
0.223 (1.00) |
0.394 (1.00) |
6p gain | 11 (2%) | 516 |
0.0742 (1.00) |
0.445 (1.00) |
0.0437 (1.00) |
0.244 (1.00) |
0.793 (1.00) |
0.798 (1.00) |
0.86 (1.00) |
0.0638 (1.00) |
0.739 (1.00) |
0.28 (1.00) |
||
6q gain | 9 (2%) | 518 |
0.158 (1.00) |
0.683 (1.00) |
0.0095 (1.00) |
0.348 (1.00) |
1 (1.00) |
0.851 (1.00) |
1 (1.00) |
0.156 (1.00) |
0.554 (1.00) |
0.534 (1.00) |
||
9p gain | 13 (2%) | 514 |
0.308 (1.00) |
0.903 (1.00) |
0.826 (1.00) |
0.71 (1.00) |
0.252 (1.00) |
0.0224 (1.00) |
0.939 (1.00) |
0.35 (1.00) |
0.378 (1.00) |
1 (1.00) |
||
9q gain | 12 (2%) | 515 |
0.0931 (1.00) |
0.911 (1.00) |
0.626 (1.00) |
0.455 (1.00) |
0.242 (1.00) |
0.036 (1.00) |
0.816 (1.00) |
0.253 (1.00) |
0.898 (1.00) |
0.615 (1.00) |
||
10q gain | 12 (2%) | 515 |
0.00065 (0.421) |
0.114 (1.00) |
0.0484 (1.00) |
0.131 (1.00) |
0.0119 (1.00) |
0.00706 (1.00) |
0.0656 (1.00) |
0.269 (1.00) |
0.58 (1.00) |
0.0408 (1.00) |
||
13q gain | 22 (4%) | 505 |
0.391 (1.00) |
0.0389 (1.00) |
0.725 (1.00) |
0.686 (1.00) |
0.0733 (1.00) |
0.296 (1.00) |
0.349 (1.00) |
0.452 (1.00) |
0.648 (1.00) |
0.506 (1.00) |
||
14q gain | 16 (3%) | 511 |
0.769 (1.00) |
0.573 (1.00) |
0.0444 (1.00) |
0.348 (1.00) |
0.0283 (1.00) |
0.0456 (1.00) |
0.0202 (1.00) |
0.00059 (0.385) |
0.00229 (1.00) |
0.00679 (1.00) |
0.767 (1.00) |
0.258 (1.00) |
15q gain | 26 (5%) | 501 |
1 (1.00) |
0.117 (1.00) |
0.00499 (1.00) |
0.724 (1.00) |
0.489 (1.00) |
0.611 (1.00) |
0.645 (1.00) |
0.155 (1.00) |
0.871 (1.00) |
0.188 (1.00) |
0.918 (1.00) |
1 (1.00) |
16p gain | 107 (20%) | 420 |
0.274 (1.00) |
0.379 (1.00) |
0.00066 (0.426) |
0.168 (1.00) |
0.00194 (1.00) |
0.18 (1.00) |
0.0143 (1.00) |
0.00469 (1.00) |
0.0467 (1.00) |
0.0386 (1.00) |
0.184 (1.00) |
0.0831 (1.00) |
16q gain | 99 (19%) | 428 |
0.234 (1.00) |
0.349 (1.00) |
0.00053 (0.349) |
0.0823 (1.00) |
0.00233 (1.00) |
0.0419 (1.00) |
0.0124 (1.00) |
0.0205 (1.00) |
0.0122 (1.00) |
0.147 (1.00) |
0.0689 (1.00) |
0.189 (1.00) |
18p gain | 25 (5%) | 502 |
0.314 (1.00) |
0.0755 (1.00) |
0.684 (1.00) |
0.477 (1.00) |
0.849 (1.00) |
0.0228 (1.00) |
0.0806 (1.00) |
0.588 (1.00) |
0.832 (1.00) |
0.628 (1.00) |
0.601 (1.00) |
0.0655 (1.00) |
18q gain | 25 (5%) | 502 |
0.313 (1.00) |
0.0749 (1.00) |
0.554 (1.00) |
0.558 (1.00) |
0.703 (1.00) |
0.0877 (1.00) |
0.0796 (1.00) |
0.587 (1.00) |
0.931 (1.00) |
0.629 (1.00) |
0.603 (1.00) |
0.0654 (1.00) |
22q gain | 40 (8%) | 487 |
0.326 (1.00) |
0.218 (1.00) |
0.00042 (0.279) |
0.208 (1.00) |
0.363 (1.00) |
0.949 (1.00) |
0.107 (1.00) |
0.0574 (1.00) |
0.0391 (1.00) |
0.817 (1.00) |
0.449 (1.00) |
0.25 (1.00) |
xq gain | 31 (6%) | 496 |
0.39 (1.00) |
0.703 (1.00) |
0.0337 (1.00) |
0.292 (1.00) |
0.0232 (1.00) |
0.0186 (1.00) |
0.184 (1.00) |
0.141 (1.00) |
0.34 (1.00) |
0.623 (1.00) |
0.129 (1.00) |
0.0678 (1.00) |
5p loss | 7 (1%) | 520 |
0.386 (1.00) |
0.29 (1.00) |
0.637 (1.00) |
0.0632 (1.00) |
0.0267 (1.00) |
0.0114 (1.00) |
0.0316 (1.00) |
0.0149 (1.00) |
||||
5q loss | 6 (1%) | 521 |
0.448 (1.00) |
0.544 (1.00) |
0.498 (1.00) |
0.151 (1.00) |
0.045 (1.00) |
0.0156 (1.00) |
0.0688 (1.00) |
0.0268 (1.00) |
||||
7p loss | 3 (1%) | 524 |
0.28 (1.00) |
0.0589 (1.00) |
0.165 (1.00) |
0.0549 (1.00) |
0.0817 (1.00) |
0.0629 (1.00) |
0.318 (1.00) |
|||||
7q loss | 4 (1%) | 523 |
0.104 (1.00) |
0.342 (1.00) |
0.0753 (1.00) |
0.232 (1.00) |
0.0482 (1.00) |
0.0859 (1.00) |
0.298 (1.00) |
0.337 (1.00) |
0.0621 (1.00) |
0.313 (1.00) |
||
8q loss | 64 (12%) | 463 |
0.645 (1.00) |
0.127 (1.00) |
0.447 (1.00) |
0.0501 (1.00) |
0.288 (1.00) |
0.883 (1.00) |
0.502 (1.00) |
0.252 (1.00) |
0.414 (1.00) |
0.704 (1.00) |
0.131 (1.00) |
0.158 (1.00) |
12p loss | 4 (1%) | 523 |
0.476 (1.00) |
0.435 (1.00) |
0.79 (1.00) |
0.468 (1.00) |
0.312 (1.00) |
|||||||
12q loss | 4 (1%) | 523 |
1 (1.00) |
0.366 (1.00) |
0.319 (1.00) |
1 (1.00) |
1 (1.00) |
0.231 (1.00) |
0.686 (1.00) |
|||||
16p loss | 10 (2%) | 517 |
0.0772 (1.00) |
0.876 (1.00) |
0.0271 (1.00) |
0.0963 (1.00) |
0.295 (1.00) |
0.0558 (1.00) |
0.072 (1.00) |
0.0167 (1.00) |
0.579 (1.00) |
0.867 (1.00) |
||
16q loss | 16 (3%) | 511 |
0.0155 (1.00) |
0.909 (1.00) |
0.0307 (1.00) |
0.381 (1.00) |
0.218 (1.00) |
0.0299 (1.00) |
0.0429 (1.00) |
0.01 (1.00) |
0.263 (1.00) |
0.703 (1.00) |
||
19q loss | 4 (1%) | 523 |
0.0155 (1.00) |
0.966 (1.00) |
0.078 (1.00) |
0.351 (1.00) |
0.511 (1.00) |
0.827 (1.00) |
0.547 (1.00) |
|||||
20p loss | 8 (2%) | 519 |
0.228 (1.00) |
1 (1.00) |
0.0284 (1.00) |
0.788 (1.00) |
0.0913 (1.00) |
0.217 (1.00) |
0.0121 (1.00) |
0.0884 (1.00) |
||||
20q loss | 3 (1%) | 524 |
0.277 (1.00) |
0.0578 (1.00) |
0.138 (1.00) |
0.0551 (1.00) |
0.081 (1.00) |
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S1. Gene #1: '1p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
1P GAIN MUTATED | 2 | 1 | 21 |
1P GAIN WILD-TYPE | 210 | 151 | 142 |
Figure S1. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D1V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S2. Gene #2: '1q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
1Q GAIN MUTATED | 4 | 2 | 45 |
1Q GAIN WILD-TYPE | 208 | 150 | 118 |
Figure S2. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D2V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S3. Gene #2: '1q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
1Q GAIN MUTATED | 15 | 2 | 32 |
1Q GAIN WILD-TYPE | 200 | 106 | 155 |
Figure S3. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D2V7.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S4. Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
1Q GAIN MUTATED | 3 | 15 | 31 |
1Q GAIN WILD-TYPE | 119 | 191 | 141 |
Figure S4. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D2V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S5. Gene #3: '2p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
2P GAIN MUTATED | 14 | 15 | 48 |
2P GAIN WILD-TYPE | 198 | 137 | 115 |
Figure S5. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D3V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S6. Gene #4: '2q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
2Q GAIN MUTATED | 16 | 16 | 47 |
2Q GAIN WILD-TYPE | 196 | 136 | 116 |
Figure S6. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D4V3.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S7. Gene #5: '3p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
3P GAIN MUTATED | 0 | 11 | 8 |
3P GAIN WILD-TYPE | 212 | 141 | 155 |
Figure S7. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D5V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S8. Gene #5: '3p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
3P GAIN MUTATED | 0 | 2 | 9 | 1 | 2 | 5 |
3P GAIN WILD-TYPE | 120 | 174 | 117 | 27 | 30 | 23 |
Figure S8. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D5V8.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.049
Table S9. Gene #5: '3p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
3P GAIN MUTATED | 3 | 1 | 15 |
3P GAIN WILD-TYPE | 119 | 205 | 157 |
Figure S9. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D5V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S10. Gene #6: '3q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
3Q GAIN MUTATED | 4 | 18 | 39 |
3Q GAIN WILD-TYPE | 208 | 134 | 124 |
Figure S10. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D6V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S11. Gene #6: '3q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
3Q GAIN MUTATED | 7 | 10 | 38 |
3Q GAIN WILD-TYPE | 88 | 188 | 116 |
Figure S11. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D6V6.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S12. Gene #6: '3q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
3Q GAIN MUTATED | 11 | 12 | 38 |
3Q GAIN WILD-TYPE | 204 | 96 | 149 |
Figure S12. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D6V7.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S13. Gene #6: '3q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
3Q GAIN MUTATED | 6 | 10 | 30 | 3 | 7 | 5 |
3Q GAIN WILD-TYPE | 114 | 166 | 96 | 25 | 25 | 23 |
Figure S13. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D6V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S14. Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
3Q GAIN MUTATED | 8 | 10 | 42 |
3Q GAIN WILD-TYPE | 114 | 196 | 130 |
Figure S14. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D6V9.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S15. Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
3Q GAIN MUTATED | 29 | 13 | 18 |
3Q GAIN WILD-TYPE | 130 | 225 | 85 |
Figure S15. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D6V10.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.23
Table S16. Gene #7: '4p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
4P GAIN MUTATED | 0 | 7 | 5 |
4P GAIN WILD-TYPE | 215 | 101 | 182 |
Figure S16. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D7V7.png)
P value = 1e-04 (Fisher's exact test), Q value = 0.07
Table S17. Gene #7: '4p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
4P GAIN MUTATED | 2 | 0 | 11 |
4P GAIN WILD-TYPE | 120 | 206 | 161 |
Figure S17. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D7V9.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.23
Table S18. Gene #8: '4q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
4Q GAIN MUTATED | 0 | 7 | 5 |
4Q GAIN WILD-TYPE | 215 | 101 | 182 |
Figure S18. Get High-res Image Gene #8: '4q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D8V7.png)
P value = 0.00018 (Fisher's exact test), Q value = 0.12
Table S19. Gene #8: '4q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
4Q GAIN MUTATED | 2 | 0 | 11 |
4Q GAIN WILD-TYPE | 120 | 206 | 161 |
Figure S19. Get High-res Image Gene #8: '4q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D8V9.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S20. Gene #9: '5p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
5P GAIN MUTATED | 67 | 44 | 82 |
5P GAIN WILD-TYPE | 145 | 108 | 81 |
Figure S20. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D9V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S21. Gene #13: '7p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
7P GAIN MUTATED | 28 | 56 | 87 |
7P GAIN WILD-TYPE | 184 | 96 | 76 |
Figure S21. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D13V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S22. Gene #13: '7p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
7P GAIN MUTATED | 21 | 19 | 34 | 34 | 11 | 30 |
7P GAIN WILD-TYPE | 79 | 69 | 50 | 41 | 32 | 27 |
Figure S22. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D13V5.png)
P value = 0.00013 (Fisher's exact test), Q value = 0.09
Table S23. Gene #13: '7p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
7P GAIN MUTATED | 52 | 32 | 82 |
7P GAIN WILD-TYPE | 163 | 76 | 105 |
Figure S23. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D13V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S24. Gene #14: '7q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
7Q GAIN MUTATED | 29 | 57 | 86 |
7Q GAIN WILD-TYPE | 183 | 95 | 77 |
Figure S24. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D14V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S25. Gene #14: '7q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
7Q GAIN MUTATED | 21 | 21 | 34 | 34 | 10 | 30 |
7Q GAIN WILD-TYPE | 79 | 67 | 50 | 41 | 33 | 27 |
Figure S25. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D14V5.png)
P value = 0.00011 (Fisher's exact test), Q value = 0.076
Table S26. Gene #14: '7q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
7Q GAIN MUTATED | 52 | 33 | 82 |
7Q GAIN WILD-TYPE | 163 | 75 | 105 |
Figure S26. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D14V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S27. Gene #15: '8p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
8P GAIN MUTATED | 1 | 5 | 25 |
8P GAIN WILD-TYPE | 211 | 147 | 138 |
Figure S27. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D15V3.png)
P value = 3e-04 (Fisher's exact test), Q value = 0.2
Table S28. Gene #15: '8p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
8P GAIN MUTATED | 2 | 4 | 16 |
8P GAIN WILD-TYPE | 126 | 71 | 94 |
Figure S28. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D15V4.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S29. Gene #15: '8p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
8P GAIN MUTATED | 3 | 5 | 23 |
8P GAIN WILD-TYPE | 212 | 103 | 164 |
Figure S29. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D15V7.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S30. Gene #15: '8p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
8P GAIN MUTATED | 6 | 1 | 19 | 2 | 2 | 1 |
8P GAIN WILD-TYPE | 114 | 175 | 107 | 26 | 30 | 27 |
Figure S30. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D15V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S31. Gene #15: '8p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
8P GAIN MUTATED | 3 | 4 | 24 |
8P GAIN WILD-TYPE | 119 | 202 | 148 |
Figure S31. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D15V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S32. Gene #16: '8q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
8Q GAIN MUTATED | 2 | 10 | 50 |
8Q GAIN WILD-TYPE | 210 | 142 | 113 |
Figure S32. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D16V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S33. Gene #16: '8q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
8Q GAIN MUTATED | 3 | 11 | 26 |
8Q GAIN WILD-TYPE | 125 | 64 | 84 |
Figure S33. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D16V4.png)
P value = 0.00012 (Fisher's exact test), Q value = 0.083
Table S34. Gene #16: '8q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
8Q GAIN MUTATED | 4 | 10 | 15 | 9 | 1 | 16 |
8Q GAIN WILD-TYPE | 96 | 78 | 69 | 66 | 42 | 41 |
Figure S34. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D16V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S35. Gene #16: '8q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
8Q GAIN MUTATED | 6 | 7 | 48 |
8Q GAIN WILD-TYPE | 209 | 101 | 139 |
Figure S35. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D16V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S36. Gene #16: '8q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
8Q GAIN MUTATED | 8 | 5 | 42 | 2 | 3 | 1 |
8Q GAIN WILD-TYPE | 112 | 171 | 84 | 26 | 29 | 27 |
Figure S36. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D16V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S37. Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
8Q GAIN MUTATED | 8 | 9 | 43 |
8Q GAIN WILD-TYPE | 114 | 197 | 129 |
Figure S37. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D16V9.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S38. Gene #16: '8q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
8Q GAIN MUTATED | 29 | 13 | 18 |
8Q GAIN WILD-TYPE | 130 | 225 | 85 |
Figure S38. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D16V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S39. Gene #16: '8q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
8Q GAIN MUTATED | 2 | 1 | 22 |
8Q GAIN WILD-TYPE | 55 | 93 | 67 |
Figure S39. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D16V11.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.036
Table S40. Gene #19: '10p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
10P GAIN MUTATED | 0 | 5 | 12 |
10P GAIN WILD-TYPE | 212 | 147 | 151 |
Figure S40. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D19V3.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.049
Table S41. Gene #21: '11p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
11P GAIN MUTATED | 2 | 11 | 18 |
11P GAIN WILD-TYPE | 210 | 141 | 145 |
Figure S41. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D21V3.png)
P value = 0.00018 (Fisher's exact test), Q value = 0.12
Table S42. Gene #22: '11q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
11Q GAIN MUTATED | 2 | 12 | 15 |
11Q GAIN WILD-TYPE | 210 | 140 | 148 |
Figure S42. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D22V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S43. Gene #23: '12p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
12P GAIN MUTATED | 20 | 31 | 70 |
12P GAIN WILD-TYPE | 192 | 121 | 93 |
Figure S43. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D23V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S44. Gene #23: '12p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
12P GAIN MUTATED | 16 | 18 | 42 |
12P GAIN WILD-TYPE | 112 | 57 | 68 |
Figure S44. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D23V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S45. Gene #23: '12p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
12P GAIN MUTATED | 4 | 17 | 31 | 15 | 6 | 31 |
12P GAIN WILD-TYPE | 96 | 71 | 53 | 60 | 37 | 26 |
Figure S45. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D23V5.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S46. Gene #23: '12p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
12P GAIN MUTATED | 21 | 29 | 54 |
12P GAIN WILD-TYPE | 74 | 169 | 100 |
Figure S46. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D23V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S47. Gene #23: '12p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
12P GAIN MUTATED | 25 | 18 | 77 |
12P GAIN WILD-TYPE | 190 | 90 | 110 |
Figure S47. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D23V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S48. Gene #23: '12p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
12P GAIN MUTATED | 24 | 17 | 59 | 4 | 10 | 6 |
12P GAIN WILD-TYPE | 96 | 159 | 67 | 24 | 22 | 22 |
Figure S48. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D23V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S49. Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
12P GAIN MUTATED | 21 | 26 | 72 |
12P GAIN WILD-TYPE | 101 | 180 | 100 |
Figure S49. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D23V9.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.1
Table S50. Gene #23: '12p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
12P GAIN MUTATED | 47 | 37 | 35 |
12P GAIN WILD-TYPE | 112 | 201 | 68 |
Figure S50. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D23V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S51. Gene #23: '12p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
12P GAIN MUTATED | 8 | 9 | 36 |
12P GAIN WILD-TYPE | 49 | 85 | 53 |
Figure S51. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D23V11.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S52. Gene #24: '12q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
12Q GAIN MUTATED | 20 | 31 | 71 |
12Q GAIN WILD-TYPE | 192 | 121 | 92 |
Figure S52. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D24V3.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.036
Table S53. Gene #24: '12q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
12Q GAIN MUTATED | 16 | 18 | 42 |
12Q GAIN WILD-TYPE | 112 | 57 | 68 |
Figure S53. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D24V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S54. Gene #24: '12q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
12Q GAIN MUTATED | 4 | 16 | 31 | 15 | 6 | 33 |
12Q GAIN WILD-TYPE | 96 | 72 | 53 | 60 | 37 | 24 |
Figure S54. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D24V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S55. Gene #24: '12q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
12Q GAIN MUTATED | 21 | 28 | 56 |
12Q GAIN WILD-TYPE | 74 | 170 | 98 |
Figure S55. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D24V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S56. Gene #24: '12q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
12Q GAIN MUTATED | 25 | 19 | 77 |
12Q GAIN WILD-TYPE | 190 | 89 | 110 |
Figure S56. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D24V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S57. Gene #24: '12q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
12Q GAIN MUTATED | 24 | 17 | 60 | 4 | 10 | 6 |
12Q GAIN WILD-TYPE | 96 | 159 | 66 | 24 | 22 | 22 |
Figure S57. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D24V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S58. Gene #24: '12q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
12Q GAIN MUTATED | 20 | 26 | 74 |
12Q GAIN WILD-TYPE | 102 | 180 | 98 |
Figure S58. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D24V9.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.029
Table S59. Gene #24: '12q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
12Q GAIN MUTATED | 47 | 37 | 36 |
12Q GAIN WILD-TYPE | 112 | 201 | 67 |
Figure S59. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D24V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S60. Gene #24: '12q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
12Q GAIN MUTATED | 8 | 9 | 37 |
12Q GAIN WILD-TYPE | 49 | 85 | 52 |
Figure S60. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D24V11.png)
P value = 0.00027 (Fisher's exact test), Q value = 0.18
Table S61. Gene #24: '12q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
12Q GAIN MUTATED | 31 | 10 | 13 |
12Q GAIN WILD-TYPE | 62 | 90 | 34 |
Figure S61. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D24V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S62. Gene #30: '17p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
17P GAIN MUTATED | 1 | 9 | 16 |
17P GAIN WILD-TYPE | 211 | 143 | 147 |
Figure S62. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D30V3.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S63. Gene #31: '17q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
17Q GAIN MUTATED | 3 | 11 | 19 |
17Q GAIN WILD-TYPE | 209 | 141 | 144 |
Figure S63. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D31V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S64. Gene #34: '19p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
19P GAIN MUTATED | 4 | 13 | 34 |
19P GAIN WILD-TYPE | 208 | 139 | 129 |
Figure S64. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D34V3.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.049
Table S65. Gene #34: '19p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
19P GAIN MUTATED | 7 | 3 | 24 |
19P GAIN WILD-TYPE | 121 | 72 | 86 |
Figure S65. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D34V4.png)
P value = 1e-04 (Fisher's exact test), Q value = 0.07
Table S66. Gene #34: '19p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
19P GAIN MUTATED | 10 | 9 | 31 |
19P GAIN WILD-TYPE | 112 | 197 | 141 |
Figure S66. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D34V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S67. Gene #35: '19q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
19Q GAIN MUTATED | 4 | 13 | 40 |
19Q GAIN WILD-TYPE | 208 | 139 | 123 |
Figure S67. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D35V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S68. Gene #35: '19q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
19Q GAIN MUTATED | 7 | 3 | 27 |
19Q GAIN WILD-TYPE | 121 | 72 | 83 |
Figure S68. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D35V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S69. Gene #35: '19q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
19Q GAIN MUTATED | 11 | 8 | 28 | 1 | 2 | 6 |
19Q GAIN WILD-TYPE | 109 | 168 | 98 | 27 | 30 | 22 |
Figure S69. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D35V8.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S70. Gene #35: '19q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
19Q GAIN MUTATED | 10 | 10 | 35 |
19Q GAIN WILD-TYPE | 112 | 196 | 137 |
Figure S70. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D35V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S71. Gene #36: '20p gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
20P GAIN MUTATED | 10 | 34 | 68 |
20P GAIN WILD-TYPE | 202 | 118 | 95 |
Figure S71. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D36V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S72. Gene #36: '20p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
20P GAIN MUTATED | 12 | 16 | 37 |
20P GAIN WILD-TYPE | 116 | 59 | 73 |
Figure S72. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D36V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S73. Gene #36: '20p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
20P GAIN MUTATED | 7 | 21 | 19 | 18 | 5 | 28 |
20P GAIN WILD-TYPE | 93 | 67 | 65 | 57 | 38 | 29 |
Figure S73. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D36V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S74. Gene #36: '20p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
20P GAIN MUTATED | 12 | 32 | 54 |
20P GAIN WILD-TYPE | 83 | 166 | 100 |
Figure S74. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D36V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S75. Gene #36: '20p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
20P GAIN MUTATED | 19 | 19 | 73 |
20P GAIN WILD-TYPE | 196 | 89 | 114 |
Figure S75. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D36V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S76. Gene #36: '20p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
20P GAIN MUTATED | 21 | 12 | 65 | 3 | 3 | 7 |
20P GAIN WILD-TYPE | 99 | 164 | 61 | 25 | 29 | 21 |
Figure S76. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D36V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S77. Gene #36: '20p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
20P GAIN MUTATED | 26 | 19 | 66 |
20P GAIN WILD-TYPE | 96 | 187 | 106 |
Figure S77. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D36V9.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S78. Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
20P GAIN MUTATED | 54 | 32 | 25 |
20P GAIN WILD-TYPE | 105 | 206 | 78 |
Figure S78. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D36V10.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S79. Gene #36: '20p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
20P GAIN MUTATED | 9 | 7 | 32 |
20P GAIN WILD-TYPE | 48 | 87 | 57 |
Figure S79. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D36V11.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.1
Table S80. Gene #36: '20p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
20P GAIN MUTATED | 32 | 10 | 6 |
20P GAIN WILD-TYPE | 61 | 90 | 41 |
Figure S80. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D36V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S81. Gene #37: '20q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
20Q GAIN MUTATED | 10 | 33 | 72 |
20Q GAIN WILD-TYPE | 202 | 119 | 91 |
Figure S81. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D37V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S82. Gene #37: '20q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
20Q GAIN MUTATED | 12 | 16 | 37 |
20Q GAIN WILD-TYPE | 116 | 59 | 73 |
Figure S82. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D37V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S83. Gene #37: '20q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
20Q GAIN MUTATED | 7 | 20 | 21 | 18 | 5 | 30 |
20Q GAIN WILD-TYPE | 93 | 68 | 63 | 57 | 38 | 27 |
Figure S83. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D37V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S84. Gene #37: '20q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
20Q GAIN MUTATED | 13 | 32 | 56 |
20Q GAIN WILD-TYPE | 82 | 166 | 98 |
Figure S84. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D37V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S85. Gene #37: '20q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
20Q GAIN MUTATED | 19 | 18 | 77 |
20Q GAIN WILD-TYPE | 196 | 90 | 110 |
Figure S85. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D37V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S86. Gene #37: '20q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
20Q GAIN MUTATED | 21 | 12 | 68 | 3 | 3 | 7 |
20Q GAIN WILD-TYPE | 99 | 164 | 58 | 25 | 29 | 21 |
Figure S86. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D37V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S87. Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
20Q GAIN MUTATED | 26 | 19 | 69 |
20Q GAIN WILD-TYPE | 96 | 187 | 103 |
Figure S87. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D37V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S88. Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
20Q GAIN MUTATED | 56 | 32 | 26 |
20Q GAIN WILD-TYPE | 103 | 206 | 77 |
Figure S88. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D37V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S89. Gene #37: '20q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
20Q GAIN MUTATED | 9 | 7 | 33 |
20Q GAIN WILD-TYPE | 48 | 87 | 56 |
Figure S89. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D37V11.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S90. Gene #37: '20q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
20Q GAIN MUTATED | 33 | 10 | 6 |
20Q GAIN WILD-TYPE | 60 | 90 | 41 |
Figure S90. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D37V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S91. Gene #38: '21q gain' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
21Q GAIN MUTATED | 10 | 6 | 34 |
21Q GAIN WILD-TYPE | 202 | 146 | 129 |
Figure S91. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #3: 'CN_CNMF'
![](D38V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S92. Gene #41: '1p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
1P LOSS MUTATED | 7 | 25 | 25 |
1P LOSS WILD-TYPE | 205 | 127 | 138 |
Figure S92. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D41V3.png)
P value = 0.00016 (Fisher's exact test), Q value = 0.11
Table S93. Gene #41: '1p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
1P LOSS MUTATED | 11 | 14 | 12 | 3 | 2 | 13 |
1P LOSS WILD-TYPE | 109 | 162 | 114 | 25 | 30 | 15 |
Figure S93. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D41V8.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.029
Table S94. Gene #42: '1q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
1Q LOSS MUTATED | 3 | 20 | 13 |
1Q LOSS WILD-TYPE | 209 | 132 | 150 |
Figure S94. Get High-res Image Gene #42: '1q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D42V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S95. Gene #42: '1q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
1Q LOSS MUTATED | 5 | 7 | 10 | 0 | 2 | 12 |
1Q LOSS WILD-TYPE | 115 | 169 | 116 | 28 | 30 | 16 |
Figure S95. Get High-res Image Gene #42: '1q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D42V8.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S96. Gene #43: '2p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 33 | 24 | 13 |
2P LOSS MUTATED | 0 | 1 | 6 |
2P LOSS WILD-TYPE | 33 | 23 | 7 |
Figure S96. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D43V1.png)
P value = 0.00021 (Fisher's exact test), Q value = 0.14
Table S97. Gene #43: '2p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
2P LOSS MUTATED | 1 | 11 | 2 |
2P LOSS WILD-TYPE | 211 | 141 | 161 |
Figure S97. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D43V3.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S98. Gene #43: '2p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
2P LOSS MUTATED | 0 | 0 | 0 | 7 | 0 | 2 |
2P LOSS WILD-TYPE | 100 | 88 | 84 | 68 | 43 | 55 |
Figure S98. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D43V5.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.029
Table S99. Gene #43: '2p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
2P LOSS MUTATED | 0 | 0 | 9 |
2P LOSS WILD-TYPE | 95 | 198 | 145 |
Figure S99. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D43V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S100. Gene #43: '2p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
2P LOSS MUTATED | 0 | 12 | 2 |
2P LOSS WILD-TYPE | 215 | 96 | 185 |
Figure S100. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D43V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S101. Gene #43: '2p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
2P LOSS MUTATED | 0 | 1 | 2 | 1 | 0 | 10 |
2P LOSS WILD-TYPE | 120 | 175 | 124 | 27 | 32 | 18 |
Figure S101. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D43V8.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S102. Gene #43: '2p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
2P LOSS MUTATED | 1 | 0 | 13 |
2P LOSS WILD-TYPE | 121 | 206 | 159 |
Figure S102. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D43V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S103. Gene #43: '2p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
2P LOSS MUTATED | 1 | 1 | 12 |
2P LOSS WILD-TYPE | 158 | 237 | 91 |
Figure S103. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D43V10.png)
P value = 0.00021 (Fisher's exact test), Q value = 0.14
Table S104. Gene #44: '2q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 33 | 24 | 13 |
2Q LOSS MUTATED | 0 | 1 | 5 |
2Q LOSS WILD-TYPE | 33 | 23 | 8 |
Figure S104. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D44V1.png)
P value = 0.00012 (Fisher's exact test), Q value = 0.083
Table S105. Gene #44: '2q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
2Q LOSS MUTATED | 0 | 0 | 0 | 6 | 0 | 3 |
2Q LOSS WILD-TYPE | 100 | 88 | 84 | 69 | 43 | 54 |
Figure S105. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D44V5.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.036
Table S106. Gene #44: '2q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
2Q LOSS MUTATED | 0 | 0 | 9 |
2Q LOSS WILD-TYPE | 95 | 198 | 145 |
Figure S106. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D44V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S107. Gene #44: '2q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
2Q LOSS MUTATED | 0 | 12 | 2 |
2Q LOSS WILD-TYPE | 215 | 96 | 185 |
Figure S107. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D44V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S108. Gene #44: '2q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
2Q LOSS MUTATED | 0 | 1 | 3 | 0 | 0 | 10 |
2Q LOSS WILD-TYPE | 120 | 175 | 123 | 28 | 32 | 18 |
Figure S108. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D44V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S109. Gene #44: '2q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
2Q LOSS MUTATED | 0 | 0 | 14 |
2Q LOSS WILD-TYPE | 122 | 206 | 158 |
Figure S109. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D44V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S110. Gene #44: '2q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
2Q LOSS MUTATED | 1 | 0 | 13 |
2Q LOSS WILD-TYPE | 158 | 238 | 90 |
Figure S110. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D44V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S111. Gene #45: '3p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
3P LOSS MUTATED | 192 | 47 | 141 |
3P LOSS WILD-TYPE | 20 | 105 | 22 |
Figure S111. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D45V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S112. Gene #45: '3p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
3P LOSS MUTATED | 177 | 54 | 137 |
3P LOSS WILD-TYPE | 38 | 54 | 50 |
Figure S112. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D45V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S113. Gene #45: '3p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
3P LOSS MUTATED | 95 | 142 | 91 | 14 | 23 | 3 |
3P LOSS WILD-TYPE | 25 | 34 | 35 | 14 | 9 | 25 |
Figure S113. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D45V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S114. Gene #46: '3q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
3Q LOSS MUTATED | 47 | 9 | 43 |
3Q LOSS WILD-TYPE | 165 | 143 | 120 |
Figure S114. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D46V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S115. Gene #47: '4p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
4P LOSS MUTATED | 9 | 15 | 48 |
4P LOSS WILD-TYPE | 203 | 137 | 115 |
Figure S115. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D47V3.png)
P value = 0.00019 (Fisher's exact test), Q value = 0.13
Table S116. Gene #47: '4p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
4P LOSS MUTATED | 11 | 8 | 31 |
4P LOSS WILD-TYPE | 117 | 67 | 79 |
Figure S116. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D47V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S117. Gene #48: '4q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
4Q LOSS MUTATED | 7 | 11 | 47 |
4Q LOSS WILD-TYPE | 205 | 141 | 116 |
Figure S117. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D48V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S118. Gene #48: '4q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
4Q LOSS MUTATED | 9 | 6 | 30 |
4Q LOSS WILD-TYPE | 119 | 69 | 80 |
Figure S118. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D48V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S119. Gene #48: '4q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
4Q LOSS MUTATED | 15 | 14 | 33 | 0 | 3 | 0 |
4Q LOSS WILD-TYPE | 105 | 162 | 93 | 28 | 29 | 28 |
Figure S119. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D48V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S120. Gene #51: '6p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
6P LOSS MUTATED | 10 | 23 | 67 |
6P LOSS WILD-TYPE | 202 | 129 | 96 |
Figure S120. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D51V3.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S121. Gene #51: '6p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
6P LOSS MUTATED | 9 | 12 | 31 |
6P LOSS WILD-TYPE | 119 | 63 | 79 |
Figure S121. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D51V4.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S122. Gene #51: '6p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
6P LOSS MUTATED | 17 | 7 | 17 | 18 | 4 | 25 |
6P LOSS WILD-TYPE | 83 | 81 | 67 | 57 | 39 | 32 |
Figure S122. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D51V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S123. Gene #51: '6p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
6P LOSS MUTATED | 18 | 22 | 48 |
6P LOSS WILD-TYPE | 77 | 176 | 106 |
Figure S123. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D51V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S124. Gene #51: '6p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
6P LOSS MUTATED | 20 | 16 | 60 |
6P LOSS WILD-TYPE | 195 | 92 | 127 |
Figure S124. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D51V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S125. Gene #51: '6p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
6P LOSS MUTATED | 16 | 13 | 50 | 0 | 6 | 11 |
6P LOSS WILD-TYPE | 104 | 163 | 76 | 28 | 26 | 17 |
Figure S125. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D51V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S126. Gene #51: '6p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
6P LOSS MUTATED | 13 | 18 | 64 |
6P LOSS WILD-TYPE | 109 | 188 | 108 |
Figure S126. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D51V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S127. Gene #51: '6p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
6P LOSS MUTATED | 41 | 22 | 32 |
6P LOSS WILD-TYPE | 118 | 216 | 71 |
Figure S127. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D51V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S128. Gene #51: '6p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
6P LOSS MUTATED | 6 | 5 | 30 |
6P LOSS WILD-TYPE | 51 | 89 | 59 |
Figure S128. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D51V11.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.23
Table S129. Gene #51: '6p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
6P LOSS MUTATED | 26 | 7 | 8 |
6P LOSS WILD-TYPE | 67 | 93 | 39 |
Figure S129. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D51V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S130. Gene #52: '6q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
6Q LOSS MUTATED | 23 | 26 | 79 |
6Q LOSS WILD-TYPE | 189 | 126 | 84 |
Figure S130. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D52V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S131. Gene #52: '6q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
6Q LOSS MUTATED | 28 | 8 | 24 | 19 | 6 | 26 |
6Q LOSS WILD-TYPE | 72 | 80 | 60 | 56 | 37 | 31 |
Figure S131. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D52V5.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.049
Table S132. Gene #52: '6q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
6Q LOSS MUTATED | 40 | 18 | 65 |
6Q LOSS WILD-TYPE | 175 | 90 | 122 |
Figure S132. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D52V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S133. Gene #52: '6q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
6Q LOSS MUTATED | 20 | 29 | 51 | 4 | 8 | 11 |
6Q LOSS WILD-TYPE | 100 | 147 | 75 | 24 | 24 | 17 |
Figure S133. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D52V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S134. Gene #52: '6q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
6Q LOSS MUTATED | 18 | 34 | 70 |
6Q LOSS WILD-TYPE | 104 | 172 | 102 |
Figure S134. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D52V9.png)
P value = 2e-04 (Fisher's exact test), Q value = 0.14
Table S135. Gene #52: '6q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
6Q LOSS MUTATED | 9 | 14 | 35 |
6Q LOSS WILD-TYPE | 48 | 80 | 54 |
Figure S135. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D52V11.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S136. Gene #55: '8p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
8P LOSS MUTATED | 38 | 34 | 65 |
8P LOSS WILD-TYPE | 174 | 118 | 98 |
Figure S136. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D55V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S137. Gene #57: '9p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
9P LOSS MUTATED | 10 | 28 | 111 |
9P LOSS WILD-TYPE | 202 | 124 | 52 |
Figure S137. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D57V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S138. Gene #57: '9p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
9P LOSS MUTATED | 6 | 20 | 67 |
9P LOSS WILD-TYPE | 122 | 55 | 43 |
Figure S138. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D57V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S139. Gene #57: '9p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
9P LOSS MUTATED | 18 | 24 | 31 | 18 | 10 | 33 |
9P LOSS WILD-TYPE | 82 | 64 | 53 | 57 | 33 | 24 |
Figure S139. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D57V5.png)
P value = 0.00016 (Fisher's exact test), Q value = 0.11
Table S140. Gene #57: '9p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
9P LOSS MUTATED | 28 | 42 | 64 |
9P LOSS WILD-TYPE | 67 | 156 | 90 |
Figure S140. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D57V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S141. Gene #57: '9p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
9P LOSS MUTATED | 26 | 16 | 102 |
9P LOSS WILD-TYPE | 189 | 92 | 85 |
Figure S141. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D57V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S142. Gene #57: '9p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
9P LOSS MUTATED | 38 | 13 | 77 | 2 | 10 | 4 |
9P LOSS WILD-TYPE | 82 | 163 | 49 | 26 | 22 | 24 |
Figure S142. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D57V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S143. Gene #57: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
9P LOSS MUTATED | 27 | 28 | 86 |
9P LOSS WILD-TYPE | 95 | 178 | 86 |
Figure S143. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D57V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S144. Gene #57: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
9P LOSS MUTATED | 69 | 36 | 36 |
9P LOSS WILD-TYPE | 90 | 202 | 67 |
Figure S144. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D57V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S145. Gene #57: '9p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
9P LOSS MUTATED | 15 | 9 | 43 |
9P LOSS WILD-TYPE | 42 | 85 | 46 |
Figure S145. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D57V11.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S146. Gene #57: '9p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
9P LOSS MUTATED | 40 | 15 | 12 |
9P LOSS WILD-TYPE | 53 | 85 | 35 |
Figure S146. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D57V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S147. Gene #58: '9q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
9Q LOSS MUTATED | 10 | 29 | 111 |
9Q LOSS WILD-TYPE | 202 | 123 | 52 |
Figure S147. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D58V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S148. Gene #58: '9q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
9Q LOSS MUTATED | 6 | 21 | 64 |
9Q LOSS WILD-TYPE | 122 | 54 | 46 |
Figure S148. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D58V4.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S149. Gene #58: '9q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
9Q LOSS MUTATED | 17 | 24 | 34 | 18 | 10 | 33 |
9Q LOSS WILD-TYPE | 83 | 64 | 50 | 57 | 33 | 24 |
Figure S149. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D58V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S150. Gene #58: '9q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
9Q LOSS MUTATED | 26 | 16 | 103 |
9Q LOSS WILD-TYPE | 189 | 92 | 84 |
Figure S150. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D58V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S151. Gene #58: '9q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
9Q LOSS MUTATED | 38 | 13 | 77 | 3 | 10 | 4 |
9Q LOSS WILD-TYPE | 82 | 163 | 49 | 25 | 22 | 24 |
Figure S151. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D58V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S152. Gene #58: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
9Q LOSS MUTATED | 26 | 28 | 87 |
9Q LOSS WILD-TYPE | 96 | 178 | 85 |
Figure S152. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D58V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S153. Gene #58: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
9Q LOSS MUTATED | 68 | 36 | 37 |
9Q LOSS WILD-TYPE | 91 | 202 | 66 |
Figure S153. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D58V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S154. Gene #58: '9q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
9Q LOSS MUTATED | 15 | 10 | 43 |
9Q LOSS WILD-TYPE | 42 | 84 | 46 |
Figure S154. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D58V11.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S155. Gene #58: '9q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
9Q LOSS MUTATED | 39 | 14 | 15 |
9Q LOSS WILD-TYPE | 54 | 86 | 32 |
Figure S155. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D58V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S156. Gene #59: '10p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
10P LOSS MUTATED | 10 | 22 | 35 |
10P LOSS WILD-TYPE | 202 | 130 | 128 |
Figure S156. Get High-res Image Gene #59: '10p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D59V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S157. Gene #60: '10q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
10Q LOSS MUTATED | 19 | 24 | 46 |
10Q LOSS WILD-TYPE | 193 | 128 | 117 |
Figure S157. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D60V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S158. Gene #61: '11p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
11P LOSS MUTATED | 0 | 5 | 13 |
11P LOSS WILD-TYPE | 212 | 147 | 150 |
Figure S158. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D61V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S159. Gene #62: '11q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
11Q LOSS MUTATED | 0 | 5 | 18 |
11Q LOSS WILD-TYPE | 212 | 147 | 145 |
Figure S159. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D62V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S160. Gene #65: '13q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
13Q LOSS MUTATED | 8 | 24 | 39 |
13Q LOSS WILD-TYPE | 204 | 128 | 124 |
Figure S160. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D65V3.png)
P value = 3e-04 (Fisher's exact test), Q value = 0.2
Table S161. Gene #65: '13q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
13Q LOSS MUTATED | 7 | 15 | 24 |
13Q LOSS WILD-TYPE | 121 | 60 | 86 |
Figure S161. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D65V4.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S162. Gene #65: '13q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
13Q LOSS MUTATED | 3 | 10 | 14 | 13 | 3 | 19 |
13Q LOSS WILD-TYPE | 97 | 78 | 70 | 62 | 40 | 38 |
Figure S162. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D65V5.png)
P value = 0.00029 (Fisher's exact test), Q value = 0.2
Table S163. Gene #65: '13q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
13Q LOSS MUTATED | 12 | 15 | 35 |
13Q LOSS WILD-TYPE | 83 | 183 | 119 |
Figure S163. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D65V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S164. Gene #65: '13q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
13Q LOSS MUTATED | 13 | 13 | 43 |
13Q LOSS WILD-TYPE | 202 | 95 | 144 |
Figure S164. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D65V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S165. Gene #65: '13q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
13Q LOSS MUTATED | 6 | 9 | 41 | 1 | 4 | 8 |
13Q LOSS WILD-TYPE | 114 | 167 | 85 | 27 | 28 | 20 |
Figure S165. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D65V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S166. Gene #65: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
13Q LOSS MUTATED | 12 | 12 | 43 |
13Q LOSS WILD-TYPE | 110 | 194 | 129 |
Figure S166. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D65V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S167. Gene #65: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
13Q LOSS MUTATED | 29 | 12 | 26 |
13Q LOSS WILD-TYPE | 130 | 226 | 77 |
Figure S167. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D65V10.png)
P value = 3e-04 (Fisher's exact test), Q value = 0.2
Table S168. Gene #65: '13q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
13Q LOSS MUTATED | 23 | 5 | 6 |
13Q LOSS WILD-TYPE | 70 | 95 | 41 |
Figure S168. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D65V12.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S169. Gene #66: '14q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 33 | 24 | 13 |
14Q LOSS MUTATED | 9 | 19 | 2 |
14Q LOSS WILD-TYPE | 24 | 5 | 11 |
Figure S169. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D66V1.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.056
Table S170. Gene #66: '14q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 12 | 4 | 11 | 13 | 9 | 10 |
14Q LOSS MUTATED | 4 | 7 | 1 | 11 | 5 | 0 | 2 |
14Q LOSS WILD-TYPE | 7 | 5 | 3 | 0 | 8 | 9 | 8 |
Figure S170. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D66V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S171. Gene #66: '14q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
14Q LOSS MUTATED | 60 | 45 | 111 |
14Q LOSS WILD-TYPE | 152 | 107 | 52 |
Figure S171. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D66V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S172. Gene #66: '14q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
14Q LOSS MUTATED | 25 | 34 | 64 |
14Q LOSS WILD-TYPE | 103 | 41 | 46 |
Figure S172. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D66V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S173. Gene #66: '14q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
14Q LOSS MUTATED | 27 | 28 | 62 | 23 | 13 | 39 |
14Q LOSS WILD-TYPE | 73 | 60 | 22 | 52 | 30 | 18 |
Figure S173. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D66V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S174. Gene #66: '14q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
14Q LOSS MUTATED | 57 | 62 | 73 |
14Q LOSS WILD-TYPE | 38 | 136 | 81 |
Figure S174. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D66V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S175. Gene #66: '14q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
14Q LOSS MUTATED | 68 | 16 | 126 |
14Q LOSS WILD-TYPE | 147 | 92 | 61 |
Figure S175. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D66V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S176. Gene #66: '14q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
14Q LOSS MUTATED | 47 | 50 | 75 | 7 | 29 | 2 |
14Q LOSS WILD-TYPE | 73 | 126 | 51 | 21 | 3 | 26 |
Figure S176. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D66V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S177. Gene #66: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
14Q LOSS MUTATED | 35 | 64 | 109 |
14Q LOSS WILD-TYPE | 87 | 142 | 63 |
Figure S177. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D66V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S178. Gene #66: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
14Q LOSS MUTATED | 72 | 75 | 61 |
14Q LOSS WILD-TYPE | 87 | 163 | 42 |
Figure S178. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D66V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S179. Gene #66: '14q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
14Q LOSS MUTATED | 18 | 27 | 57 |
14Q LOSS WILD-TYPE | 39 | 67 | 32 |
Figure S179. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D66V11.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S180. Gene #67: '15q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
15Q LOSS MUTATED | 2 | 5 | 29 |
15Q LOSS WILD-TYPE | 210 | 147 | 134 |
Figure S180. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D67V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S181. Gene #67: '15q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
15Q LOSS MUTATED | 6 | 2 | 27 |
15Q LOSS WILD-TYPE | 209 | 106 | 160 |
Figure S181. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D67V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S182. Gene #67: '15q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
15Q LOSS MUTATED | 5 | 4 | 25 | 0 | 1 | 0 |
15Q LOSS WILD-TYPE | 115 | 172 | 101 | 28 | 31 | 28 |
Figure S182. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D67V8.png)
P value = 0.00014 (Fisher's exact test), Q value = 0.097
Table S183. Gene #70: '17p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 33 | 24 | 13 |
17P LOSS MUTATED | 0 | 5 | 6 |
17P LOSS WILD-TYPE | 33 | 19 | 7 |
Figure S183. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D70V1.png)
P value = 0.00023 (Fisher's exact test), Q value = 0.16
Table S184. Gene #70: '17p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 11 | 12 | 4 | 11 | 13 | 9 | 10 |
17P LOSS MUTATED | 0 | 5 | 1 | 0 | 0 | 0 | 5 |
17P LOSS WILD-TYPE | 11 | 7 | 3 | 11 | 13 | 9 | 5 |
Figure S184. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D70V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S185. Gene #70: '17p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
17P LOSS MUTATED | 3 | 17 | 26 |
17P LOSS WILD-TYPE | 209 | 135 | 137 |
Figure S185. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D70V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S186. Gene #70: '17p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
17P LOSS MUTATED | 4 | 15 | 26 |
17P LOSS WILD-TYPE | 211 | 93 | 161 |
Figure S186. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D70V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S187. Gene #70: '17p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
17P LOSS MUTATED | 5 | 3 | 23 | 2 | 1 | 11 |
17P LOSS WILD-TYPE | 115 | 173 | 103 | 26 | 31 | 17 |
Figure S187. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D70V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S188. Gene #70: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
17P LOSS MUTATED | 8 | 5 | 32 |
17P LOSS WILD-TYPE | 114 | 201 | 140 |
Figure S188. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D70V9.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S189. Gene #70: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
17P LOSS MUTATED | 20 | 7 | 18 |
17P LOSS WILD-TYPE | 139 | 231 | 85 |
Figure S189. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D70V10.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.23
Table S190. Gene #71: '17q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
17Q LOSS MUTATED | 2 | 13 | 13 |
17Q LOSS WILD-TYPE | 210 | 139 | 150 |
Figure S190. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D71V3.png)
P value = 0.00029 (Fisher's exact test), Q value = 0.2
Table S191. Gene #71: '17q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
17Q LOSS MUTATED | 3 | 12 | 13 |
17Q LOSS WILD-TYPE | 212 | 96 | 174 |
Figure S191. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D71V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S192. Gene #71: '17q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
17Q LOSS MUTATED | 4 | 2 | 11 | 0 | 1 | 10 |
17Q LOSS WILD-TYPE | 116 | 174 | 115 | 28 | 31 | 18 |
Figure S192. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D71V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S193. Gene #71: '17q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
17Q LOSS MUTATED | 4 | 2 | 22 |
17Q LOSS WILD-TYPE | 118 | 204 | 150 |
Figure S193. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D71V9.png)
P value = 2e-04 (Fisher's exact test), Q value = 0.14
Table S194. Gene #71: '17q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
17Q LOSS MUTATED | 9 | 5 | 14 |
17Q LOSS WILD-TYPE | 150 | 233 | 89 |
Figure S194. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D71V10.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S195. Gene #72: '18p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
18P LOSS MUTATED | 13 | 23 | 57 |
18P LOSS WILD-TYPE | 199 | 129 | 106 |
Figure S195. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D72V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S196. Gene #72: '18p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
18P LOSS MUTATED | 6 | 19 | 32 |
18P LOSS WILD-TYPE | 122 | 56 | 78 |
Figure S196. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D72V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S197. Gene #72: '18p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
18P LOSS MUTATED | 5 | 14 | 23 | 15 | 2 | 24 |
18P LOSS WILD-TYPE | 95 | 74 | 61 | 60 | 41 | 33 |
Figure S197. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D72V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S198. Gene #72: '18p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
18P LOSS MUTATED | 16 | 20 | 47 |
18P LOSS WILD-TYPE | 79 | 178 | 107 |
Figure S198. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D72V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S199. Gene #72: '18p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
18P LOSS MUTATED | 10 | 9 | 71 |
18P LOSS WILD-TYPE | 205 | 99 | 116 |
Figure S199. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D72V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S200. Gene #72: '18p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
18P LOSS MUTATED | 14 | 7 | 53 | 4 | 8 | 4 |
18P LOSS WILD-TYPE | 106 | 169 | 73 | 24 | 24 | 24 |
Figure S200. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D72V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S201. Gene #72: '18p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
18P LOSS MUTATED | 22 | 12 | 57 |
18P LOSS WILD-TYPE | 100 | 194 | 115 |
Figure S201. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D72V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S202. Gene #72: '18p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
18P LOSS MUTATED | 44 | 16 | 31 |
18P LOSS WILD-TYPE | 115 | 222 | 72 |
Figure S202. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D72V10.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.036
Table S203. Gene #72: '18p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
18P LOSS MUTATED | 10 | 5 | 27 |
18P LOSS WILD-TYPE | 47 | 89 | 62 |
Figure S203. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D72V11.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S204. Gene #72: '18p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
18P LOSS MUTATED | 29 | 6 | 7 |
18P LOSS WILD-TYPE | 64 | 94 | 40 |
Figure S204. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D72V12.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S205. Gene #73: '18q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
18Q LOSS MUTATED | 14 | 24 | 57 |
18Q LOSS WILD-TYPE | 198 | 128 | 106 |
Figure S205. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D73V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S206. Gene #73: '18q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 128 | 75 | 110 |
18Q LOSS MUTATED | 7 | 19 | 31 |
18Q LOSS WILD-TYPE | 121 | 56 | 79 |
Figure S206. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D73V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S207. Gene #73: '18q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 100 | 88 | 84 | 75 | 43 | 57 |
18Q LOSS MUTATED | 5 | 14 | 23 | 16 | 4 | 24 |
18Q LOSS WILD-TYPE | 95 | 74 | 61 | 59 | 39 | 33 |
Figure S207. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D73V5.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.022
Table S208. Gene #73: '18q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 95 | 198 | 154 |
18Q LOSS MUTATED | 16 | 23 | 47 |
18Q LOSS WILD-TYPE | 79 | 175 | 107 |
Figure S208. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D73V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S209. Gene #73: '18q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
18Q LOSS MUTATED | 11 | 10 | 71 |
18Q LOSS WILD-TYPE | 204 | 98 | 116 |
Figure S209. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D73V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S210. Gene #73: '18q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
18Q LOSS MUTATED | 14 | 8 | 53 | 5 | 8 | 4 |
18Q LOSS WILD-TYPE | 106 | 168 | 73 | 23 | 24 | 24 |
Figure S210. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D73V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S211. Gene #73: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
18Q LOSS MUTATED | 23 | 13 | 57 |
18Q LOSS WILD-TYPE | 99 | 193 | 115 |
Figure S211. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D73V9.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S212. Gene #73: '18q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 238 | 103 |
18Q LOSS MUTATED | 45 | 17 | 31 |
18Q LOSS WILD-TYPE | 114 | 221 | 72 |
Figure S212. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D73V10.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S213. Gene #73: '18q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 57 | 94 | 89 |
18Q LOSS MUTATED | 9 | 5 | 28 |
18Q LOSS WILD-TYPE | 48 | 89 | 61 |
Figure S213. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D73V11.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S214. Gene #73: '18q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 100 | 47 |
18Q LOSS MUTATED | 30 | 5 | 7 |
18Q LOSS WILD-TYPE | 63 | 95 | 40 |
Figure S214. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D73V12.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.036
Table S215. Gene #74: '19p loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
19P LOSS MUTATED | 0 | 1 | 10 |
19P LOSS WILD-TYPE | 212 | 151 | 153 |
Figure S215. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D74V3.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.043
Table S216. Gene #78: '21q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
21Q LOSS MUTATED | 8 | 24 | 23 |
21Q LOSS WILD-TYPE | 204 | 128 | 140 |
Figure S216. Get High-res Image Gene #78: '21q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D78V3.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.049
Table S217. Gene #78: '21q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
21Q LOSS MUTATED | 9 | 10 | 17 | 3 | 2 | 11 |
21Q LOSS WILD-TYPE | 111 | 166 | 109 | 25 | 30 | 17 |
Figure S217. Get High-res Image Gene #78: '21q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D78V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S218. Gene #79: '22q loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
22Q LOSS MUTATED | 4 | 10 | 25 |
22Q LOSS WILD-TYPE | 208 | 142 | 138 |
Figure S218. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D79V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.0089
Table S219. Gene #79: '22q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 108 | 187 |
22Q LOSS MUTATED | 5 | 4 | 30 |
22Q LOSS WILD-TYPE | 210 | 104 | 157 |
Figure S219. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D79V7.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.029
Table S220. Gene #79: '22q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 120 | 176 | 126 | 28 | 32 | 28 |
22Q LOSS MUTATED | 7 | 3 | 20 | 5 | 3 | 1 |
22Q LOSS WILD-TYPE | 113 | 173 | 106 | 23 | 29 | 27 |
Figure S220. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D79V8.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S221. Gene #79: '22q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 122 | 206 | 172 |
22Q LOSS MUTATED | 3 | 9 | 27 |
22Q LOSS WILD-TYPE | 119 | 197 | 145 |
Figure S221. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
![](D79V9.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.015
Table S222. Gene #80: 'xq loss' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 212 | 152 | 163 |
XQ LOSS MUTATED | 7 | 11 | 29 |
XQ LOSS WILD-TYPE | 205 | 141 | 134 |
Figure S222. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #3: 'CN_CNMF'
![](D80V3.png)
-
Copy number data file = transformed.cor.cli.txt
-
Molecular subtypes file = KIRC-TP.transferedmergedcluster.txt
-
Number of patients = 527
-
Number of significantly arm-level cnvs = 80
-
Number of molecular subtypes = 12
-
Exclude genes that fewer than K tumors have mutations, K = 3
For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.
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.