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, 346 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', 'RPPA_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', 'RPPA_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', 'RPPA_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', 'RPPA_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', 'RPPA_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', 'METHLYATION_CNMF', and 'RPPA_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', 'RPPA_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', 'RPPA_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_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, 346 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 | |
| 2p gain | 97 (19%) | 425 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.0233 (0.0652) |
0.438 (0.577) |
0.0344 (0.0887) |
1e-05 (9.53e-05) |
0.0214 (0.0617) |
0.0197 (0.0577) |
0.00241 (0.0102) |
0.0891 (0.182) |
| 14q gain | 151 (29%) | 371 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.219 (0.349) |
0.0954 (0.19) |
0.00911 (0.0313) |
1e-05 (9.53e-05) |
0.00678 (0.0245) |
0.00032 (0.0018) |
3e-05 (0.000226) |
0.00049 (0.00258) |
| 16q loss | 81 (16%) | 441 |
0.00207 (0.00903) |
1e-05 (9.53e-05) |
0.475 (0.618) |
0.242 (0.377) |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.00702 (0.0251) |
0.00814 (0.0286) |
1e-05 (9.53e-05) |
0.00231 (0.0099) |
| 1q gain | 121 (23%) | 401 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.29 (0.433) |
0.77 (0.842) |
0.0001 (0.000651) |
0.00083 (0.004) |
0.00033 (0.00183) |
0.00026 (0.00152) |
0.0122 (0.0398) |
0.0964 (0.19) |
| 9p gain | 102 (20%) | 420 |
1e-05 (9.53e-05) |
2e-05 (0.000161) |
0.393 (0.533) |
0.0948 (0.19) |
0.00413 (0.016) |
0.00069 (0.00343) |
0.00732 (0.0261) |
0.00941 (0.032) |
0.00022 (0.00135) |
0.155 (0.269) |
| 12p gain | 148 (28%) | 374 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.0156 (0.0476) |
0.824 (0.88) |
0.0138 (0.0425) |
6e-05 (0.000428) |
0.0123 (0.0398) |
0.0977 (0.191) |
0.0378 (0.0956) |
0.525 (0.664) |
| 18q gain | 53 (10%) | 469 |
0.00147 (0.00666) |
2e-05 (0.000161) |
0.00689 (0.0248) |
0.0863 (0.179) |
0.00031 (0.00178) |
0.00017 (0.00106) |
2e-05 (0.000161) |
0.141 (0.252) |
7e-05 (0.00047) |
0.0625 (0.142) |
| 20q gain | 201 (39%) | 321 |
1e-05 (9.53e-05) |
2e-05 (0.000161) |
0.838 (0.889) |
0.874 (0.915) |
0.0319 (0.0836) |
0.00023 (0.00139) |
0.0645 (0.144) |
0.00407 (0.0158) |
0.0362 (0.0924) |
0.0112 (0.0371) |
| 14q loss | 58 (11%) | 464 |
0.0639 (0.143) |
0.00279 (0.0116) |
0.0332 (0.086) |
0.526 (0.664) |
4e-05 (0.000295) |
0.00145 (0.00661) |
0.00051 (0.00266) |
0.311 (0.452) |
2e-05 (0.000161) |
0.0125 (0.0401) |
| 18q loss | 211 (40%) | 311 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.209 (0.337) |
0.332 (0.473) |
0.00078 (0.00381) |
1e-05 (9.53e-05) |
0.00075 (0.00368) |
1e-05 (9.53e-05) |
7e-05 (0.00047) |
0.0535 (0.126) |
| 19p loss | 98 (19%) | 424 |
1e-05 (9.53e-05) |
5e-05 (0.000363) |
0.712 (0.804) |
0.71 (0.803) |
0.0546 (0.128) |
0.00906 (0.0312) |
0.0217 (0.0623) |
0.0037 (0.0145) |
0.0105 (0.0352) |
0.0379 (0.0956) |
| 20q loss | 28 (5%) | 494 |
0.00041 (0.00223) |
0.00482 (0.0184) |
0.211 (0.339) |
0.753 (0.835) |
0.0116 (0.0385) |
0.0189 (0.0558) |
0.0701 (0.152) |
0.0466 (0.112) |
0.0184 (0.0546) |
0.0299 (0.0801) |
| 13q gain | 57 (11%) | 465 |
1e-05 (9.53e-05) |
0.0028 (0.0116) |
0.594 (0.72) |
0.736 (0.823) |
0.00135 (0.00618) |
0.00561 (0.021) |
0.123 (0.227) |
0.242 (0.377) |
0.0275 (0.0754) |
0.016 (0.0486) |
| 1p loss | 58 (11%) | 464 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.0311 (0.0822) |
0.165 (0.282) |
0.0019 (0.00842) |
1e-05 (9.53e-05) |
0.401 (0.541) |
0.0849 (0.176) |
0.262 (0.398) |
0.0206 (0.0599) |
| 3p loss | 297 (57%) | 225 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.943 (0.962) |
0.678 (0.781) |
0.0296 (0.0796) |
1e-05 (9.53e-05) |
0.0986 (0.191) |
0.00074 (0.00366) |
9e-05 (0.000595) |
0.236 (0.37) |
| 4p loss | 194 (37%) | 328 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.0638 (0.143) |
0.547 (0.68) |
0.00015 (0.000946) |
1e-05 (9.53e-05) |
0.182 (0.301) |
0.0276 (0.0754) |
0.0006 (0.00304) |
0.064 (0.143) |
| 8p loss | 187 (36%) | 335 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.55 (0.683) |
0.68 (0.781) |
0.15 (0.264) |
2e-05 (0.000161) |
0.142 (0.253) |
0.00254 (0.0107) |
0.00023 (0.00139) |
7e-05 (0.00047) |
| 21q loss | 184 (35%) | 338 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.573 (0.707) |
0.983 (0.993) |
0.013 (0.0412) |
3e-05 (0.000226) |
0.301 (0.445) |
0.00034 (0.00187) |
0.00064 (0.00322) |
0.231 (0.364) |
| 22q loss | 75 (14%) | 447 |
0.00015 (0.000946) |
0.00334 (0.0135) |
0.667 (0.774) |
0.656 (0.768) |
0.0023 (0.0099) |
0.326 (0.468) |
0.00149 (0.00671) |
0.517 (0.656) |
0.0178 (0.053) |
0.0467 (0.112) |
| xq loss | 83 (16%) | 439 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.0871 (0.18) |
0.00043 (0.0023) |
0.0313 (0.0827) |
0.00597 (0.0221) |
0.00043 (0.0023) |
0.0978 (0.191) |
0.294 (0.438) |
0.424 (0.561) |
| 2q gain | 74 (14%) | 448 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.388 (0.529) |
0.73 (0.821) |
0.0625 (0.142) |
1e-05 (9.53e-05) |
0.103 (0.198) |
0.103 (0.198) |
0.0165 (0.0497) |
0.039 (0.0981) |
| 3q gain | 254 (49%) | 268 |
6e-05 (0.000428) |
1e-05 (9.53e-05) |
0.696 (0.79) |
0.283 (0.426) |
0.0003 (0.00174) |
0.15 (0.264) |
0.00874 (0.0302) |
0.802 (0.861) |
0.0218 (0.0623) |
0.0956 (0.19) |
| 7q gain | 129 (25%) | 393 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.177 (0.295) |
0.633 (0.748) |
0.535 (0.67) |
0.00048 (0.00254) |
0.013 (0.0412) |
7e-05 (0.00047) |
0.327 (0.468) |
0.5 (0.643) |
| 8q gain | 310 (59%) | 212 |
2e-05 (0.000161) |
1e-05 (9.53e-05) |
0.0812 (0.17) |
0.889 (0.925) |
0.0717 (0.156) |
7e-05 (0.00047) |
0.171 (0.287) |
0.0105 (0.0353) |
0.0396 (0.0989) |
0.0677 (0.149) |
| 11p gain | 66 (13%) | 456 |
7e-05 (0.00047) |
4e-05 (0.000295) |
0.827 (0.881) |
0.412 (0.549) |
0.105 (0.2) |
0.145 (0.257) |
0.0447 (0.109) |
0.265 (0.402) |
0.0035 (0.0139) |
0.00831 (0.029) |
| 15q gain | 72 (14%) | 450 |
7e-05 (0.00047) |
0.00649 (0.0235) |
0.385 (0.526) |
0.586 (0.715) |
0.0972 (0.191) |
0.0351 (0.0899) |
0.885 (0.924) |
0.00608 (0.0224) |
0.0348 (0.0895) |
0.526 (0.664) |
| 17p gain | 67 (13%) | 455 |
1e-05 (9.53e-05) |
5e-05 (0.000363) |
0.601 (0.726) |
0.902 (0.933) |
0.00197 (0.00864) |
0.00308 (0.0126) |
0.0566 (0.131) |
0.0465 (0.112) |
0.248 (0.384) |
0.168 (0.284) |
| 18p gain | 123 (24%) | 399 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.333 (0.474) |
0.321 (0.465) |
0.348 (0.489) |
8e-05 (0.000533) |
0.25 (0.387) |
0.0155 (0.0475) |
0.00099 (0.00472) |
0.167 (0.283) |
| 19p gain | 56 (11%) | 466 |
0.0125 (0.0401) |
1e-05 (9.53e-05) |
0.0873 (0.18) |
0.766 (0.839) |
0.0199 (0.058) |
0.0151 (0.0464) |
0.00032 (0.0018) |
0.0521 (0.123) |
0.404 (0.543) |
0.179 (0.297) |
| 20p gain | 190 (36%) | 332 |
1e-05 (9.53e-05) |
3e-05 (0.000226) |
0.896 (0.93) |
0.733 (0.822) |
0.051 (0.121) |
0.00426 (0.0164) |
0.0936 (0.189) |
0.0122 (0.0398) |
0.513 (0.654) |
0.0402 (0.0998) |
| 22q gain | 112 (21%) | 410 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.153 (0.267) |
0.517 (0.656) |
0.155 (0.269) |
0.00033 (0.00183) |
0.00057 (0.00292) |
0.0796 (0.168) |
0.0136 (0.0424) |
0.531 (0.667) |
| 4q loss | 151 (29%) | 371 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.47 (0.613) |
0.222 (0.352) |
0.00846 (0.0294) |
3e-05 (0.000226) |
0.258 (0.394) |
0.0924 (0.188) |
0.0301 (0.0802) |
0.164 (0.28) |
| 5q loss | 164 (31%) | 358 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.245 (0.38) |
0.772 (0.842) |
0.348 (0.489) |
1e-05 (9.53e-05) |
0.385 (0.526) |
0.00024 (0.00143) |
0.00017 (0.00106) |
0.0771 (0.164) |
| 9p loss | 186 (36%) | 336 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.668 (0.774) |
0.115 (0.215) |
0.296 (0.439) |
1e-05 (9.53e-05) |
0.0582 (0.135) |
2e-05 (0.000161) |
1e-05 (9.53e-05) |
0.599 (0.724) |
| 9q loss | 87 (17%) | 435 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.976 (0.986) |
0.971 (0.983) |
0.373 (0.515) |
0.0137 (0.0424) |
0.421 (0.558) |
0.00324 (0.0132) |
0.0129 (0.0412) |
0.31 (0.452) |
| 13q loss | 167 (32%) | 355 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.383 (0.526) |
0.826 (0.88) |
0.00032 (0.0018) |
0.00544 (0.0206) |
0.0403 (0.0999) |
0.194 (0.317) |
0.106 (0.202) |
0.201 (0.324) |
| 19q loss | 86 (16%) | 436 |
1e-05 (9.53e-05) |
2e-05 (0.000161) |
0.13 (0.237) |
0.517 (0.656) |
0.344 (0.486) |
0.00817 (0.0286) |
0.155 (0.269) |
0.0322 (0.084) |
0.169 (0.284) |
0.0419 (0.103) |
| xp loss | 134 (26%) | 388 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.931 (0.955) |
0.0137 (0.0425) |
0.106 (0.202) |
0.0419 (0.103) |
0.0209 (0.0606) |
0.44 (0.578) |
0.0772 (0.164) |
0.603 (0.727) |
| 3p gain | 81 (16%) | 441 |
0.195 (0.318) |
0.00026 (0.00152) |
0.131 (0.237) |
0.756 (0.835) |
0.0121 (0.0398) |
0.0372 (0.0947) |
0.13 (0.236) |
0.156 (0.269) |
0.111 (0.209) |
0.0291 (0.0785) |
| 7p gain | 183 (35%) | 339 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.635 (0.749) |
0.502 (0.644) |
0.15 (0.264) |
1e-05 (9.53e-05) |
0.688 (0.784) |
1e-05 (9.53e-05) |
0.125 (0.229) |
0.533 (0.668) |
| 9q gain | 139 (27%) | 383 |
1e-05 (9.53e-05) |
0.00297 (0.0122) |
0.175 (0.293) |
0.255 (0.392) |
0.39 (0.53) |
0.00108 (0.00503) |
0.395 (0.535) |
0.0495 (0.117) |
0.298 (0.441) |
0.439 (0.578) |
| 10p gain | 40 (8%) | 482 |
0.0768 (0.164) |
1e-05 (9.53e-05) |
0.591 (0.719) |
0.0674 (0.149) |
0.0982 (0.191) |
0.00056 (0.00289) |
0.0431 (0.105) |
0.0169 (0.0509) |
0.556 (0.689) |
0.365 (0.508) |
| 11q gain | 71 (14%) | 451 |
0.00011 (0.00071) |
3e-05 (0.000226) |
0.573 (0.707) |
0.58 (0.713) |
0.124 (0.229) |
0.0806 (0.169) |
0.273 (0.413) |
0.0172 (0.0515) |
0.0179 (0.0533) |
0.0636 (0.143) |
| 16p gain | 107 (20%) | 415 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.328 (0.469) |
0.179 (0.297) |
0.402 (0.542) |
0.0137 (0.0424) |
0.869 (0.914) |
1e-05 (9.53e-05) |
0.479 (0.621) |
0.539 (0.674) |
| 16q gain | 107 (20%) | 415 |
1e-05 (9.53e-05) |
2e-05 (0.000161) |
0.584 (0.714) |
0.815 (0.873) |
0.181 (0.299) |
0.00643 (0.0234) |
0.29 (0.433) |
3e-05 (0.000226) |
0.0881 (0.181) |
0.195 (0.318) |
| 17q gain | 87 (17%) | 435 |
2e-05 (0.000161) |
0.00056 (0.00289) |
0.581 (0.713) |
0.672 (0.777) |
0.0878 (0.18) |
0.00123 (0.0057) |
0.419 (0.556) |
0.0035 (0.0139) |
0.0614 (0.141) |
0.0971 (0.191) |
| 21q gain | 35 (7%) | 487 |
0.0633 (0.143) |
0.0413 (0.102) |
0.0133 (0.0417) |
0.127 (0.233) |
0.00557 (0.021) |
0.0738 (0.159) |
0.0957 (0.19) |
0.251 (0.387) |
0.00576 (0.0214) |
0.771 (0.842) |
| xq gain | 95 (18%) | 427 |
2e-05 (0.000161) |
2e-05 (0.000161) |
0.261 (0.398) |
1 (1.00) |
0.582 (0.713) |
0.0195 (0.0572) |
0.13 (0.237) |
0.515 (0.655) |
0.0258 (0.0714) |
0.138 (0.248) |
| 1q loss | 39 (7%) | 483 |
0.0163 (0.0494) |
0.139 (0.249) |
0.781 (0.848) |
0.488 (0.631) |
0.027 (0.0744) |
0.00267 (0.0112) |
0.0947 (0.19) |
0.0009 (0.00432) |
0.409 (0.547) |
0.51 (0.652) |
| 5p loss | 51 (10%) | 471 |
2e-05 (0.000161) |
1e-05 (9.53e-05) |
0.416 (0.553) |
0.384 (0.526) |
0.57 (0.705) |
0.0132 (0.0415) |
0.408 (0.545) |
0.256 (0.392) |
0.0926 (0.188) |
0.0243 (0.0677) |
| 7p loss | 29 (6%) | 493 |
0.0287 (0.078) |
0.00625 (0.0229) |
0.0105 (0.0352) |
0.629 (0.745) |
0.364 (0.507) |
0.0847 (0.176) |
0.257 (0.394) |
0.762 (0.837) |
0.0226 (0.0639) |
0.778 (0.846) |
| 11p loss | 141 (27%) | 381 |
1e-05 (9.53e-05) |
0.00018 (0.00111) |
0.318 (0.462) |
0.333 (0.473) |
0.00102 (0.00481) |
0.161 (0.277) |
0.00373 (0.0146) |
0.12 (0.223) |
0.0958 (0.19) |
0.233 (0.367) |
| 11q loss | 172 (33%) | 350 |
1e-05 (9.53e-05) |
1e-05 (9.53e-05) |
0.175 (0.293) |
0.0785 (0.166) |
0.00036 (0.00197) |
0.00306 (0.0125) |
0.109 (0.206) |
0.427 (0.564) |
0.152 (0.266) |
0.508 (0.65) |
| 18p loss | 104 (20%) | 418 |
0.00153 (0.00686) |
2e-05 (0.000161) |
0.54 (0.674) |
0.327 (0.468) |
0.311 (0.452) |
0.00361 (0.0143) |
0.623 (0.745) |
0.0123 (0.0398) |
0.223 (0.354) |
0.582 (0.713) |
| 1p gain | 70 (13%) | 452 |
0.0001 (0.000651) |
0.00989 (0.0335) |
0.991 (1) |
0.626 (0.745) |
0.946 (0.965) |
0.728 (0.82) |
0.686 (0.783) |
0.00529 (0.0201) |
0.119 (0.222) |
0.876 (0.916) |
| 5p gain | 201 (39%) | 321 |
1e-05 (9.53e-05) |
0.00228 (0.00989) |
0.961 (0.976) |
0.835 (0.888) |
0.0946 (0.19) |
0.923 (0.947) |
0.577 (0.71) |
0.0319 (0.0836) |
0.836 (0.888) |
0.659 (0.769) |
| 6q gain | 63 (12%) | 459 |
0.00233 (0.0099) |
0.0305 (0.081) |
0.191 (0.314) |
0.0728 (0.158) |
0.0996 (0.193) |
0.0394 (0.0987) |
0.239 (0.375) |
0.914 (0.939) |
0.0656 (0.145) |
0.296 (0.439) |
| 12q gain | 89 (17%) | 433 |
1e-05 (9.53e-05) |
0.00108 (0.00503) |
0.144 (0.256) |
0.183 (0.301) |
0.0557 (0.13) |
0.00806 (0.0285) |
0.662 (0.771) |
0.781 (0.848) |
0.45 (0.59) |
0.793 (0.854) |
| 19q gain | 78 (15%) | 444 |
0.373 (0.515) |
0.00024 (0.00143) |
0.962 (0.976) |
0.787 (0.85) |
0.0609 (0.14) |
0.042 (0.103) |
0.00058 (0.00295) |
0.0785 (0.166) |
0.498 (0.642) |
0.0656 (0.145) |
| 2p loss | 33 (6%) | 489 |
0.0291 (0.0785) |
0.00576 (0.0214) |
0.159 (0.274) |
0.0454 (0.11) |
0.0593 (0.137) |
0.062 (0.142) |
0.0565 (0.131) |
0.67 (0.776) |
0.2 (0.323) |
0.372 (0.515) |
| 6p loss | 68 (13%) | 454 |
0.00048 (0.00254) |
0.00102 (0.00481) |
0.0284 (0.0774) |
0.126 (0.231) |
0.0632 (0.143) |
0.119 (0.222) |
0.311 (0.452) |
0.685 (0.783) |
0.74 (0.826) |
0.0745 (0.16) |
| 6q loss | 68 (13%) | 454 |
0.0458 (0.11) |
0.00368 (0.0145) |
0.127 (0.233) |
0.124 (0.229) |
0.727 (0.82) |
0.757 (0.835) |
0.76 (0.836) |
0.372 (0.515) |
0.769 (0.842) |
0.0214 (0.0617) |
| 10p loss | 156 (30%) | 366 |
1e-05 (9.53e-05) |
0.00335 (0.0135) |
0.322 (0.465) |
0.23 (0.363) |
0.0681 (0.149) |
0.0662 (0.146) |
0.0637 (0.143) |
0.0928 (0.188) |
0.0232 (0.0652) |
0.242 (0.377) |
| 10q loss | 113 (22%) | 409 |
1e-05 (9.53e-05) |
0.00068 (0.0034) |
0.208 (0.336) |
0.303 (0.445) |
0.0695 (0.152) |
0.104 (0.199) |
0.0301 (0.0802) |
0.146 (0.258) |
0.122 (0.226) |
0.164 (0.281) |
| 16p loss | 63 (12%) | 459 |
3e-05 (0.000226) |
0.011 (0.0366) |
0.864 (0.911) |
0.0799 (0.168) |
0.00167 (0.00744) |
0.195 (0.318) |
0.662 (0.771) |
0.637 (0.75) |
0.177 (0.295) |
0.896 (0.93) |
| 20p loss | 47 (9%) | 475 |
2e-05 (0.000161) |
0.0265 (0.0733) |
0.491 (0.634) |
0.774 (0.843) |
0.26 (0.397) |
0.0938 (0.189) |
0.323 (0.466) |
0.0223 (0.0633) |
0.117 (0.218) |
0.0953 (0.19) |
| 4p gain | 41 (8%) | 481 |
0.0222 (0.0631) |
0.00195 (0.0086) |
0.698 (0.79) |
0.352 (0.493) |
0.143 (0.254) |
0.674 (0.778) |
0.0741 (0.16) |
0.648 (0.761) |
0.733 (0.822) |
0.326 (0.468) |
| 6p gain | 83 (16%) | 439 |
0.00031 (0.00178) |
0.00233 (0.0099) |
0.5 (0.643) |
0.743 (0.827) |
0.684 (0.783) |
0.219 (0.349) |
0.608 (0.731) |
0.0694 (0.152) |
0.323 (0.466) |
0.659 (0.769) |
| 10q gain | 34 (7%) | 488 |
0.00451 (0.0173) |
0.242 (0.377) |
0.098 (0.191) |
0.4 (0.541) |
0.356 (0.498) |
0.142 (0.253) |
0.876 (0.916) |
0.0378 (0.0956) |
0.217 (0.347) |
0.61 (0.733) |
| xp gain | 53 (10%) | 469 |
0.0341 (0.0882) |
0.0322 (0.084) |
0.161 (0.277) |
0.376 (0.517) |
0.617 (0.738) |
0.541 (0.674) |
0.698 (0.79) |
0.631 (0.747) |
0.303 (0.445) |
1 (1.00) |
| 3q loss | 61 (12%) | 461 |
0.0093 (0.0318) |
0.229 (0.363) |
0.337 (0.478) |
0.757 (0.835) |
0.627 (0.745) |
0.269 (0.407) |
1 (1.00) |
0.00767 (0.0272) |
0.363 (0.507) |
0.947 (0.965) |
| 12q loss | 33 (6%) | 489 |
0.0458 (0.11) |
0.0013 (0.00599) |
0.865 (0.911) |
0.0959 (0.19) |
0.408 (0.545) |
0.963 (0.976) |
1 (1.00) |
0.189 (0.311) |
0.302 (0.445) |
0.214 (0.344) |
| 17p loss | 107 (20%) | 415 |
0.00015 (0.000946) |
0.00081 (0.00393) |
0.385 (0.526) |
0.758 (0.835) |
0.693 (0.788) |
0.162 (0.279) |
0.396 (0.536) |
0.111 (0.209) |
0.339 (0.48) |
0.859 (0.908) |
| 17q loss | 34 (7%) | 488 |
0.0127 (0.0406) |
0.112 (0.211) |
0.903 (0.933) |
0.502 (0.644) |
0.456 (0.595) |
0.0399 (0.0994) |
0.743 (0.827) |
0.949 (0.965) |
0.871 (0.915) |
0.545 (0.678) |
| 5q gain | 68 (13%) | 454 |
0.0484 (0.115) |
0.592 (0.719) |
0.616 (0.738) |
0.888 (0.925) |
0.821 (0.878) |
0.625 (0.745) |
0.679 (0.781) |
0.45 (0.59) |
0.857 (0.907) |
0.31 (0.452) |
| 8p gain | 155 (30%) | 367 |
0.023 (0.0649) |
0.248 (0.384) |
0.59 (0.719) |
0.637 (0.75) |
0.791 (0.853) |
0.905 (0.933) |
0.596 (0.722) |
0.787 (0.85) |
0.453 (0.592) |
0.134 (0.243) |
| 8q loss | 30 (6%) | 492 |
0.0242 (0.0674) |
0.287 (0.43) |
0.754 (0.835) |
0.873 (0.915) |
0.785 (0.85) |
0.656 (0.768) |
0.374 (0.515) |
0.414 (0.551) |
0.652 (0.765) |
0.264 (0.4) |
| 12p loss | 37 (7%) | 485 |
0.731 (0.821) |
0.0489 (0.116) |
0.627 (0.745) |
0.108 (0.206) |
0.908 (0.935) |
0.167 (0.283) |
0.818 (0.876) |
0.802 (0.861) |
0.339 (0.48) |
0.285 (0.428) |
| 15q loss | 103 (20%) | 419 |
1e-05 (9.53e-05) |
0.169 (0.284) |
0.629 (0.745) |
0.349 (0.49) |
0.0844 (0.176) |
0.136 (0.245) |
0.607 (0.73) |
0.277 (0.417) |
0.0789 (0.167) |
0.941 (0.962) |
| 4q gain | 37 (7%) | 485 |
0.903 (0.933) |
0.198 (0.321) |
1 (1.00) |
0.763 (0.837) |
0.841 (0.891) |
0.481 (0.623) |
1 (1.00) |
0.909 (0.935) |
0.683 (0.783) |
0.739 (0.825) |
| 2q loss | 46 (9%) | 476 |
0.476 (0.618) |
0.217 (0.348) |
0.873 (0.915) |
0.673 (0.777) |
0.528 (0.664) |
0.901 (0.933) |
0.153 (0.267) |
0.688 (0.784) |
0.405 (0.543) |
0.166 (0.283) |
| 7q loss | 40 (8%) | 482 |
0.368 (0.511) |
0.305 (0.448) |
0.528 (0.664) |
1 (1.00) |
0.18 (0.298) |
0.798 (0.858) |
0.101 (0.195) |
0.935 (0.957) |
0.744 (0.827) |
0.287 (0.43) |
P value = 1e-04 (Fisher's exact test), Q value = 0.00065
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 = 0.00989 (Fisher's exact test), Q value = 0.034
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 = 0.00529 (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 = 9.5e-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 = 9.5e-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 = 1e-04 (Fisher's exact test), Q value = 0.00065
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 = 0.00083 (Fisher's exact test), Q value = 0.004
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 = 0.00033 (Fisher's exact test), Q value = 0.0018
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 = 0.00026 (Fisher's exact test), Q value = 0.0015
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 = 0.0122 (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 = 9.5e-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 = 9.5e-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 = 0.0233 (Fisher's exact test), Q value = 0.065
Table S13. Gene #3: '2p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 2P GAIN MUTATED | 11 | 21 | 8 | 11 |
| 2P GAIN WILD-TYPE | 42 | 30 | 29 | 54 |
Figure S13. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0344 (Fisher's exact test), Q value = 0.089
Table S14. 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 S14. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S15. 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 S15. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0214 (Fisher's exact test), Q value = 0.062
Table S16. 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 S16. 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 S17. 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 S17. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00241 (Fisher's exact test), Q value = 0.01
Table S18. 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 S18. 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 = 9.5e-05
Table S19. 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 S19. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S20. 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 S20. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S21. 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 S21. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0165 (Fisher's exact test), Q value = 0.05
Table S22. 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 S22. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.039 (Fisher's exact test), Q value = 0.098
Table S23. 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 S23. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00026 (Fisher's exact test), Q value = 0.0015
Table S24. 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 S24. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0121 (Fisher's exact test), Q value = 0.04
Table S25. 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 S25. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0372 (Fisher's exact test), Q value = 0.095
Table S26. 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 S26. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0291 (Fisher's exact test), Q value = 0.079
Table S27. 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 S27. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 6e-05 (Fisher's exact test), Q value = 0.00043
Table S28. 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 S28. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S29. 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 S29. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 3e-04 (Fisher's exact test), Q value = 0.0017
Table S30. 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 S30. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00874 (Fisher's exact test), Q value = 0.03
Table S31. 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 S31. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0218 (Fisher's exact test), Q value = 0.062
Table S32. 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 S32. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0222 (Fisher's exact test), Q value = 0.063
Table S33. 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 S33. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00195 (Fisher's exact test), Q value = 0.0086
Table S34. 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 S34. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S35. 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 S35. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00228 (Fisher's exact test), Q value = 0.0099
Table S36. 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 S36. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0319 (Fisher's exact test), Q value = 0.084
Table S37. 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 S37. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0484 (Fisher's exact test), Q value = 0.12
Table S38. 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 S38. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00031 (Fisher's exact test), Q value = 0.0018
Table S39. 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 S39. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00233 (Fisher's exact test), Q value = 0.0099
Table S40. 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 S40. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00233 (Fisher's exact test), Q value = 0.0099
Table S41. 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 S41. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0305 (Fisher's exact test), Q value = 0.081
Table S42. 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 S42. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0394 (Fisher's exact test), Q value = 0.099
Table S43. 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 S43. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S44. 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 S44. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S45. 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 S45. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S46. 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 S46. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S47. 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 S47. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S48. 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 S48. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S49. 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 S49. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00048 (Fisher's exact test), Q value = 0.0025
Table S50. 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 S50. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.013 (Fisher's exact test), Q value = 0.041
Table S51. 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 S51. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S52. 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 S52. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.023 (Fisher's exact test), Q value = 0.065
Table S53. 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 S53. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S54. 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 S54. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S55. 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 S55. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S56. 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 S56. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0105 (Fisher's exact test), Q value = 0.035
Table S57. 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 S57. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0396 (Fisher's exact test), Q value = 0.099
Table S58. 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 S58. 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 = 9.5e-05
Table S59. 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 S59. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S60. 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 S60. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00413 (Fisher's exact test), Q value = 0.016
Table S61. 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 S61. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00069 (Fisher's exact test), Q value = 0.0034
Table S62. 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 S62. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00732 (Fisher's exact test), Q value = 0.026
Table S63. 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 S63. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00941 (Fisher's exact test), Q value = 0.032
Table S64. 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 S64. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00022 (Fisher's exact test), Q value = 0.0013
Table S65. 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 S65. 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 = 9.5e-05
Table S66. 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 S66. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00297 (Fisher's exact test), Q value = 0.012
Table S67. 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 S67. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00108 (Fisher's exact test), Q value = 0.005
Table S68. 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 S68. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0495 (Fisher's exact test), Q value = 0.12
Table S69. 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 S69. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S70. 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 S70. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00056 (Fisher's exact test), Q value = 0.0029
Table S71. 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 S71. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0431 (Fisher's exact test), Q value = 0.11
Table S72. 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 S72. 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 S73. 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 S73. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00451 (Fisher's exact test), Q value = 0.017
Table S74. 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 S74. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0378 (Fisher's exact test), Q value = 0.096
Table S75. 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 S75. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S76. 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 S76. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 3e-04
Table S77. 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 S77. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0447 (Fisher's exact test), Q value = 0.11
Table S78. 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 S78. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0035 (Fisher's exact test), Q value = 0.014
Table S79. 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 S79. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00831 (Fisher's exact test), Q value = 0.029
Table S80. 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 S80. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00011 (Fisher's exact test), Q value = 0.00071
Table S81. 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 S81. 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 S82. 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 S82. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0172 (Fisher's exact test), Q value = 0.052
Table S83. 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 S83. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0179 (Fisher's exact test), Q value = 0.053
Table S84. 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 S84. 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 = 9.5e-05
Table S85. 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 S85. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S86. 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 S86. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0156 (Fisher's exact test), Q value = 0.048
Table S87. Gene #23: '12p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 12P GAIN MUTATED | 20 | 22 | 9 | 12 |
| 12P GAIN WILD-TYPE | 33 | 29 | 28 | 53 |
Figure S87. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0138 (Fisher's exact test), Q value = 0.042
Table S88. 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 S88. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00043
Table S89. 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 S89. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0123 (Fisher's exact test), Q value = 0.04
Table S90. 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 S90. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0378 (Fisher's exact test), Q value = 0.096
Table S91. 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 S91. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S92. 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 S92. 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 S93. 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 S93. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00806 (Fisher's exact test), Q value = 0.028
Table S94. 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 S94. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S95. 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 S95. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0028 (Fisher's exact test), Q value = 0.012
Table S96. 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 S96. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00135 (Fisher's exact test), Q value = 0.0062
Table S97. 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 S97. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00561 (Fisher's exact test), Q value = 0.021
Table S98. 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 S98. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0275 (Fisher's exact test), Q value = 0.075
Table S99. 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 S99. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.016 (Fisher's exact test), Q value = 0.049
Table S100. 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 S100. 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 = 9.5e-05
Table S101. 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 S101. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S102. 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 S102. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00911 (Fisher's exact test), Q value = 0.031
Table S103. 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 S103. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S104. 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 S104. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00678 (Fisher's exact test), Q value = 0.024
Table S105. 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 S105. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00032 (Fisher's exact test), Q value = 0.0018
Table S106. 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 S106. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S107. 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 S107. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00049 (Fisher's exact test), Q value = 0.0026
Table S108. 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 S108. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S109. 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 S109. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00649 (Fisher's exact test), Q value = 0.024
Table S110. 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 S110. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0351 (Fisher's exact test), Q value = 0.09
Table S111. 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 S111. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00608 (Fisher's exact test), Q value = 0.022
Table S112. 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 S112. Get High-res Image Gene #27: '15q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0348 (Fisher's exact test), Q value = 0.09
Table S113. 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 S113. 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 = 9.5e-05
Table S114. 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 S114. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S115. 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 S115. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0137 (Fisher's exact test), Q value = 0.042
Table S116. 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 S116. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S117. 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 S117. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S118. 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 S118. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S119. 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 S119. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00643 (Fisher's exact test), Q value = 0.023
Table S120. 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 S120. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S121. 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 S121. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S122. 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 S122. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S123. 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 S123. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00197 (Fisher's exact test), Q value = 0.0086
Table S124. 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 S124. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00308 (Fisher's exact test), Q value = 0.013
Table S125. 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 S125. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0465 (Fisher's exact test), Q value = 0.11
Table S126. 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 S126. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S127. 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 S127. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00056 (Fisher's exact test), Q value = 0.0029
Table S128. 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 S128. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00123 (Fisher's exact test), Q value = 0.0057
Table S129. 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 S129. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0035 (Fisher's exact test), Q value = 0.014
Table S130. 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 S130. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S131. 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 S131. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S132. 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 S132. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 8e-05 (Fisher's exact test), Q value = 0.00053
Table S133. 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 S133. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0155 (Fisher's exact test), Q value = 0.048
Table S134. 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 S134. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00099 (Fisher's exact test), Q value = 0.0047
Table S135. 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 S135. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00147 (Fisher's exact test), Q value = 0.0067
Table S136. 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 S136. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S137. 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 S137. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00689 (Fisher's exact test), Q value = 0.025
Table S138. Gene #33: '18q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 18Q GAIN MUTATED | 5 | 11 | 0 | 5 |
| 18Q GAIN WILD-TYPE | 48 | 40 | 37 | 60 |
Figure S138. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00031 (Fisher's exact test), Q value = 0.0018
Table S139. 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 S139. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00017 (Fisher's exact test), Q value = 0.0011
Table S140. 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 S140. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S141. 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 S141. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S142. 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 S142. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0125 (Fisher's exact test), Q value = 0.04
Table S143. 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 S143. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S144. 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 S144. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0199 (Fisher's exact test), Q value = 0.058
Table S145. 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 S145. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0151 (Fisher's exact test), Q value = 0.046
Table S146. 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 S146. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00032 (Fisher's exact test), Q value = 0.0018
Table S147. 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 S147. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00024 (Fisher's exact test), Q value = 0.0014
Table S148. 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 S148. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.042 (Fisher's exact test), Q value = 0.1
Table S149. 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 S149. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00058 (Fisher's exact test), Q value = 0.003
Table S150. 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 S150. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S151. 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 S151. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S152. 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 S152. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00426 (Fisher's exact test), Q value = 0.016
Table S153. 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 S153. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0122 (Fisher's exact test), Q value = 0.04
Table S154. 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 S154. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0402 (Fisher's exact test), Q value = 0.1
Table S155. 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 S155. 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 = 9.5e-05
Table S156. 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 S156. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S157. 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 S157. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0319 (Fisher's exact test), Q value = 0.084
Table S158. 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 S158. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00023 (Fisher's exact test), Q value = 0.0014
Table S159. 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 S159. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00407 (Fisher's exact test), Q value = 0.016
Table S160. 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 S160. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0362 (Fisher's exact test), Q value = 0.092
Table S161. 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 S161. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0112 (Fisher's exact test), Q value = 0.037
Table S162. 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 S162. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0413 (Fisher's exact test), Q value = 0.1
Table S163. 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 S163. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0133 (Fisher's exact test), Q value = 0.042
Table S164. Gene #38: '21q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 21Q GAIN MUTATED | 3 | 10 | 2 | 2 |
| 21Q GAIN WILD-TYPE | 50 | 41 | 35 | 63 |
Figure S164. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00557 (Fisher's exact test), Q value = 0.021
Table S165. 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 S165. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00576 (Fisher's exact test), Q value = 0.021
Table S166. 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 S166. 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 = 9.5e-05
Table S167. 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 S167. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S168. 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 S168. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00033 (Fisher's exact test), Q value = 0.0018
Table S169. 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 S169. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00057 (Fisher's exact test), Q value = 0.0029
Table S170. 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 S170. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0136 (Fisher's exact test), Q value = 0.042
Table S171. 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 S171. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0341 (Fisher's exact test), Q value = 0.088
Table S172. 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 S172. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0322 (Fisher's exact test), Q value = 0.084
Table S173. 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 S173. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S174. 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 S174. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S175. 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 S175. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0195 (Fisher's exact test), Q value = 0.057
Table S176. 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 S176. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0258 (Fisher's exact test), Q value = 0.071
Table S177. 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 S177. 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 = 9.5e-05
Table S178. 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 S178. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S179. 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 S179. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0311 (Fisher's exact test), Q value = 0.082
Table S180. Gene #42: '1p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 1P LOSS MUTATED | 5 | 14 | 4 | 6 |
| 1P LOSS WILD-TYPE | 48 | 37 | 33 | 59 |
Figure S180. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0019 (Fisher's exact test), Q value = 0.0084
Table S181. 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 S181. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S182. 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 S182. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0206 (Fisher's exact test), Q value = 0.06
Table S183. 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 S183. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0163 (Fisher's exact test), Q value = 0.049
Table S184. 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 S184. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.027 (Fisher's exact test), Q value = 0.074
Table S185. 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 S185. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00267 (Fisher's exact test), Q value = 0.011
Table S186. 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 S186. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 9e-04 (Fisher's exact test), Q value = 0.0043
Table S187. 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 S187. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0291 (Fisher's exact test), Q value = 0.079
Table S188. 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 S188. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00576 (Fisher's exact test), Q value = 0.021
Table S189. 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 S189. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0454 (Fisher's exact test), Q value = 0.11
Table S190. 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 S190. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S191. 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 S191. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S192. 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 S192. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0296 (Fisher's exact test), Q value = 0.08
Table S193. 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 S193. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S194. 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 S194. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00074 (Fisher's exact test), Q value = 0.0037
Table S195. 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 S195. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 9e-05 (Fisher's exact test), Q value = 6e-04
Table S196. 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 S196. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0093 (Fisher's exact test), Q value = 0.032
Table S197. 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 S197. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00767 (Fisher's exact test), Q value = 0.027
Table S198. 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 S198. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S199. 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 S199. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S200. 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 S200. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00015 (Fisher's exact test), Q value = 0.00095
Table S201. 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 S201. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S202. 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 S202. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0276 (Fisher's exact test), Q value = 0.075
Table S203. 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 S203. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 6e-04 (Fisher's exact test), Q value = 0.003
Table S204. 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 S204. 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 = 9.5e-05
Table S205. 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 S205. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S206. 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 S206. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00846 (Fisher's exact test), Q value = 0.029
Table S207. 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 S207. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S208. 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 S208. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0301 (Fisher's exact test), Q value = 0.08
Table S209. 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 S209. 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 = 0.00016
Table S210. 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 S210. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S211. 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 S211. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0132 (Fisher's exact test), Q value = 0.042
Table S212. 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 S212. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0243 (Fisher's exact test), Q value = 0.068
Table S213. 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 S213. 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 = 9.5e-05
Table S214. 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 S214. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S215. 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 S215. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S216. 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 S216. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00024 (Fisher's exact test), Q value = 0.0014
Table S217. 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 S217. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00017 (Fisher's exact test), Q value = 0.0011
Table S218. 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 S218. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00048 (Fisher's exact test), Q value = 0.0025
Table S219. 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 S219. Get High-res Image Gene #52: '6p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00102 (Fisher's exact test), Q value = 0.0048
Table S220. 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 S220. Get High-res Image Gene #52: '6p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0284 (Fisher's exact test), Q value = 0.077
Table S221. Gene #52: '6p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 6P LOSS MUTATED | 12 | 11 | 1 | 9 |
| 6P LOSS WILD-TYPE | 41 | 40 | 36 | 56 |
Figure S221. Get High-res Image Gene #52: '6p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0458 (Fisher's exact test), Q value = 0.11
Table S222. 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 S222. Get High-res Image Gene #53: '6q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00368 (Fisher's exact test), Q value = 0.015
Table S223. 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 S223. 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 S224. 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 S224. Get High-res Image Gene #53: '6q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0287 (Fisher's exact test), Q value = 0.078
Table S225. 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 S225. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00625 (Fisher's exact test), Q value = 0.023
Table S226. 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 S226. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0105 (Fisher's exact test), Q value = 0.035
Table S227. Gene #54: '7p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 7P LOSS MUTATED | 0 | 6 | 2 | 1 |
| 7P LOSS WILD-TYPE | 53 | 45 | 35 | 64 |
Figure S227. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0226 (Fisher's exact test), Q value = 0.064
Table S228. 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 S228. 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 = 9.5e-05
Table S229. 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 S229. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S230. 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 S230. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S231. 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 S231. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00254 (Fisher's exact test), Q value = 0.011
Table S232. 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 S232. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00023 (Fisher's exact test), Q value = 0.0014
Table S233. 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 S233. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S234. 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 S234. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0242 (Fisher's exact test), Q value = 0.067
Table S235. 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 S235. Get High-res Image Gene #57: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S236. 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 S236. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S237. 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 S237. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S238. 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 S238. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S239. 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 S239. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S240. 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 S240. 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 = 9.5e-05
Table S241. 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 S241. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S242. 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 S242. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0137 (Fisher's exact test), Q value = 0.042
Table S243. 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 S243. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00324 (Fisher's exact test), Q value = 0.013
Table S244. 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 S244. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0129 (Fisher's exact test), Q value = 0.041
Table S245. 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 S245. 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 = 9.5e-05
Table S246. 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 S246. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00335 (Fisher's exact test), Q value = 0.013
Table S247. 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 S247. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0232 (Fisher's exact test), Q value = 0.065
Table S248. 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 S248. 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 = 9.5e-05
Table S249. 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 S249. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00068 (Fisher's exact test), Q value = 0.0034
Table S250. 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 S250. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0301 (Fisher's exact test), Q value = 0.08
Table S251. 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 S251. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S252. 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 S252. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00018 (Fisher's exact test), Q value = 0.0011
Table S253. 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 S253. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00102 (Fisher's exact test), Q value = 0.0048
Table S254. 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 S254. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00373 (Fisher's exact test), Q value = 0.015
Table S255. 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 S255. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S256. 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 S256. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S257. 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 S257. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00036 (Fisher's exact test), Q value = 0.002
Table S258. 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 S258. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00306 (Fisher's exact test), Q value = 0.013
Table S259. 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 S259. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0489 (Fisher's exact test), Q value = 0.12
Table S260. 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 S260. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0458 (Fisher's exact test), Q value = 0.11
Table S261. 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 S261. Get High-res Image Gene #65: '12q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0013 (Fisher's exact test), Q value = 0.006
Table S262. 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 S262. Get High-res Image Gene #65: '12q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S263. 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 S263. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S264. 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 S264. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00032 (Fisher's exact test), Q value = 0.0018
Table S265. 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 S265. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00544 (Fisher's exact test), Q value = 0.021
Table S266. 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 S266. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0403 (Fisher's exact test), Q value = 0.1
Table S267. 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 S267. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00279 (Fisher's exact test), Q value = 0.012
Table S268. 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 S268. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0332 (Fisher's exact test), Q value = 0.086
Table S269. Gene #67: '14q loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 53 | 51 | 37 | 65 |
| 14Q LOSS MUTATED | 4 | 11 | 1 | 6 |
| 14Q LOSS WILD-TYPE | 49 | 40 | 36 | 59 |
Figure S269. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 3e-04
Table S270. 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 S270. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00145 (Fisher's exact test), Q value = 0.0066
Table S271. 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 S271. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00051 (Fisher's exact test), Q value = 0.0027
Table S272. 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 S272. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S273. 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 S273. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0125 (Fisher's exact test), Q value = 0.04
Table S274. 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 S274. 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 = 9.5e-05
Table S275. 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 S275. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S276. 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 S276. 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 S277. 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 S277. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00167 (Fisher's exact test), Q value = 0.0074
Table S278. 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 S278. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00207 (Fisher's exact test), Q value = 0.009
Table S279. 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 S279. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S280. 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 S280. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S281. 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 S281. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S282. 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 S282. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00702 (Fisher's exact test), Q value = 0.025
Table S283. 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 S283. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00814 (Fisher's exact test), Q value = 0.029
Table S284. 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 S284. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S285. 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 S285. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00231 (Fisher's exact test), Q value = 0.0099
Table S286. 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 S286. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00015 (Fisher's exact test), Q value = 0.00095
Table S287. 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 S287. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00081 (Fisher's exact test), Q value = 0.0039
Table S288. 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 S288. 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 S289. 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 S289. Get High-res Image Gene #72: '17q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0399 (Fisher's exact test), Q value = 0.099
Table S290. 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 S290. Get High-res Image Gene #72: '17q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00153 (Fisher's exact test), Q value = 0.0069
Table S291. 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 S291. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S292. 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 S292. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00361 (Fisher's exact test), Q value = 0.014
Table S293. 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 S293. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0123 (Fisher's exact test), Q value = 0.04
Table S294. 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 S294. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S295. 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 S295. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S296. 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 S296. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00078 (Fisher's exact test), Q value = 0.0038
Table S297. 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 S297. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S298. 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 S298. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00075 (Fisher's exact test), Q value = 0.0037
Table S299. 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 S299. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S300. 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 S300. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 7e-05 (Fisher's exact test), Q value = 0.00047
Table S301. 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 S301. 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 = 9.5e-05
Table S302. 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 S302. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00036
Table S303. 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 S303. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00906 (Fisher's exact test), Q value = 0.031
Table S304. 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 S304. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0217 (Fisher's exact test), Q value = 0.062
Table S305. 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 S305. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0037 (Fisher's exact test), Q value = 0.015
Table S306. 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 S306. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0105 (Fisher's exact test), Q value = 0.035
Table S307. 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 S307. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0379 (Fisher's exact test), Q value = 0.096
Table S308. 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 S308. 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 = 9.5e-05
Table S309. 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 S309. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S310. 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 S310. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00817 (Fisher's exact test), Q value = 0.029
Table S311. 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 S311. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0322 (Fisher's exact test), Q value = 0.084
Table S312. 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 S312. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0419 (Fisher's exact test), Q value = 0.1
Table S313. 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 S313. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 2e-05 (Fisher's exact test), Q value = 0.00016
Table S314. 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 S314. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0265 (Fisher's exact test), Q value = 0.073
Table S315. 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 S315. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0223 (Fisher's exact test), Q value = 0.063
Table S316. 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 S316. Get High-res Image Gene #77: '20p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00041 (Fisher's exact test), Q value = 0.0022
Table S317. 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 S317. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00482 (Fisher's exact test), Q value = 0.018
Table S318. 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 S318. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0116 (Fisher's exact test), Q value = 0.038
Table S319. 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 S319. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0189 (Fisher's exact test), Q value = 0.056
Table S320. 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 S320. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0466 (Fisher's exact test), Q value = 0.11
Table S321. 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 S321. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0184 (Fisher's exact test), Q value = 0.055
Table S322. 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 S322. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0299 (Fisher's exact test), Q value = 0.08
Table S323. 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 S323. 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 = 9.5e-05
Table S324. 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 S324. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S325. 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 S325. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.013 (Fisher's exact test), Q value = 0.041
Table S326. 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 S326. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00023
Table S327. 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 S327. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00034 (Fisher's exact test), Q value = 0.0019
Table S328. 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 S328. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00064 (Fisher's exact test), Q value = 0.0032
Table S329. 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 S329. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00015 (Fisher's exact test), Q value = 0.00095
Table S330. 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 S330. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00334 (Fisher's exact test), Q value = 0.013
Table S331. 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 S331. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0023 (Fisher's exact test), Q value = 0.0099
Table S332. 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 S332. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00149 (Fisher's exact test), Q value = 0.0067
Table S333. 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 S333. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.0178 (Fisher's exact test), Q value = 0.053
Table S334. 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 S334. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0467 (Fisher's exact test), Q value = 0.11
Table S335. 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 S335. 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 = 9.5e-05
Table S336. 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 S336. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S337. 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 S337. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0137 (Fisher's exact test), Q value = 0.042
Table S338. 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 S338. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0419 (Fisher's exact test), Q value = 0.1
Table S339. 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 S339. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0209 (Fisher's exact test), Q value = 0.061
Table S340. 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 S340. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S341. 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 S341. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 9.5e-05
Table S342. 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 S342. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00043 (Fisher's exact test), Q value = 0.0023
Table S343. 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 S343. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0313 (Fisher's exact test), Q value = 0.083
Table S344. 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 S344. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00597 (Fisher's exact test), Q value = 0.022
Table S345. 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 S345. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00043 (Fisher's exact test), Q value = 0.0023
Table S346. 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 S346. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
-
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/15085759/transformed.cor.cli.txt
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Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/HNSC-TP/15111022/HNSC-TP.transferedmergedcluster.txt
-
Number of patients = 522
-
Number of significantly arm-level cnvs = 82
-
Number of molecular subtypes = 10
-
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.