This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 82 arm-level events and 10 molecular subtypes across 522 patients, 339 significant findings detected with P value < 0.05 and Q value < 0.25.
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1p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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1q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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2p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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2q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3p gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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4p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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5p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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5q gain cnv correlated to 'CN_CNMF'.
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6p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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6q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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7p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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7q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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8p gain cnv correlated to 'CN_CNMF'.
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8q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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9p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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9q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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10p gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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10q gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_CHIERARCHICAL'.
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11p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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12p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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12q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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13q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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14q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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16p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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16q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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17p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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17q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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18p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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18q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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19p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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19q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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20p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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21q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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22q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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xp gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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xq gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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1p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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2p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'RPPA_CHIERARCHICAL'.
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3p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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3q loss cnv correlated to 'CN_CNMF' and 'MIRSEQ_CHIERARCHICAL'.
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4p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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4q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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5p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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6p loss cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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6q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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8p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8q loss cnv correlated to 'CN_CNMF'.
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9p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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9q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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10p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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10q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CNMF'.
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11p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CNMF'.
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11q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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12p loss cnv correlated to 'METHLYATION_CNMF'.
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12q loss cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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13q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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14q loss cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q loss cnv correlated to 'CN_CNMF'.
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16p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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16q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p loss cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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17q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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18p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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18q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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19p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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20q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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21q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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22q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xp loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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xq loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 82 arm-level events and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 339 significant findings detected.
|
Clinical Features |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
| nCNV (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
| 14q gain | 151 (29%) | 371 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.195 (0.324) |
0.0952 (0.193) |
0.00997 (0.0339) |
1e-05 (9.65e-05) |
0.00643 (0.0234) |
0.00037 (0.00202) |
1e-05 (9.65e-05) |
0.00037 (0.00202) |
| 16q loss | 81 (16%) | 441 |
0.00217 (0.00941) |
1e-05 (9.65e-05) |
0.517 (0.663) |
0.243 (0.386) |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.00776 (0.0275) |
0.0088 (0.0308) |
1e-05 (9.65e-05) |
0.00274 (0.0115) |
| 1q gain | 121 (23%) | 401 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.979 (0.994) |
0.771 (0.852) |
7e-05 (0.000478) |
0.00067 (0.00337) |
0.00026 (0.00152) |
0.0003 (0.00168) |
0.0121 (0.04) |
0.0971 (0.194) |
| 2p gain | 97 (19%) | 425 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.86 (0.911) |
0.439 (0.585) |
0.0342 (0.0901) |
1e-05 (9.65e-05) |
0.0211 (0.0616) |
0.0197 (0.0583) |
0.0022 (0.00949) |
0.0901 (0.189) |
| 9p gain | 102 (20%) | 420 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.131 (0.242) |
0.0933 (0.192) |
0.004 (0.0156) |
0.0007 (0.0035) |
0.00759 (0.0272) |
0.00895 (0.031) |
0.00013 (0.00082) |
0.156 (0.276) |
| 20q gain | 201 (39%) | 321 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.262 (0.407) |
0.872 (0.92) |
0.0303 (0.0818) |
0.0001 (0.000651) |
0.0628 (0.146) |
0.00424 (0.0164) |
0.0356 (0.0932) |
0.0114 (0.0381) |
| 18q loss | 211 (40%) | 311 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.909 (0.94) |
0.33 (0.479) |
0.00091 (0.00434) |
1e-05 (9.65e-05) |
0.00091 (0.00434) |
3e-05 (0.000232) |
5e-05 (0.000363) |
0.0535 (0.128) |
| 19p loss | 98 (19%) | 424 |
1e-05 (9.65e-05) |
6e-05 (0.000417) |
0.332 (0.48) |
0.713 (0.819) |
0.0542 (0.13) |
0.00882 (0.0308) |
0.0215 (0.0621) |
0.00406 (0.0158) |
0.011 (0.0367) |
0.0372 (0.0964) |
| 20q loss | 28 (5%) | 494 |
0.00027 (0.00157) |
0.00466 (0.0178) |
0.945 (0.967) |
0.755 (0.844) |
0.0123 (0.0402) |
0.0191 (0.057) |
0.0685 (0.154) |
0.0484 (0.118) |
0.0191 (0.057) |
0.03 (0.0812) |
| xq loss | 83 (16%) | 439 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.011 (0.0367) |
0.00041 (0.00216) |
0.032 (0.0858) |
0.00606 (0.0225) |
0.00032 (0.00179) |
0.0972 (0.194) |
0.294 (0.447) |
0.426 (0.572) |
| 12p gain | 148 (28%) | 374 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.548 (0.688) |
0.823 (0.882) |
0.0136 (0.0429) |
9e-05 (0.000595) |
0.0125 (0.0405) |
0.0964 (0.194) |
0.0379 (0.0979) |
0.522 (0.666) |
| 13q gain | 57 (11%) | 465 |
1e-05 (9.65e-05) |
0.00259 (0.0109) |
0.595 (0.735) |
0.734 (0.832) |
0.00102 (0.00475) |
0.00575 (0.0215) |
0.124 (0.233) |
0.239 (0.384) |
0.0266 (0.0743) |
0.0152 (0.0468) |
| 18q gain | 53 (10%) | 469 |
0.0015 (0.0068) |
2e-05 (0.000171) |
0.13 (0.242) |
0.0881 (0.185) |
0.0003 (0.00168) |
0.00017 (0.00105) |
2e-05 (0.000171) |
0.141 (0.257) |
5e-05 (0.000363) |
0.0633 (0.146) |
| 3p loss | 297 (57%) | 225 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.749 (0.84) |
0.679 (0.791) |
0.0299 (0.0812) |
1e-05 (9.65e-05) |
0.0993 (0.197) |
0.00076 (0.00373) |
8e-05 (0.000538) |
0.238 (0.383) |
| 4p loss | 194 (37%) | 328 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.428 (0.573) |
0.547 (0.688) |
0.00017 (0.00105) |
1e-05 (9.65e-05) |
0.182 (0.307) |
0.0282 (0.0779) |
0.00056 (0.00291) |
0.0653 (0.148) |
| 8p loss | 187 (36%) | 335 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.478 (0.627) |
0.678 (0.791) |
0.151 (0.271) |
2e-05 (0.000171) |
0.142 (0.257) |
0.00297 (0.0122) |
0.00014 (0.000876) |
3e-05 (0.000232) |
| 14q loss | 58 (11%) | 464 |
0.0631 (0.146) |
0.00287 (0.0119) |
0.413 (0.559) |
0.526 (0.67) |
4e-05 (0.000304) |
0.00155 (0.00695) |
0.00058 (0.00297) |
0.312 (0.465) |
3e-05 (0.000232) |
0.0123 (0.0402) |
| 21q loss | 184 (35%) | 338 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.817 (0.881) |
0.983 (0.996) |
0.0124 (0.0402) |
2e-05 (0.000171) |
0.301 (0.454) |
0.00038 (0.00205) |
0.00062 (0.00316) |
0.231 (0.373) |
| 22q loss | 75 (14%) | 447 |
0.00011 (0.000705) |
0.00305 (0.0125) |
0.874 (0.92) |
0.654 (0.778) |
0.00234 (0.00999) |
0.327 (0.477) |
0.00137 (0.00624) |
0.516 (0.663) |
0.0175 (0.0526) |
0.0475 (0.116) |
| 2q gain | 74 (14%) | 448 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.599 (0.737) |
0.73 (0.832) |
0.06 (0.141) |
1e-05 (9.65e-05) |
0.104 (0.203) |
0.102 (0.2) |
0.0164 (0.0503) |
0.0397 (0.101) |
| 3q gain | 254 (49%) | 268 |
0.00012 (0.000763) |
1e-05 (9.65e-05) |
0.351 (0.5) |
0.283 (0.434) |
0.00029 (0.00165) |
0.153 (0.271) |
0.00886 (0.0308) |
0.803 (0.871) |
0.0212 (0.0616) |
0.0966 (0.194) |
| 7q gain | 129 (25%) | 393 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.362 (0.512) |
0.633 (0.758) |
0.542 (0.682) |
0.00038 (0.00205) |
0.0133 (0.0422) |
0.00018 (0.0011) |
0.326 (0.477) |
0.499 (0.65) |
| 8q gain | 310 (59%) | 212 |
5e-05 (0.000363) |
3e-05 (0.000232) |
0.19 (0.317) |
0.886 (0.927) |
0.0723 (0.16) |
2e-05 (0.000171) |
0.173 (0.297) |
0.0105 (0.0357) |
0.0402 (0.102) |
0.0698 (0.155) |
| 11p gain | 66 (13%) | 456 |
8e-05 (0.000538) |
1e-05 (9.65e-05) |
0.802 (0.871) |
0.409 (0.556) |
0.106 (0.206) |
0.147 (0.265) |
0.0453 (0.112) |
0.264 (0.408) |
0.00336 (0.0134) |
0.00883 (0.0308) |
| 15q gain | 72 (14%) | 450 |
9e-05 (0.000595) |
0.00644 (0.0234) |
0.843 (0.897) |
0.586 (0.726) |
0.0957 (0.193) |
0.035 (0.092) |
0.885 (0.927) |
0.0058 (0.0216) |
0.036 (0.094) |
0.521 (0.666) |
| 17p gain | 67 (13%) | 455 |
1e-05 (9.65e-05) |
0.0001 (0.000651) |
0.0924 (0.192) |
0.902 (0.938) |
0.0021 (0.0092) |
0.00326 (0.0132) |
0.0556 (0.132) |
0.0463 (0.114) |
0.248 (0.391) |
0.167 (0.288) |
| 18p gain | 123 (24%) | 399 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.721 (0.826) |
0.319 (0.471) |
0.349 (0.498) |
5e-05 (0.000363) |
0.247 (0.391) |
0.0151 (0.0467) |
0.00082 (0.004) |
0.167 (0.288) |
| 19p gain | 56 (11%) | 466 |
0.0135 (0.0427) |
2e-05 (0.000171) |
0.193 (0.322) |
0.765 (0.849) |
0.0202 (0.0593) |
0.0152 (0.0468) |
0.00039 (0.00209) |
0.0513 (0.123) |
0.402 (0.55) |
0.183 (0.308) |
| 20p gain | 190 (36%) | 332 |
1e-05 (9.65e-05) |
6e-05 (0.000417) |
0.967 (0.984) |
0.733 (0.832) |
0.0509 (0.123) |
0.00455 (0.0175) |
0.0951 (0.193) |
0.0123 (0.0402) |
0.509 (0.657) |
0.0391 (0.1) |
| 22q gain | 112 (21%) | 410 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.506 (0.656) |
0.515 (0.663) |
0.156 (0.276) |
0.00028 (0.00161) |
0.00042 (0.00219) |
0.079 (0.17) |
0.0139 (0.0435) |
0.53 (0.674) |
| 1p loss | 58 (11%) | 464 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.314 (0.466) |
0.166 (0.288) |
0.00171 (0.00758) |
1e-05 (9.65e-05) |
0.402 (0.55) |
0.0861 (0.182) |
0.261 (0.406) |
0.0201 (0.0593) |
| 4q loss | 151 (29%) | 371 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.613 (0.748) |
0.224 (0.364) |
0.00904 (0.031) |
2e-05 (0.000171) |
0.26 (0.406) |
0.0925 (0.192) |
0.0297 (0.0811) |
0.162 (0.283) |
| 5q loss | 164 (31%) | 358 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.326 (0.477) |
0.774 (0.852) |
0.345 (0.493) |
1e-05 (9.65e-05) |
0.387 (0.536) |
0.00011 (0.000705) |
0.00023 (0.00136) |
0.0776 (0.169) |
| 9p loss | 186 (36%) | 336 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.0825 (0.175) |
0.116 (0.222) |
0.295 (0.447) |
1e-05 (9.65e-05) |
0.0575 (0.136) |
6e-05 (0.000417) |
1e-05 (9.65e-05) |
0.602 (0.738) |
| 9q loss | 87 (17%) | 435 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.467 (0.616) |
0.971 (0.986) |
0.372 (0.521) |
0.0138 (0.0433) |
0.425 (0.571) |
0.00314 (0.0127) |
0.0132 (0.0422) |
0.312 (0.465) |
| 13q loss | 167 (32%) | 355 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.173 (0.297) |
0.827 (0.886) |
0.00028 (0.00161) |
0.00515 (0.0196) |
0.0397 (0.101) |
0.19 (0.317) |
0.108 (0.21) |
0.201 (0.33) |
| 19q loss | 86 (16%) | 436 |
1e-05 (9.65e-05) |
3e-05 (0.000232) |
0.183 (0.308) |
0.517 (0.663) |
0.342 (0.493) |
0.00771 (0.0275) |
0.152 (0.271) |
0.0324 (0.0863) |
0.169 (0.291) |
0.0408 (0.103) |
| xp loss | 134 (26%) | 388 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.218 (0.356) |
0.0134 (0.0426) |
0.103 (0.203) |
0.0432 (0.108) |
0.0211 (0.0616) |
0.441 (0.586) |
0.0785 (0.17) |
0.602 (0.738) |
| 3p gain | 81 (16%) | 441 |
0.196 (0.326) |
0.00023 (0.00136) |
0.343 (0.493) |
0.754 (0.844) |
0.0126 (0.0405) |
0.0371 (0.0963) |
0.128 (0.239) |
0.157 (0.277) |
0.114 (0.219) |
0.0293 (0.0806) |
| 7p gain | 183 (35%) | 339 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
1 (1.00) |
0.505 (0.656) |
0.148 (0.265) |
1e-05 (9.65e-05) |
0.688 (0.793) |
1e-05 (9.65e-05) |
0.125 (0.234) |
0.535 (0.679) |
| 9q gain | 139 (27%) | 383 |
1e-05 (9.65e-05) |
0.00307 (0.0125) |
0.106 (0.206) |
0.256 (0.401) |
0.393 (0.543) |
0.00097 (0.00457) |
0.4 (0.55) |
0.0498 (0.12) |
0.298 (0.452) |
0.438 (0.585) |
| 10p gain | 40 (8%) | 482 |
0.0759 (0.165) |
4e-05 (0.000304) |
0.135 (0.25) |
0.0657 (0.148) |
0.0977 (0.194) |
0.00074 (0.00366) |
0.0445 (0.111) |
0.0169 (0.0514) |
0.56 (0.701) |
0.368 (0.516) |
| 11q gain | 71 (14%) | 451 |
3e-05 (0.000232) |
3e-05 (0.000232) |
0.657 (0.778) |
0.582 (0.722) |
0.124 (0.233) |
0.0789 (0.17) |
0.278 (0.427) |
0.0174 (0.0526) |
0.0175 (0.0527) |
0.0622 (0.145) |
| 16p gain | 107 (20%) | 415 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.648 (0.772) |
0.179 (0.305) |
0.401 (0.55) |
0.0141 (0.0439) |
0.868 (0.918) |
3e-05 (0.000232) |
0.479 (0.627) |
0.539 (0.682) |
| 16q gain | 107 (20%) | 415 |
1e-05 (9.65e-05) |
1e-05 (9.65e-05) |
0.802 (0.871) |
0.815 (0.881) |
0.179 (0.305) |
0.00694 (0.0251) |
0.289 (0.441) |
6e-05 (0.000417) |
0.0882 (0.185) |
0.197 (0.326) |
| 17q gain | 87 (17%) | 435 |
1e-05 (9.65e-05) |
0.00057 (0.00294) |
0.684 (0.793) |
0.677 (0.791) |
0.0886 (0.186) |
0.00133 (0.00609) |
0.418 (0.563) |
0.00365 (0.0144) |
0.0629 (0.146) |
0.0993 (0.197) |
| xq gain | 95 (18%) | 427 |
3e-05 (0.000232) |
5e-05 (0.000363) |
0.885 (0.927) |
1 (1.00) |
0.58 (0.722) |
0.0192 (0.057) |
0.131 (0.242) |
0.515 (0.663) |
0.0249 (0.0699) |
0.138 (0.252) |
| 1q loss | 39 (7%) | 483 |
0.0169 (0.0514) |
0.139 (0.255) |
1 (1.00) |
0.491 (0.642) |
0.0268 (0.0745) |
0.00287 (0.0119) |
0.0946 (0.193) |
0.00086 (0.00415) |
0.411 (0.557) |
0.508 (0.657) |
| 5p loss | 51 (10%) | 471 |
2e-05 (0.000171) |
2e-05 (0.000171) |
0.82 (0.881) |
0.382 (0.531) |
0.567 (0.709) |
0.0121 (0.04) |
0.408 (0.555) |
0.256 (0.401) |
0.0917 (0.191) |
0.0245 (0.069) |
| 11p loss | 141 (27%) | 381 |
1e-05 (9.65e-05) |
0.0002 (0.00121) |
0.853 (0.907) |
0.331 (0.48) |
0.00097 (0.00457) |
0.16 (0.281) |
0.0038 (0.0149) |
0.121 (0.23) |
0.0958 (0.193) |
0.232 (0.374) |
| 11q loss | 172 (33%) | 350 |
1e-05 (9.65e-05) |
2e-05 (0.000171) |
0.747 (0.84) |
0.0798 (0.171) |
0.00037 (0.00202) |
0.00281 (0.0118) |
0.109 (0.211) |
0.43 (0.575) |
0.152 (0.271) |
0.506 (0.656) |
| 18p loss | 104 (20%) | 418 |
0.00154 (0.00694) |
3e-05 (0.000232) |
0.6 (0.737) |
0.328 (0.477) |
0.314 (0.466) |
0.00362 (0.0143) |
0.62 (0.752) |
0.0124 (0.0402) |
0.225 (0.365) |
0.582 (0.722) |
| 1p gain | 70 (13%) | 452 |
7e-05 (0.000478) |
0.00967 (0.033) |
0.414 (0.56) |
0.628 (0.756) |
0.944 (0.967) |
0.73 (0.832) |
0.688 (0.793) |
0.00538 (0.0203) |
0.117 (0.223) |
0.875 (0.92) |
| 5p gain | 201 (39%) | 321 |
1e-05 (9.65e-05) |
0.00221 (0.00949) |
0.399 (0.55) |
0.834 (0.892) |
0.0911 (0.19) |
0.921 (0.949) |
0.575 (0.717) |
0.0324 (0.0863) |
0.837 (0.894) |
0.659 (0.778) |
| 6q gain | 63 (12%) | 459 |
0.00202 (0.00891) |
0.0308 (0.0829) |
0.326 (0.477) |
0.0742 (0.163) |
0.1 (0.198) |
0.0417 (0.105) |
0.24 (0.384) |
0.913 (0.943) |
0.0652 (0.148) |
0.299 (0.453) |
| 12q gain | 89 (17%) | 433 |
2e-05 (0.000171) |
0.00108 (0.005) |
0.549 (0.689) |
0.181 (0.307) |
0.0547 (0.13) |
0.00803 (0.0284) |
0.661 (0.78) |
0.78 (0.856) |
0.448 (0.595) |
0.787 (0.86) |
| 19q gain | 78 (15%) | 444 |
0.374 (0.522) |
0.00041 (0.00216) |
0.624 (0.753) |
0.784 (0.858) |
0.0595 (0.14) |
0.0443 (0.111) |
0.00064 (0.00324) |
0.0806 (0.173) |
0.498 (0.65) |
0.0655 (0.148) |
| 21q gain | 35 (7%) | 487 |
0.064 (0.147) |
0.0406 (0.103) |
0.664 (0.781) |
0.131 (0.242) |
0.00564 (0.0212) |
0.0753 (0.165) |
0.0954 (0.193) |
0.252 (0.397) |
0.00611 (0.0225) |
0.772 (0.852) |
| 2p loss | 33 (6%) | 489 |
0.0279 (0.0772) |
0.0061 (0.0225) |
0.316 (0.468) |
0.0446 (0.111) |
0.0612 (0.143) |
0.0634 (0.146) |
0.0574 (0.136) |
0.673 (0.79) |
0.199 (0.329) |
0.368 (0.516) |
| 6q loss | 68 (13%) | 454 |
0.0453 (0.112) |
0.00345 (0.0137) |
0.738 (0.835) |
0.122 (0.231) |
0.726 (0.83) |
0.755 (0.844) |
0.761 (0.847) |
0.375 (0.522) |
0.766 (0.849) |
0.0214 (0.0619) |
| 7p loss | 29 (6%) | 493 |
0.0296 (0.0811) |
0.00627 (0.023) |
0.915 (0.943) |
0.626 (0.754) |
0.363 (0.513) |
0.0824 (0.175) |
0.257 (0.401) |
0.763 (0.847) |
0.0216 (0.0621) |
0.775 (0.852) |
| 10p loss | 156 (30%) | 366 |
1e-05 (9.65e-05) |
0.00334 (0.0134) |
0.718 (0.823) |
0.231 (0.373) |
0.0662 (0.149) |
0.0657 (0.148) |
0.0654 (0.148) |
0.0929 (0.192) |
0.023 (0.0653) |
0.24 (0.384) |
| 10q loss | 113 (22%) | 409 |
1e-05 (9.65e-05) |
0.00071 (0.00353) |
0.362 (0.512) |
0.302 (0.454) |
0.0692 (0.155) |
0.104 (0.203) |
0.0299 (0.0812) |
0.145 (0.262) |
0.123 (0.231) |
0.166 (0.288) |
| 16p loss | 63 (12%) | 459 |
6e-05 (0.000417) |
0.011 (0.0367) |
0.14 (0.256) |
0.0811 (0.173) |
0.00169 (0.00753) |
0.194 (0.323) |
0.658 (0.778) |
0.631 (0.757) |
0.179 (0.305) |
0.896 (0.934) |
| 20p loss | 47 (9%) | 475 |
1e-05 (9.65e-05) |
0.0265 (0.0741) |
1 (1.00) |
0.775 (0.852) |
0.262 (0.407) |
0.0943 (0.193) |
0.324 (0.476) |
0.0222 (0.0637) |
0.116 (0.222) |
0.0945 (0.193) |
| 4p gain | 41 (8%) | 481 |
0.0229 (0.0652) |
0.00211 (0.0092) |
0.821 (0.882) |
0.356 (0.505) |
0.144 (0.26) |
0.673 (0.79) |
0.0731 (0.161) |
0.644 (0.768) |
0.731 (0.832) |
0.327 (0.477) |
| 6p gain | 83 (16%) | 439 |
0.00019 (0.00115) |
0.00246 (0.0105) |
0.241 (0.384) |
0.741 (0.836) |
0.686 (0.793) |
0.219 (0.358) |
0.605 (0.74) |
0.071 (0.158) |
0.323 (0.476) |
0.662 (0.78) |
| 10q gain | 34 (7%) | 488 |
0.00468 (0.0178) |
0.242 (0.385) |
0.157 (0.277) |
0.404 (0.551) |
0.359 (0.509) |
0.142 (0.257) |
0.877 (0.92) |
0.0365 (0.095) |
0.216 (0.354) |
0.614 (0.748) |
| xp gain | 53 (10%) | 469 |
0.033 (0.0873) |
0.0326 (0.0865) |
0.468 (0.617) |
0.376 (0.523) |
0.616 (0.749) |
0.539 (0.682) |
0.696 (0.8) |
0.631 (0.757) |
0.302 (0.454) |
1 (1.00) |
| 3q loss | 61 (12%) | 461 |
0.00901 (0.031) |
0.228 (0.37) |
0.624 (0.753) |
0.758 (0.845) |
0.628 (0.756) |
0.264 (0.408) |
1 (1.00) |
0.00749 (0.0269) |
0.365 (0.514) |
0.947 (0.967) |
| 6p loss | 68 (13%) | 454 |
0.00041 (0.00216) |
0.00084 (0.00408) |
0.0721 (0.16) |
0.128 (0.239) |
0.0639 (0.147) |
0.12 (0.228) |
0.31 (0.463) |
0.682 (0.793) |
0.74 (0.836) |
0.0748 (0.164) |
| 12q loss | 33 (6%) | 489 |
0.0455 (0.112) |
0.00121 (0.00557) |
0.541 (0.682) |
0.0958 (0.193) |
0.408 (0.555) |
0.964 (0.982) |
1 (1.00) |
0.19 (0.317) |
0.301 (0.454) |
0.216 (0.354) |
| 17p loss | 107 (20%) | 415 |
0.00023 (0.00136) |
0.00102 (0.00475) |
0.936 (0.962) |
0.758 (0.845) |
0.695 (0.8) |
0.162 (0.284) |
0.395 (0.546) |
0.11 (0.212) |
0.345 (0.493) |
0.858 (0.91) |
| 17q loss | 34 (7%) | 488 |
0.0127 (0.0406) |
0.111 (0.213) |
0.242 (0.385) |
0.506 (0.656) |
0.455 (0.602) |
0.0393 (0.101) |
0.742 (0.836) |
0.95 (0.969) |
0.873 (0.92) |
0.541 (0.682) |
| 5q gain | 68 (13%) | 454 |
0.0491 (0.119) |
0.591 (0.731) |
0.336 (0.485) |
0.889 (0.929) |
0.818 (0.881) |
0.624 (0.753) |
0.679 (0.791) |
0.449 (0.596) |
0.858 (0.91) |
0.312 (0.465) |
| 8p gain | 155 (30%) | 367 |
0.0225 (0.0644) |
0.247 (0.391) |
0.807 (0.872) |
0.641 (0.766) |
0.792 (0.864) |
0.904 (0.939) |
0.597 (0.736) |
0.788 (0.86) |
0.454 (0.601) |
0.136 (0.25) |
| 8q loss | 30 (6%) | 492 |
0.0243 (0.0688) |
0.288 (0.44) |
0.319 (0.471) |
0.874 (0.92) |
0.783 (0.858) |
0.658 (0.778) |
0.373 (0.522) |
0.416 (0.561) |
0.651 (0.774) |
0.264 (0.408) |
| 12p loss | 37 (7%) | 485 |
0.729 (0.832) |
0.0487 (0.118) |
0.616 (0.749) |
0.109 (0.211) |
0.909 (0.94) |
0.166 (0.288) |
0.819 (0.881) |
0.804 (0.871) |
0.339 (0.489) |
0.284 (0.436) |
| 15q loss | 103 (20%) | 419 |
1e-05 (9.65e-05) |
0.168 (0.29) |
1 (1.00) |
0.347 (0.495) |
0.0843 (0.179) |
0.136 (0.25) |
0.608 (0.743) |
0.275 (0.424) |
0.0789 (0.17) |
0.94 (0.965) |
| 4q gain | 37 (7%) | 485 |
0.902 (0.938) |
0.199 (0.329) |
1 (1.00) |
0.767 (0.849) |
0.839 (0.894) |
0.478 (0.627) |
1 (1.00) |
0.909 (0.94) |
0.684 (0.793) |
0.737 (0.835) |
| 2q loss | 46 (9%) | 476 |
0.476 (0.627) |
0.216 (0.354) |
0.947 (0.967) |
0.676 (0.791) |
0.527 (0.67) |
0.902 (0.938) |
0.154 (0.274) |
0.687 (0.793) |
0.403 (0.55) |
0.167 (0.288) |
| 7q loss | 40 (8%) | 482 |
0.367 (0.516) |
0.304 (0.456) |
0.574 (0.716) |
1 (1.00) |
0.181 (0.307) |
0.8 (0.871) |
0.102 (0.201) |
0.936 (0.962) |
0.748 (0.84) |
0.287 (0.438) |
P value = 7e-05 (Fisher's exact test), Q value = 0.00048
Table S1. Gene #1: '1p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 1P GAIN MUTATED | 25 | 30 | 11 | 4 |
| 1P GAIN WILD-TYPE | 130 | 105 | 178 | 39 |
Figure S1. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00967 (Fisher's exact test), Q value = 0.033
Table S2. Gene #1: '1p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 1P GAIN MUTATED | 5 | 14 | 22 | 13 | 8 | 5 | 3 |
| 1P GAIN WILD-TYPE | 79 | 65 | 74 | 79 | 70 | 70 | 15 |
Figure S2. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00538 (Fisher's exact test), Q value = 0.02
Table S3. Gene #1: '1p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 1P GAIN MUTATED | 26 | 29 | 15 |
| 1P GAIN WILD-TYPE | 164 | 113 | 171 |
Figure S3. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S4. Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 1Q GAIN MUTATED | 36 | 57 | 21 | 7 |
| 1Q GAIN WILD-TYPE | 119 | 78 | 168 | 36 |
Figure S4. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S5. Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 1Q GAIN MUTATED | 7 | 27 | 25 | 38 | 15 | 5 | 4 |
| 1Q GAIN WILD-TYPE | 77 | 52 | 71 | 54 | 63 | 70 | 14 |
Figure S5. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.00048
Table S6. Gene #2: '1q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 1Q GAIN MUTATED | 25 | 70 | 25 |
| 1Q GAIN WILD-TYPE | 116 | 142 | 136 |
Figure S6. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00067 (Fisher's exact test), Q value = 0.0034
Table S7. Gene #2: '1q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 1Q GAIN MUTATED | 31 | 40 | 35 | 14 |
| 1Q GAIN WILD-TYPE | 145 | 63 | 135 | 51 |
Figure S7. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00026 (Fisher's exact test), Q value = 0.0015
Table S8. Gene #2: '1q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 1Q GAIN MUTATED | 70 | 22 | 29 |
| 1Q GAIN WILD-TYPE | 151 | 130 | 116 |
Figure S8. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.0017
Table S9. Gene #2: '1q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 1Q GAIN MUTATED | 36 | 51 | 34 |
| 1Q GAIN WILD-TYPE | 154 | 91 | 152 |
Figure S9. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0121 (Fisher's exact test), Q value = 0.04
Table S10. Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 1Q GAIN MUTATED | 22 | 22 | 33 | 26 | 9 |
| 1Q GAIN WILD-TYPE | 50 | 118 | 65 | 90 | 38 |
Figure S10. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S11. Gene #3: '2p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 2P GAIN MUTATED | 34 | 51 | 9 | 3 |
| 2P GAIN WILD-TYPE | 121 | 84 | 180 | 40 |
Figure S11. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S12. Gene #3: '2p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 2P GAIN MUTATED | 5 | 30 | 18 | 35 | 3 | 5 | 1 |
| 2P GAIN WILD-TYPE | 79 | 49 | 78 | 57 | 75 | 70 | 17 |
Figure S12. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0342 (Fisher's exact test), Q value = 0.09
Table S13. Gene #3: '2p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 2P GAIN MUTATED | 30 | 47 | 20 |
| 2P GAIN WILD-TYPE | 111 | 165 | 141 |
Figure S13. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S14. Gene #3: '2p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 2P GAIN MUTATED | 34 | 36 | 24 | 3 |
| 2P GAIN WILD-TYPE | 142 | 67 | 146 | 62 |
Figure S14. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0211 (Fisher's exact test), Q value = 0.062
Table S15. Gene #3: '2p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 2P GAIN MUTATED | 51 | 18 | 27 |
| 2P GAIN WILD-TYPE | 170 | 134 | 118 |
Figure S15. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0197 (Fisher's exact test), Q value = 0.058
Table S16. Gene #3: '2p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 2P GAIN MUTATED | 33 | 37 | 26 |
| 2P GAIN WILD-TYPE | 157 | 105 | 160 |
Figure S16. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0022 (Fisher's exact test), Q value = 0.0095
Table S17. Gene #3: '2p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 2P GAIN MUTATED | 17 | 19 | 27 | 24 | 2 |
| 2P GAIN WILD-TYPE | 55 | 121 | 71 | 92 | 45 |
Figure S17. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S18. Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 2Q GAIN MUTATED | 22 | 43 | 7 | 2 |
| 2Q GAIN WILD-TYPE | 133 | 92 | 182 | 41 |
Figure S18. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S19. Gene #4: '2q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 2Q GAIN MUTATED | 3 | 25 | 15 | 26 | 1 | 2 | 2 |
| 2Q GAIN WILD-TYPE | 81 | 54 | 81 | 66 | 77 | 73 | 16 |
Figure S19. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S20. Gene #4: '2q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 2Q GAIN MUTATED | 30 | 28 | 15 | 1 |
| 2Q GAIN WILD-TYPE | 146 | 75 | 155 | 64 |
Figure S20. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0164 (Fisher's exact test), Q value = 0.05
Table S21. Gene #4: '2q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 2Q GAIN MUTATED | 15 | 17 | 19 | 16 | 1 |
| 2Q GAIN WILD-TYPE | 57 | 123 | 79 | 100 | 46 |
Figure S21. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0397 (Fisher's exact test), Q value = 0.1
Table S22. Gene #4: '2q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 2Q GAIN MUTATED | 29 | 30 | 9 |
| 2Q GAIN WILD-TYPE | 111 | 214 | 80 |
Figure S22. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00023 (Fisher's exact test), Q value = 0.0014
Table S23. Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 3P GAIN MUTATED | 13 | 11 | 11 | 15 | 26 | 4 | 1 |
| 3P GAIN WILD-TYPE | 71 | 68 | 85 | 77 | 52 | 71 | 17 |
Figure S23. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0126 (Fisher's exact test), Q value = 0.04
Table S24. Gene #5: '3p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 3P GAIN MUTATED | 18 | 45 | 17 |
| 3P GAIN WILD-TYPE | 123 | 167 | 144 |
Figure S24. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0371 (Fisher's exact test), Q value = 0.096
Table S25. Gene #5: '3p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 3P GAIN MUTATED | 21 | 16 | 25 | 18 |
| 3P GAIN WILD-TYPE | 155 | 87 | 145 | 47 |
Figure S25. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0293 (Fisher's exact test), Q value = 0.081
Table S26. Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 3P GAIN MUTATED | 21 | 44 | 6 |
| 3P GAIN WILD-TYPE | 119 | 200 | 83 |
Figure S26. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00012 (Fisher's exact test), Q value = 0.00076
Table S27. Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 3Q GAIN MUTATED | 82 | 82 | 67 | 23 |
| 3Q GAIN WILD-TYPE | 73 | 53 | 122 | 20 |
Figure S27. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S28. Gene #6: '3q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 3Q GAIN MUTATED | 32 | 46 | 51 | 54 | 46 | 15 | 10 |
| 3Q GAIN WILD-TYPE | 52 | 33 | 45 | 38 | 32 | 60 | 8 |
Figure S28. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00029 (Fisher's exact test), Q value = 0.0017
Table S29. Gene #6: '3q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 3Q GAIN MUTATED | 73 | 120 | 58 |
| 3Q GAIN WILD-TYPE | 68 | 92 | 103 |
Figure S29. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00886 (Fisher's exact test), Q value = 0.031
Table S30. Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 3Q GAIN MUTATED | 123 | 60 | 70 |
| 3Q GAIN WILD-TYPE | 98 | 92 | 75 |
Figure S30. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0212 (Fisher's exact test), Q value = 0.062
Table S31. Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 3Q GAIN MUTATED | 40 | 51 | 54 | 51 | 23 |
| 3Q GAIN WILD-TYPE | 32 | 89 | 44 | 65 | 24 |
Figure S31. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0229 (Fisher's exact test), Q value = 0.065
Table S32. Gene #7: '4p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 4P GAIN MUTATED | 21 | 8 | 9 | 3 |
| 4P GAIN WILD-TYPE | 134 | 127 | 180 | 40 |
Figure S32. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00211 (Fisher's exact test), Q value = 0.0092
Table S33. Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 4P GAIN MUTATED | 2 | 7 | 18 | 7 | 4 | 2 | 1 |
| 4P GAIN WILD-TYPE | 82 | 72 | 78 | 85 | 74 | 73 | 17 |
Figure S33. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S34. Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 5P GAIN MUTATED | 80 | 67 | 39 | 15 |
| 5P GAIN WILD-TYPE | 75 | 68 | 150 | 28 |
Figure S34. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00221 (Fisher's exact test), Q value = 0.0095
Table S35. Gene #9: '5p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 5P GAIN MUTATED | 25 | 34 | 46 | 41 | 29 | 16 | 10 |
| 5P GAIN WILD-TYPE | 59 | 45 | 50 | 51 | 49 | 59 | 8 |
Figure S35. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0324 (Fisher's exact test), Q value = 0.086
Table S36. Gene #9: '5p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 5P GAIN MUTATED | 72 | 66 | 60 |
| 5P GAIN WILD-TYPE | 118 | 76 | 126 |
Figure S36. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0491 (Fisher's exact test), Q value = 0.12
Table S37. Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 5Q GAIN MUTATED | 25 | 20 | 15 | 8 |
| 5Q GAIN WILD-TYPE | 130 | 115 | 174 | 35 |
Figure S37. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00019 (Fisher's exact test), Q value = 0.0012
Table S38. Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 6P GAIN MUTATED | 35 | 24 | 14 | 10 |
| 6P GAIN WILD-TYPE | 120 | 111 | 175 | 33 |
Figure S38. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00246 (Fisher's exact test), Q value = 0.01
Table S39. Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 6P GAIN MUTATED | 7 | 20 | 24 | 15 | 6 | 8 | 3 |
| 6P GAIN WILD-TYPE | 77 | 59 | 72 | 77 | 72 | 67 | 15 |
Figure S39. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00202 (Fisher's exact test), Q value = 0.0089
Table S40. Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 6Q GAIN MUTATED | 26 | 17 | 11 | 9 |
| 6Q GAIN WILD-TYPE | 129 | 118 | 178 | 34 |
Figure S40. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0308 (Fisher's exact test), Q value = 0.083
Table S41. Gene #12: '6q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 6Q GAIN MUTATED | 6 | 12 | 19 | 12 | 3 | 9 | 2 |
| 6Q GAIN WILD-TYPE | 78 | 67 | 77 | 80 | 75 | 66 | 16 |
Figure S41. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0417 (Fisher's exact test), Q value = 0.11
Table S42. Gene #12: '6q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 6Q GAIN MUTATED | 20 | 13 | 27 | 2 |
| 6Q GAIN WILD-TYPE | 156 | 90 | 143 | 63 |
Figure S42. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S43. Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 7P GAIN MUTATED | 69 | 64 | 34 | 16 |
| 7P GAIN WILD-TYPE | 86 | 71 | 155 | 27 |
Figure S43. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S44. Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 7P GAIN MUTATED | 22 | 34 | 42 | 51 | 5 | 22 | 7 |
| 7P GAIN WILD-TYPE | 62 | 45 | 54 | 41 | 73 | 53 | 11 |
Figure S44. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S45. Gene #13: '7p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 7P GAIN MUTATED | 60 | 47 | 68 | 5 |
| 7P GAIN WILD-TYPE | 116 | 56 | 102 | 60 |
Figure S45. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S46. Gene #13: '7p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 7P GAIN MUTATED | 67 | 70 | 43 |
| 7P GAIN WILD-TYPE | 123 | 72 | 143 |
Figure S46. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S47. Gene #14: '7q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 7Q GAIN MUTATED | 36 | 58 | 21 | 14 |
| 7Q GAIN WILD-TYPE | 119 | 77 | 168 | 29 |
Figure S47. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S48. Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 7Q GAIN MUTATED | 10 | 27 | 25 | 46 | 5 | 12 | 4 |
| 7Q GAIN WILD-TYPE | 74 | 52 | 71 | 46 | 73 | 63 | 14 |
Figure S48. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00038 (Fisher's exact test), Q value = 0.002
Table S49. Gene #14: '7q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 7Q GAIN MUTATED | 38 | 38 | 45 | 6 |
| 7Q GAIN WILD-TYPE | 138 | 65 | 125 | 59 |
Figure S49. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0133 (Fisher's exact test), Q value = 0.042
Table S50. Gene #14: '7q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 7Q GAIN MUTATED | 69 | 29 | 30 |
| 7Q GAIN WILD-TYPE | 152 | 123 | 115 |
Figure S50. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00018 (Fisher's exact test), Q value = 0.0011
Table S51. Gene #14: '7q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 7Q GAIN MUTATED | 46 | 52 | 30 |
| 7Q GAIN WILD-TYPE | 144 | 90 | 156 |
Figure S51. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0225 (Fisher's exact test), Q value = 0.064
Table S52. Gene #15: '8p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 8P GAIN MUTATED | 41 | 51 | 46 | 17 |
| 8P GAIN WILD-TYPE | 114 | 84 | 143 | 26 |
Figure S52. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S53. Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 8Q GAIN MUTATED | 108 | 82 | 88 | 32 |
| 8Q GAIN WILD-TYPE | 47 | 53 | 101 | 11 |
Figure S53. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S54. Gene #16: '8q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 8Q GAIN MUTATED | 57 | 42 | 73 | 55 | 30 | 39 | 14 |
| 8Q GAIN WILD-TYPE | 27 | 37 | 23 | 37 | 48 | 36 | 4 |
Figure S54. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S55. Gene #16: '8q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 8Q GAIN MUTATED | 117 | 55 | 111 | 23 |
| 8Q GAIN WILD-TYPE | 59 | 48 | 59 | 42 |
Figure S55. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0105 (Fisher's exact test), Q value = 0.036
Table S56. Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 8Q GAIN MUTATED | 127 | 85 | 96 |
| 8Q GAIN WILD-TYPE | 63 | 57 | 90 |
Figure S56. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0402 (Fisher's exact test), Q value = 0.1
Table S57. Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 8Q GAIN MUTATED | 45 | 91 | 52 | 74 | 20 |
| 8Q GAIN WILD-TYPE | 27 | 49 | 46 | 42 | 27 |
Figure S57. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S58. Gene #17: '9p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 9P GAIN MUTATED | 19 | 17 | 31 | 35 |
| 9P GAIN WILD-TYPE | 136 | 118 | 158 | 8 |
Figure S58. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S59. Gene #17: '9p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 9P GAIN MUTATED | 12 | 6 | 16 | 18 | 13 | 34 | 3 |
| 9P GAIN WILD-TYPE | 72 | 73 | 80 | 74 | 65 | 41 | 15 |
Figure S59. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.004 (Fisher's exact test), Q value = 0.016
Table S60. Gene #17: '9p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 9P GAIN MUTATED | 25 | 29 | 44 |
| 9P GAIN WILD-TYPE | 116 | 183 | 117 |
Figure S60. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 7e-04 (Fisher's exact test), Q value = 0.0035
Table S61. Gene #17: '9p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 9P GAIN MUTATED | 31 | 16 | 47 | 4 |
| 9P GAIN WILD-TYPE | 145 | 87 | 123 | 61 |
Figure S61. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00759 (Fisher's exact test), Q value = 0.027
Table S62. Gene #17: '9p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 9P GAIN MUTATED | 34 | 43 | 25 |
| 9P GAIN WILD-TYPE | 187 | 109 | 120 |
Figure S62. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00895 (Fisher's exact test), Q value = 0.031
Table S63. Gene #17: '9p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 9P GAIN MUTATED | 38 | 17 | 47 |
| 9P GAIN WILD-TYPE | 152 | 125 | 139 |
Figure S63. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00013 (Fisher's exact test), Q value = 0.00082
Table S64. Gene #17: '9p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 9P GAIN MUTATED | 8 | 43 | 9 | 29 | 8 |
| 9P GAIN WILD-TYPE | 64 | 97 | 89 | 87 | 39 |
Figure S64. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S65. Gene #18: '9q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 9Q GAIN MUTATED | 30 | 36 | 37 | 36 |
| 9Q GAIN WILD-TYPE | 125 | 99 | 152 | 7 |
Figure S65. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00307 (Fisher's exact test), Q value = 0.013
Table S66. Gene #18: '9q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 9Q GAIN MUTATED | 17 | 17 | 24 | 24 | 17 | 36 | 4 |
| 9Q GAIN WILD-TYPE | 67 | 62 | 72 | 68 | 61 | 39 | 14 |
Figure S66. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00097 (Fisher's exact test), Q value = 0.0046
Table S67. Gene #18: '9q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 9Q GAIN MUTATED | 44 | 25 | 60 | 7 |
| 9Q GAIN WILD-TYPE | 132 | 78 | 110 | 58 |
Figure S67. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0498 (Fisher's exact test), Q value = 0.12
Table S68. Gene #18: '9q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 9Q GAIN MUTATED | 52 | 28 | 59 |
| 9Q GAIN WILD-TYPE | 138 | 114 | 127 |
Figure S68. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 4e-05 (Fisher's exact test), Q value = 3e-04
Table S69. Gene #19: '10p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 10P GAIN MUTATED | 2 | 18 | 3 | 7 | 5 | 2 | 3 |
| 10P GAIN WILD-TYPE | 82 | 61 | 93 | 85 | 73 | 73 | 15 |
Figure S69. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00074 (Fisher's exact test), Q value = 0.0037
Table S70. Gene #19: '10p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 10P GAIN MUTATED | 8 | 19 | 10 | 3 |
| 10P GAIN WILD-TYPE | 168 | 84 | 160 | 62 |
Figure S70. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0445 (Fisher's exact test), Q value = 0.11
Table S71. Gene #19: '10p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 10P GAIN MUTATED | 23 | 11 | 5 |
| 10P GAIN WILD-TYPE | 198 | 141 | 140 |
Figure S71. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0169 (Fisher's exact test), Q value = 0.051
Table S72. Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 10P GAIN MUTATED | 8 | 18 | 13 |
| 10P GAIN WILD-TYPE | 182 | 124 | 173 |
Figure S72. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00468 (Fisher's exact test), Q value = 0.018
Table S73. Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 10Q GAIN MUTATED | 11 | 14 | 4 | 5 |
| 10Q GAIN WILD-TYPE | 144 | 121 | 185 | 38 |
Figure S73. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0365 (Fisher's exact test), Q value = 0.095
Table S74. Gene #20: '10q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 10Q GAIN MUTATED | 14 | 14 | 6 |
| 10Q GAIN WILD-TYPE | 176 | 128 | 180 |
Figure S74. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 8e-05 (Fisher's exact test), Q value = 0.00054
Table S75. Gene #21: '11p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 11P GAIN MUTATED | 34 | 10 | 14 | 8 |
| 11P GAIN WILD-TYPE | 121 | 125 | 175 | 35 |
Figure S75. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S76. Gene #21: '11p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 11P GAIN MUTATED | 3 | 4 | 26 | 13 | 5 | 11 | 4 |
| 11P GAIN WILD-TYPE | 81 | 75 | 70 | 79 | 73 | 64 | 14 |
Figure S76. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0453 (Fisher's exact test), Q value = 0.11
Table S77. Gene #21: '11p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 11P GAIN MUTATED | 20 | 27 | 17 |
| 11P GAIN WILD-TYPE | 201 | 125 | 128 |
Figure S77. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00336 (Fisher's exact test), Q value = 0.013
Table S78. Gene #21: '11p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 11P GAIN MUTATED | 4 | 27 | 6 | 19 | 3 |
| 11P GAIN WILD-TYPE | 68 | 113 | 92 | 97 | 44 |
Figure S78. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00883 (Fisher's exact test), Q value = 0.031
Table S79. Gene #21: '11p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 11P GAIN MUTATED | 12 | 27 | 20 |
| 11P GAIN WILD-TYPE | 128 | 217 | 69 |
Figure S79. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S80. Gene #22: '11q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 11Q GAIN MUTATED | 37 | 16 | 13 | 5 |
| 11Q GAIN WILD-TYPE | 118 | 119 | 176 | 38 |
Figure S80. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S81. Gene #22: '11q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 11Q GAIN MUTATED | 4 | 12 | 24 | 14 | 2 | 10 | 5 |
| 11Q GAIN WILD-TYPE | 80 | 67 | 72 | 78 | 76 | 65 | 13 |
Figure S81. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0174 (Fisher's exact test), Q value = 0.053
Table S82. Gene #22: '11q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 11Q GAIN MUTATED | 28 | 26 | 15 |
| 11Q GAIN WILD-TYPE | 162 | 116 | 171 |
Figure S82. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0175 (Fisher's exact test), Q value = 0.053
Table S83. Gene #22: '11q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 11Q GAIN MUTATED | 6 | 25 | 9 | 22 | 2 |
| 11Q GAIN WILD-TYPE | 66 | 115 | 89 | 94 | 45 |
Figure S83. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S84. Gene #23: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 12P GAIN MUTATED | 53 | 61 | 20 | 14 |
| 12P GAIN WILD-TYPE | 102 | 74 | 169 | 29 |
Figure S84. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S85. Gene #23: '12p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 12P GAIN MUTATED | 12 | 34 | 28 | 43 | 18 | 10 | 3 |
| 12P GAIN WILD-TYPE | 72 | 45 | 68 | 49 | 60 | 65 | 15 |
Figure S85. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0136 (Fisher's exact test), Q value = 0.043
Table S86. Gene #23: '12p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 12P GAIN MUTATED | 39 | 74 | 34 |
| 12P GAIN WILD-TYPE | 102 | 138 | 127 |
Figure S86. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 6e-04
Table S87. Gene #23: '12p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 12P GAIN MUTATED | 50 | 48 | 35 | 14 |
| 12P GAIN WILD-TYPE | 126 | 55 | 135 | 51 |
Figure S87. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0125 (Fisher's exact test), Q value = 0.04
Table S88. Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 12P GAIN MUTATED | 76 | 31 | 40 |
| 12P GAIN WILD-TYPE | 145 | 121 | 105 |
Figure S88. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0379 (Fisher's exact test), Q value = 0.098
Table S89. Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 12P GAIN MUTATED | 23 | 37 | 39 | 27 | 9 |
| 12P GAIN WILD-TYPE | 49 | 103 | 59 | 89 | 38 |
Figure S89. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S90. Gene #24: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 12Q GAIN MUTATED | 29 | 35 | 13 | 12 |
| 12Q GAIN WILD-TYPE | 126 | 100 | 176 | 31 |
Figure S90. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00108 (Fisher's exact test), Q value = 0.005
Table S91. Gene #24: '12q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 12Q GAIN MUTATED | 5 | 22 | 20 | 20 | 14 | 6 | 2 |
| 12Q GAIN WILD-TYPE | 79 | 57 | 76 | 72 | 64 | 69 | 16 |
Figure S91. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00803 (Fisher's exact test), Q value = 0.028
Table S92. Gene #24: '12q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 12Q GAIN MUTATED | 29 | 29 | 20 | 10 |
| 12Q GAIN WILD-TYPE | 147 | 74 | 150 | 55 |
Figure S92. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S93. Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 13Q GAIN MUTATED | 35 | 12 | 8 | 2 |
| 13Q GAIN WILD-TYPE | 120 | 123 | 181 | 41 |
Figure S93. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00259 (Fisher's exact test), Q value = 0.011
Table S94. Gene #25: '13q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 13Q GAIN MUTATED | 5 | 11 | 17 | 10 | 4 | 4 | 6 |
| 13Q GAIN WILD-TYPE | 79 | 68 | 79 | 82 | 74 | 71 | 12 |
Figure S94. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00102 (Fisher's exact test), Q value = 0.0048
Table S95. Gene #25: '13q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 13Q GAIN MUTATED | 22 | 11 | 23 |
| 13Q GAIN WILD-TYPE | 119 | 201 | 138 |
Figure S95. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00575 (Fisher's exact test), Q value = 0.022
Table S96. Gene #25: '13q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 13Q GAIN MUTATED | 28 | 12 | 15 | 1 |
| 13Q GAIN WILD-TYPE | 148 | 91 | 155 | 64 |
Figure S96. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0266 (Fisher's exact test), Q value = 0.074
Table S97. Gene #25: '13q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 13Q GAIN MUTATED | 6 | 18 | 4 | 18 | 2 |
| 13Q GAIN WILD-TYPE | 66 | 122 | 94 | 98 | 45 |
Figure S97. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0152 (Fisher's exact test), Q value = 0.047
Table S98. Gene #25: '13q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 13Q GAIN MUTATED | 23 | 17 | 8 |
| 13Q GAIN WILD-TYPE | 117 | 227 | 81 |
Figure S98. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S99. Gene #26: '14q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 14Q GAIN MUTATED | 73 | 42 | 19 | 17 |
| 14Q GAIN WILD-TYPE | 82 | 93 | 170 | 26 |
Figure S99. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S100. Gene #26: '14q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 14Q GAIN MUTATED | 21 | 26 | 40 | 35 | 4 | 19 | 6 |
| 14Q GAIN WILD-TYPE | 63 | 53 | 56 | 57 | 74 | 56 | 12 |
Figure S100. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00997 (Fisher's exact test), Q value = 0.034
Table S101. Gene #26: '14q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 14Q GAIN MUTATED | 50 | 46 | 52 |
| 14Q GAIN WILD-TYPE | 91 | 166 | 109 |
Figure S101. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S102. Gene #26: '14q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 14Q GAIN MUTATED | 59 | 36 | 51 | 2 |
| 14Q GAIN WILD-TYPE | 117 | 67 | 119 | 63 |
Figure S102. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00643 (Fisher's exact test), Q value = 0.023
Table S103. Gene #26: '14q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 14Q GAIN MUTATED | 50 | 45 | 55 |
| 14Q GAIN WILD-TYPE | 171 | 107 | 90 |
Figure S103. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00037 (Fisher's exact test), Q value = 0.002
Table S104. Gene #26: '14q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 14Q GAIN MUTATED | 69 | 46 | 35 |
| 14Q GAIN WILD-TYPE | 121 | 96 | 151 |
Figure S104. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S105. Gene #26: '14q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 14Q GAIN MUTATED | 22 | 52 | 18 | 45 | 4 |
| 14Q GAIN WILD-TYPE | 50 | 88 | 80 | 71 | 43 |
Figure S105. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00037 (Fisher's exact test), Q value = 0.002
Table S106. Gene #26: '14q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 14Q GAIN MUTATED | 50 | 54 | 37 |
| 14Q GAIN WILD-TYPE | 90 | 190 | 52 |
Figure S106. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 9e-05 (Fisher's exact test), Q value = 6e-04
Table S107. Gene #27: '15q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 15Q GAIN MUTATED | 29 | 28 | 11 | 4 |
| 15Q GAIN WILD-TYPE | 126 | 107 | 178 | 39 |
Figure S107. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00644 (Fisher's exact test), Q value = 0.023
Table S108. Gene #27: '15q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 15Q GAIN MUTATED | 6 | 15 | 20 | 13 | 3 | 12 | 3 |
| 15Q GAIN WILD-TYPE | 78 | 64 | 76 | 79 | 75 | 63 | 15 |
Figure S108. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.035 (Fisher's exact test), Q value = 0.092
Table S109. Gene #27: '15q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 15Q GAIN MUTATED | 21 | 19 | 28 | 3 |
| 15Q GAIN WILD-TYPE | 155 | 84 | 142 | 62 |
Figure S109. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0058 (Fisher's exact test), Q value = 0.022
Table S110. Gene #27: '15q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 15Q GAIN MUTATED | 23 | 31 | 18 |
| 15Q GAIN WILD-TYPE | 167 | 111 | 168 |
Figure S110. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.036 (Fisher's exact test), Q value = 0.094
Table S111. Gene #27: '15q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 15Q GAIN MUTATED | 7 | 18 | 13 | 25 | 2 |
| 15Q GAIN WILD-TYPE | 65 | 122 | 85 | 91 | 45 |
Figure S111. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S112. Gene #28: '16p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 16P GAIN MUTATED | 52 | 34 | 14 | 7 |
| 16P GAIN WILD-TYPE | 103 | 101 | 175 | 36 |
Figure S112. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S113. Gene #28: '16p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 16P GAIN MUTATED | 13 | 32 | 29 | 18 | 7 | 3 | 5 |
| 16P GAIN WILD-TYPE | 71 | 47 | 67 | 74 | 71 | 72 | 13 |
Figure S113. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0141 (Fisher's exact test), Q value = 0.044
Table S114. Gene #28: '16p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 16P GAIN MUTATED | 39 | 28 | 34 | 5 |
| 16P GAIN WILD-TYPE | 137 | 75 | 136 | 60 |
Figure S114. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S115. Gene #28: '16p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 16P GAIN MUTATED | 42 | 44 | 20 |
| 16P GAIN WILD-TYPE | 148 | 98 | 166 |
Figure S115. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S116. Gene #29: '16q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 16Q GAIN MUTATED | 56 | 32 | 14 | 5 |
| 16Q GAIN WILD-TYPE | 99 | 103 | 175 | 38 |
Figure S116. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S117. Gene #29: '16q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 16Q GAIN MUTATED | 13 | 26 | 32 | 20 | 7 | 5 | 4 |
| 16Q GAIN WILD-TYPE | 71 | 53 | 64 | 72 | 71 | 70 | 14 |
Figure S117. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00694 (Fisher's exact test), Q value = 0.025
Table S118. Gene #29: '16q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 16Q GAIN MUTATED | 44 | 23 | 34 | 4 |
| 16Q GAIN WILD-TYPE | 132 | 80 | 136 | 61 |
Figure S118. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 6e-05 (Fisher's exact test), Q value = 0.00042
Table S119. Gene #29: '16q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 16Q GAIN MUTATED | 48 | 39 | 19 |
| 16Q GAIN WILD-TYPE | 142 | 103 | 167 |
Figure S119. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S120. Gene #30: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 17P GAIN MUTATED | 21 | 33 | 7 | 6 |
| 17P GAIN WILD-TYPE | 134 | 102 | 182 | 37 |
Figure S120. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-04 (Fisher's exact test), Q value = 0.00065
Table S121. Gene #30: '17p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 17P GAIN MUTATED | 7 | 13 | 13 | 26 | 3 | 4 | 1 |
| 17P GAIN WILD-TYPE | 77 | 66 | 83 | 66 | 75 | 71 | 17 |
Figure S121. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0021 (Fisher's exact test), Q value = 0.0092
Table S122. Gene #30: '17p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 17P GAIN MUTATED | 23 | 34 | 9 |
| 17P GAIN WILD-TYPE | 118 | 178 | 152 |
Figure S122. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00326 (Fisher's exact test), Q value = 0.013
Table S123. Gene #30: '17p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 17P GAIN MUTATED | 25 | 23 | 14 | 4 |
| 17P GAIN WILD-TYPE | 151 | 80 | 156 | 61 |
Figure S123. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0463 (Fisher's exact test), Q value = 0.11
Table S124. Gene #30: '17p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 17P GAIN MUTATED | 31 | 19 | 15 |
| 17P GAIN WILD-TYPE | 159 | 123 | 171 |
Figure S124. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S125. Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 17Q GAIN MUTATED | 24 | 41 | 13 | 9 |
| 17Q GAIN WILD-TYPE | 131 | 94 | 176 | 34 |
Figure S125. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00057 (Fisher's exact test), Q value = 0.0029
Table S126. Gene #31: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 17Q GAIN MUTATED | 9 | 21 | 19 | 24 | 6 | 6 | 2 |
| 17Q GAIN WILD-TYPE | 75 | 58 | 77 | 68 | 72 | 69 | 16 |
Figure S126. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00133 (Fisher's exact test), Q value = 0.0061
Table S127. Gene #31: '17q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 17Q GAIN MUTATED | 27 | 31 | 21 | 7 |
| 17Q GAIN WILD-TYPE | 149 | 72 | 149 | 58 |
Figure S127. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00365 (Fisher's exact test), Q value = 0.014
Table S128. Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 17Q GAIN MUTATED | 33 | 34 | 19 |
| 17Q GAIN WILD-TYPE | 157 | 108 | 167 |
Figure S128. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S129. Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 18P GAIN MUTATED | 49 | 48 | 18 | 8 |
| 18P GAIN WILD-TYPE | 106 | 87 | 171 | 35 |
Figure S129. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S130. Gene #32: '18p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 18P GAIN MUTATED | 7 | 35 | 25 | 27 | 18 | 8 | 3 |
| 18P GAIN WILD-TYPE | 77 | 44 | 71 | 65 | 60 | 67 | 15 |
Figure S130. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S131. Gene #32: '18p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 18P GAIN MUTATED | 38 | 42 | 27 | 14 |
| 18P GAIN WILD-TYPE | 138 | 61 | 143 | 51 |
Figure S131. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0151 (Fisher's exact test), Q value = 0.047
Table S132. Gene #32: '18p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 18P GAIN MUTATED | 42 | 46 | 35 |
| 18P GAIN WILD-TYPE | 148 | 96 | 151 |
Figure S132. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00082 (Fisher's exact test), Q value = 0.004
Table S133. Gene #32: '18p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 18P GAIN MUTATED | 19 | 24 | 37 | 25 | 5 |
| 18P GAIN WILD-TYPE | 53 | 116 | 61 | 91 | 42 |
Figure S133. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0015 (Fisher's exact test), Q value = 0.0068
Table S134. Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 18Q GAIN MUTATED | 7 | 25 | 17 | 4 |
| 18Q GAIN WILD-TYPE | 148 | 110 | 172 | 39 |
Figure S134. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S135. Gene #33: '18q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 18Q GAIN MUTATED | 1 | 14 | 5 | 11 | 18 | 3 | 1 |
| 18Q GAIN WILD-TYPE | 83 | 65 | 91 | 81 | 60 | 72 | 17 |
Figure S135. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.0017
Table S136. Gene #33: '18q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 18Q GAIN MUTATED | 13 | 34 | 6 |
| 18Q GAIN WILD-TYPE | 128 | 178 | 155 |
Figure S136. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00017 (Fisher's exact test), Q value = 0.001
Table S137. Gene #33: '18q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 18Q GAIN MUTATED | 12 | 18 | 9 | 14 |
| 18Q GAIN WILD-TYPE | 164 | 85 | 161 | 51 |
Figure S137. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S138. Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 18Q GAIN MUTATED | 37 | 4 | 12 |
| 18Q GAIN WILD-TYPE | 184 | 148 | 133 |
Figure S138. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S139. Gene #33: '18q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 18Q GAIN MUTATED | 8 | 4 | 21 | 7 | 6 |
| 18Q GAIN WILD-TYPE | 64 | 136 | 77 | 109 | 41 |
Figure S139. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0135 (Fisher's exact test), Q value = 0.043
Table S140. Gene #34: '19p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 19P GAIN MUTATED | 12 | 24 | 14 | 6 |
| 19P GAIN WILD-TYPE | 143 | 111 | 175 | 37 |
Figure S140. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S141. Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 19P GAIN MUTATED | 2 | 7 | 5 | 21 | 17 | 3 | 1 |
| 19P GAIN WILD-TYPE | 82 | 72 | 91 | 71 | 61 | 72 | 17 |
Figure S141. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0202 (Fisher's exact test), Q value = 0.059
Table S142. Gene #34: '19p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 19P GAIN MUTATED | 11 | 32 | 11 |
| 19P GAIN WILD-TYPE | 130 | 180 | 150 |
Figure S142. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0152 (Fisher's exact test), Q value = 0.047
Table S143. Gene #34: '19p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 19P GAIN MUTATED | 12 | 16 | 14 | 12 |
| 19P GAIN WILD-TYPE | 164 | 87 | 156 | 53 |
Figure S143. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00039 (Fisher's exact test), Q value = 0.0021
Table S144. Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 19P GAIN MUTATED | 38 | 10 | 8 |
| 19P GAIN WILD-TYPE | 183 | 142 | 137 |
Figure S144. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00041 (Fisher's exact test), Q value = 0.0022
Table S145. Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 19Q GAIN MUTATED | 4 | 12 | 11 | 23 | 20 | 6 | 2 |
| 19Q GAIN WILD-TYPE | 80 | 67 | 85 | 69 | 58 | 69 | 16 |
Figure S145. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0443 (Fisher's exact test), Q value = 0.11
Table S146. Gene #35: '19q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 19Q GAIN MUTATED | 18 | 22 | 23 | 13 |
| 19Q GAIN WILD-TYPE | 158 | 81 | 147 | 52 |
Figure S146. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00064 (Fisher's exact test), Q value = 0.0032
Table S147. Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 19Q GAIN MUTATED | 49 | 15 | 14 |
| 19Q GAIN WILD-TYPE | 172 | 137 | 131 |
Figure S147. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S148. Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 20P GAIN MUTATED | 80 | 49 | 44 | 17 |
| 20P GAIN WILD-TYPE | 75 | 86 | 145 | 26 |
Figure S148. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00042
Table S149. Gene #36: '20p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 20P GAIN MUTATED | 26 | 27 | 54 | 40 | 19 | 17 | 7 |
| 20P GAIN WILD-TYPE | 58 | 52 | 42 | 52 | 59 | 58 | 11 |
Figure S149. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00455 (Fisher's exact test), Q value = 0.018
Table S150. Gene #36: '20p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 20P GAIN MUTATED | 78 | 34 | 61 | 13 |
| 20P GAIN WILD-TYPE | 98 | 69 | 109 | 52 |
Figure S150. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0123 (Fisher's exact test), Q value = 0.04
Table S151. Gene #36: '20p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 20P GAIN MUTATED | 83 | 53 | 54 |
| 20P GAIN WILD-TYPE | 107 | 89 | 132 |
Figure S151. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0391 (Fisher's exact test), Q value = 0.1
Table S152. Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 20P GAIN MUTATED | 59 | 75 | 37 |
| 20P GAIN WILD-TYPE | 81 | 169 | 52 |
Figure S152. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S153. Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 20Q GAIN MUTATED | 88 | 54 | 41 | 18 |
| 20Q GAIN WILD-TYPE | 67 | 81 | 148 | 25 |
Figure S153. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S154. Gene #37: '20q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 20Q GAIN MUTATED | 27 | 35 | 54 | 41 | 15 | 20 | 9 |
| 20Q GAIN WILD-TYPE | 57 | 44 | 42 | 51 | 63 | 55 | 9 |
Figure S154. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0303 (Fisher's exact test), Q value = 0.082
Table S155. Gene #37: '20q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 20Q GAIN MUTATED | 67 | 72 | 58 |
| 20Q GAIN WILD-TYPE | 74 | 140 | 103 |
Figure S155. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-04 (Fisher's exact test), Q value = 0.00065
Table S156. Gene #37: '20q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 20Q GAIN MUTATED | 83 | 39 | 64 | 11 |
| 20Q GAIN WILD-TYPE | 93 | 64 | 106 | 54 |
Figure S156. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00424 (Fisher's exact test), Q value = 0.016
Table S157. Gene #37: '20q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 20Q GAIN MUTATED | 89 | 55 | 56 |
| 20Q GAIN WILD-TYPE | 101 | 87 | 130 |
Figure S157. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0356 (Fisher's exact test), Q value = 0.093
Table S158. Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 20Q GAIN MUTATED | 27 | 62 | 37 | 48 | 9 |
| 20Q GAIN WILD-TYPE | 45 | 78 | 61 | 68 | 38 |
Figure S158. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0114 (Fisher's exact test), Q value = 0.038
Table S159. Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 20Q GAIN MUTATED | 66 | 79 | 38 |
| 20Q GAIN WILD-TYPE | 74 | 165 | 51 |
Figure S159. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0406 (Fisher's exact test), Q value = 0.1
Table S160. Gene #38: '21q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 21Q GAIN MUTATED | 4 | 10 | 3 | 9 | 7 | 1 | 1 |
| 21Q GAIN WILD-TYPE | 80 | 69 | 93 | 83 | 71 | 74 | 17 |
Figure S160. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00564 (Fisher's exact test), Q value = 0.021
Table S161. Gene #38: '21q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 21Q GAIN MUTATED | 8 | 23 | 4 |
| 21Q GAIN WILD-TYPE | 133 | 189 | 157 |
Figure S161. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00611 (Fisher's exact test), Q value = 0.022
Table S162. Gene #38: '21q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 21Q GAIN MUTATED | 6 | 4 | 14 | 4 | 2 |
| 21Q GAIN WILD-TYPE | 66 | 136 | 84 | 112 | 45 |
Figure S162. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S163. Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 22Q GAIN MUTATED | 34 | 52 | 20 | 6 |
| 22Q GAIN WILD-TYPE | 121 | 83 | 169 | 37 |
Figure S163. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S164. Gene #39: '22q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 22Q GAIN MUTATED | 15 | 22 | 24 | 43 | 5 | 1 | 2 |
| 22Q GAIN WILD-TYPE | 69 | 57 | 72 | 49 | 73 | 74 | 16 |
Figure S164. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00028 (Fisher's exact test), Q value = 0.0016
Table S165. Gene #39: '22q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 22Q GAIN MUTATED | 38 | 37 | 30 | 6 |
| 22Q GAIN WILD-TYPE | 138 | 66 | 140 | 59 |
Figure S165. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00042 (Fisher's exact test), Q value = 0.0022
Table S166. Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 22Q GAIN MUTATED | 60 | 17 | 35 |
| 22Q GAIN WILD-TYPE | 161 | 135 | 110 |
Figure S166. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0139 (Fisher's exact test), Q value = 0.043
Table S167. Gene #39: '22q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 22Q GAIN MUTATED | 19 | 22 | 23 | 33 | 4 |
| 22Q GAIN WILD-TYPE | 53 | 118 | 75 | 83 | 43 |
Figure S167. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.033 (Fisher's exact test), Q value = 0.087
Table S168. Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| XP GAIN MUTATED | 20 | 18 | 10 | 5 |
| XP GAIN WILD-TYPE | 135 | 117 | 179 | 38 |
Figure S168. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0326 (Fisher's exact test), Q value = 0.087
Table S169. Gene #40: 'xp gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| XP GAIN MUTATED | 2 | 8 | 15 | 14 | 8 | 5 | 1 |
| XP GAIN WILD-TYPE | 82 | 71 | 81 | 78 | 70 | 70 | 17 |
Figure S169. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S170. Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| XQ GAIN MUTATED | 41 | 30 | 15 | 9 |
| XQ GAIN WILD-TYPE | 114 | 105 | 174 | 34 |
Figure S170. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S171. Gene #41: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| XQ GAIN MUTATED | 5 | 15 | 30 | 24 | 9 | 8 | 4 |
| XQ GAIN WILD-TYPE | 79 | 64 | 66 | 68 | 69 | 67 | 14 |
Figure S171. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0192 (Fisher's exact test), Q value = 0.057
Table S172. Gene #41: 'xq gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| XQ GAIN MUTATED | 39 | 22 | 30 | 4 |
| XQ GAIN WILD-TYPE | 137 | 81 | 140 | 61 |
Figure S172. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0249 (Fisher's exact test), Q value = 0.07
Table S173. Gene #41: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| XQ GAIN MUTATED | 12 | 27 | 19 | 23 | 1 |
| XQ GAIN WILD-TYPE | 60 | 113 | 79 | 93 | 46 |
Figure S173. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S174. Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 1P LOSS MUTATED | 18 | 30 | 7 | 3 |
| 1P LOSS WILD-TYPE | 137 | 105 | 182 | 40 |
Figure S174. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S175. Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 1P LOSS MUTATED | 6 | 7 | 8 | 30 | 2 | 4 | 1 |
| 1P LOSS WILD-TYPE | 78 | 72 | 88 | 62 | 76 | 71 | 17 |
Figure S175. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00171 (Fisher's exact test), Q value = 0.0076
Table S176. Gene #42: '1p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 1P LOSS MUTATED | 22 | 28 | 7 |
| 1P LOSS WILD-TYPE | 119 | 184 | 154 |
Figure S176. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S177. Gene #42: '1p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 1P LOSS MUTATED | 26 | 23 | 6 | 2 |
| 1P LOSS WILD-TYPE | 150 | 80 | 164 | 63 |
Figure S177. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0201 (Fisher's exact test), Q value = 0.059
Table S178. Gene #42: '1p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 1P LOSS MUTATED | 20 | 28 | 3 |
| 1P LOSS WILD-TYPE | 120 | 216 | 86 |
Figure S178. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0169 (Fisher's exact test), Q value = 0.051
Table S179. Gene #43: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 1Q LOSS MUTATED | 18 | 11 | 6 | 4 |
| 1Q LOSS WILD-TYPE | 137 | 124 | 183 | 39 |
Figure S179. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0268 (Fisher's exact test), Q value = 0.075
Table S180. Gene #43: '1q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 1Q LOSS MUTATED | 17 | 9 | 12 |
| 1Q LOSS WILD-TYPE | 124 | 203 | 149 |
Figure S180. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00287 (Fisher's exact test), Q value = 0.012
Table S181. Gene #43: '1q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 1Q LOSS MUTATED | 22 | 9 | 6 | 1 |
| 1Q LOSS WILD-TYPE | 154 | 94 | 164 | 64 |
Figure S181. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00086 (Fisher's exact test), Q value = 0.0041
Table S182. Gene #43: '1q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 1Q LOSS MUTATED | 22 | 12 | 4 |
| 1Q LOSS WILD-TYPE | 168 | 130 | 182 |
Figure S182. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0279 (Fisher's exact test), Q value = 0.077
Table S183. Gene #44: '2p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 2P LOSS MUTATED | 15 | 9 | 5 | 4 |
| 2P LOSS WILD-TYPE | 140 | 126 | 184 | 39 |
Figure S183. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0061 (Fisher's exact test), Q value = 0.022
Table S184. Gene #44: '2p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 2P LOSS MUTATED | 2 | 1 | 15 | 5 | 5 | 4 | 1 |
| 2P LOSS WILD-TYPE | 82 | 78 | 81 | 87 | 73 | 71 | 17 |
Figure S184. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0446 (Fisher's exact test), Q value = 0.11
Table S185. Gene #44: '2p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 76 | 82 | 48 |
| 2P LOSS MUTATED | 7 | 1 | 4 |
| 2P LOSS WILD-TYPE | 69 | 81 | 44 |
Figure S185. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S186. Gene #46: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 3P LOSS MUTATED | 123 | 102 | 45 | 27 |
| 3P LOSS WILD-TYPE | 32 | 33 | 144 | 16 |
Figure S186. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S187. Gene #46: '3p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 3P LOSS MUTATED | 36 | 60 | 73 | 70 | 15 | 27 | 16 |
| 3P LOSS WILD-TYPE | 48 | 19 | 23 | 22 | 63 | 48 | 2 |
Figure S187. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0299 (Fisher's exact test), Q value = 0.081
Table S188. Gene #46: '3p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 3P LOSS MUTATED | 93 | 110 | 90 |
| 3P LOSS WILD-TYPE | 48 | 102 | 71 |
Figure S188. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S189. Gene #46: '3p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 3P LOSS MUTATED | 114 | 77 | 86 | 16 |
| 3P LOSS WILD-TYPE | 62 | 26 | 84 | 49 |
Figure S189. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00076 (Fisher's exact test), Q value = 0.0037
Table S190. Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 3P LOSS MUTATED | 120 | 89 | 85 |
| 3P LOSS WILD-TYPE | 70 | 53 | 101 |
Figure S190. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 8e-05 (Fisher's exact test), Q value = 0.00054
Table S191. Gene #46: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 3P LOSS MUTATED | 48 | 77 | 61 | 70 | 12 |
| 3P LOSS WILD-TYPE | 24 | 63 | 37 | 46 | 35 |
Figure S191. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00901 (Fisher's exact test), Q value = 0.031
Table S192. Gene #47: '3q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 3Q LOSS MUTATED | 25 | 20 | 11 | 5 |
| 3Q LOSS WILD-TYPE | 130 | 115 | 178 | 38 |
Figure S192. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00749 (Fisher's exact test), Q value = 0.027
Table S193. Gene #47: '3q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 3Q LOSS MUTATED | 21 | 26 | 13 |
| 3Q LOSS WILD-TYPE | 169 | 116 | 173 |
Figure S193. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S194. Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 4P LOSS MUTATED | 67 | 89 | 24 | 14 |
| 4P LOSS WILD-TYPE | 88 | 46 | 165 | 29 |
Figure S194. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S195. Gene #48: '4p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 4P LOSS MUTATED | 17 | 43 | 29 | 61 | 21 | 12 | 11 |
| 4P LOSS WILD-TYPE | 67 | 36 | 67 | 31 | 57 | 63 | 7 |
Figure S195. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00017 (Fisher's exact test), Q value = 0.001
Table S196. Gene #48: '4p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 4P LOSS MUTATED | 59 | 93 | 39 |
| 4P LOSS WILD-TYPE | 82 | 119 | 122 |
Figure S196. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S197. Gene #48: '4p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 4P LOSS MUTATED | 72 | 58 | 43 | 18 |
| 4P LOSS WILD-TYPE | 104 | 45 | 127 | 47 |
Figure S197. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0282 (Fisher's exact test), Q value = 0.078
Table S198. Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 4P LOSS MUTATED | 71 | 64 | 57 |
| 4P LOSS WILD-TYPE | 119 | 78 | 129 |
Figure S198. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00056 (Fisher's exact test), Q value = 0.0029
Table S199. Gene #48: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 4P LOSS MUTATED | 36 | 39 | 44 | 44 | 9 |
| 4P LOSS WILD-TYPE | 36 | 101 | 54 | 72 | 38 |
Figure S199. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S200. Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 4Q LOSS MUTATED | 51 | 70 | 17 | 13 |
| 4Q LOSS WILD-TYPE | 104 | 65 | 172 | 30 |
Figure S200. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S201. Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 4Q LOSS MUTATED | 14 | 32 | 27 | 48 | 15 | 11 | 4 |
| 4Q LOSS WILD-TYPE | 70 | 47 | 69 | 44 | 63 | 64 | 14 |
Figure S201. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00904 (Fisher's exact test), Q value = 0.031
Table S202. Gene #49: '4q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 4Q LOSS MUTATED | 45 | 71 | 32 |
| 4Q LOSS WILD-TYPE | 96 | 141 | 129 |
Figure S202. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S203. Gene #49: '4q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 4Q LOSS MUTATED | 58 | 46 | 31 | 13 |
| 4Q LOSS WILD-TYPE | 118 | 57 | 139 | 52 |
Figure S203. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0297 (Fisher's exact test), Q value = 0.081
Table S204. Gene #49: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 4Q LOSS MUTATED | 24 | 30 | 34 | 41 | 9 |
| 4Q LOSS WILD-TYPE | 48 | 110 | 64 | 75 | 38 |
Figure S204. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S205. Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 5P LOSS MUTATED | 18 | 22 | 4 | 7 |
| 5P LOSS WILD-TYPE | 137 | 113 | 185 | 36 |
Figure S205. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S206. Gene #50: '5p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 5P LOSS MUTATED | 1 | 15 | 14 | 16 | 2 | 2 | 1 |
| 5P LOSS WILD-TYPE | 83 | 64 | 82 | 76 | 76 | 73 | 17 |
Figure S206. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0121 (Fisher's exact test), Q value = 0.04
Table S207. Gene #50: '5p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 5P LOSS MUTATED | 21 | 17 | 10 | 3 |
| 5P LOSS WILD-TYPE | 155 | 86 | 160 | 62 |
Figure S207. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0245 (Fisher's exact test), Q value = 0.069
Table S208. Gene #50: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 5P LOSS MUTATED | 22 | 17 | 8 |
| 5P LOSS WILD-TYPE | 118 | 227 | 81 |
Figure S208. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S209. Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 5Q LOSS MUTATED | 62 | 76 | 16 | 10 |
| 5Q LOSS WILD-TYPE | 93 | 59 | 173 | 33 |
Figure S209. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S210. Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 5Q LOSS MUTATED | 14 | 46 | 41 | 45 | 6 | 4 | 8 |
| 5Q LOSS WILD-TYPE | 70 | 33 | 55 | 47 | 72 | 71 | 10 |
Figure S210. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S211. Gene #51: '5q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 5Q LOSS MUTATED | 63 | 59 | 31 | 10 |
| 5Q LOSS WILD-TYPE | 113 | 44 | 139 | 55 |
Figure S211. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00011 (Fisher's exact test), Q value = 7e-04
Table S212. Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 5Q LOSS MUTATED | 67 | 57 | 38 |
| 5Q LOSS WILD-TYPE | 123 | 85 | 148 |
Figure S212. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00023 (Fisher's exact test), Q value = 0.0014
Table S213. Gene #51: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 5Q LOSS MUTATED | 21 | 45 | 44 | 33 | 4 |
| 5Q LOSS WILD-TYPE | 51 | 95 | 54 | 83 | 43 |
Figure S213. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00041 (Fisher's exact test), Q value = 0.0022
Table S214. Gene #52: '6p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 6P LOSS MUTATED | 21 | 30 | 12 | 5 |
| 6P LOSS WILD-TYPE | 134 | 105 | 177 | 38 |
Figure S214. Get High-res Image Gene #52: '6p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00084 (Fisher's exact test), Q value = 0.0041
Table S215. Gene #52: '6p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 6P LOSS MUTATED | 4 | 9 | 14 | 24 | 11 | 4 | 2 |
| 6P LOSS WILD-TYPE | 80 | 70 | 82 | 68 | 67 | 71 | 16 |
Figure S215. Get High-res Image Gene #52: '6p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0453 (Fisher's exact test), Q value = 0.11
Table S216. Gene #53: '6q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 6Q LOSS MUTATED | 18 | 26 | 17 | 7 |
| 6Q LOSS WILD-TYPE | 137 | 109 | 172 | 36 |
Figure S216. Get High-res Image Gene #53: '6q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00345 (Fisher's exact test), Q value = 0.014
Table S217. Gene #53: '6q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 6Q LOSS MUTATED | 3 | 12 | 10 | 17 | 15 | 6 | 5 |
| 6Q LOSS WILD-TYPE | 81 | 67 | 86 | 75 | 63 | 69 | 13 |
Figure S217. Get High-res Image Gene #53: '6q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0214 (Fisher's exact test), Q value = 0.062
Table S218. Gene #53: '6q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 6Q LOSS MUTATED | 18 | 37 | 4 |
| 6Q LOSS WILD-TYPE | 122 | 207 | 85 |
Figure S218. Get High-res Image Gene #53: '6q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0296 (Fisher's exact test), Q value = 0.081
Table S219. Gene #54: '7p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 7P LOSS MUTATED | 6 | 12 | 6 | 5 |
| 7P LOSS WILD-TYPE | 149 | 123 | 183 | 38 |
Figure S219. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00627 (Fisher's exact test), Q value = 0.023
Table S220. Gene #54: '7p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 7P LOSS MUTATED | 1 | 7 | 5 | 7 | 9 | 0 | 0 |
| 7P LOSS WILD-TYPE | 83 | 72 | 91 | 85 | 69 | 75 | 18 |
Figure S220. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0216 (Fisher's exact test), Q value = 0.062
Table S221. Gene #54: '7p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 7P LOSS MUTATED | 0 | 8 | 11 | 5 | 3 |
| 7P LOSS WILD-TYPE | 72 | 132 | 87 | 111 | 44 |
Figure S221. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S222. Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 8P LOSS MUTATED | 87 | 46 | 36 | 18 |
| 8P LOSS WILD-TYPE | 68 | 89 | 153 | 25 |
Figure S222. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S223. Gene #56: '8p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 8P LOSS MUTATED | 29 | 27 | 52 | 39 | 10 | 25 | 5 |
| 8P LOSS WILD-TYPE | 55 | 52 | 44 | 53 | 68 | 50 | 13 |
Figure S223. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S224. Gene #56: '8p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 8P LOSS MUTATED | 72 | 39 | 66 | 6 |
| 8P LOSS WILD-TYPE | 104 | 64 | 104 | 59 |
Figure S224. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00297 (Fisher's exact test), Q value = 0.012
Table S225. Gene #56: '8p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 8P LOSS MUTATED | 83 | 53 | 50 |
| 8P LOSS WILD-TYPE | 107 | 89 | 136 |
Figure S225. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00014 (Fisher's exact test), Q value = 0.00088
Table S226. Gene #56: '8p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 8P LOSS MUTATED | 30 | 60 | 28 | 48 | 5 |
| 8P LOSS WILD-TYPE | 42 | 80 | 70 | 68 | 42 |
Figure S226. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S227. Gene #56: '8p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 8P LOSS MUTATED | 63 | 65 | 43 |
| 8P LOSS WILD-TYPE | 77 | 179 | 46 |
Figure S227. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0243 (Fisher's exact test), Q value = 0.069
Table S228. Gene #57: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 8Q LOSS MUTATED | 13 | 9 | 4 | 4 |
| 8Q LOSS WILD-TYPE | 142 | 126 | 185 | 39 |
Figure S228. Get High-res Image Gene #57: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S229. Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 9P LOSS MUTATED | 79 | 81 | 25 | 1 |
| 9P LOSS WILD-TYPE | 76 | 54 | 164 | 42 |
Figure S229. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S230. Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 9P LOSS MUTATED | 20 | 51 | 37 | 52 | 9 | 8 | 9 |
| 9P LOSS WILD-TYPE | 64 | 28 | 59 | 40 | 69 | 67 | 9 |
Figure S230. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S231. Gene #58: '9p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 9P LOSS MUTATED | 61 | 57 | 54 | 12 |
| 9P LOSS WILD-TYPE | 115 | 46 | 116 | 53 |
Figure S231. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 6e-05 (Fisher's exact test), Q value = 0.00042
Table S232. Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 9P LOSS MUTATED | 64 | 72 | 48 |
| 9P LOSS WILD-TYPE | 126 | 70 | 138 |
Figure S232. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S233. Gene #58: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 9P LOSS MUTATED | 32 | 40 | 53 | 34 | 7 |
| 9P LOSS WILD-TYPE | 40 | 100 | 45 | 82 | 40 |
Figure S233. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S234. Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 9Q LOSS MUTATED | 41 | 32 | 13 | 1 |
| 9Q LOSS WILD-TYPE | 114 | 103 | 176 | 42 |
Figure S234. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S235. Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 9Q LOSS MUTATED | 5 | 26 | 17 | 26 | 4 | 4 | 5 |
| 9Q LOSS WILD-TYPE | 79 | 53 | 79 | 66 | 74 | 71 | 13 |
Figure S235. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0138 (Fisher's exact test), Q value = 0.043
Table S236. Gene #59: '9q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 9Q LOSS MUTATED | 32 | 25 | 25 | 4 |
| 9Q LOSS WILD-TYPE | 144 | 78 | 145 | 61 |
Figure S236. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00314 (Fisher's exact test), Q value = 0.013
Table S237. Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 9Q LOSS MUTATED | 33 | 34 | 19 |
| 9Q LOSS WILD-TYPE | 157 | 108 | 167 |
Figure S237. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0132 (Fisher's exact test), Q value = 0.042
Table S238. Gene #59: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 9Q LOSS MUTATED | 19 | 19 | 20 | 21 | 2 |
| 9Q LOSS WILD-TYPE | 53 | 121 | 78 | 95 | 45 |
Figure S238. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S239. Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 10P LOSS MUTATED | 68 | 46 | 27 | 15 |
| 10P LOSS WILD-TYPE | 87 | 89 | 162 | 28 |
Figure S239. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00334 (Fisher's exact test), Q value = 0.013
Table S240. Gene #60: '10p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 10P LOSS MUTATED | 16 | 24 | 39 | 35 | 14 | 21 | 7 |
| 10P LOSS WILD-TYPE | 68 | 55 | 57 | 57 | 64 | 54 | 11 |
Figure S240. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.023 (Fisher's exact test), Q value = 0.065
Table S241. Gene #60: '10p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 10P LOSS MUTATED | 25 | 40 | 23 | 47 | 9 |
| 10P LOSS WILD-TYPE | 47 | 100 | 75 | 69 | 38 |
Figure S241. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S242. Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 10Q LOSS MUTATED | 40 | 47 | 19 | 7 |
| 10Q LOSS WILD-TYPE | 115 | 88 | 170 | 36 |
Figure S242. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00071 (Fisher's exact test), Q value = 0.0035
Table S243. Gene #61: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 10Q LOSS MUTATED | 8 | 19 | 26 | 31 | 13 | 10 | 6 |
| 10Q LOSS WILD-TYPE | 76 | 60 | 70 | 61 | 65 | 65 | 12 |
Figure S243. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0299 (Fisher's exact test), Q value = 0.081
Table S244. Gene #61: '10q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 10Q LOSS MUTATED | 57 | 22 | 31 |
| 10Q LOSS WILD-TYPE | 164 | 130 | 114 |
Figure S244. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S245. Gene #62: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 11P LOSS MUTATED | 38 | 71 | 26 | 6 |
| 11P LOSS WILD-TYPE | 117 | 64 | 163 | 37 |
Figure S245. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-04 (Fisher's exact test), Q value = 0.0012
Table S246. Gene #62: '11p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 11P LOSS MUTATED | 22 | 27 | 21 | 38 | 21 | 7 | 5 |
| 11P LOSS WILD-TYPE | 62 | 52 | 75 | 54 | 57 | 68 | 13 |
Figure S246. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00097 (Fisher's exact test), Q value = 0.0046
Table S247. Gene #62: '11p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 11P LOSS MUTATED | 38 | 73 | 28 |
| 11P LOSS WILD-TYPE | 103 | 139 | 133 |
Figure S247. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0038 (Fisher's exact test), Q value = 0.015
Table S248. Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 11P LOSS MUTATED | 76 | 29 | 36 |
| 11P LOSS WILD-TYPE | 145 | 123 | 109 |
Figure S248. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S249. Gene #63: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 11Q LOSS MUTATED | 43 | 71 | 44 | 14 |
| 11Q LOSS WILD-TYPE | 112 | 64 | 145 | 29 |
Figure S249. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S250. Gene #63: '11q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 11Q LOSS MUTATED | 21 | 23 | 29 | 39 | 44 | 11 | 5 |
| 11Q LOSS WILD-TYPE | 63 | 56 | 67 | 53 | 34 | 64 | 13 |
Figure S250. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00037 (Fisher's exact test), Q value = 0.002
Table S251. Gene #63: '11q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 11Q LOSS MUTATED | 45 | 88 | 36 |
| 11Q LOSS WILD-TYPE | 96 | 124 | 125 |
Figure S251. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00281 (Fisher's exact test), Q value = 0.012
Table S252. Gene #63: '11q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 11Q LOSS MUTATED | 52 | 30 | 52 | 35 |
| 11Q LOSS WILD-TYPE | 124 | 73 | 118 | 30 |
Figure S252. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0487 (Fisher's exact test), Q value = 0.12
Table S253. Gene #64: '12p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 12P LOSS MUTATED | 2 | 4 | 8 | 7 | 9 | 3 | 4 |
| 12P LOSS WILD-TYPE | 82 | 75 | 88 | 85 | 69 | 72 | 14 |
Figure S253. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0455 (Fisher's exact test), Q value = 0.11
Table S254. Gene #65: '12q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 12Q LOSS MUTATED | 14 | 12 | 6 | 1 |
| 12Q LOSS WILD-TYPE | 141 | 123 | 183 | 42 |
Figure S254. Get High-res Image Gene #65: '12q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00121 (Fisher's exact test), Q value = 0.0056
Table S255. Gene #65: '12q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 12Q LOSS MUTATED | 1 | 5 | 7 | 12 | 5 | 0 | 3 |
| 12Q LOSS WILD-TYPE | 83 | 74 | 89 | 80 | 73 | 75 | 15 |
Figure S255. Get High-res Image Gene #65: '12q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S256. Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 13Q LOSS MUTATED | 37 | 79 | 36 | 15 |
| 13Q LOSS WILD-TYPE | 118 | 56 | 153 | 28 |
Figure S256. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S257. Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 13Q LOSS MUTATED | 18 | 37 | 30 | 43 | 25 | 13 | 1 |
| 13Q LOSS WILD-TYPE | 66 | 42 | 66 | 49 | 53 | 62 | 17 |
Figure S257. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00028 (Fisher's exact test), Q value = 0.0016
Table S258. Gene #66: '13q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 13Q LOSS MUTATED | 45 | 86 | 34 |
| 13Q LOSS WILD-TYPE | 96 | 126 | 127 |
Figure S258. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00515 (Fisher's exact test), Q value = 0.02
Table S259. Gene #66: '13q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 13Q LOSS MUTATED | 56 | 47 | 42 | 20 |
| 13Q LOSS WILD-TYPE | 120 | 56 | 128 | 45 |
Figure S259. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0397 (Fisher's exact test), Q value = 0.1
Table S260. Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 13Q LOSS MUTATED | 84 | 40 | 42 |
| 13Q LOSS WILD-TYPE | 137 | 112 | 103 |
Figure S260. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00287 (Fisher's exact test), Q value = 0.012
Table S261. Gene #67: '14q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 14Q LOSS MUTATED | 3 | 13 | 7 | 15 | 15 | 4 | 1 |
| 14Q LOSS WILD-TYPE | 81 | 66 | 89 | 77 | 63 | 71 | 17 |
Figure S261. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 3e-04
Table S262. Gene #67: '14q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 14Q LOSS MUTATED | 13 | 38 | 6 |
| 14Q LOSS WILD-TYPE | 128 | 174 | 155 |
Figure S262. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00155 (Fisher's exact test), Q value = 0.0069
Table S263. Gene #67: '14q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 14Q LOSS MUTATED | 16 | 17 | 10 | 14 |
| 14Q LOSS WILD-TYPE | 160 | 86 | 160 | 51 |
Figure S263. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00058 (Fisher's exact test), Q value = 0.003
Table S264. Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 14Q LOSS MUTATED | 38 | 8 | 11 |
| 14Q LOSS WILD-TYPE | 183 | 144 | 134 |
Figure S264. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S265. Gene #67: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 14Q LOSS MUTATED | 8 | 6 | 24 | 8 | 9 |
| 14Q LOSS WILD-TYPE | 64 | 134 | 74 | 108 | 38 |
Figure S265. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0123 (Fisher's exact test), Q value = 0.04
Table S266. Gene #67: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 14Q LOSS MUTATED | 17 | 35 | 3 |
| 14Q LOSS WILD-TYPE | 123 | 209 | 86 |
Figure S266. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S267. Gene #68: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 15Q LOSS MUTATED | 43 | 26 | 17 | 17 |
| 15Q LOSS WILD-TYPE | 112 | 109 | 172 | 26 |
Figure S267. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00042
Table S268. Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 16P LOSS MUTATED | 17 | 28 | 9 | 9 |
| 16P LOSS WILD-TYPE | 138 | 107 | 180 | 34 |
Figure S268. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.011 (Fisher's exact test), Q value = 0.037
Table S269. Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 16P LOSS MUTATED | 7 | 8 | 9 | 22 | 10 | 4 | 3 |
| 16P LOSS WILD-TYPE | 77 | 71 | 87 | 70 | 68 | 71 | 15 |
Figure S269. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00169 (Fisher's exact test), Q value = 0.0075
Table S270. Gene #69: '16p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 16P LOSS MUTATED | 20 | 34 | 8 |
| 16P LOSS WILD-TYPE | 121 | 178 | 153 |
Figure S270. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00217 (Fisher's exact test), Q value = 0.0094
Table S271. Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 16Q LOSS MUTATED | 14 | 32 | 25 | 10 |
| 16Q LOSS WILD-TYPE | 141 | 103 | 164 | 33 |
Figure S271. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S272. Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 16Q LOSS MUTATED | 5 | 12 | 4 | 26 | 27 | 4 | 3 |
| 16Q LOSS WILD-TYPE | 79 | 67 | 92 | 66 | 51 | 71 | 15 |
Figure S272. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S273. Gene #70: '16q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 16Q LOSS MUTATED | 15 | 59 | 7 |
| 16Q LOSS WILD-TYPE | 126 | 153 | 154 |
Figure S273. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S274. Gene #70: '16q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 16Q LOSS MUTATED | 18 | 25 | 12 | 26 |
| 16Q LOSS WILD-TYPE | 158 | 78 | 158 | 39 |
Figure S274. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00776 (Fisher's exact test), Q value = 0.028
Table S275. Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 16Q LOSS MUTATED | 47 | 18 | 15 |
| 16Q LOSS WILD-TYPE | 174 | 134 | 130 |
Figure S275. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0088 (Fisher's exact test), Q value = 0.031
Table S276. Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 16Q LOSS MUTATED | 19 | 21 | 40 |
| 16Q LOSS WILD-TYPE | 171 | 121 | 146 |
Figure S276. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S277. Gene #70: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 16Q LOSS MUTATED | 9 | 11 | 32 | 9 | 10 |
| 16Q LOSS WILD-TYPE | 63 | 129 | 66 | 107 | 37 |
Figure S277. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00274 (Fisher's exact test), Q value = 0.012
Table S278. Gene #70: '16q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 16Q LOSS MUTATED | 14 | 50 | 7 |
| 16Q LOSS WILD-TYPE | 126 | 194 | 82 |
Figure S278. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00023 (Fisher's exact test), Q value = 0.0014
Table S279. Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 17P LOSS MUTATED | 41 | 37 | 20 | 9 |
| 17P LOSS WILD-TYPE | 114 | 98 | 169 | 34 |
Figure S279. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00102 (Fisher's exact test), Q value = 0.0048
Table S280. Gene #71: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 17P LOSS MUTATED | 8 | 26 | 22 | 22 | 17 | 7 | 5 |
| 17P LOSS WILD-TYPE | 76 | 53 | 74 | 70 | 61 | 68 | 13 |
Figure S280. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0127 (Fisher's exact test), Q value = 0.041
Table S281. Gene #72: '17q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 17Q LOSS MUTATED | 13 | 10 | 5 | 6 |
| 17Q LOSS WILD-TYPE | 142 | 125 | 184 | 37 |
Figure S281. Get High-res Image Gene #72: '17q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0393 (Fisher's exact test), Q value = 0.1
Table S282. Gene #72: '17q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 17Q LOSS MUTATED | 15 | 1 | 13 | 4 |
| 17Q LOSS WILD-TYPE | 161 | 102 | 157 | 61 |
Figure S282. Get High-res Image Gene #72: '17q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00154 (Fisher's exact test), Q value = 0.0069
Table S283. Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 18P LOSS MUTATED | 43 | 26 | 23 | 12 |
| 18P LOSS WILD-TYPE | 112 | 109 | 166 | 31 |
Figure S283. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S284. Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 18P LOSS MUTATED | 18 | 15 | 23 | 30 | 2 | 11 | 5 |
| 18P LOSS WILD-TYPE | 66 | 64 | 73 | 62 | 76 | 64 | 13 |
Figure S284. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00362 (Fisher's exact test), Q value = 0.014
Table S285. Gene #73: '18p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 18P LOSS MUTATED | 37 | 22 | 40 | 3 |
| 18P LOSS WILD-TYPE | 139 | 81 | 130 | 62 |
Figure S285. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0124 (Fisher's exact test), Q value = 0.04
Table S286. Gene #73: '18p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 18P LOSS MUTATED | 42 | 35 | 24 |
| 18P LOSS WILD-TYPE | 148 | 107 | 162 |
Figure S286. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S287. Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 18Q LOSS MUTATED | 106 | 51 | 33 | 21 |
| 18Q LOSS WILD-TYPE | 49 | 84 | 156 | 22 |
Figure S287. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S288. Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 18Q LOSS MUTATED | 35 | 40 | 56 | 47 | 2 | 22 | 9 |
| 18Q LOSS WILD-TYPE | 49 | 39 | 40 | 45 | 76 | 53 | 9 |
Figure S288. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00091 (Fisher's exact test), Q value = 0.0043
Table S289. Gene #74: '18q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 18Q LOSS MUTATED | 71 | 66 | 70 |
| 18Q LOSS WILD-TYPE | 70 | 146 | 91 |
Figure S289. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S290. Gene #74: '18q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 18Q LOSS MUTATED | 85 | 47 | 72 | 3 |
| 18Q LOSS WILD-TYPE | 91 | 56 | 98 | 62 |
Figure S290. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00091 (Fisher's exact test), Q value = 0.0043
Table S291. Gene #74: '18q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 18Q LOSS MUTATED | 70 | 65 | 74 |
| 18Q LOSS WILD-TYPE | 151 | 87 | 71 |
Figure S291. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S292. Gene #74: '18q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 18Q LOSS MUTATED | 93 | 65 | 51 |
| 18Q LOSS WILD-TYPE | 97 | 77 | 135 |
Figure S292. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S293. Gene #74: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 18Q LOSS MUTATED | 29 | 65 | 31 | 59 | 7 |
| 18Q LOSS WILD-TYPE | 43 | 75 | 67 | 57 | 40 |
Figure S293. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S294. Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 19P LOSS MUTATED | 48 | 26 | 16 | 8 |
| 19P LOSS WILD-TYPE | 107 | 109 | 173 | 35 |
Figure S294. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00042
Table S295. Gene #75: '19p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 19P LOSS MUTATED | 8 | 13 | 33 | 23 | 7 | 10 | 4 |
| 19P LOSS WILD-TYPE | 76 | 66 | 63 | 69 | 71 | 65 | 14 |
Figure S295. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00882 (Fisher's exact test), Q value = 0.031
Table S296. Gene #75: '19p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 19P LOSS MUTATED | 43 | 19 | 30 | 4 |
| 19P LOSS WILD-TYPE | 133 | 84 | 140 | 61 |
Figure S296. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0215 (Fisher's exact test), Q value = 0.062
Table S297. Gene #75: '19p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 19P LOSS MUTATED | 33 | 25 | 38 |
| 19P LOSS WILD-TYPE | 188 | 127 | 107 |
Figure S297. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00406 (Fisher's exact test), Q value = 0.016
Table S298. Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 19P LOSS MUTATED | 45 | 30 | 21 |
| 19P LOSS WILD-TYPE | 145 | 112 | 165 |
Figure S298. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.011 (Fisher's exact test), Q value = 0.037
Table S299. Gene #75: '19p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 19P LOSS MUTATED | 13 | 29 | 11 | 30 | 3 |
| 19P LOSS WILD-TYPE | 59 | 111 | 87 | 86 | 44 |
Figure S299. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0372 (Fisher's exact test), Q value = 0.096
Table S300. Gene #75: '19p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 19P LOSS MUTATED | 30 | 34 | 22 |
| 19P LOSS WILD-TYPE | 110 | 210 | 67 |
Figure S300. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S301. Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 19Q LOSS MUTATED | 37 | 32 | 9 | 8 |
| 19Q LOSS WILD-TYPE | 118 | 103 | 180 | 35 |
Figure S301. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S302. Gene #76: '19q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 19Q LOSS MUTATED | 6 | 13 | 27 | 26 | 5 | 7 | 2 |
| 19Q LOSS WILD-TYPE | 78 | 66 | 69 | 66 | 73 | 68 | 16 |
Figure S302. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00771 (Fisher's exact test), Q value = 0.027
Table S303. Gene #76: '19q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 19Q LOSS MUTATED | 36 | 21 | 24 | 3 |
| 19Q LOSS WILD-TYPE | 140 | 82 | 146 | 62 |
Figure S303. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0324 (Fisher's exact test), Q value = 0.086
Table S304. Gene #76: '19q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 19Q LOSS MUTATED | 38 | 26 | 20 |
| 19Q LOSS WILD-TYPE | 152 | 116 | 166 |
Figure S304. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0408 (Fisher's exact test), Q value = 0.1
Table S305. Gene #76: '19q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 19Q LOSS MUTATED | 21 | 32 | 22 |
| 19Q LOSS WILD-TYPE | 119 | 212 | 67 |
Figure S305. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S306. Gene #77: '20p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 20P LOSS MUTATED | 14 | 27 | 5 | 1 |
| 20P LOSS WILD-TYPE | 141 | 108 | 184 | 42 |
Figure S306. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0265 (Fisher's exact test), Q value = 0.074
Table S307. Gene #77: '20p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 20P LOSS MUTATED | 3 | 10 | 8 | 16 | 6 | 4 | 0 |
| 20P LOSS WILD-TYPE | 81 | 69 | 88 | 76 | 72 | 71 | 18 |
Figure S307. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0222 (Fisher's exact test), Q value = 0.064
Table S308. Gene #77: '20p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 20P LOSS MUTATED | 10 | 20 | 16 |
| 20P LOSS WILD-TYPE | 180 | 122 | 170 |
Figure S308. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00027 (Fisher's exact test), Q value = 0.0016
Table S309. Gene #78: '20q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 20Q LOSS MUTATED | 3 | 17 | 8 | 0 |
| 20Q LOSS WILD-TYPE | 152 | 118 | 181 | 43 |
Figure S309. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00466 (Fisher's exact test), Q value = 0.018
Table S310. Gene #78: '20q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 20Q LOSS MUTATED | 0 | 6 | 2 | 10 | 7 | 2 | 1 |
| 20Q LOSS WILD-TYPE | 84 | 73 | 94 | 82 | 71 | 73 | 17 |
Figure S310. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0123 (Fisher's exact test), Q value = 0.04
Table S311. Gene #78: '20q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 20Q LOSS MUTATED | 3 | 19 | 6 |
| 20Q LOSS WILD-TYPE | 138 | 193 | 155 |
Figure S311. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0191 (Fisher's exact test), Q value = 0.057
Table S312. Gene #78: '20q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 20Q LOSS MUTATED | 4 | 9 | 8 | 7 |
| 20Q LOSS WILD-TYPE | 172 | 94 | 162 | 58 |
Figure S312. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0484 (Fisher's exact test), Q value = 0.12
Table S313. Gene #78: '20q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 20Q LOSS MUTATED | 5 | 12 | 11 |
| 20Q LOSS WILD-TYPE | 185 | 130 | 175 |
Figure S313. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0191 (Fisher's exact test), Q value = 0.057
Table S314. Gene #78: '20q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 20Q LOSS MUTATED | 3 | 2 | 11 | 6 | 3 |
| 20Q LOSS WILD-TYPE | 69 | 138 | 87 | 110 | 44 |
Figure S314. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.03 (Fisher's exact test), Q value = 0.081
Table S315. Gene #78: '20q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 20Q LOSS MUTATED | 5 | 19 | 1 |
| 20Q LOSS WILD-TYPE | 135 | 225 | 88 |
Figure S315. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S316. Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 21Q LOSS MUTATED | 77 | 66 | 23 | 18 |
| 21Q LOSS WILD-TYPE | 78 | 69 | 166 | 25 |
Figure S316. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S317. Gene #79: '21q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 21Q LOSS MUTATED | 22 | 29 | 50 | 47 | 9 | 19 | 8 |
| 21Q LOSS WILD-TYPE | 62 | 50 | 46 | 45 | 69 | 56 | 10 |
Figure S317. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0124 (Fisher's exact test), Q value = 0.04
Table S318. Gene #79: '21q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 21Q LOSS MUTATED | 63 | 62 | 57 |
| 21Q LOSS WILD-TYPE | 78 | 150 | 104 |
Figure S318. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00017
Table S319. Gene #79: '21q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| 21Q LOSS MUTATED | 80 | 41 | 52 | 9 |
| 21Q LOSS WILD-TYPE | 96 | 62 | 118 | 56 |
Figure S319. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00038 (Fisher's exact test), Q value = 0.002
Table S320. Gene #79: '21q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 190 | 142 | 186 |
| 21Q LOSS MUTATED | 79 | 59 | 45 |
| 21Q LOSS WILD-TYPE | 111 | 83 | 141 |
Figure S320. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00062 (Fisher's exact test), Q value = 0.0032
Table S321. Gene #79: '21q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 21Q LOSS MUTATED | 33 | 56 | 30 | 49 | 6 |
| 21Q LOSS WILD-TYPE | 39 | 84 | 68 | 67 | 41 |
Figure S321. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00011 (Fisher's exact test), Q value = 7e-04
Table S322. Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| 22Q LOSS MUTATED | 34 | 17 | 13 | 11 |
| 22Q LOSS WILD-TYPE | 121 | 118 | 176 | 32 |
Figure S322. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00305 (Fisher's exact test), Q value = 0.013
Table S323. Gene #80: '22q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| 22Q LOSS MUTATED | 6 | 8 | 26 | 10 | 10 | 10 | 5 |
| 22Q LOSS WILD-TYPE | 78 | 71 | 70 | 82 | 68 | 65 | 13 |
Figure S323. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00234 (Fisher's exact test), Q value = 0.01
Table S324. Gene #80: '22q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| 22Q LOSS MUTATED | 19 | 19 | 35 |
| 22Q LOSS WILD-TYPE | 122 | 193 | 126 |
Figure S324. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00137 (Fisher's exact test), Q value = 0.0062
Table S325. Gene #80: '22q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| 22Q LOSS MUTATED | 22 | 35 | 16 |
| 22Q LOSS WILD-TYPE | 199 | 117 | 129 |
Figure S325. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0175 (Fisher's exact test), Q value = 0.053
Table S326. Gene #80: '22q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 72 | 140 | 98 | 116 | 47 |
| 22Q LOSS MUTATED | 8 | 32 | 9 | 12 | 5 |
| 22Q LOSS WILD-TYPE | 64 | 108 | 89 | 104 | 42 |
Figure S326. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0475 (Fisher's exact test), Q value = 0.12
Table S327. Gene #80: '22q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 140 | 244 | 89 |
| 22Q LOSS MUTATED | 17 | 29 | 20 |
| 22Q LOSS WILD-TYPE | 123 | 215 | 69 |
Figure S327. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S328. Gene #81: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| XP LOSS MUTATED | 55 | 50 | 23 | 6 |
| XP LOSS WILD-TYPE | 100 | 85 | 166 | 37 |
Figure S328. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S329. Gene #81: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| XP LOSS MUTATED | 15 | 21 | 29 | 44 | 13 | 6 | 6 |
| XP LOSS WILD-TYPE | 69 | 58 | 67 | 48 | 65 | 69 | 12 |
Figure S329. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0134 (Fisher's exact test), Q value = 0.043
Table S330. Gene #81: 'xp loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 76 | 82 | 48 |
| XP LOSS MUTATED | 16 | 31 | 8 |
| XP LOSS WILD-TYPE | 60 | 51 | 40 |
Figure S330. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0432 (Fisher's exact test), Q value = 0.11
Table S331. Gene #81: 'xp loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| XP LOSS MUTATED | 51 | 34 | 32 | 16 |
| XP LOSS WILD-TYPE | 125 | 69 | 138 | 49 |
Figure S331. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0211 (Fisher's exact test), Q value = 0.062
Table S332. Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| XP LOSS MUTATED | 67 | 27 | 37 |
| XP LOSS WILD-TYPE | 154 | 125 | 108 |
Figure S332. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S333. Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 155 | 135 | 189 | 43 |
| XQ LOSS MUTATED | 33 | 35 | 14 | 1 |
| XQ LOSS WILD-TYPE | 122 | 100 | 175 | 42 |
Figure S333. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.6e-05
Table S334. Gene #82: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 84 | 79 | 96 | 92 | 78 | 75 | 18 |
| XQ LOSS MUTATED | 6 | 14 | 17 | 29 | 12 | 2 | 3 |
| XQ LOSS WILD-TYPE | 78 | 65 | 79 | 63 | 66 | 73 | 15 |
Figure S334. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.011 (Fisher's exact test), Q value = 0.037
Table S335. Gene #82: 'xq loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 64 | 64 | 78 |
| XQ LOSS MUTATED | 10 | 3 | 17 |
| XQ LOSS WILD-TYPE | 54 | 61 | 61 |
Figure S335. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00041 (Fisher's exact test), Q value = 0.0022
Table S336. Gene #82: 'xq loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 76 | 82 | 48 |
| XQ LOSS MUTATED | 5 | 22 | 3 |
| XQ LOSS WILD-TYPE | 71 | 60 | 45 |
Figure S336. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.032 (Fisher's exact test), Q value = 0.086
Table S337. Gene #82: 'xq loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 141 | 212 | 161 |
| XQ LOSS MUTATED | 19 | 44 | 18 |
| XQ LOSS WILD-TYPE | 122 | 168 | 143 |
Figure S337. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00606 (Fisher's exact test), Q value = 0.022
Table S338. Gene #82: 'xq loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 176 | 103 | 170 | 65 |
| XQ LOSS MUTATED | 23 | 25 | 18 | 15 |
| XQ LOSS WILD-TYPE | 153 | 78 | 152 | 50 |
Figure S338. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00032 (Fisher's exact test), Q value = 0.0018
Table S339. Gene #82: 'xq loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 221 | 152 | 145 |
| XQ LOSS MUTATED | 51 | 16 | 14 |
| XQ LOSS WILD-TYPE | 170 | 136 | 131 |
Figure S339. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
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Copy number data file = broad_values_by_arm.txt from GISTIC pipeline
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Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/HNSC-TP/20144080/transformed.cor.cli.txt
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Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/HNSC-TP/20125733/HNSC-TP.transferedmergedcluster.txt
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Number of patients = 522
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Number of significantly arm-level cnvs = 82
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Number of molecular subtypes = 10
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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.