This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 74 arm-level events and 10 molecular subtypes across 288 patients, 376 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', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1q 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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2p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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2q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'RPPA_CHIERARCHICAL'.
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3p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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5q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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6p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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6q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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7p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8p gain cnv correlated to 'METHLYATION_CNMF'.
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8q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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9p gain cnv correlated to 'MRNASEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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10q gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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11p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', and 'MRNASEQ_CHIERARCHICAL'.
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11q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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12p gain cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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12q gain cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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14q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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16p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p gain cnv correlated to 'CN_CNMF'.
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18q gain cnv correlated to 'CN_CNMF'.
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19p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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19q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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20p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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20q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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22q gain cnv correlated to 'CN_CNMF'.
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xp gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xq gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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1q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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2p loss cnv correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CNMF'.
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2q loss cnv correlated to 'MRNASEQ_CHIERARCHICAL'.
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3p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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4p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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4q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5p loss cnv correlated to 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q loss cnv correlated to 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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6p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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6q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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8p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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8q loss cnv correlated to 'CN_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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9p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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13q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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14q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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17p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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19q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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21q loss cnv correlated to 'CN_CNMF'.
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22q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xp loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xq loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 74 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, 376 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 | |
| 7p gain | 172 (60%) | 116 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.00616 (0.0181) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0495 (0.098) |
1e-05 (6.98e-05) |
0.00015 (0.00076) |
1e-05 (6.98e-05) |
| 17p gain | 174 (60%) | 114 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.00302 (0.0102) |
3e-05 (0.00018) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.00394 (0.0126) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
| 17q gain | 191 (66%) | 97 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0305 (0.0663) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0349 (0.0744) |
4e-05 (0.000235) |
0.00013 (0.000673) |
2e-05 (0.000131) |
| 7q gain | 173 (60%) | 115 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0131 (0.0325) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0699 (0.131) |
1e-05 (6.98e-05) |
0.00014 (0.000714) |
3e-05 (0.00018) |
| 16p gain | 153 (53%) | 135 |
1e-05 (6.98e-05) |
0.0114 (0.0293) |
0.647 (0.751) |
0.014 (0.0342) |
1e-05 (6.98e-05) |
4e-05 (0.000235) |
0.00068 (0.00284) |
2e-05 (0.000131) |
0.00926 (0.0252) |
0.00016 (0.000795) |
| 16q gain | 148 (51%) | 140 |
1e-05 (6.98e-05) |
0.00664 (0.019) |
0.753 (0.839) |
0.0213 (0.0486) |
1e-05 (6.98e-05) |
9e-05 (0.00049) |
3e-05 (0.00018) |
1e-05 (6.98e-05) |
0.00279 (0.00955) |
3e-05 (0.00018) |
| 20q gain | 101 (35%) | 187 |
0.00018 (0.000871) |
0.0204 (0.0468) |
0.0355 (0.0754) |
0.0099 (0.0263) |
0.0114 (0.0293) |
0.0499 (0.0982) |
0.0189 (0.0445) |
0.006 (0.0178) |
0.339 (0.459) |
0.0434 (0.0889) |
| xp gain | 87 (30%) | 201 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.335 (0.457) |
0.0182 (0.0433) |
1e-05 (6.98e-05) |
4e-05 (0.000235) |
0.00849 (0.0233) |
1e-05 (6.98e-05) |
0.00216 (0.00776) |
0.00065 (0.00273) |
| xq gain | 91 (32%) | 197 |
1e-05 (6.98e-05) |
3e-05 (0.00018) |
0.329 (0.45) |
0.031 (0.0673) |
1e-05 (6.98e-05) |
3e-05 (0.00018) |
0.00991 (0.0263) |
1e-05 (6.98e-05) |
0.0103 (0.0271) |
0.00376 (0.0122) |
| 13q loss | 24 (8%) | 264 |
1e-05 (6.98e-05) |
8e-05 (0.000442) |
0.532 (0.644) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0427 (0.0878) |
0.00745 (0.0206) |
0.00379 (0.0122) |
2e-05 (0.000131) |
| 3p gain | 74 (26%) | 214 |
1e-05 (6.98e-05) |
0.002 (0.00733) |
0.193 (0.299) |
0.00019 (0.000901) |
1e-05 (6.98e-05) |
0.00218 (0.00779) |
0.0397 (0.0827) |
0.0001 (0.00054) |
0.0911 (0.163) |
0.0144 (0.0353) |
| 3q gain | 94 (33%) | 194 |
1e-05 (6.98e-05) |
0.0047 (0.0147) |
0.222 (0.335) |
0.00963 (0.0259) |
1e-05 (6.98e-05) |
0.00379 (0.0122) |
0.0102 (0.0269) |
0.00017 (0.000833) |
0.521 (0.634) |
0.0131 (0.0325) |
| 20p gain | 99 (34%) | 189 |
3e-05 (0.00018) |
0.0202 (0.0466) |
0.0245 (0.0551) |
0.00563 (0.017) |
0.00487 (0.0151) |
0.0223 (0.0505) |
0.0116 (0.0295) |
0.00322 (0.0106) |
0.179 (0.283) |
0.0605 (0.115) |
| 3p loss | 22 (8%) | 266 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.664 (0.762) |
0.00211 (0.00762) |
1e-05 (6.98e-05) |
2e-05 (0.000131) |
0.43 (0.548) |
0.0265 (0.0587) |
0.0474 (0.0951) |
0.016 (0.0388) |
| 9p loss | 33 (11%) | 255 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.653 (0.757) |
0.0016 (0.00607) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.00595 (0.0178) |
0.254 (0.371) |
0.00569 (0.0171) |
0.00077 (0.00315) |
| 9q loss | 34 (12%) | 254 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.194 (0.3) |
0.00174 (0.00654) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.00434 (0.0138) |
0.136 (0.224) |
0.00095 (0.00376) |
0.00019 (0.000901) |
| 14q loss | 47 (16%) | 241 |
1e-05 (6.98e-05) |
0.00021 (0.000965) |
0.0157 (0.0383) |
7e-05 (0.000395) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.207 (0.316) |
0.774 (0.857) |
0.00449 (0.0141) |
0.00647 (0.0188) |
| 18p loss | 42 (15%) | 246 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.0541 (0.104) |
0.00053 (0.00224) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.234 (0.348) |
0.00085 (0.00342) |
0.0197 (0.0458) |
0.00079 (0.00321) |
| 18q loss | 45 (16%) | 243 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.133 (0.222) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.126 (0.211) |
0.0007 (0.00291) |
0.0066 (0.019) |
0.00027 (0.00121) |
| 1q gain | 17 (6%) | 271 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.93 (0.975) |
0.0856 (0.156) |
3e-05 (0.00018) |
0.00017 (0.000833) |
0.52 (0.634) |
0.00043 (0.00183) |
0.00656 (0.019) |
0.0113 (0.0292) |
| 4p loss | 25 (9%) | 263 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.424 (0.542) |
0.00013 (0.000673) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.261 (0.379) |
0.109 (0.186) |
0.00586 (0.0176) |
1e-05 (6.98e-05) |
| 4q loss | 26 (9%) | 262 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.581 (0.692) |
0.00035 (0.00151) |
1e-05 (6.98e-05) |
2e-05 (0.000131) |
0.382 (0.501) |
0.172 (0.275) |
0.00672 (0.0192) |
1e-05 (6.98e-05) |
| 5p loss | 8 (3%) | 280 |
0.17 (0.271) |
0.0488 (0.0968) |
0.437 (0.557) |
0.00953 (0.0257) |
0.03 (0.0654) |
0.00033 (0.00144) |
0.072 (0.134) |
0.0396 (0.0827) |
0.0126 (0.0319) |
0.00012 (0.00063) |
| 5q loss | 8 (3%) | 280 |
0.169 (0.271) |
0.0487 (0.0968) |
0.87 (0.933) |
0.0101 (0.0268) |
0.0298 (0.0653) |
0.00025 (0.00113) |
0.0709 (0.132) |
0.0404 (0.0839) |
0.0122 (0.031) |
1e-05 (6.98e-05) |
| 10p loss | 16 (6%) | 272 |
1e-05 (6.98e-05) |
0.00016 (0.000795) |
0.501 (0.617) |
0.025 (0.056) |
0.00033 (0.00144) |
0.003 (0.0101) |
0.399 (0.52) |
0.915 (0.967) |
0.0197 (0.0458) |
0.00663 (0.019) |
| 10q loss | 17 (6%) | 271 |
1e-05 (6.98e-05) |
0.00019 (0.000901) |
0.413 (0.532) |
0.00483 (0.0151) |
0.00021 (0.000965) |
0.00208 (0.00755) |
0.0844 (0.154) |
0.863 (0.93) |
0.00183 (0.0068) |
0.00116 (0.00454) |
| 11q loss | 21 (7%) | 267 |
1e-05 (6.98e-05) |
6e-05 (0.000344) |
0.32 (0.44) |
0.0295 (0.065) |
0.00014 (0.000714) |
0.00236 (0.00824) |
0.656 (0.76) |
0.101 (0.176) |
0.037 (0.0777) |
0.0389 (0.0815) |
| xp loss | 34 (12%) | 254 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.598 (0.709) |
0.00194 (0.00714) |
1e-05 (6.98e-05) |
8e-05 (0.000442) |
0.307 (0.429) |
0.226 (0.338) |
0.0183 (0.0433) |
0.00728 (0.0203) |
| xq loss | 30 (10%) | 258 |
1e-05 (6.98e-05) |
2e-05 (0.000131) |
0.659 (0.762) |
0.0106 (0.0277) |
1e-05 (6.98e-05) |
9e-05 (0.00049) |
0.266 (0.385) |
0.447 (0.568) |
0.0499 (0.0982) |
0.0214 (0.0486) |
| 1p gain | 9 (3%) | 279 |
3e-05 (0.00018) |
3e-05 (0.00018) |
0.61 (0.72) |
0.0534 (0.104) |
0.00313 (0.0104) |
0.00334 (0.011) |
0.477 (0.593) |
0.0832 (0.153) |
0.0486 (0.0968) |
0.0288 (0.0637) |
| 11p loss | 18 (6%) | 270 |
1e-05 (6.98e-05) |
0.00073 (0.00302) |
0.93 (0.975) |
0.308 (0.43) |
6e-05 (0.000344) |
0.0028 (0.00955) |
0.296 (0.421) |
0.061 (0.116) |
0.0197 (0.0458) |
0.0069 (0.0196) |
| 15q loss | 31 (11%) | 257 |
1e-05 (6.98e-05) |
0.00235 (0.00824) |
0.0886 (0.16) |
0.00162 (0.00612) |
0.00011 (0.000581) |
1e-05 (6.98e-05) |
0.0918 (0.163) |
0.637 (0.742) |
0.0649 (0.122) |
0.00268 (0.00922) |
| 17p loss | 12 (4%) | 276 |
0.00423 (0.0135) |
0.00031 (0.00137) |
0.545 (0.655) |
0.249 (0.365) |
1e-05 (6.98e-05) |
0.00021 (0.000965) |
0.536 (0.647) |
0.267 (0.386) |
0.00609 (0.018) |
0.00121 (0.00471) |
| 22q loss | 60 (21%) | 228 |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.697 (0.789) |
0.00104 (0.00409) |
1e-05 (6.98e-05) |
1e-05 (6.98e-05) |
0.983 (1.00) |
0.453 (0.571) |
0.054 (0.104) |
0.0108 (0.0279) |
| 11q gain | 10 (3%) | 278 |
1e-05 (6.98e-05) |
0.00311 (0.0104) |
0.759 (0.844) |
0.016 (0.0388) |
0.0214 (0.0486) |
0.00373 (0.0122) |
0.849 (0.921) |
1 (1.00) |
0.818 (0.896) |
0.226 (0.338) |
| 6p loss | 21 (7%) | 267 |
1e-05 (6.98e-05) |
0.0449 (0.0912) |
0.62 (0.728) |
0.159 (0.257) |
0.00617 (0.0181) |
0.00026 (0.00117) |
0.0196 (0.0458) |
0.0502 (0.0985) |
0.47 (0.586) |
0.111 (0.189) |
| 16p loss | 4 (1%) | 284 |
0.0423 (0.0873) |
0.0338 (0.0728) |
1 (1.00) |
0.564 (0.675) |
0.0439 (0.0897) |
0.00686 (0.0195) |
0.84 (0.912) |
0.206 (0.316) |
0.116 (0.196) |
0.0127 (0.0321) |
| 16q loss | 7 (2%) | 281 |
0.00037 (0.00159) |
0.00725 (0.0203) |
1 (1.00) |
0.27 (0.39) |
0.00221 (0.00786) |
0.0129 (0.0322) |
0.403 (0.522) |
0.235 (0.35) |
0.0324 (0.0702) |
0.0524 (0.102) |
| 19p loss | 17 (6%) | 271 |
8e-05 (0.000442) |
0.00235 (0.00824) |
0.917 (0.967) |
0.0342 (0.0732) |
0.00552 (0.0167) |
0.00629 (0.0184) |
0.224 (0.337) |
0.105 (0.181) |
0.0884 (0.159) |
0.0581 (0.111) |
| 19q loss | 16 (6%) | 272 |
1e-05 (6.98e-05) |
0.00488 (0.0151) |
0.621 (0.728) |
0.00944 (0.0256) |
0.00499 (0.0154) |
0.0226 (0.051) |
0.402 (0.522) |
0.15 (0.246) |
0.09 (0.161) |
0.277 (0.398) |
| 5p gain | 33 (11%) | 255 |
1e-05 (6.98e-05) |
0.00716 (0.0201) |
0.67 (0.769) |
0.329 (0.45) |
0.0184 (0.0435) |
0.00011 (0.000581) |
0.571 (0.681) |
0.116 (0.196) |
0.31 (0.432) |
0.251 (0.367) |
| 5q gain | 31 (11%) | 257 |
1e-05 (6.98e-05) |
0.00092 (0.00366) |
0.53 (0.642) |
0.166 (0.268) |
0.00507 (0.0156) |
7e-05 (0.000395) |
0.316 (0.439) |
0.153 (0.249) |
0.452 (0.571) |
0.373 (0.491) |
| 8q gain | 25 (9%) | 263 |
0.126 (0.212) |
0.00011 (0.000581) |
0.195 (0.302) |
0.385 (0.505) |
0.0129 (0.0322) |
0.0447 (0.0912) |
0.152 (0.247) |
0.111 (0.189) |
0.046 (0.0929) |
0.134 (0.223) |
| 11p gain | 11 (4%) | 277 |
0.00031 (0.00137) |
0.02 (0.0462) |
0.907 (0.963) |
0.0104 (0.0272) |
0.188 (0.294) |
0.00033 (0.00144) |
0.929 (0.975) |
0.95 (0.99) |
0.819 (0.896) |
0.224 (0.337) |
| 12p gain | 112 (39%) | 176 |
0.00551 (0.0167) |
0.302 (0.424) |
0.0259 (0.0577) |
0.32 (0.44) |
0.00021 (0.000965) |
0.115 (0.195) |
0.0917 (0.163) |
0.0167 (0.04) |
0.663 (0.762) |
0.0688 (0.129) |
| 12q gain | 112 (39%) | 176 |
0.00518 (0.0158) |
0.3 (0.423) |
0.0262 (0.0583) |
0.322 (0.442) |
0.00016 (0.000795) |
0.115 (0.195) |
0.0899 (0.161) |
0.0169 (0.0404) |
0.664 (0.762) |
0.0706 (0.132) |
| 1p loss | 30 (10%) | 258 |
1e-05 (6.98e-05) |
0.0298 (0.0653) |
0.415 (0.533) |
0.378 (0.497) |
5e-05 (0.000291) |
0.00081 (0.00328) |
0.351 (0.47) |
0.177 (0.28) |
0.837 (0.912) |
0.0863 (0.157) |
| 3q loss | 7 (2%) | 281 |
1e-05 (6.98e-05) |
0.00184 (0.00681) |
0.629 (0.735) |
0.0571 (0.11) |
0.0213 (0.0486) |
0.00297 (0.0101) |
0.4 (0.521) |
0.838 (0.912) |
0.391 (0.512) |
0.355 (0.475) |
| 6q loss | 26 (9%) | 262 |
1e-05 (6.98e-05) |
0.0023 (0.00814) |
0.912 (0.967) |
0.0613 (0.116) |
0.00018 (0.000871) |
2e-05 (0.000131) |
0.305 (0.427) |
0.276 (0.397) |
0.0993 (0.174) |
0.0943 (0.166) |
| 8q loss | 9 (3%) | 279 |
0.00239 (0.0083) |
0.382 (0.501) |
0.63 (0.736) |
0.0465 (0.0936) |
0.0125 (0.0317) |
0.0009 (0.0036) |
0.914 (0.967) |
0.784 (0.866) |
0.683 (0.78) |
0.553 (0.665) |
| 2q gain | 47 (16%) | 241 |
1e-05 (6.98e-05) |
0.00745 (0.0206) |
1 (1.00) |
0.00696 (0.0197) |
0.602 (0.713) |
0.737 (0.825) |
0.218 (0.331) |
0.0514 (0.101) |
0.42 (0.537) |
0.405 (0.524) |
| 6p gain | 10 (3%) | 278 |
0.048 (0.096) |
0.00367 (0.012) |
0.0717 (0.134) |
0.188 (0.294) |
0.00201 (0.00733) |
0.0627 (0.119) |
0.169 (0.271) |
0.25 (0.367) |
0.104 (0.18) |
0.0581 (0.111) |
| 6q gain | 8 (3%) | 280 |
0.0227 (0.0511) |
0.00183 (0.0068) |
0.481 (0.597) |
0.173 (0.276) |
0.013 (0.0324) |
0.131 (0.218) |
0.226 (0.338) |
0.644 (0.75) |
0.126 (0.212) |
0.0862 (0.157) |
| 14q gain | 3 (1%) | 285 |
0.243 (0.358) |
0.0167 (0.04) |
0.454 (0.571) |
0.852 (0.922) |
0.491 (0.607) |
0.0358 (0.076) |
1 (1.00) |
0.37 (0.49) |
0.299 (0.423) |
0.0136 (0.0335) |
| 19p gain | 4 (1%) | 284 |
0.0015 (0.00575) |
0.692 (0.786) |
0.282 (0.403) |
0.107 (0.184) |
0.046 (0.0929) |
0.0411 (0.0851) |
1 (1.00) |
0.478 (0.593) |
1 (1.00) |
0.337 (0.458) |
| 19q gain | 4 (1%) | 284 |
0.00135 (0.0052) |
0.689 (0.784) |
0.283 (0.404) |
0.107 (0.184) |
0.0456 (0.0924) |
0.0406 (0.0842) |
1 (1.00) |
0.477 (0.593) |
1 (1.00) |
0.338 (0.458) |
| 8p loss | 16 (6%) | 272 |
0.00156 (0.00595) |
0.32 (0.44) |
0.238 (0.353) |
0.699 (0.789) |
0.00445 (0.0141) |
0.00965 (0.0259) |
0.901 (0.958) |
0.758 (0.843) |
0.371 (0.49) |
0.312 (0.434) |
| 2p gain | 42 (15%) | 246 |
1e-05 (6.98e-05) |
0.0074 (0.0206) |
0.825 (0.902) |
0.0524 (0.102) |
0.135 (0.223) |
0.901 (0.958) |
0.12 (0.202) |
0.0725 (0.134) |
0.788 (0.869) |
0.168 (0.27) |
| 9p gain | 3 (1%) | 285 |
0.874 (0.936) |
0.0998 (0.175) |
0.036 (0.076) |
0.413 (0.532) |
0.37 (0.49) |
0.3 (0.423) |
0.0134 (0.033) |
|||
| 10p gain | 9 (3%) | 279 |
0.00077 (0.00315) |
0.0329 (0.071) |
1 (1.00) |
0.342 (0.46) |
0.092 (0.163) |
0.359 (0.478) |
0.145 (0.237) |
0.682 (0.779) |
0.893 (0.952) |
0.187 (0.294) |
| 10q gain | 9 (3%) | 279 |
0.00124 (0.0048) |
0.0339 (0.0728) |
1 (1.00) |
0.341 (0.46) |
0.0907 (0.162) |
0.357 (0.477) |
0.141 (0.233) |
0.684 (0.78) |
0.893 (0.952) |
0.188 (0.294) |
| 15q gain | 5 (2%) | 283 |
0.00021 (0.000965) |
0.0198 (0.0458) |
0.203 (0.311) |
0.188 (0.294) |
0.219 (0.331) |
0.263 (0.382) |
0.453 (0.571) |
0.767 (0.851) |
||
| 1q loss | 21 (7%) | 267 |
0.00023 (0.00105) |
0.724 (0.813) |
0.943 (0.987) |
0.259 (0.378) |
0.056 (0.108) |
0.00755 (0.0208) |
0.297 (0.421) |
0.0845 (0.154) |
0.57 (0.681) |
0.197 (0.304) |
| 2p loss | 5 (2%) | 283 |
0.28 (0.401) |
0.00979 (0.0262) |
0.174 (0.276) |
0.616 (0.725) |
0.0162 (0.0391) |
0.0754 (0.14) |
0.241 (0.356) |
0.868 (0.932) |
||
| 8p gain | 20 (7%) | 268 |
0.749 (0.836) |
0.0104 (0.0272) |
0.134 (0.223) |
0.289 (0.411) |
0.0989 (0.174) |
0.0822 (0.151) |
0.456 (0.573) |
0.539 (0.649) |
0.406 (0.524) |
0.242 (0.358) |
| 18p gain | 12 (4%) | 276 |
0.00258 (0.00892) |
0.201 (0.309) |
0.592 (0.703) |
0.966 (1.00) |
0.559 (0.67) |
0.483 (0.597) |
0.191 (0.297) |
0.513 (0.629) |
0.466 (0.582) |
0.606 (0.716) |
| 18q gain | 9 (3%) | 279 |
0.00306 (0.0102) |
0.0929 (0.164) |
0.341 (0.46) |
0.852 (0.922) |
0.578 (0.688) |
0.159 (0.257) |
0.4 (0.521) |
0.447 (0.568) |
0.32 (0.44) |
0.0821 (0.151) |
| 22q gain | 5 (2%) | 283 |
0.00873 (0.0238) |
0.729 (0.817) |
1 (1.00) |
0.363 (0.482) |
0.863 (0.93) |
0.716 (0.805) |
0.453 (0.571) |
0.301 (0.423) |
0.868 (0.932) |
1 (1.00) |
| 2q loss | 3 (1%) | 285 |
0.661 (0.762) |
0.106 (0.183) |
0.102 (0.177) |
0.0367 (0.0774) |
0.529 (0.642) |
1 (1.00) |
||||
| 21q loss | 43 (15%) | 245 |
0.00042 (0.0018) |
0.458 (0.574) |
0.199 (0.306) |
0.359 (0.478) |
0.187 (0.294) |
0.417 (0.535) |
0.627 (0.734) |
0.219 (0.331) |
0.809 (0.89) |
0.0869 (0.157) |
| 4p gain | 10 (3%) | 278 |
0.244 (0.36) |
0.811 (0.89) |
0.699 (0.789) |
0.341 (0.46) |
0.327 (0.448) |
0.686 (0.781) |
0.617 (0.725) |
0.922 (0.97) |
0.836 (0.912) |
0.95 (0.99) |
| 4q gain | 9 (3%) | 279 |
0.517 (0.633) |
0.811 (0.89) |
0.698 (0.789) |
0.342 (0.46) |
0.53 (0.642) |
0.739 (0.826) |
0.278 (0.398) |
0.856 (0.925) |
0.493 (0.609) |
1 (1.00) |
| 13q gain | 28 (10%) | 260 |
0.223 (0.336) |
0.964 (1.00) |
0.916 (0.967) |
0.967 (1.00) |
0.184 (0.29) |
0.775 (0.858) |
0.879 (0.94) |
0.464 (0.581) |
0.32 (0.44) |
0.521 (0.634) |
| 21q gain | 19 (7%) | 269 |
0.516 (0.632) |
0.153 (0.248) |
0.678 (0.776) |
0.704 (0.793) |
0.111 (0.189) |
0.95 (0.99) |
0.147 (0.241) |
0.218 (0.331) |
0.508 (0.625) |
0.142 (0.233) |
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S1. Gene #1: '1p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 1P GAIN MUTATED | 1 | 0 | 0 | 8 |
| 1P GAIN WILD-TYPE | 113 | 76 | 46 | 44 |
Figure S1. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S2. Gene #1: '1p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 1P GAIN MUTATED | 1 | 8 | 0 |
| 1P GAIN WILD-TYPE | 81 | 63 | 119 |
Figure S2. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00313 (Fisher's exact test), Q value = 0.01
Table S3. Gene #1: '1p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 1P GAIN MUTATED | 0 | 0 | 1 | 8 |
| 1P GAIN WILD-TYPE | 34 | 96 | 65 | 84 |
Figure S3. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00334 (Fisher's exact test), Q value = 0.011
Table S4. Gene #1: '1p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 1P GAIN MUTATED | 5 | 0 | 4 |
| 1P GAIN WILD-TYPE | 113 | 123 | 43 |
Figure S4. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0486 (Fisher's exact test), Q value = 0.097
Table S5. Gene #1: '1p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 1P GAIN MUTATED | 1 | 1 | 6 |
| 1P GAIN WILD-TYPE | 68 | 80 | 65 |
Figure S5. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0288 (Fisher's exact test), Q value = 0.064
Table S6. Gene #1: '1p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 1P GAIN MUTATED | 2 | 3 | 3 | 0 |
| 1P GAIN WILD-TYPE | 96 | 74 | 13 | 30 |
Figure S6. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S7. Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 1Q GAIN MUTATED | 4 | 1 | 0 | 12 |
| 1Q GAIN WILD-TYPE | 110 | 75 | 46 | 40 |
Figure S7. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S8. Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 1Q GAIN MUTATED | 3 | 13 | 0 |
| 1Q GAIN WILD-TYPE | 79 | 58 | 119 |
Figure S8. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S9. Gene #2: '1q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 1Q GAIN MUTATED | 0 | 0 | 3 | 14 |
| 1Q GAIN WILD-TYPE | 34 | 96 | 63 | 78 |
Figure S9. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00017 (Fisher's exact test), Q value = 0.00083
Table S10. Gene #2: '1q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 1Q GAIN MUTATED | 12 | 0 | 5 |
| 1Q GAIN WILD-TYPE | 106 | 123 | 42 |
Figure S10. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00043 (Fisher's exact test), Q value = 0.0018
Table S11. Gene #2: '1q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 1Q GAIN MUTATED | 8 | 0 | 1 | 8 |
| 1Q GAIN WILD-TYPE | 47 | 66 | 80 | 78 |
Figure S11. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00656 (Fisher's exact test), Q value = 0.019
Table S12. Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 1Q GAIN MUTATED | 4 | 1 | 10 |
| 1Q GAIN WILD-TYPE | 65 | 80 | 61 |
Figure S12. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0113 (Fisher's exact test), Q value = 0.029
Table S13. Gene #2: '1q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 1Q GAIN MUTATED | 4 | 7 | 4 | 0 |
| 1Q GAIN WILD-TYPE | 94 | 70 | 12 | 30 |
Figure S13. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S14. Gene #3: '2p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 2P GAIN MUTATED | 1 | 3 | 14 | 24 |
| 2P GAIN WILD-TYPE | 113 | 73 | 32 | 28 |
Figure S14. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0074 (Fisher's exact test), Q value = 0.021
Table S15. Gene #3: '2p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 2P GAIN MUTATED | 4 | 14 | 21 |
| 2P GAIN WILD-TYPE | 78 | 57 | 98 |
Figure S15. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S16. Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 2Q GAIN MUTATED | 1 | 4 | 15 | 27 |
| 2Q GAIN WILD-TYPE | 113 | 72 | 31 | 25 |
Figure S16. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00745 (Fisher's exact test), Q value = 0.021
Table S17. Gene #4: '2q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 2Q GAIN MUTATED | 5 | 15 | 24 |
| 2Q GAIN WILD-TYPE | 77 | 56 | 95 |
Figure S17. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00696 (Fisher's exact test), Q value = 0.02
Table S18. Gene #4: '2q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 2Q GAIN MUTATED | 6 | 3 | 6 | 6 | 10 | 2 | 2 |
| 2Q GAIN WILD-TYPE | 11 | 19 | 35 | 29 | 16 | 37 | 24 |
Figure S18. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S19. Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 3P GAIN MUTATED | 11 | 8 | 45 | 10 |
| 3P GAIN WILD-TYPE | 103 | 68 | 1 | 42 |
Figure S19. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.002 (Fisher's exact test), Q value = 0.0073
Table S20. Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 3P GAIN MUTATED | 20 | 8 | 40 |
| 3P GAIN WILD-TYPE | 62 | 63 | 79 |
Figure S20. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00019 (Fisher's exact test), Q value = 9e-04
Table S21. Gene #5: '3p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 3P GAIN MUTATED | 11 | 9 | 12 | 7 | 1 | 7 | 4 |
| 3P GAIN WILD-TYPE | 6 | 13 | 29 | 28 | 25 | 32 | 22 |
Figure S21. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S22. Gene #5: '3p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 3P GAIN MUTATED | 13 | 30 | 25 | 6 |
| 3P GAIN WILD-TYPE | 21 | 66 | 41 | 86 |
Figure S22. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00218 (Fisher's exact test), Q value = 0.0078
Table S23. Gene #5: '3p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 3P GAIN MUTATED | 26 | 43 | 5 |
| 3P GAIN WILD-TYPE | 92 | 80 | 42 |
Figure S23. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0397 (Fisher's exact test), Q value = 0.083
Table S24. Gene #5: '3p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 3P GAIN MUTATED | 26 | 32 | 16 |
| 3P GAIN WILD-TYPE | 63 | 71 | 80 |
Figure S24. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-04 (Fisher's exact test), Q value = 0.00054
Table S25. Gene #5: '3p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 3P GAIN MUTATED | 10 | 18 | 35 | 11 |
| 3P GAIN WILD-TYPE | 45 | 48 | 46 | 75 |
Figure S25. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0144 (Fisher's exact test), Q value = 0.035
Table S26. Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 3P GAIN MUTATED | 31 | 9 | 3 | 7 |
| 3P GAIN WILD-TYPE | 67 | 68 | 13 | 23 |
Figure S26. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S27. Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 3Q GAIN MUTATED | 20 | 14 | 45 | 15 |
| 3Q GAIN WILD-TYPE | 94 | 62 | 1 | 37 |
Figure S27. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0047 (Fisher's exact test), Q value = 0.015
Table S28. Gene #6: '3q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 3Q GAIN MUTATED | 24 | 14 | 50 |
| 3Q GAIN WILD-TYPE | 58 | 57 | 69 |
Figure S28. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00963 (Fisher's exact test), Q value = 0.026
Table S29. Gene #6: '3q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 3Q GAIN MUTATED | 12 | 9 | 15 | 9 | 5 | 9 | 6 |
| 3Q GAIN WILD-TYPE | 5 | 13 | 26 | 26 | 21 | 30 | 20 |
Figure S29. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S30. Gene #6: '3q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 3Q GAIN MUTATED | 18 | 35 | 31 | 10 |
| 3Q GAIN WILD-TYPE | 16 | 61 | 35 | 82 |
Figure S30. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00379 (Fisher's exact test), Q value = 0.012
Table S31. Gene #6: '3q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 3Q GAIN MUTATED | 34 | 52 | 8 |
| 3Q GAIN WILD-TYPE | 84 | 71 | 39 |
Figure S31. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0102 (Fisher's exact test), Q value = 0.027
Table S32. Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 3Q GAIN MUTATED | 38 | 35 | 21 |
| 3Q GAIN WILD-TYPE | 51 | 68 | 75 |
Figure S32. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00017 (Fisher's exact test), Q value = 0.00083
Table S33. Gene #6: '3q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 3Q GAIN MUTATED | 18 | 19 | 41 | 16 |
| 3Q GAIN WILD-TYPE | 37 | 47 | 40 | 70 |
Figure S33. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0131 (Fisher's exact test), Q value = 0.032
Table S34. Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 3Q GAIN MUTATED | 41 | 17 | 3 | 6 |
| 3Q GAIN WILD-TYPE | 57 | 60 | 13 | 24 |
Figure S34. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S35. Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 5P GAIN MUTATED | 13 | 3 | 0 | 17 |
| 5P GAIN WILD-TYPE | 101 | 73 | 46 | 35 |
Figure S35. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00716 (Fisher's exact test), Q value = 0.02
Table S36. Gene #9: '5p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 5P GAIN MUTATED | 10 | 14 | 6 |
| 5P GAIN WILD-TYPE | 72 | 57 | 113 |
Figure S36. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0184 (Fisher's exact test), Q value = 0.044
Table S37. Gene #9: '5p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 5P GAIN MUTATED | 4 | 5 | 6 | 18 |
| 5P GAIN WILD-TYPE | 30 | 91 | 60 | 74 |
Figure S37. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00011 (Fisher's exact test), Q value = 0.00058
Table S38. Gene #9: '5p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 5P GAIN MUTATED | 23 | 4 | 6 |
| 5P GAIN WILD-TYPE | 95 | 119 | 41 |
Figure S38. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S39. Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 5Q GAIN MUTATED | 14 | 1 | 0 | 16 |
| 5Q GAIN WILD-TYPE | 100 | 75 | 46 | 36 |
Figure S39. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00092 (Fisher's exact test), Q value = 0.0037
Table S40. Gene #10: '5q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 5Q GAIN MUTATED | 10 | 14 | 4 |
| 5Q GAIN WILD-TYPE | 72 | 57 | 115 |
Figure S40. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00507 (Fisher's exact test), Q value = 0.016
Table S41. Gene #10: '5q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 5Q GAIN MUTATED | 4 | 3 | 7 | 17 |
| 5Q GAIN WILD-TYPE | 30 | 93 | 59 | 75 |
Figure S41. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 4e-04
Table S42. Gene #10: '5q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 5Q GAIN MUTATED | 23 | 3 | 5 |
| 5Q GAIN WILD-TYPE | 95 | 120 | 42 |
Figure S42. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.048 (Fisher's exact test), Q value = 0.096
Table S43. Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 6P GAIN MUTATED | 4 | 1 | 0 | 5 |
| 6P GAIN WILD-TYPE | 110 | 75 | 46 | 47 |
Figure S43. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00367 (Fisher's exact test), Q value = 0.012
Table S44. Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 6P GAIN MUTATED | 1 | 7 | 1 |
| 6P GAIN WILD-TYPE | 81 | 64 | 118 |
Figure S44. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00201 (Fisher's exact test), Q value = 0.0073
Table S45. Gene #11: '6p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 6P GAIN MUTATED | 0 | 1 | 0 | 9 |
| 6P GAIN WILD-TYPE | 34 | 95 | 66 | 83 |
Figure S45. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0227 (Fisher's exact test), Q value = 0.051
Table S46. Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 6Q GAIN MUTATED | 2 | 1 | 0 | 5 |
| 6Q GAIN WILD-TYPE | 112 | 75 | 46 | 47 |
Figure S46. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00183 (Fisher's exact test), Q value = 0.0068
Table S47. Gene #12: '6q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 6Q GAIN MUTATED | 0 | 6 | 1 |
| 6Q GAIN WILD-TYPE | 82 | 65 | 118 |
Figure S47. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.013 (Fisher's exact test), Q value = 0.032
Table S48. Gene #12: '6q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 6Q GAIN MUTATED | 0 | 1 | 0 | 7 |
| 6Q GAIN WILD-TYPE | 34 | 95 | 66 | 85 |
Figure S48. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S49. Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 7P GAIN MUTATED | 32 | 73 | 43 | 24 |
| 7P GAIN WILD-TYPE | 82 | 3 | 3 | 28 |
Figure S49. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S50. Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 7P GAIN MUTATED | 38 | 23 | 101 |
| 7P GAIN WILD-TYPE | 44 | 48 | 18 |
Figure S50. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00616 (Fisher's exact test), Q value = 0.018
Table S51. Gene #13: '7p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 7P GAIN MUTATED | 45 | 61 | 20 |
| 7P GAIN WILD-TYPE | 28 | 25 | 27 |
Figure S51. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S52. Gene #13: '7p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 7P GAIN MUTATED | 14 | 17 | 39 | 15 | 10 | 18 | 13 |
| 7P GAIN WILD-TYPE | 3 | 5 | 2 | 20 | 16 | 21 | 13 |
Figure S52. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S53. Gene #13: '7p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 7P GAIN MUTATED | 29 | 82 | 39 | 22 |
| 7P GAIN WILD-TYPE | 5 | 14 | 27 | 70 |
Figure S53. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S54. Gene #13: '7p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 7P GAIN MUTATED | 53 | 103 | 16 |
| 7P GAIN WILD-TYPE | 65 | 20 | 31 |
Figure S54. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0495 (Fisher's exact test), Q value = 0.098
Table S55. Gene #13: '7p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 7P GAIN MUTATED | 45 | 70 | 57 |
| 7P GAIN WILD-TYPE | 44 | 33 | 39 |
Figure S55. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S56. Gene #13: '7p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 7P GAIN MUTATED | 21 | 39 | 67 | 45 |
| 7P GAIN WILD-TYPE | 34 | 27 | 14 | 41 |
Figure S56. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00015 (Fisher's exact test), Q value = 0.00076
Table S57. Gene #13: '7p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 7P GAIN MUTATED | 32 | 62 | 34 |
| 7P GAIN WILD-TYPE | 37 | 19 | 37 |
Figure S57. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S58. Gene #13: '7p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 7P GAIN MUTATED | 65 | 33 | 4 | 26 |
| 7P GAIN WILD-TYPE | 33 | 44 | 12 | 4 |
Figure S58. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S59. Gene #14: '7q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 7Q GAIN MUTATED | 32 | 73 | 43 | 25 |
| 7Q GAIN WILD-TYPE | 82 | 3 | 3 | 27 |
Figure S59. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S60. Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 7Q GAIN MUTATED | 38 | 24 | 101 |
| 7Q GAIN WILD-TYPE | 44 | 47 | 18 |
Figure S60. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0131 (Fisher's exact test), Q value = 0.032
Table S61. Gene #14: '7q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 7Q GAIN MUTATED | 45 | 61 | 21 |
| 7Q GAIN WILD-TYPE | 28 | 25 | 26 |
Figure S61. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S62. Gene #14: '7q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 7Q GAIN MUTATED | 14 | 17 | 39 | 15 | 11 | 18 | 13 |
| 7Q GAIN WILD-TYPE | 3 | 5 | 2 | 20 | 15 | 21 | 13 |
Figure S62. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S63. Gene #14: '7q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 7Q GAIN MUTATED | 29 | 82 | 39 | 23 |
| 7Q GAIN WILD-TYPE | 5 | 14 | 27 | 69 |
Figure S63. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S64. Gene #14: '7q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 7Q GAIN MUTATED | 54 | 103 | 16 |
| 7Q GAIN WILD-TYPE | 64 | 20 | 31 |
Figure S64. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S65. Gene #14: '7q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 7Q GAIN MUTATED | 22 | 39 | 67 | 45 |
| 7Q GAIN WILD-TYPE | 33 | 27 | 14 | 41 |
Figure S65. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00014 (Fisher's exact test), Q value = 0.00071
Table S66. Gene #14: '7q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 7Q GAIN MUTATED | 33 | 62 | 34 |
| 7Q GAIN WILD-TYPE | 36 | 19 | 37 |
Figure S66. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S67. Gene #14: '7q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 7Q GAIN MUTATED | 65 | 34 | 4 | 26 |
| 7Q GAIN WILD-TYPE | 33 | 43 | 12 | 4 |
Figure S67. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0104 (Fisher's exact test), Q value = 0.027
Table S68. Gene #15: '8p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 8P GAIN MUTATED | 3 | 11 | 5 |
| 8P GAIN WILD-TYPE | 79 | 60 | 114 |
Figure S68. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00011 (Fisher's exact test), Q value = 0.00058
Table S69. Gene #16: '8q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 8Q GAIN MUTATED | 2 | 15 | 6 |
| 8Q GAIN WILD-TYPE | 80 | 56 | 113 |
Figure S69. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0129 (Fisher's exact test), Q value = 0.032
Table S70. Gene #16: '8q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 8Q GAIN MUTATED | 0 | 6 | 4 | 15 |
| 8Q GAIN WILD-TYPE | 34 | 90 | 62 | 77 |
Figure S70. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0447 (Fisher's exact test), Q value = 0.091
Table S71. Gene #16: '8q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 8Q GAIN MUTATED | 14 | 5 | 6 |
| 8Q GAIN WILD-TYPE | 104 | 118 | 41 |
Figure S71. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.046 (Fisher's exact test), Q value = 0.093
Table S72. Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 8Q GAIN MUTATED | 4 | 7 | 13 |
| 8Q GAIN WILD-TYPE | 65 | 74 | 58 |
Figure S72. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.036 (Fisher's exact test), Q value = 0.076
Table S73. Gene #17: '9p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 9P GAIN MUTATED | 1 | 0 | 2 |
| 9P GAIN WILD-TYPE | 117 | 123 | 45 |
Figure S73. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0134 (Fisher's exact test), Q value = 0.033
Table S74. Gene #17: '9p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 9P GAIN MUTATED | 0 | 1 | 2 | 0 |
| 9P GAIN WILD-TYPE | 98 | 76 | 14 | 30 |
Figure S74. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00077 (Fisher's exact test), Q value = 0.0031
Table S75. Gene #18: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 10P GAIN MUTATED | 0 | 2 | 1 | 6 |
| 10P GAIN WILD-TYPE | 114 | 74 | 45 | 46 |
Figure S75. Get High-res Image Gene #18: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0329 (Fisher's exact test), Q value = 0.071
Table S76. Gene #18: '10p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 10P GAIN MUTATED | 1 | 5 | 1 |
| 10P GAIN WILD-TYPE | 81 | 66 | 118 |
Figure S76. Get High-res Image Gene #18: '10p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00124 (Fisher's exact test), Q value = 0.0048
Table S77. Gene #19: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 10Q GAIN MUTATED | 0 | 2 | 1 | 6 |
| 10Q GAIN WILD-TYPE | 114 | 74 | 45 | 46 |
Figure S77. Get High-res Image Gene #19: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0339 (Fisher's exact test), Q value = 0.073
Table S78. Gene #19: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 10Q GAIN MUTATED | 1 | 5 | 1 |
| 10Q GAIN WILD-TYPE | 81 | 66 | 118 |
Figure S78. Get High-res Image Gene #19: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00031 (Fisher's exact test), Q value = 0.0014
Table S79. Gene #20: '11p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 11P GAIN MUTATED | 2 | 1 | 0 | 8 |
| 11P GAIN WILD-TYPE | 112 | 75 | 46 | 44 |
Figure S79. Get High-res Image Gene #20: '11p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.02 (Fisher's exact test), Q value = 0.046
Table S80. Gene #20: '11p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 11P GAIN MUTATED | 3 | 6 | 1 |
| 11P GAIN WILD-TYPE | 79 | 65 | 118 |
Figure S80. Get High-res Image Gene #20: '11p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0104 (Fisher's exact test), Q value = 0.027
Table S81. Gene #20: '11p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 11P GAIN MUTATED | 0 | 0 | 0 | 3 | 2 | 0 | 4 |
| 11P GAIN WILD-TYPE | 17 | 22 | 41 | 32 | 24 | 39 | 22 |
Figure S81. Get High-res Image Gene #20: '11p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00033 (Fisher's exact test), Q value = 0.0014
Table S82. Gene #20: '11p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 11P GAIN MUTATED | 5 | 0 | 6 |
| 11P GAIN WILD-TYPE | 113 | 123 | 41 |
Figure S82. Get High-res Image Gene #20: '11p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S83. Gene #21: '11q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 11Q GAIN MUTATED | 1 | 0 | 0 | 9 |
| 11Q GAIN WILD-TYPE | 113 | 76 | 46 | 43 |
Figure S83. Get High-res Image Gene #21: '11q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00311 (Fisher's exact test), Q value = 0.01
Table S84. Gene #21: '11q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 11Q GAIN MUTATED | 1 | 7 | 1 |
| 11Q GAIN WILD-TYPE | 81 | 64 | 118 |
Figure S84. Get High-res Image Gene #21: '11q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.016 (Fisher's exact test), Q value = 0.039
Table S85. Gene #21: '11q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 11Q GAIN MUTATED | 0 | 0 | 0 | 3 | 3 | 0 | 3 |
| 11Q GAIN WILD-TYPE | 17 | 22 | 41 | 32 | 23 | 39 | 23 |
Figure S85. Get High-res Image Gene #21: '11q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0214 (Fisher's exact test), Q value = 0.049
Table S86. Gene #21: '11q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 11Q GAIN MUTATED | 0 | 1 | 1 | 8 |
| 11Q GAIN WILD-TYPE | 34 | 95 | 65 | 84 |
Figure S86. Get High-res Image Gene #21: '11q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00373 (Fisher's exact test), Q value = 0.012
Table S87. Gene #21: '11q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 11Q GAIN MUTATED | 6 | 0 | 4 |
| 11Q GAIN WILD-TYPE | 112 | 123 | 43 |
Figure S87. Get High-res Image Gene #21: '11q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00551 (Fisher's exact test), Q value = 0.017
Table S88. Gene #22: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 12P GAIN MUTATED | 31 | 33 | 25 | 23 |
| 12P GAIN WILD-TYPE | 83 | 43 | 21 | 29 |
Figure S88. Get High-res Image Gene #22: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0259 (Fisher's exact test), Q value = 0.058
Table S89. Gene #22: '12p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 12P GAIN MUTATED | 37 | 30 | 13 |
| 12P GAIN WILD-TYPE | 36 | 56 | 34 |
Figure S89. Get High-res Image Gene #22: '12p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00021 (Fisher's exact test), Q value = 0.00097
Table S90. Gene #22: '12p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 12P GAIN MUTATED | 21 | 40 | 30 | 21 |
| 12P GAIN WILD-TYPE | 13 | 56 | 36 | 71 |
Figure S90. Get High-res Image Gene #22: '12p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0167 (Fisher's exact test), Q value = 0.04
Table S91. Gene #22: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 12P GAIN MUTATED | 26 | 24 | 39 | 23 |
| 12P GAIN WILD-TYPE | 29 | 42 | 42 | 63 |
Figure S91. Get High-res Image Gene #22: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00518 (Fisher's exact test), Q value = 0.016
Table S92. Gene #23: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 12Q GAIN MUTATED | 31 | 33 | 25 | 23 |
| 12Q GAIN WILD-TYPE | 83 | 43 | 21 | 29 |
Figure S92. Get High-res Image Gene #23: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0262 (Fisher's exact test), Q value = 0.058
Table S93. Gene #23: '12q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 12Q GAIN MUTATED | 37 | 30 | 13 |
| 12Q GAIN WILD-TYPE | 36 | 56 | 34 |
Figure S93. Get High-res Image Gene #23: '12q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00016 (Fisher's exact test), Q value = 0.00079
Table S94. Gene #23: '12q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 12Q GAIN MUTATED | 21 | 40 | 30 | 21 |
| 12Q GAIN WILD-TYPE | 13 | 56 | 36 | 71 |
Figure S94. Get High-res Image Gene #23: '12q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0169 (Fisher's exact test), Q value = 0.04
Table S95. Gene #23: '12q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 12Q GAIN MUTATED | 26 | 24 | 39 | 23 |
| 12Q GAIN WILD-TYPE | 29 | 42 | 42 | 63 |
Figure S95. Get High-res Image Gene #23: '12q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0167 (Fisher's exact test), Q value = 0.04
Table S96. Gene #25: '14q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 14Q GAIN MUTATED | 0 | 3 | 0 |
| 14Q GAIN WILD-TYPE | 82 | 68 | 119 |
Figure S96. Get High-res Image Gene #25: '14q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0358 (Fisher's exact test), Q value = 0.076
Table S97. Gene #25: '14q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 14Q GAIN MUTATED | 1 | 0 | 2 |
| 14Q GAIN WILD-TYPE | 117 | 123 | 45 |
Figure S97. Get High-res Image Gene #25: '14q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0136 (Fisher's exact test), Q value = 0.034
Table S98. Gene #25: '14q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 14Q GAIN MUTATED | 0 | 1 | 2 | 0 |
| 14Q GAIN WILD-TYPE | 98 | 76 | 14 | 30 |
Figure S98. Get High-res Image Gene #25: '14q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00021 (Fisher's exact test), Q value = 0.00097
Table S99. Gene #26: '15q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 15Q GAIN MUTATED | 0 | 0 | 0 | 5 |
| 15Q GAIN WILD-TYPE | 114 | 76 | 46 | 47 |
Figure S99. Get High-res Image Gene #26: '15q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0198 (Fisher's exact test), Q value = 0.046
Table S100. Gene #26: '15q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 15Q GAIN MUTATED | 0 | 4 | 1 |
| 15Q GAIN WILD-TYPE | 82 | 67 | 118 |
Figure S100. Get High-res Image Gene #26: '15q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S101. Gene #27: '16p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 16P GAIN MUTATED | 49 | 36 | 46 | 22 |
| 16P GAIN WILD-TYPE | 65 | 40 | 0 | 30 |
Figure S101. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0114 (Fisher's exact test), Q value = 0.029
Table S102. Gene #27: '16p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 16P GAIN MUTATED | 37 | 33 | 76 |
| 16P GAIN WILD-TYPE | 45 | 38 | 43 |
Figure S102. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.014 (Fisher's exact test), Q value = 0.034
Table S103. Gene #27: '16p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 16P GAIN MUTATED | 13 | 14 | 23 | 16 | 8 | 26 | 10 |
| 16P GAIN WILD-TYPE | 4 | 8 | 18 | 19 | 18 | 13 | 16 |
Figure S103. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S104. Gene #27: '16p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 16P GAIN MUTATED | 18 | 57 | 50 | 28 |
| 16P GAIN WILD-TYPE | 16 | 39 | 16 | 64 |
Figure S104. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 0.00023
Table S105. Gene #27: '16p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 16P GAIN MUTATED | 68 | 74 | 11 |
| 16P GAIN WILD-TYPE | 50 | 49 | 36 |
Figure S105. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00068 (Fisher's exact test), Q value = 0.0028
Table S106. Gene #27: '16p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 16P GAIN MUTATED | 51 | 66 | 36 |
| 16P GAIN WILD-TYPE | 38 | 37 | 60 |
Figure S106. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S107. Gene #27: '16p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 16P GAIN MUTATED | 24 | 39 | 61 | 29 |
| 16P GAIN WILD-TYPE | 31 | 27 | 20 | 57 |
Figure S107. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00926 (Fisher's exact test), Q value = 0.025
Table S108. Gene #27: '16p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 16P GAIN MUTATED | 41 | 47 | 26 |
| 16P GAIN WILD-TYPE | 28 | 34 | 45 |
Figure S108. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00016 (Fisher's exact test), Q value = 0.00079
Table S109. Gene #27: '16p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 16P GAIN MUTATED | 67 | 30 | 5 | 12 |
| 16P GAIN WILD-TYPE | 31 | 47 | 11 | 18 |
Figure S109. Get High-res Image Gene #27: '16p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S110. Gene #28: '16q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 16Q GAIN MUTATED | 49 | 35 | 46 | 18 |
| 16Q GAIN WILD-TYPE | 65 | 41 | 0 | 34 |
Figure S110. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00664 (Fisher's exact test), Q value = 0.019
Table S111. Gene #28: '16q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 16Q GAIN MUTATED | 37 | 30 | 75 |
| 16Q GAIN WILD-TYPE | 45 | 41 | 44 |
Figure S111. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0213 (Fisher's exact test), Q value = 0.049
Table S112. Gene #28: '16q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 16Q GAIN MUTATED | 13 | 14 | 23 | 17 | 8 | 24 | 9 |
| 16Q GAIN WILD-TYPE | 4 | 8 | 18 | 18 | 18 | 15 | 17 |
Figure S112. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S113. Gene #28: '16q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 16Q GAIN MUTATED | 18 | 56 | 50 | 24 |
| 16Q GAIN WILD-TYPE | 16 | 40 | 16 | 68 |
Figure S113. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 0.00049
Table S114. Gene #28: '16q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 16Q GAIN MUTATED | 64 | 73 | 11 |
| 16Q GAIN WILD-TYPE | 54 | 50 | 36 |
Figure S114. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S115. Gene #28: '16q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 16Q GAIN MUTATED | 49 | 67 | 32 |
| 16Q GAIN WILD-TYPE | 40 | 36 | 64 |
Figure S115. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S116. Gene #28: '16q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 16Q GAIN MUTATED | 19 | 40 | 61 | 28 |
| 16Q GAIN WILD-TYPE | 36 | 26 | 20 | 58 |
Figure S116. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00279 (Fisher's exact test), Q value = 0.0095
Table S117. Gene #28: '16q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 16Q GAIN MUTATED | 40 | 46 | 23 |
| 16Q GAIN WILD-TYPE | 29 | 35 | 48 |
Figure S117. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S118. Gene #28: '16q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 16Q GAIN MUTATED | 67 | 26 | 5 | 11 |
| 16Q GAIN WILD-TYPE | 31 | 51 | 11 | 19 |
Figure S118. Get High-res Image Gene #28: '16q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S119. Gene #29: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 17P GAIN MUTATED | 29 | 75 | 45 | 25 |
| 17P GAIN WILD-TYPE | 85 | 1 | 1 | 27 |
Figure S119. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S120. Gene #29: '17p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 17P GAIN MUTATED | 37 | 22 | 105 |
| 17P GAIN WILD-TYPE | 45 | 49 | 14 |
Figure S120. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00302 (Fisher's exact test), Q value = 0.01
Table S121. Gene #29: '17p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 17P GAIN MUTATED | 48 | 60 | 19 |
| 17P GAIN WILD-TYPE | 25 | 26 | 28 |
Figure S121. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S122. Gene #29: '17p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 17P GAIN MUTATED | 14 | 17 | 37 | 18 | 9 | 17 | 15 |
| 17P GAIN WILD-TYPE | 3 | 5 | 4 | 17 | 17 | 22 | 11 |
Figure S122. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S123. Gene #29: '17p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 17P GAIN MUTATED | 23 | 87 | 41 | 23 |
| 17P GAIN WILD-TYPE | 11 | 9 | 25 | 69 |
Figure S123. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S124. Gene #29: '17p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 17P GAIN MUTATED | 55 | 108 | 11 |
| 17P GAIN WILD-TYPE | 63 | 15 | 36 |
Figure S124. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00394 (Fisher's exact test), Q value = 0.013
Table S125. Gene #29: '17p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 17P GAIN MUTATED | 45 | 75 | 54 |
| 17P GAIN WILD-TYPE | 44 | 28 | 42 |
Figure S125. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S126. Gene #29: '17p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 17P GAIN MUTATED | 20 | 40 | 67 | 47 |
| 17P GAIN WILD-TYPE | 35 | 26 | 14 | 39 |
Figure S126. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S127. Gene #29: '17p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 17P GAIN MUTATED | 32 | 66 | 30 |
| 17P GAIN WILD-TYPE | 37 | 15 | 41 |
Figure S127. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S128. Gene #29: '17p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 17P GAIN MUTATED | 67 | 30 | 4 | 27 |
| 17P GAIN WILD-TYPE | 31 | 47 | 12 | 3 |
Figure S128. Get High-res Image Gene #29: '17p gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S129. Gene #30: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 17Q GAIN MUTATED | 38 | 75 | 45 | 33 |
| 17Q GAIN WILD-TYPE | 76 | 1 | 1 | 19 |
Figure S129. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S130. Gene #30: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 17Q GAIN MUTATED | 42 | 33 | 105 |
| 17Q GAIN WILD-TYPE | 40 | 38 | 14 |
Figure S130. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0305 (Fisher's exact test), Q value = 0.066
Table S131. Gene #30: '17q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 17Q GAIN MUTATED | 53 | 62 | 24 |
| 17Q GAIN WILD-TYPE | 20 | 24 | 23 |
Figure S131. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S132. Gene #30: '17q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 17Q GAIN MUTATED | 15 | 20 | 37 | 20 | 11 | 20 | 16 |
| 17Q GAIN WILD-TYPE | 2 | 2 | 4 | 15 | 15 | 19 | 10 |
Figure S132. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S133. Gene #30: '17q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 17Q GAIN MUTATED | 24 | 87 | 44 | 36 |
| 17Q GAIN WILD-TYPE | 10 | 9 | 22 | 56 |
Figure S133. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S134. Gene #30: '17q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 17Q GAIN MUTATED | 68 | 108 | 15 |
| 17Q GAIN WILD-TYPE | 50 | 15 | 32 |
Figure S134. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0349 (Fisher's exact test), Q value = 0.074
Table S135. Gene #30: '17q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 17Q GAIN MUTATED | 53 | 78 | 60 |
| 17Q GAIN WILD-TYPE | 36 | 25 | 36 |
Figure S135. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 0.00023
Table S136. Gene #30: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 17Q GAIN MUTATED | 26 | 45 | 69 | 51 |
| 17Q GAIN WILD-TYPE | 29 | 21 | 12 | 35 |
Figure S136. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00013 (Fisher's exact test), Q value = 0.00067
Table S137. Gene #30: '17q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 17Q GAIN MUTATED | 38 | 66 | 38 |
| 17Q GAIN WILD-TYPE | 31 | 15 | 33 |
Figure S137. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S138. Gene #30: '17q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 17Q GAIN MUTATED | 70 | 40 | 5 | 27 |
| 17Q GAIN WILD-TYPE | 28 | 37 | 11 | 3 |
Figure S138. Get High-res Image Gene #30: '17q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00258 (Fisher's exact test), Q value = 0.0089
Table S139. Gene #31: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 18P GAIN MUTATED | 0 | 4 | 5 | 3 |
| 18P GAIN WILD-TYPE | 114 | 72 | 41 | 49 |
Figure S139. Get High-res Image Gene #31: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00306 (Fisher's exact test), Q value = 0.01
Table S140. Gene #32: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 18Q GAIN MUTATED | 0 | 3 | 5 | 1 |
| 18Q GAIN WILD-TYPE | 114 | 73 | 41 | 51 |
Figure S140. Get High-res Image Gene #32: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0015 (Fisher's exact test), Q value = 0.0058
Table S141. Gene #33: '19p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 19P GAIN MUTATED | 0 | 0 | 0 | 4 |
| 19P GAIN WILD-TYPE | 114 | 76 | 46 | 48 |
Figure S141. Get High-res Image Gene #33: '19p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.046 (Fisher's exact test), Q value = 0.093
Table S142. Gene #33: '19p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 19P GAIN MUTATED | 0 | 0 | 0 | 4 |
| 19P GAIN WILD-TYPE | 34 | 96 | 66 | 88 |
Figure S142. Get High-res Image Gene #33: '19p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0411 (Fisher's exact test), Q value = 0.085
Table S143. Gene #33: '19p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 19P GAIN MUTATED | 2 | 0 | 2 |
| 19P GAIN WILD-TYPE | 116 | 123 | 45 |
Figure S143. Get High-res Image Gene #33: '19p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00135 (Fisher's exact test), Q value = 0.0052
Table S144. Gene #34: '19q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 19Q GAIN MUTATED | 0 | 0 | 0 | 4 |
| 19Q GAIN WILD-TYPE | 114 | 76 | 46 | 48 |
Figure S144. Get High-res Image Gene #34: '19q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0456 (Fisher's exact test), Q value = 0.092
Table S145. Gene #34: '19q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 19Q GAIN MUTATED | 0 | 0 | 0 | 4 |
| 19Q GAIN WILD-TYPE | 34 | 96 | 66 | 88 |
Figure S145. Get High-res Image Gene #34: '19q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0406 (Fisher's exact test), Q value = 0.084
Table S146. Gene #34: '19q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 19Q GAIN MUTATED | 2 | 0 | 2 |
| 19Q GAIN WILD-TYPE | 116 | 123 | 45 |
Figure S146. Get High-res Image Gene #34: '19q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S147. Gene #35: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 20P GAIN MUTATED | 21 | 31 | 24 | 23 |
| 20P GAIN WILD-TYPE | 93 | 45 | 22 | 29 |
Figure S147. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0202 (Fisher's exact test), Q value = 0.047
Table S148. Gene #35: '20p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 20P GAIN MUTATED | 19 | 23 | 50 |
| 20P GAIN WILD-TYPE | 63 | 48 | 69 |
Figure S148. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0245 (Fisher's exact test), Q value = 0.055
Table S149. Gene #35: '20p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 20P GAIN MUTATED | 22 | 36 | 9 |
| 20P GAIN WILD-TYPE | 51 | 50 | 38 |
Figure S149. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.00563 (Fisher's exact test), Q value = 0.017
Table S150. Gene #35: '20p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 20P GAIN MUTATED | 8 | 6 | 22 | 12 | 7 | 5 | 7 |
| 20P GAIN WILD-TYPE | 9 | 16 | 19 | 23 | 19 | 34 | 19 |
Figure S150. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00487 (Fisher's exact test), Q value = 0.015
Table S151. Gene #35: '20p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 20P GAIN MUTATED | 9 | 46 | 22 | 22 |
| 20P GAIN WILD-TYPE | 25 | 50 | 44 | 70 |
Figure S151. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0223 (Fisher's exact test), Q value = 0.05
Table S152. Gene #35: '20p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 20P GAIN MUTATED | 35 | 53 | 11 |
| 20P GAIN WILD-TYPE | 83 | 70 | 36 |
Figure S152. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0116 (Fisher's exact test), Q value = 0.03
Table S153. Gene #35: '20p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 20P GAIN MUTATED | 24 | 47 | 28 |
| 20P GAIN WILD-TYPE | 65 | 56 | 68 |
Figure S153. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00322 (Fisher's exact test), Q value = 0.011
Table S154. Gene #35: '20p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 20P GAIN MUTATED | 13 | 21 | 41 | 24 |
| 20P GAIN WILD-TYPE | 42 | 45 | 40 | 62 |
Figure S154. Get High-res Image Gene #35: '20p gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00018 (Fisher's exact test), Q value = 0.00087
Table S155. Gene #36: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 20Q GAIN MUTATED | 23 | 32 | 23 | 23 |
| 20Q GAIN WILD-TYPE | 91 | 44 | 23 | 29 |
Figure S155. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0204 (Fisher's exact test), Q value = 0.047
Table S156. Gene #36: '20q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 20Q GAIN MUTATED | 19 | 24 | 50 |
| 20Q GAIN WILD-TYPE | 63 | 47 | 69 |
Figure S156. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0355 (Fisher's exact test), Q value = 0.075
Table S157. Gene #36: '20q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 20Q GAIN MUTATED | 23 | 35 | 9 |
| 20Q GAIN WILD-TYPE | 50 | 51 | 38 |
Figure S157. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 0.0099 (Fisher's exact test), Q value = 0.026
Table S158. Gene #36: '20q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 20Q GAIN MUTATED | 7 | 6 | 22 | 12 | 8 | 5 | 7 |
| 20Q GAIN WILD-TYPE | 10 | 16 | 19 | 23 | 18 | 34 | 19 |
Figure S158. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0114 (Fisher's exact test), Q value = 0.029
Table S159. Gene #36: '20q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 20Q GAIN MUTATED | 9 | 46 | 22 | 24 |
| 20Q GAIN WILD-TYPE | 25 | 50 | 44 | 68 |
Figure S159. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0499 (Fisher's exact test), Q value = 0.098
Table S160. Gene #36: '20q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 20Q GAIN MUTATED | 35 | 53 | 13 |
| 20Q GAIN WILD-TYPE | 83 | 70 | 34 |
Figure S160. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0189 (Fisher's exact test), Q value = 0.044
Table S161. Gene #36: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 20Q GAIN MUTATED | 24 | 47 | 30 |
| 20Q GAIN WILD-TYPE | 65 | 56 | 66 |
Figure S161. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.006 (Fisher's exact test), Q value = 0.018
Table S162. Gene #36: '20q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 20Q GAIN MUTATED | 13 | 21 | 41 | 26 |
| 20Q GAIN WILD-TYPE | 42 | 45 | 40 | 60 |
Figure S162. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0434 (Fisher's exact test), Q value = 0.089
Table S163. Gene #36: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 20Q GAIN MUTATED | 38 | 17 | 7 | 13 |
| 20Q GAIN WILD-TYPE | 60 | 60 | 9 | 17 |
Figure S163. Get High-res Image Gene #36: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00873 (Fisher's exact test), Q value = 0.024
Table S164. Gene #38: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 22Q GAIN MUTATED | 0 | 0 | 2 | 3 |
| 22Q GAIN WILD-TYPE | 114 | 76 | 44 | 49 |
Figure S164. Get High-res Image Gene #38: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S165. Gene #39: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| XP GAIN MUTATED | 6 | 30 | 39 | 12 |
| XP GAIN WILD-TYPE | 108 | 46 | 7 | 40 |
Figure S165. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S166. Gene #39: 'xp gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| XP GAIN MUTATED | 14 | 12 | 54 |
| XP GAIN WILD-TYPE | 68 | 59 | 65 |
Figure S166. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0182 (Fisher's exact test), Q value = 0.043
Table S167. Gene #39: 'xp gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| XP GAIN MUTATED | 8 | 10 | 17 | 9 | 3 | 8 | 5 |
| XP GAIN WILD-TYPE | 9 | 12 | 24 | 26 | 23 | 31 | 21 |
Figure S167. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S168. Gene #39: 'xp gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| XP GAIN MUTATED | 8 | 45 | 28 | 6 |
| XP GAIN WILD-TYPE | 26 | 51 | 38 | 86 |
Figure S168. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 4e-05 (Fisher's exact test), Q value = 0.00023
Table S169. Gene #39: 'xp gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| XP GAIN MUTATED | 27 | 55 | 5 |
| XP GAIN WILD-TYPE | 91 | 68 | 42 |
Figure S169. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00849 (Fisher's exact test), Q value = 0.023
Table S170. Gene #39: 'xp gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| XP GAIN MUTATED | 25 | 42 | 20 |
| XP GAIN WILD-TYPE | 64 | 61 | 76 |
Figure S170. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S171. Gene #39: 'xp gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| XP GAIN MUTATED | 7 | 21 | 43 | 16 |
| XP GAIN WILD-TYPE | 48 | 45 | 38 | 70 |
Figure S171. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00216 (Fisher's exact test), Q value = 0.0078
Table S172. Gene #39: 'xp gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| XP GAIN MUTATED | 20 | 30 | 9 |
| XP GAIN WILD-TYPE | 49 | 51 | 62 |
Figure S172. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00065 (Fisher's exact test), Q value = 0.0027
Table S173. Gene #39: 'xp gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| XP GAIN MUTATED | 36 | 9 | 3 | 11 |
| XP GAIN WILD-TYPE | 62 | 68 | 13 | 19 |
Figure S173. Get High-res Image Gene #39: 'xp gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S174. Gene #40: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| XQ GAIN MUTATED | 7 | 31 | 39 | 14 |
| XQ GAIN WILD-TYPE | 107 | 45 | 7 | 38 |
Figure S174. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S175. Gene #40: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| XQ GAIN MUTATED | 14 | 14 | 55 |
| XQ GAIN WILD-TYPE | 68 | 57 | 64 |
Figure S175. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.031 (Fisher's exact test), Q value = 0.067
Table S176. Gene #40: 'xq gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| XQ GAIN MUTATED | 8 | 10 | 17 | 9 | 3 | 8 | 7 |
| XQ GAIN WILD-TYPE | 9 | 12 | 24 | 26 | 23 | 31 | 19 |
Figure S176. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S177. Gene #40: 'xq gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| XQ GAIN MUTATED | 8 | 46 | 28 | 9 |
| XQ GAIN WILD-TYPE | 26 | 50 | 38 | 83 |
Figure S177. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 3e-05 (Fisher's exact test), Q value = 0.00018
Table S178. Gene #40: 'xq gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| XQ GAIN MUTATED | 29 | 56 | 6 |
| XQ GAIN WILD-TYPE | 89 | 67 | 41 |
Figure S178. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00991 (Fisher's exact test), Q value = 0.026
Table S179. Gene #40: 'xq gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| XQ GAIN MUTATED | 27 | 43 | 21 |
| XQ GAIN WILD-TYPE | 62 | 60 | 75 |
Figure S179. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S180. Gene #40: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| XQ GAIN MUTATED | 8 | 23 | 43 | 17 |
| XQ GAIN WILD-TYPE | 47 | 43 | 38 | 69 |
Figure S180. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0103 (Fisher's exact test), Q value = 0.027
Table S181. Gene #40: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| XQ GAIN MUTATED | 20 | 30 | 11 |
| XQ GAIN WILD-TYPE | 49 | 51 | 60 |
Figure S181. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00376 (Fisher's exact test), Q value = 0.012
Table S182. Gene #40: 'xq gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| XQ GAIN MUTATED | 36 | 11 | 3 | 11 |
| XQ GAIN WILD-TYPE | 62 | 66 | 13 | 19 |
Figure S182. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S183. Gene #41: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 1P LOSS MUTATED | 13 | 0 | 2 | 15 |
| 1P LOSS WILD-TYPE | 101 | 76 | 44 | 37 |
Figure S183. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0298 (Fisher's exact test), Q value = 0.065
Table S184. Gene #41: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 1P LOSS MUTATED | 9 | 13 | 7 |
| 1P LOSS WILD-TYPE | 73 | 58 | 112 |
Figure S184. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 5e-05 (Fisher's exact test), Q value = 0.00029
Table S185. Gene #41: '1p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 1P LOSS MUTATED | 0 | 4 | 5 | 21 |
| 1P LOSS WILD-TYPE | 34 | 92 | 61 | 71 |
Figure S185. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00081 (Fisher's exact test), Q value = 0.0033
Table S186. Gene #41: '1p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 1P LOSS MUTATED | 12 | 6 | 12 |
| 1P LOSS WILD-TYPE | 106 | 117 | 35 |
Figure S186. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00023 (Fisher's exact test), Q value = 0.0011
Table S187. Gene #42: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 1Q LOSS MUTATED | 9 | 0 | 2 | 10 |
| 1Q LOSS WILD-TYPE | 105 | 76 | 44 | 42 |
Figure S187. Get High-res Image Gene #42: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00755 (Fisher's exact test), Q value = 0.021
Table S188. Gene #42: '1q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 1Q LOSS MUTATED | 6 | 6 | 9 |
| 1Q LOSS WILD-TYPE | 112 | 117 | 38 |
Figure S188. Get High-res Image Gene #42: '1q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00979 (Fisher's exact test), Q value = 0.026
Table S189. Gene #43: '2p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 2P LOSS MUTATED | 1 | 4 | 0 |
| 2P LOSS WILD-TYPE | 81 | 67 | 119 |
Figure S189. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0162 (Fisher's exact test), Q value = 0.039
Table S190. Gene #43: '2p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 2P LOSS MUTATED | 0 | 0 | 0 | 5 |
| 2P LOSS WILD-TYPE | 34 | 96 | 66 | 87 |
Figure S190. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0367 (Fisher's exact test), Q value = 0.077
Table S191. Gene #44: '2q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 2Q LOSS MUTATED | 1 | 0 | 2 |
| 2Q LOSS WILD-TYPE | 117 | 123 | 45 |
Figure S191. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S192. Gene #45: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 3P LOSS MUTATED | 5 | 0 | 0 | 17 |
| 3P LOSS WILD-TYPE | 109 | 76 | 46 | 35 |
Figure S192. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S193. Gene #45: '3p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 3P LOSS MUTATED | 5 | 15 | 1 |
| 3P LOSS WILD-TYPE | 77 | 56 | 118 |
Figure S193. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00211 (Fisher's exact test), Q value = 0.0076
Table S194. Gene #45: '3p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 3P LOSS MUTATED | 0 | 3 | 0 | 3 | 6 | 1 | 5 |
| 3P LOSS WILD-TYPE | 17 | 19 | 41 | 32 | 20 | 38 | 21 |
Figure S194. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S195. Gene #45: '3p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 3P LOSS MUTATED | 0 | 0 | 4 | 18 |
| 3P LOSS WILD-TYPE | 34 | 96 | 62 | 74 |
Figure S195. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S196. Gene #45: '3p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 3P LOSS MUTATED | 18 | 0 | 4 |
| 3P LOSS WILD-TYPE | 100 | 123 | 43 |
Figure S196. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0265 (Fisher's exact test), Q value = 0.059
Table S197. Gene #45: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 3P LOSS MUTATED | 7 | 5 | 1 | 9 |
| 3P LOSS WILD-TYPE | 48 | 61 | 80 | 77 |
Figure S197. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0474 (Fisher's exact test), Q value = 0.095
Table S198. Gene #45: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 3P LOSS MUTATED | 9 | 3 | 10 |
| 3P LOSS WILD-TYPE | 60 | 78 | 61 |
Figure S198. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.016 (Fisher's exact test), Q value = 0.039
Table S199. Gene #45: '3p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 3P LOSS MUTATED | 7 | 14 | 1 | 0 |
| 3P LOSS WILD-TYPE | 91 | 63 | 15 | 30 |
Figure S199. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S200. Gene #46: '3q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 3Q LOSS MUTATED | 0 | 0 | 0 | 7 |
| 3Q LOSS WILD-TYPE | 114 | 76 | 46 | 45 |
Figure S200. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00184 (Fisher's exact test), Q value = 0.0068
Table S201. Gene #46: '3q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 3Q LOSS MUTATED | 0 | 6 | 1 |
| 3Q LOSS WILD-TYPE | 82 | 65 | 118 |
Figure S201. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0213 (Fisher's exact test), Q value = 0.049
Table S202. Gene #46: '3q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 3Q LOSS MUTATED | 0 | 0 | 1 | 6 |
| 3Q LOSS WILD-TYPE | 34 | 96 | 65 | 86 |
Figure S202. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00297 (Fisher's exact test), Q value = 0.01
Table S203. Gene #46: '3q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 3Q LOSS MUTATED | 3 | 0 | 4 |
| 3Q LOSS WILD-TYPE | 115 | 123 | 43 |
Figure S203. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S204. Gene #47: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 4P LOSS MUTATED | 6 | 0 | 0 | 19 |
| 4P LOSS WILD-TYPE | 108 | 76 | 46 | 33 |
Figure S204. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S205. Gene #47: '4p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 4P LOSS MUTATED | 5 | 18 | 1 |
| 4P LOSS WILD-TYPE | 77 | 53 | 118 |
Figure S205. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00013 (Fisher's exact test), Q value = 0.00067
Table S206. Gene #47: '4p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 4P LOSS MUTATED | 0 | 2 | 0 | 4 | 7 | 1 | 7 |
| 4P LOSS WILD-TYPE | 17 | 20 | 41 | 31 | 19 | 38 | 19 |
Figure S206. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S207. Gene #47: '4p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 4P LOSS MUTATED | 0 | 0 | 1 | 24 |
| 4P LOSS WILD-TYPE | 34 | 96 | 65 | 68 |
Figure S207. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S208. Gene #47: '4p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 4P LOSS MUTATED | 12 | 1 | 12 |
| 4P LOSS WILD-TYPE | 106 | 122 | 35 |
Figure S208. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00586 (Fisher's exact test), Q value = 0.018
Table S209. Gene #47: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 4P LOSS MUTATED | 5 | 2 | 12 |
| 4P LOSS WILD-TYPE | 64 | 79 | 59 |
Figure S209. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S210. Gene #47: '4p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 4P LOSS MUTATED | 4 | 7 | 8 | 0 |
| 4P LOSS WILD-TYPE | 94 | 70 | 8 | 30 |
Figure S210. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S211. Gene #48: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 4Q LOSS MUTATED | 6 | 0 | 0 | 20 |
| 4Q LOSS WILD-TYPE | 108 | 76 | 46 | 32 |
Figure S211. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S212. Gene #48: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 4Q LOSS MUTATED | 5 | 19 | 1 |
| 4Q LOSS WILD-TYPE | 77 | 52 | 118 |
Figure S212. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00035 (Fisher's exact test), Q value = 0.0015
Table S213. Gene #48: '4q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 4Q LOSS MUTATED | 0 | 2 | 0 | 5 | 6 | 1 | 7 |
| 4Q LOSS WILD-TYPE | 17 | 20 | 41 | 30 | 20 | 38 | 19 |
Figure S213. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S214. Gene #48: '4q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 4Q LOSS MUTATED | 0 | 0 | 1 | 25 |
| 4Q LOSS WILD-TYPE | 34 | 96 | 65 | 67 |
Figure S214. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S215. Gene #48: '4q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 4Q LOSS MUTATED | 14 | 1 | 11 |
| 4Q LOSS WILD-TYPE | 104 | 122 | 36 |
Figure S215. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00672 (Fisher's exact test), Q value = 0.019
Table S216. Gene #48: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 4Q LOSS MUTATED | 6 | 2 | 12 |
| 4Q LOSS WILD-TYPE | 63 | 79 | 59 |
Figure S216. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S217. Gene #48: '4q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 4Q LOSS MUTATED | 4 | 9 | 7 | 0 |
| 4Q LOSS WILD-TYPE | 94 | 68 | 9 | 30 |
Figure S217. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0488 (Fisher's exact test), Q value = 0.097
Table S218. Gene #49: '5p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 5P LOSS MUTATED | 2 | 5 | 1 |
| 5P LOSS WILD-TYPE | 80 | 66 | 118 |
Figure S218. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00953 (Fisher's exact test), Q value = 0.026
Table S219. Gene #49: '5p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 5P LOSS MUTATED | 0 | 0 | 0 | 1 | 4 | 0 | 1 |
| 5P LOSS WILD-TYPE | 17 | 22 | 41 | 34 | 22 | 39 | 25 |
Figure S219. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.03 (Fisher's exact test), Q value = 0.065
Table S220. Gene #49: '5p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 5P LOSS MUTATED | 1 | 0 | 1 | 6 |
| 5P LOSS WILD-TYPE | 33 | 96 | 65 | 86 |
Figure S220. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00033 (Fisher's exact test), Q value = 0.0014
Table S221. Gene #49: '5p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 5P LOSS MUTATED | 1 | 1 | 6 |
| 5P LOSS WILD-TYPE | 117 | 122 | 41 |
Figure S221. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0396 (Fisher's exact test), Q value = 0.083
Table S222. Gene #49: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 5P LOSS MUTATED | 1 | 1 | 0 | 6 |
| 5P LOSS WILD-TYPE | 54 | 65 | 81 | 80 |
Figure S222. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0126 (Fisher's exact test), Q value = 0.032
Table S223. Gene #49: '5p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 5P LOSS MUTATED | 2 | 0 | 6 |
| 5P LOSS WILD-TYPE | 67 | 81 | 65 |
Figure S223. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00012 (Fisher's exact test), Q value = 0.00063
Table S224. Gene #49: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 5P LOSS MUTATED | 2 | 1 | 5 | 0 |
| 5P LOSS WILD-TYPE | 96 | 76 | 11 | 30 |
Figure S224. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0487 (Fisher's exact test), Q value = 0.097
Table S225. Gene #50: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 5Q LOSS MUTATED | 2 | 5 | 1 |
| 5Q LOSS WILD-TYPE | 80 | 66 | 118 |
Figure S225. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0101 (Fisher's exact test), Q value = 0.027
Table S226. Gene #50: '5q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 5Q LOSS MUTATED | 0 | 0 | 0 | 1 | 4 | 0 | 1 |
| 5Q LOSS WILD-TYPE | 17 | 22 | 41 | 34 | 22 | 39 | 25 |
Figure S226. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0298 (Fisher's exact test), Q value = 0.065
Table S227. Gene #50: '5q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 5Q LOSS MUTATED | 1 | 0 | 1 | 6 |
| 5Q LOSS WILD-TYPE | 33 | 96 | 65 | 86 |
Figure S227. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00025 (Fisher's exact test), Q value = 0.0011
Table S228. Gene #50: '5q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 5Q LOSS MUTATED | 1 | 1 | 6 |
| 5Q LOSS WILD-TYPE | 117 | 122 | 41 |
Figure S228. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0404 (Fisher's exact test), Q value = 0.084
Table S229. Gene #50: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 5Q LOSS MUTATED | 1 | 1 | 0 | 6 |
| 5Q LOSS WILD-TYPE | 54 | 65 | 81 | 80 |
Figure S229. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0122 (Fisher's exact test), Q value = 0.031
Table S230. Gene #50: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 5Q LOSS MUTATED | 2 | 0 | 6 |
| 5Q LOSS WILD-TYPE | 67 | 81 | 65 |
Figure S230. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S231. Gene #50: '5q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 5Q LOSS MUTATED | 2 | 0 | 6 | 0 |
| 5Q LOSS WILD-TYPE | 96 | 77 | 10 | 30 |
Figure S231. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S232. Gene #51: '6p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 6P LOSS MUTATED | 6 | 0 | 1 | 14 |
| 6P LOSS WILD-TYPE | 108 | 76 | 45 | 38 |
Figure S232. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0449 (Fisher's exact test), Q value = 0.091
Table S233. Gene #51: '6p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 6P LOSS MUTATED | 5 | 10 | 5 |
| 6P LOSS WILD-TYPE | 77 | 61 | 114 |
Figure S233. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00617 (Fisher's exact test), Q value = 0.018
Table S234. Gene #51: '6p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 6P LOSS MUTATED | 0 | 4 | 3 | 14 |
| 6P LOSS WILD-TYPE | 34 | 92 | 63 | 78 |
Figure S234. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00026 (Fisher's exact test), Q value = 0.0012
Table S235. Gene #51: '6p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 6P LOSS MUTATED | 6 | 4 | 11 |
| 6P LOSS WILD-TYPE | 112 | 119 | 36 |
Figure S235. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0196 (Fisher's exact test), Q value = 0.046
Table S236. Gene #51: '6p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 6P LOSS MUTATED | 2 | 13 | 6 |
| 6P LOSS WILD-TYPE | 87 | 90 | 90 |
Figure S236. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S237. Gene #52: '6q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 6Q LOSS MUTATED | 7 | 0 | 1 | 18 |
| 6Q LOSS WILD-TYPE | 107 | 76 | 45 | 34 |
Figure S237. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0023 (Fisher's exact test), Q value = 0.0081
Table S238. Gene #52: '6q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 6Q LOSS MUTATED | 8 | 13 | 4 |
| 6Q LOSS WILD-TYPE | 74 | 58 | 115 |
Figure S238. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00018 (Fisher's exact test), Q value = 0.00087
Table S239. Gene #52: '6q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 6Q LOSS MUTATED | 0 | 3 | 5 | 18 |
| 6Q LOSS WILD-TYPE | 34 | 93 | 61 | 74 |
Figure S239. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S240. Gene #52: '6q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 6Q LOSS MUTATED | 11 | 3 | 12 |
| 6Q LOSS WILD-TYPE | 107 | 120 | 35 |
Figure S240. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00156 (Fisher's exact test), Q value = 0.006
Table S241. Gene #53: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 8P LOSS MUTATED | 5 | 2 | 0 | 9 |
| 8P LOSS WILD-TYPE | 109 | 74 | 46 | 43 |
Figure S241. Get High-res Image Gene #53: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00445 (Fisher's exact test), Q value = 0.014
Table S242. Gene #53: '8p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 8P LOSS MUTATED | 1 | 2 | 1 | 12 |
| 8P LOSS WILD-TYPE | 33 | 94 | 65 | 80 |
Figure S242. Get High-res Image Gene #53: '8p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00965 (Fisher's exact test), Q value = 0.026
Table S243. Gene #53: '8p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 8P LOSS MUTATED | 6 | 3 | 7 |
| 8P LOSS WILD-TYPE | 112 | 120 | 40 |
Figure S243. Get High-res Image Gene #53: '8p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00239 (Fisher's exact test), Q value = 0.0083
Table S244. Gene #54: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 8Q LOSS MUTATED | 3 | 0 | 0 | 6 |
| 8Q LOSS WILD-TYPE | 111 | 76 | 46 | 46 |
Figure S244. Get High-res Image Gene #54: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0465 (Fisher's exact test), Q value = 0.094
Table S245. Gene #54: '8q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 8Q LOSS MUTATED | 0 | 0 | 0 | 3 | 0 | 0 | 2 |
| 8Q LOSS WILD-TYPE | 17 | 22 | 41 | 32 | 26 | 39 | 24 |
Figure S245. Get High-res Image Gene #54: '8q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.0125 (Fisher's exact test), Q value = 0.032
Table S246. Gene #54: '8q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 8Q LOSS MUTATED | 1 | 0 | 1 | 7 |
| 8Q LOSS WILD-TYPE | 33 | 96 | 65 | 85 |
Figure S246. Get High-res Image Gene #54: '8q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 9e-04 (Fisher's exact test), Q value = 0.0036
Table S247. Gene #54: '8q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 8Q LOSS MUTATED | 2 | 1 | 6 |
| 8Q LOSS WILD-TYPE | 116 | 122 | 41 |
Figure S247. Get High-res Image Gene #54: '8q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S248. Gene #55: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 9P LOSS MUTATED | 9 | 0 | 1 | 23 |
| 9P LOSS WILD-TYPE | 105 | 76 | 45 | 29 |
Figure S248. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S249. Gene #55: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 9P LOSS MUTATED | 11 | 18 | 1 |
| 9P LOSS WILD-TYPE | 71 | 53 | 118 |
Figure S249. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0016 (Fisher's exact test), Q value = 0.0061
Table S250. Gene #55: '9p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 9P LOSS MUTATED | 0 | 3 | 0 | 6 | 6 | 3 | 7 |
| 9P LOSS WILD-TYPE | 17 | 19 | 41 | 29 | 20 | 36 | 19 |
Figure S250. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S251. Gene #55: '9p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 9P LOSS MUTATED | 1 | 0 | 3 | 29 |
| 9P LOSS WILD-TYPE | 33 | 96 | 63 | 63 |
Figure S251. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S252. Gene #55: '9p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 9P LOSS MUTATED | 19 | 0 | 14 |
| 9P LOSS WILD-TYPE | 99 | 123 | 33 |
Figure S252. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00595 (Fisher's exact test), Q value = 0.018
Table S253. Gene #55: '9p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 9P LOSS MUTATED | 3 | 14 | 16 |
| 9P LOSS WILD-TYPE | 86 | 89 | 80 |
Figure S253. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00569 (Fisher's exact test), Q value = 0.017
Table S254. Gene #55: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 9P LOSS MUTATED | 8 | 4 | 16 |
| 9P LOSS WILD-TYPE | 61 | 77 | 55 |
Figure S254. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00077 (Fisher's exact test), Q value = 0.0031
Table S255. Gene #55: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 9P LOSS MUTATED | 7 | 17 | 4 | 0 |
| 9P LOSS WILD-TYPE | 91 | 60 | 12 | 30 |
Figure S255. Get High-res Image Gene #55: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S256. Gene #56: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 9Q LOSS MUTATED | 11 | 1 | 1 | 21 |
| 9Q LOSS WILD-TYPE | 103 | 75 | 45 | 31 |
Figure S256. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S257. Gene #56: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 9Q LOSS MUTATED | 12 | 18 | 1 |
| 9Q LOSS WILD-TYPE | 70 | 53 | 118 |
Figure S257. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00174 (Fisher's exact test), Q value = 0.0065
Table S258. Gene #56: '9q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 9Q LOSS MUTATED | 0 | 3 | 0 | 6 | 5 | 4 | 8 |
| 9Q LOSS WILD-TYPE | 17 | 19 | 41 | 29 | 21 | 35 | 18 |
Figure S258. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S259. Gene #56: '9q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 9Q LOSS MUTATED | 1 | 0 | 3 | 30 |
| 9Q LOSS WILD-TYPE | 33 | 96 | 63 | 62 |
Figure S259. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S260. Gene #56: '9q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 9Q LOSS MUTATED | 17 | 0 | 17 |
| 9Q LOSS WILD-TYPE | 101 | 123 | 30 |
Figure S260. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00434 (Fisher's exact test), Q value = 0.014
Table S261. Gene #56: '9q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 9Q LOSS MUTATED | 3 | 14 | 17 |
| 9Q LOSS WILD-TYPE | 86 | 89 | 79 |
Figure S261. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00095 (Fisher's exact test), Q value = 0.0038
Table S262. Gene #56: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 9Q LOSS MUTATED | 8 | 4 | 18 |
| 9Q LOSS WILD-TYPE | 61 | 77 | 53 |
Figure S262. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00019 (Fisher's exact test), Q value = 9e-04
Table S263. Gene #56: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 9Q LOSS MUTATED | 8 | 15 | 7 | 0 |
| 9Q LOSS WILD-TYPE | 90 | 62 | 9 | 30 |
Figure S263. Get High-res Image Gene #56: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S264. Gene #57: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 10P LOSS MUTATED | 3 | 0 | 0 | 13 |
| 10P LOSS WILD-TYPE | 111 | 76 | 46 | 39 |
Figure S264. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00016 (Fisher's exact test), Q value = 0.00079
Table S265. Gene #57: '10p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 10P LOSS MUTATED | 1 | 11 | 2 |
| 10P LOSS WILD-TYPE | 81 | 60 | 117 |
Figure S265. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.025 (Fisher's exact test), Q value = 0.056
Table S266. Gene #57: '10p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 10P LOSS MUTATED | 1 | 0 | 0 | 3 | 3 | 0 | 3 |
| 10P LOSS WILD-TYPE | 16 | 22 | 41 | 32 | 23 | 39 | 23 |
Figure S266. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00033 (Fisher's exact test), Q value = 0.0014
Table S267. Gene #57: '10p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 10P LOSS MUTATED | 0 | 1 | 2 | 13 |
| 10P LOSS WILD-TYPE | 34 | 95 | 64 | 79 |
Figure S267. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.003 (Fisher's exact test), Q value = 0.01
Table S268. Gene #57: '10p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 10P LOSS MUTATED | 10 | 1 | 5 |
| 10P LOSS WILD-TYPE | 108 | 122 | 42 |
Figure S268. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0197 (Fisher's exact test), Q value = 0.046
Table S269. Gene #57: '10p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 10P LOSS MUTATED | 2 | 1 | 8 |
| 10P LOSS WILD-TYPE | 67 | 80 | 63 |
Figure S269. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00663 (Fisher's exact test), Q value = 0.019
Table S270. Gene #57: '10p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 10P LOSS MUTATED | 1 | 9 | 1 | 0 |
| 10P LOSS WILD-TYPE | 97 | 68 | 15 | 30 |
Figure S270. Get High-res Image Gene #57: '10p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S271. Gene #58: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 10Q LOSS MUTATED | 3 | 0 | 0 | 14 |
| 10Q LOSS WILD-TYPE | 111 | 76 | 46 | 38 |
Figure S271. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00019 (Fisher's exact test), Q value = 9e-04
Table S272. Gene #58: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 10Q LOSS MUTATED | 2 | 12 | 2 |
| 10Q LOSS WILD-TYPE | 80 | 59 | 117 |
Figure S272. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00483 (Fisher's exact test), Q value = 0.015
Table S273. Gene #58: '10q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 10Q LOSS MUTATED | 1 | 0 | 0 | 3 | 4 | 0 | 4 |
| 10Q LOSS WILD-TYPE | 16 | 22 | 41 | 32 | 22 | 39 | 22 |
Figure S273. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00021 (Fisher's exact test), Q value = 0.00097
Table S274. Gene #58: '10q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 10Q LOSS MUTATED | 0 | 1 | 2 | 14 |
| 10Q LOSS WILD-TYPE | 34 | 95 | 64 | 78 |
Figure S274. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00208 (Fisher's exact test), Q value = 0.0075
Table S275. Gene #58: '10q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 10Q LOSS MUTATED | 12 | 1 | 4 |
| 10Q LOSS WILD-TYPE | 106 | 122 | 43 |
Figure S275. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00183 (Fisher's exact test), Q value = 0.0068
Table S276. Gene #58: '10q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 10Q LOSS MUTATED | 2 | 1 | 10 |
| 10Q LOSS WILD-TYPE | 67 | 80 | 61 |
Figure S276. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00116 (Fisher's exact test), Q value = 0.0045
Table S277. Gene #58: '10q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 10Q LOSS MUTATED | 1 | 11 | 1 | 0 |
| 10Q LOSS WILD-TYPE | 97 | 66 | 15 | 30 |
Figure S277. Get High-res Image Gene #58: '10q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S278. Gene #59: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 11P LOSS MUTATED | 5 | 1 | 0 | 12 |
| 11P LOSS WILD-TYPE | 109 | 75 | 46 | 40 |
Figure S278. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00073 (Fisher's exact test), Q value = 0.003
Table S279. Gene #59: '11p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 11P LOSS MUTATED | 4 | 11 | 2 |
| 11P LOSS WILD-TYPE | 78 | 60 | 117 |
Figure S279. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00034
Table S280. Gene #59: '11p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 11P LOSS MUTATED | 0 | 1 | 2 | 15 |
| 11P LOSS WILD-TYPE | 34 | 95 | 64 | 77 |
Figure S280. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0028 (Fisher's exact test), Q value = 0.0095
Table S281. Gene #59: '11p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 11P LOSS MUTATED | 9 | 2 | 7 |
| 11P LOSS WILD-TYPE | 109 | 121 | 40 |
Figure S281. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0197 (Fisher's exact test), Q value = 0.046
Table S282. Gene #59: '11p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 11P LOSS MUTATED | 4 | 2 | 10 |
| 11P LOSS WILD-TYPE | 65 | 79 | 61 |
Figure S282. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0069 (Fisher's exact test), Q value = 0.02
Table S283. Gene #59: '11p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 11P LOSS MUTATED | 3 | 10 | 3 | 0 |
| 11P LOSS WILD-TYPE | 95 | 67 | 13 | 30 |
Figure S283. Get High-res Image Gene #59: '11p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S284. Gene #60: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 11Q LOSS MUTATED | 5 | 0 | 0 | 16 |
| 11Q LOSS WILD-TYPE | 109 | 76 | 46 | 36 |
Figure S284. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 6e-05 (Fisher's exact test), Q value = 0.00034
Table S285. Gene #60: '11q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 11Q LOSS MUTATED | 5 | 14 | 2 |
| 11Q LOSS WILD-TYPE | 77 | 57 | 117 |
Figure S285. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0295 (Fisher's exact test), Q value = 0.065
Table S286. Gene #60: '11q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 11Q LOSS MUTATED | 1 | 2 | 0 | 2 | 4 | 3 | 6 |
| 11Q LOSS WILD-TYPE | 16 | 20 | 41 | 33 | 22 | 36 | 20 |
Figure S286. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00014 (Fisher's exact test), Q value = 0.00071
Table S287. Gene #60: '11q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 11Q LOSS MUTATED | 1 | 1 | 3 | 16 |
| 11Q LOSS WILD-TYPE | 33 | 95 | 63 | 76 |
Figure S287. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00236 (Fisher's exact test), Q value = 0.0082
Table S288. Gene #60: '11q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 11Q LOSS MUTATED | 13 | 2 | 6 |
| 11Q LOSS WILD-TYPE | 105 | 121 | 41 |
Figure S288. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.037 (Fisher's exact test), Q value = 0.078
Table S289. Gene #60: '11q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 11Q LOSS MUTATED | 5 | 3 | 11 |
| 11Q LOSS WILD-TYPE | 64 | 78 | 60 |
Figure S289. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0389 (Fisher's exact test), Q value = 0.082
Table S290. Gene #60: '11q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 11Q LOSS MUTATED | 6 | 12 | 1 | 0 |
| 11Q LOSS WILD-TYPE | 92 | 65 | 15 | 30 |
Figure S290. Get High-res Image Gene #60: '11q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S291. Gene #61: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 13Q LOSS MUTATED | 6 | 0 | 1 | 17 |
| 13Q LOSS WILD-TYPE | 108 | 76 | 45 | 35 |
Figure S291. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 8e-05 (Fisher's exact test), Q value = 0.00044
Table S292. Gene #61: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 13Q LOSS MUTATED | 5 | 15 | 3 |
| 13Q LOSS WILD-TYPE | 77 | 56 | 116 |
Figure S292. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S293. Gene #61: '13q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 13Q LOSS MUTATED | 2 | 2 | 0 | 2 | 10 | 1 | 4 |
| 13Q LOSS WILD-TYPE | 15 | 20 | 41 | 33 | 16 | 38 | 22 |
Figure S293. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S294. Gene #61: '13q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 13Q LOSS MUTATED | 0 | 2 | 0 | 22 |
| 13Q LOSS WILD-TYPE | 34 | 94 | 66 | 70 |
Figure S294. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S295. Gene #61: '13q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 13Q LOSS MUTATED | 8 | 2 | 14 |
| 13Q LOSS WILD-TYPE | 110 | 121 | 33 |
Figure S295. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0427 (Fisher's exact test), Q value = 0.088
Table S296. Gene #61: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 89 | 103 | 96 |
| 13Q LOSS MUTATED | 3 | 8 | 13 |
| 13Q LOSS WILD-TYPE | 86 | 95 | 83 |
Figure S296. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_CNMF'
P value = 0.00745 (Fisher's exact test), Q value = 0.021
Table S297. Gene #61: '13q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 13Q LOSS MUTATED | 0 | 4 | 7 | 13 |
| 13Q LOSS WILD-TYPE | 55 | 62 | 74 | 73 |
Figure S297. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00379 (Fisher's exact test), Q value = 0.012
Table S298. Gene #61: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 13Q LOSS MUTATED | 3 | 3 | 13 |
| 13Q LOSS WILD-TYPE | 66 | 78 | 58 |
Figure S298. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S299. Gene #61: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 13Q LOSS MUTATED | 4 | 8 | 7 | 0 |
| 13Q LOSS WILD-TYPE | 94 | 69 | 9 | 30 |
Figure S299. Get High-res Image Gene #61: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S300. Gene #62: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 14Q LOSS MUTATED | 18 | 0 | 1 | 28 |
| 14Q LOSS WILD-TYPE | 96 | 76 | 45 | 24 |
Figure S300. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00021 (Fisher's exact test), Q value = 0.00097
Table S301. Gene #62: '14q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 14Q LOSS MUTATED | 18 | 18 | 7 |
| 14Q LOSS WILD-TYPE | 64 | 53 | 112 |
Figure S301. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0157 (Fisher's exact test), Q value = 0.038
Table S302. Gene #62: '14q loss' versus Molecular Subtype #3: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 73 | 86 | 47 |
| 14Q LOSS MUTATED | 19 | 10 | 4 |
| 14Q LOSS WILD-TYPE | 54 | 76 | 43 |
Figure S302. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #3: 'RPPA_CNMF'
P value = 7e-05 (Fisher's exact test), Q value = 4e-04
Table S303. Gene #62: '14q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 14Q LOSS MUTATED | 3 | 4 | 1 | 6 | 9 | 1 | 9 |
| 14Q LOSS WILD-TYPE | 14 | 18 | 40 | 29 | 17 | 38 | 17 |
Figure S303. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S304. Gene #62: '14q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 14Q LOSS MUTATED | 3 | 4 | 9 | 31 |
| 14Q LOSS WILD-TYPE | 31 | 92 | 57 | 61 |
Figure S304. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S305. Gene #62: '14q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 14Q LOSS MUTATED | 22 | 6 | 19 |
| 14Q LOSS WILD-TYPE | 96 | 117 | 28 |
Figure S305. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00449 (Fisher's exact test), Q value = 0.014
Table S306. Gene #62: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 14Q LOSS MUTATED | 9 | 7 | 20 |
| 14Q LOSS WILD-TYPE | 60 | 74 | 51 |
Figure S306. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00647 (Fisher's exact test), Q value = 0.019
Table S307. Gene #62: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 14Q LOSS MUTATED | 11 | 20 | 4 | 1 |
| 14Q LOSS WILD-TYPE | 87 | 57 | 12 | 29 |
Figure S307. Get High-res Image Gene #62: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S308. Gene #63: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 15Q LOSS MUTATED | 11 | 0 | 3 | 17 |
| 15Q LOSS WILD-TYPE | 103 | 76 | 43 | 35 |
Figure S308. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00235 (Fisher's exact test), Q value = 0.0082
Table S309. Gene #63: '15q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 15Q LOSS MUTATED | 11 | 14 | 5 |
| 15Q LOSS WILD-TYPE | 71 | 57 | 114 |
Figure S309. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00162 (Fisher's exact test), Q value = 0.0061
Table S310. Gene #63: '15q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 15Q LOSS MUTATED | 2 | 1 | 0 | 5 | 6 | 3 | 8 |
| 15Q LOSS WILD-TYPE | 15 | 21 | 41 | 30 | 20 | 36 | 18 |
Figure S310. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00011 (Fisher's exact test), Q value = 0.00058
Table S311. Gene #63: '15q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 15Q LOSS MUTATED | 1 | 3 | 6 | 21 |
| 15Q LOSS WILD-TYPE | 33 | 93 | 60 | 71 |
Figure S311. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S312. Gene #63: '15q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 15Q LOSS MUTATED | 12 | 4 | 15 |
| 15Q LOSS WILD-TYPE | 106 | 119 | 32 |
Figure S312. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00268 (Fisher's exact test), Q value = 0.0092
Table S313. Gene #63: '15q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 15Q LOSS MUTATED | 9 | 10 | 6 | 0 |
| 15Q LOSS WILD-TYPE | 89 | 67 | 10 | 30 |
Figure S313. Get High-res Image Gene #63: '15q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.0423 (Fisher's exact test), Q value = 0.087
Table S314. Gene #64: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 16P LOSS MUTATED | 1 | 0 | 0 | 3 |
| 16P LOSS WILD-TYPE | 113 | 76 | 46 | 49 |
Figure S314. Get High-res Image Gene #64: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.0338 (Fisher's exact test), Q value = 0.073
Table S315. Gene #64: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 16P LOSS MUTATED | 1 | 3 | 0 |
| 16P LOSS WILD-TYPE | 81 | 68 | 119 |
Figure S315. Get High-res Image Gene #64: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0439 (Fisher's exact test), Q value = 0.09
Table S316. Gene #64: '16p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 16P LOSS MUTATED | 0 | 0 | 0 | 4 |
| 16P LOSS WILD-TYPE | 34 | 96 | 66 | 88 |
Figure S316. Get High-res Image Gene #64: '16p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00686 (Fisher's exact test), Q value = 0.02
Table S317. Gene #64: '16p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 16P LOSS MUTATED | 1 | 0 | 3 |
| 16P LOSS WILD-TYPE | 117 | 123 | 44 |
Figure S317. Get High-res Image Gene #64: '16p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0127 (Fisher's exact test), Q value = 0.032
Table S318. Gene #64: '16p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 16P LOSS MUTATED | 0 | 2 | 2 | 0 |
| 16P LOSS WILD-TYPE | 98 | 75 | 14 | 30 |
Figure S318. Get High-res Image Gene #64: '16p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.00037 (Fisher's exact test), Q value = 0.0016
Table S319. Gene #65: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 16Q LOSS MUTATED | 1 | 0 | 0 | 6 |
| 16Q LOSS WILD-TYPE | 113 | 76 | 46 | 46 |
Figure S319. Get High-res Image Gene #65: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00725 (Fisher's exact test), Q value = 0.02
Table S320. Gene #65: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 16Q LOSS MUTATED | 2 | 5 | 0 |
| 16Q LOSS WILD-TYPE | 80 | 66 | 119 |
Figure S320. Get High-res Image Gene #65: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00221 (Fisher's exact test), Q value = 0.0079
Table S321. Gene #65: '16q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 16Q LOSS MUTATED | 0 | 0 | 0 | 7 |
| 16Q LOSS WILD-TYPE | 34 | 96 | 66 | 85 |
Figure S321. Get High-res Image Gene #65: '16q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0129 (Fisher's exact test), Q value = 0.032
Table S322. Gene #65: '16q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 16Q LOSS MUTATED | 4 | 0 | 3 |
| 16Q LOSS WILD-TYPE | 114 | 123 | 44 |
Figure S322. Get High-res Image Gene #65: '16q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0324 (Fisher's exact test), Q value = 0.07
Table S323. Gene #65: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 16Q LOSS MUTATED | 2 | 0 | 5 |
| 16Q LOSS WILD-TYPE | 67 | 81 | 66 |
Figure S323. Get High-res Image Gene #65: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00423 (Fisher's exact test), Q value = 0.013
Table S324. Gene #66: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 17P LOSS MUTATED | 6 | 0 | 0 | 6 |
| 17P LOSS WILD-TYPE | 108 | 76 | 46 | 46 |
Figure S324. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00031 (Fisher's exact test), Q value = 0.0014
Table S325. Gene #66: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 17P LOSS MUTATED | 3 | 8 | 0 |
| 17P LOSS WILD-TYPE | 79 | 63 | 119 |
Figure S325. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S326. Gene #66: '17p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 17P LOSS MUTATED | 0 | 0 | 0 | 12 |
| 17P LOSS WILD-TYPE | 34 | 96 | 66 | 80 |
Figure S326. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00021 (Fisher's exact test), Q value = 0.00097
Table S327. Gene #66: '17p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 17P LOSS MUTATED | 6 | 0 | 6 |
| 17P LOSS WILD-TYPE | 112 | 123 | 41 |
Figure S327. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00609 (Fisher's exact test), Q value = 0.018
Table S328. Gene #66: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 17P LOSS MUTATED | 3 | 0 | 7 |
| 17P LOSS WILD-TYPE | 66 | 81 | 64 |
Figure S328. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00121 (Fisher's exact test), Q value = 0.0047
Table S329. Gene #66: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 17P LOSS MUTATED | 1 | 5 | 4 | 0 |
| 17P LOSS WILD-TYPE | 97 | 72 | 12 | 30 |
Figure S329. Get High-res Image Gene #66: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S330. Gene #67: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 18P LOSS MUTATED | 17 | 5 | 1 | 19 |
| 18P LOSS WILD-TYPE | 97 | 71 | 45 | 33 |
Figure S330. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S331. Gene #67: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 18P LOSS MUTATED | 11 | 23 | 6 |
| 18P LOSS WILD-TYPE | 71 | 48 | 113 |
Figure S331. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00053 (Fisher's exact test), Q value = 0.0022
Table S332. Gene #67: '18p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 18P LOSS MUTATED | 1 | 4 | 0 | 3 | 9 | 7 | 7 |
| 18P LOSS WILD-TYPE | 16 | 18 | 41 | 32 | 17 | 32 | 19 |
Figure S332. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S333. Gene #67: '18p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 18P LOSS MUTATED | 2 | 2 | 7 | 31 |
| 18P LOSS WILD-TYPE | 32 | 94 | 59 | 61 |
Figure S333. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S334. Gene #67: '18p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 18P LOSS MUTATED | 24 | 3 | 15 |
| 18P LOSS WILD-TYPE | 94 | 120 | 32 |
Figure S334. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00085 (Fisher's exact test), Q value = 0.0034
Table S335. Gene #67: '18p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 18P LOSS MUTATED | 6 | 13 | 3 | 20 |
| 18P LOSS WILD-TYPE | 49 | 53 | 78 | 66 |
Figure S335. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0197 (Fisher's exact test), Q value = 0.046
Table S336. Gene #67: '18p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 18P LOSS MUTATED | 10 | 8 | 19 |
| 18P LOSS WILD-TYPE | 59 | 73 | 52 |
Figure S336. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00079 (Fisher's exact test), Q value = 0.0032
Table S337. Gene #67: '18p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 18P LOSS MUTATED | 12 | 16 | 8 | 1 |
| 18P LOSS WILD-TYPE | 86 | 61 | 8 | 29 |
Figure S337. Get High-res Image Gene #67: '18p loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S338. Gene #68: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 18Q LOSS MUTATED | 18 | 4 | 1 | 22 |
| 18Q LOSS WILD-TYPE | 96 | 72 | 45 | 30 |
Figure S338. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S339. Gene #68: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 18Q LOSS MUTATED | 12 | 26 | 5 |
| 18Q LOSS WILD-TYPE | 70 | 45 | 114 |
Figure S339. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S340. Gene #68: '18q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 18Q LOSS MUTATED | 1 | 4 | 0 | 3 | 11 | 7 | 8 |
| 18Q LOSS WILD-TYPE | 16 | 18 | 41 | 32 | 15 | 32 | 18 |
Figure S340. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S341. Gene #68: '18q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 18Q LOSS MUTATED | 2 | 1 | 7 | 35 |
| 18Q LOSS WILD-TYPE | 32 | 95 | 59 | 57 |
Figure S341. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S342. Gene #68: '18q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 18Q LOSS MUTATED | 28 | 3 | 14 |
| 18Q LOSS WILD-TYPE | 90 | 120 | 33 |
Figure S342. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 7e-04 (Fisher's exact test), Q value = 0.0029
Table S343. Gene #68: '18q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 55 | 66 | 81 | 86 |
| 18Q LOSS MUTATED | 8 | 13 | 3 | 21 |
| 18Q LOSS WILD-TYPE | 47 | 53 | 78 | 65 |
Figure S343. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'
P value = 0.0066 (Fisher's exact test), Q value = 0.019
Table S344. Gene #68: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| 18Q LOSS MUTATED | 11 | 8 | 21 |
| 18Q LOSS WILD-TYPE | 58 | 73 | 50 |
Figure S344. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00027 (Fisher's exact test), Q value = 0.0012
Table S345. Gene #68: '18q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 18Q LOSS MUTATED | 12 | 19 | 8 | 1 |
| 18Q LOSS WILD-TYPE | 86 | 58 | 8 | 29 |
Figure S345. Get High-res Image Gene #68: '18q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 8e-05 (Fisher's exact test), Q value = 0.00044
Table S346. Gene #69: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 19P LOSS MUTATED | 3 | 2 | 1 | 11 |
| 19P LOSS WILD-TYPE | 111 | 74 | 45 | 41 |
Figure S346. Get High-res Image Gene #69: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00235 (Fisher's exact test), Q value = 0.0082
Table S347. Gene #69: '19p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 19P LOSS MUTATED | 3 | 11 | 3 |
| 19P LOSS WILD-TYPE | 79 | 60 | 116 |
Figure S347. Get High-res Image Gene #69: '19p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0342 (Fisher's exact test), Q value = 0.073
Table S348. Gene #69: '19p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 19P LOSS MUTATED | 1 | 1 | 0 | 3 | 4 | 0 | 1 |
| 19P LOSS WILD-TYPE | 16 | 21 | 41 | 32 | 22 | 39 | 25 |
Figure S348. Get High-res Image Gene #69: '19p loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00552 (Fisher's exact test), Q value = 0.017
Table S349. Gene #69: '19p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 19P LOSS MUTATED | 0 | 1 | 6 | 10 |
| 19P LOSS WILD-TYPE | 34 | 95 | 60 | 82 |
Figure S349. Get High-res Image Gene #69: '19p loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.00629 (Fisher's exact test), Q value = 0.018
Table S350. Gene #69: '19p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 19P LOSS MUTATED | 13 | 2 | 2 |
| 19P LOSS WILD-TYPE | 105 | 121 | 45 |
Figure S350. Get High-res Image Gene #69: '19p loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S351. Gene #70: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 19Q LOSS MUTATED | 1 | 2 | 1 | 12 |
| 19Q LOSS WILD-TYPE | 113 | 74 | 45 | 40 |
Figure S351. Get High-res Image Gene #70: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 0.00488 (Fisher's exact test), Q value = 0.015
Table S352. Gene #70: '19q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 19Q LOSS MUTATED | 3 | 10 | 3 |
| 19Q LOSS WILD-TYPE | 79 | 61 | 116 |
Figure S352. Get High-res Image Gene #70: '19q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00944 (Fisher's exact test), Q value = 0.026
Table S353. Gene #70: '19q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 19Q LOSS MUTATED | 1 | 2 | 0 | 2 | 5 | 0 | 1 |
| 19Q LOSS WILD-TYPE | 16 | 20 | 41 | 33 | 21 | 39 | 25 |
Figure S353. Get High-res Image Gene #70: '19q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 0.00499 (Fisher's exact test), Q value = 0.015
Table S354. Gene #70: '19q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 19Q LOSS MUTATED | 0 | 1 | 4 | 11 |
| 19Q LOSS WILD-TYPE | 34 | 95 | 62 | 81 |
Figure S354. Get High-res Image Gene #70: '19q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 0.0226 (Fisher's exact test), Q value = 0.051
Table S355. Gene #70: '19q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 19Q LOSS MUTATED | 11 | 2 | 3 |
| 19Q LOSS WILD-TYPE | 107 | 121 | 44 |
Figure S355. Get High-res Image Gene #70: '19q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00042 (Fisher's exact test), Q value = 0.0018
Table S356. Gene #71: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 21Q LOSS MUTATED | 12 | 6 | 7 | 18 |
| 21Q LOSS WILD-TYPE | 102 | 70 | 39 | 34 |
Figure S356. Get High-res Image Gene #71: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S357. Gene #72: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| 22Q LOSS MUTATED | 22 | 5 | 2 | 31 |
| 22Q LOSS WILD-TYPE | 92 | 71 | 44 | 21 |
Figure S357. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S358. Gene #72: '22q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| 22Q LOSS MUTATED | 13 | 34 | 10 |
| 22Q LOSS WILD-TYPE | 69 | 37 | 109 |
Figure S358. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00104 (Fisher's exact test), Q value = 0.0041
Table S359. Gene #72: '22q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| 22Q LOSS MUTATED | 1 | 3 | 2 | 10 | 12 | 9 | 8 |
| 22Q LOSS WILD-TYPE | 16 | 19 | 39 | 25 | 14 | 30 | 18 |
Figure S359. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S360. Gene #72: '22q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| 22Q LOSS MUTATED | 0 | 6 | 12 | 42 |
| 22Q LOSS WILD-TYPE | 34 | 90 | 54 | 50 |
Figure S360. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S361. Gene #72: '22q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| 22Q LOSS MUTATED | 35 | 8 | 17 |
| 22Q LOSS WILD-TYPE | 83 | 115 | 30 |
Figure S361. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0108 (Fisher's exact test), Q value = 0.028
Table S362. Gene #72: '22q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| 22Q LOSS MUTATED | 21 | 21 | 6 | 1 |
| 22Q LOSS WILD-TYPE | 77 | 56 | 10 | 29 |
Figure S362. Get High-res Image Gene #72: '22q loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S363. Gene #73: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| XP LOSS MUTATED | 10 | 2 | 2 | 20 |
| XP LOSS WILD-TYPE | 104 | 74 | 44 | 32 |
Figure S363. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S364. Gene #73: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| XP LOSS MUTATED | 8 | 19 | 4 |
| XP LOSS WILD-TYPE | 74 | 52 | 115 |
Figure S364. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.00194 (Fisher's exact test), Q value = 0.0071
Table S365. Gene #73: 'xp loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| XP LOSS MUTATED | 0 | 1 | 2 | 4 | 7 | 1 | 7 |
| XP LOSS WILD-TYPE | 17 | 21 | 39 | 31 | 19 | 38 | 19 |
Figure S365. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S366. Gene #73: 'xp loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| XP LOSS MUTATED | 0 | 3 | 4 | 27 |
| XP LOSS WILD-TYPE | 34 | 93 | 62 | 65 |
Figure S366. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 8e-05 (Fisher's exact test), Q value = 0.00044
Table S367. Gene #73: 'xp loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| XP LOSS MUTATED | 19 | 4 | 11 |
| XP LOSS WILD-TYPE | 99 | 119 | 36 |
Figure S367. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0183 (Fisher's exact test), Q value = 0.043
Table S368. Gene #73: 'xp loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| XP LOSS MUTATED | 8 | 4 | 14 |
| XP LOSS WILD-TYPE | 61 | 77 | 57 |
Figure S368. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.00728 (Fisher's exact test), Q value = 0.02
Table S369. Gene #73: 'xp loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| XP LOSS MUTATED | 6 | 16 | 3 | 1 |
| XP LOSS WILD-TYPE | 92 | 61 | 13 | 29 |
Figure S369. Get High-res Image Gene #73: 'xp loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S370. Gene #74: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 114 | 76 | 46 | 52 |
| XQ LOSS MUTATED | 9 | 1 | 2 | 18 |
| XQ LOSS WILD-TYPE | 105 | 75 | 44 | 34 |
Figure S370. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
P value = 2e-05 (Fisher's exact test), Q value = 0.00013
Table S371. Gene #74: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 82 | 71 | 119 |
| XQ LOSS MUTATED | 8 | 17 | 3 |
| XQ LOSS WILD-TYPE | 74 | 54 | 116 |
Figure S371. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
P value = 0.0106 (Fisher's exact test), Q value = 0.028
Table S372. Gene #74: 'xq loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
|---|---|---|---|---|---|---|---|
| ALL | 17 | 22 | 41 | 35 | 26 | 39 | 26 |
| XQ LOSS MUTATED | 0 | 1 | 2 | 4 | 7 | 1 | 5 |
| XQ LOSS WILD-TYPE | 17 | 21 | 39 | 31 | 19 | 38 | 21 |
Figure S372. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'
P value = 1e-05 (Fisher's exact test), Q value = 7e-05
Table S373. Gene #74: 'xq loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 34 | 96 | 66 | 92 |
| XQ LOSS MUTATED | 0 | 2 | 4 | 24 |
| XQ LOSS WILD-TYPE | 34 | 94 | 62 | 68 |
Figure S373. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #5: 'MRNASEQ_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 0.00049
Table S374. Gene #74: 'xq loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 118 | 123 | 47 |
| XQ LOSS MUTATED | 17 | 3 | 10 |
| XQ LOSS WILD-TYPE | 101 | 120 | 37 |
Figure S374. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'
P value = 0.0499 (Fisher's exact test), Q value = 0.098
Table S375. Gene #74: 'xq loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 69 | 81 | 71 |
| XQ LOSS MUTATED | 8 | 4 | 12 |
| XQ LOSS WILD-TYPE | 61 | 77 | 59 |
Figure S375. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'
P value = 0.0214 (Fisher's exact test), Q value = 0.049
Table S376. Gene #74: 'xq loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
|---|---|---|---|---|
| ALL | 98 | 77 | 16 | 30 |
| XQ LOSS MUTATED | 6 | 14 | 3 | 1 |
| XQ LOSS WILD-TYPE | 92 | 63 | 13 | 29 |
Figure S376. Get High-res Image Gene #74: 'xq loss' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'
-
Copy number data file = broad_values_by_arm.txt from GISTIC pipeline
-
Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRP-TP/15087099/transformed.cor.cli.txt
-
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/KIRP-TP/15098835/KIRP-TP.transferedmergedcluster.txt
-
Number of patients = 288
-
Number of significantly arm-level cnvs = 74
-
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.