This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 82 arm-level events and 8 molecular subtypes across 370 patients, 257 significant findings detected with P value < 0.05 and Q value < 0.25.
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1p gain cnv correlated to 'MRNASEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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2p gain cnv correlated to 'MRNASEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CNMF'.
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2q gain cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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3p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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3q gain cnv correlated to 'MRNASEQ_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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4p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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5p gain cnv correlated to 'CN_CNMF'.
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5q gain cnv correlated to 'CN_CNMF'.
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6p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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6q gain cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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7p gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_CNMF'.
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7q gain cnv correlated to 'METHLYATION_CNMF'.
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8p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11p gain cnv correlated to 'MRNASEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CNMF'.
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12p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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13q gain cnv correlated to 'CN_CNMF'.
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16p gain cnv correlated to 'MRNASEQ_CNMF'.
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16q gain cnv correlated to 'MRNASEQ_CNMF'.
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17q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p gain cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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18q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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19p gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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20q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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22q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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xp gain cnv correlated to 'CN_CNMF'.
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xq gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2p loss cnv correlated to 'MRNASEQ_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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2q loss cnv correlated to 'MRNASEQ_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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3p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q loss cnv correlated to 'MRNASEQ_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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4p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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4q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7p loss cnv correlated to 'MIRSEQ_MATURE_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7q loss cnv correlated to 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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8q loss cnv correlated to 'CN_CNMF'.
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9p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11p loss cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q loss cnv correlated to 'MIRSEQ_MATURE_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12p loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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13q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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14q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q loss cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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18q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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19p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19q loss cnv correlated to 'CN_CNMF' and 'MIRSEQ_CNMF'.
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20q loss cnv correlated to 'MIRSEQ_MATURE_CNMF'.
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21q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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22q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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xp loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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xq loss cnv correlated to 'CN_CNMF'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 82 arm-level events and 8 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 257 significant findings detected.
Clinical Features |
CN CNMF |
METHLYATION CNMF |
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 | |
1p loss | 81 (22%) | 289 |
0.00269 (0.0157) |
1e-05 (0.000173) |
1e-05 (0.000173) |
1e-05 (0.000173) |
0.00399 (0.0199) |
0.00754 (0.0315) |
0.00048 (0.00437) |
0.00447 (0.0217) |
13q loss | 122 (33%) | 248 |
0.00025 (0.00278) |
0.0359 (0.098) |
0.00676 (0.0288) |
0.0003 (0.00317) |
0.00272 (0.0157) |
0.00494 (0.023) |
0.0203 (0.0648) |
0.00123 (0.00849) |
16p loss | 109 (29%) | 261 |
2e-05 (0.00032) |
5e-05 (0.000729) |
1e-05 (0.000173) |
1e-05 (0.000173) |
0.00401 (0.0199) |
1e-05 (0.000173) |
1e-05 (0.000173) |
1e-05 (0.000173) |
19p gain | 56 (15%) | 314 |
0.585 (0.692) |
0.00392 (0.0199) |
0.00104 (0.00767) |
0.00846 (0.0349) |
0.0135 (0.0491) |
0.00483 (0.023) |
0.00064 (0.00531) |
0.037 (0.0999) |
19q gain | 72 (19%) | 298 |
0.394 (0.523) |
0.00106 (0.00773) |
0.00227 (0.0138) |
6e-05 (0.00082) |
0.00034 (0.00348) |
0.00099 (0.00753) |
1e-05 (0.000173) |
0.00083 (0.00656) |
4q loss | 148 (40%) | 222 |
1e-05 (0.000173) |
0.00508 (0.0233) |
1e-05 (0.000173) |
0.00083 (0.00656) |
0.248 (0.395) |
0.00532 (0.0239) |
1e-05 (0.000173) |
0.00924 (0.0365) |
5q loss | 39 (11%) | 331 |
0.0028 (0.0158) |
0.00729 (0.0309) |
0.0231 (0.0703) |
0.00015 (0.00189) |
0.532 (0.641) |
0.0478 (0.124) |
0.00127 (0.00859) |
0.00121 (0.00844) |
9p loss | 118 (32%) | 252 |
3e-05 (0.000458) |
0.0221 (0.0686) |
0.00034 (0.00348) |
0.00493 (0.023) |
0.108 (0.225) |
0.00924 (0.0365) |
0.0297 (0.085) |
0.0117 (0.0444) |
16q loss | 145 (39%) | 225 |
1e-05 (0.000173) |
1e-05 (0.000173) |
1e-05 (0.000173) |
1e-05 (0.000173) |
0.17 (0.309) |
1e-05 (0.000173) |
1e-05 (0.000173) |
1e-05 (0.000173) |
17p loss | 185 (50%) | 185 |
1e-05 (0.000173) |
0.022 (0.0686) |
0.00535 (0.0239) |
0.0232 (0.0703) |
0.00361 (0.0189) |
0.00053 (0.00452) |
0.445 (0.563) |
0.00051 (0.00446) |
8q gain | 188 (51%) | 182 |
1e-05 (0.000173) |
0.0864 (0.191) |
1e-05 (0.000173) |
1e-05 (0.000173) |
0.0277 (0.0807) |
0.00336 (0.018) |
0.132 (0.26) |
0.00023 (0.00265) |
10q gain | 37 (10%) | 333 |
0.00101 (0.00753) |
0.0299 (0.0853) |
2e-05 (0.00032) |
0.0723 (0.166) |
0.0664 (0.158) |
0.0438 (0.115) |
0.0367 (0.0999) |
0.0339 (0.0937) |
xq gain | 64 (17%) | 306 |
0.00108 (0.00779) |
0.0685 (0.162) |
0.00222 (0.0136) |
0.0135 (0.0491) |
0.00634 (0.0274) |
0.00052 (0.00449) |
0.162 (0.299) |
0.00026 (0.00284) |
3p loss | 52 (14%) | 318 |
0.032 (0.0906) |
0.43 (0.552) |
0.00779 (0.0323) |
0.0095 (0.0373) |
0.00747 (0.0314) |
0.32 (0.45) |
0.00115 (0.00811) |
0.0494 (0.126) |
4p loss | 107 (29%) | 263 |
1e-05 (0.000173) |
0.0595 (0.145) |
0.001 (0.00753) |
0.0141 (0.0507) |
0.988 (0.988) |
0.0178 (0.0605) |
0.00482 (0.023) |
0.00281 (0.0158) |
9q loss | 107 (29%) | 263 |
0.00037 (0.00368) |
0.0124 (0.0465) |
0.0121 (0.0456) |
0.00324 (0.0176) |
0.269 (0.413) |
0.0162 (0.0561) |
0.117 (0.235) |
0.00139 (0.00921) |
1q gain | 222 (60%) | 148 |
1e-05 (0.000173) |
7e-05 (0.000918) |
1e-05 (0.000173) |
0.0003 (0.00317) |
0.156 (0.291) |
0.00493 (0.023) |
0.416 (0.538) |
0.0534 (0.135) |
6p gain | 117 (32%) | 253 |
1e-05 (0.000173) |
0.00231 (0.0139) |
0.00546 (0.0242) |
0.0273 (0.0801) |
0.145 (0.276) |
0.00252 (0.015) |
0.322 (0.452) |
0.105 (0.221) |
8p gain | 80 (22%) | 290 |
3e-05 (0.000458) |
0.249 (0.395) |
0.0208 (0.0655) |
0.0357 (0.098) |
0.0108 (0.0416) |
0.115 (0.235) |
0.147 (0.28) |
0.0157 (0.0551) |
10p gain | 61 (16%) | 309 |
0.00041 (0.0039) |
0.428 (0.552) |
0.00382 (0.0199) |
0.0209 (0.0656) |
0.275 (0.415) |
0.418 (0.539) |
0.0222 (0.0686) |
0.0184 (0.0619) |
12p gain | 41 (11%) | 329 |
0.0164 (0.0561) |
0.308 (0.44) |
0.0114 (0.0436) |
0.00064 (0.00531) |
0.788 (0.841) |
0.367 (0.502) |
0.00144 (0.00942) |
0.0243 (0.0718) |
17q gain | 95 (26%) | 275 |
0.00148 (0.00952) |
0.0455 (0.118) |
0.237 (0.387) |
0.121 (0.243) |
0.0197 (0.0639) |
0.00043 (0.00403) |
0.609 (0.712) |
0.0237 (0.0705) |
20p gain | 108 (29%) | 262 |
1e-05 (0.000173) |
0.181 (0.318) |
0.0329 (0.0918) |
0.00217 (0.0134) |
0.171 (0.31) |
0.0323 (0.0909) |
6e-05 (0.00082) |
0.0746 (0.171) |
10p loss | 45 (12%) | 325 |
0.0235 (0.0704) |
0.225 (0.372) |
0.00089 (0.00687) |
0.00282 (0.0158) |
0.611 (0.712) |
0.00653 (0.028) |
0.392 (0.522) |
0.0199 (0.0642) |
10q loss | 76 (21%) | 294 |
0.00871 (0.0354) |
0.0932 (0.2) |
1e-05 (0.000173) |
1e-05 (0.000173) |
0.316 (0.448) |
4e-05 (0.000596) |
0.45 (0.567) |
1e-05 (0.000173) |
14q loss | 107 (29%) | 263 |
1e-05 (0.000173) |
0.164 (0.3) |
2e-05 (0.00032) |
1e-05 (0.000173) |
0.48 (0.591) |
0.176 (0.315) |
0.00025 (0.00278) |
0.0158 (0.0551) |
3p gain | 35 (9%) | 335 |
0.037 (0.0999) |
0.0449 (0.118) |
0.00272 (0.0157) |
0.0903 (0.196) |
0.134 (0.261) |
0.518 (0.631) |
0.0235 (0.0704) |
0.253 (0.396) |
4p gain | 27 (7%) | 343 |
0.0145 (0.0516) |
0.014 (0.0506) |
0.00532 (0.0239) |
0.00137 (0.00917) |
0.299 (0.435) |
0.444 (0.563) |
0.0687 (0.162) |
0.206 (0.349) |
12q gain | 47 (13%) | 323 |
0.0231 (0.0703) |
0.483 (0.593) |
0.0133 (0.049) |
0.00269 (0.0157) |
0.343 (0.477) |
0.622 (0.721) |
0.00051 (0.00446) |
0.0704 (0.164) |
22q gain | 48 (13%) | 322 |
1e-05 (0.000173) |
0.246 (0.395) |
0.0459 (0.119) |
0.00198 (0.0126) |
0.611 (0.712) |
0.737 (0.804) |
0.00204 (0.0129) |
0.135 (0.262) |
5p loss | 28 (8%) | 342 |
0.0243 (0.0718) |
0.215 (0.36) |
0.0561 (0.14) |
0.0164 (0.0561) |
0.263 (0.406) |
0.1 (0.212) |
0.00911 (0.0364) |
0.0186 (0.0619) |
11p loss | 65 (18%) | 305 |
0.461 (0.578) |
0.984 (0.985) |
0.0199 (0.0642) |
0.00457 (0.022) |
0.645 (0.737) |
0.176 (0.315) |
0.00125 (0.00854) |
0.00555 (0.0244) |
15q loss | 67 (18%) | 303 |
0.0578 (0.142) |
0.0658 (0.157) |
6e-05 (0.00082) |
7e-05 (0.000918) |
0.154 (0.288) |
0.249 (0.395) |
1e-05 (0.000173) |
0.018 (0.0608) |
1p gain | 57 (15%) | 313 |
0.292 (0.43) |
0.209 (0.353) |
0.0292 (0.0841) |
0.38 (0.512) |
0.967 (0.976) |
0.0393 (0.105) |
0.111 (0.23) |
0.0227 (0.0698) |
2q gain | 41 (11%) | 329 |
0.0855 (0.19) |
0.294 (0.43) |
0.0133 (0.049) |
0.00045 (0.00416) |
0.695 (0.778) |
0.763 (0.823) |
0.00338 (0.018) |
0.373 (0.505) |
18q gain | 28 (8%) | 342 |
0.0194 (0.0633) |
0.629 (0.725) |
0.0569 (0.141) |
0.00302 (0.0165) |
0.83 (0.879) |
0.0537 (0.135) |
0.0191 (0.063) |
0.283 (0.423) |
20q gain | 112 (30%) | 258 |
1e-05 (0.000173) |
0.191 (0.332) |
0.177 (0.315) |
0.00864 (0.0354) |
0.306 (0.439) |
0.0748 (0.171) |
8e-05 (0.00103) |
0.0876 (0.192) |
7q loss | 21 (6%) | 349 |
0.435 (0.556) |
0.263 (0.406) |
0.0898 (0.196) |
0.0846 (0.19) |
0.563 (0.67) |
0.0261 (0.0768) |
0.00017 (0.00207) |
0.00507 (0.0233) |
8p loss | 190 (51%) | 180 |
0.00021 (0.00246) |
0.0638 (0.153) |
0.0194 (0.0633) |
0.851 (0.893) |
0.244 (0.395) |
0.0291 (0.0841) |
0.449 (0.567) |
0.438 (0.558) |
18p loss | 74 (20%) | 296 |
0.0485 (0.124) |
0.0114 (0.0436) |
0.715 (0.785) |
0.00285 (0.0158) |
0.528 (0.638) |
0.713 (0.785) |
0.0681 (0.161) |
0.224 (0.371) |
18q loss | 79 (21%) | 291 |
0.00416 (0.0205) |
0.004 (0.0199) |
0.646 (0.737) |
0.00041 (0.0039) |
0.205 (0.349) |
0.403 (0.53) |
0.116 (0.235) |
0.304 (0.438) |
19p loss | 55 (15%) | 315 |
1e-05 (0.000173) |
0.556 (0.664) |
0.0324 (0.091) |
0.1 (0.212) |
0.15 (0.283) |
0.0815 (0.184) |
0.282 (0.423) |
0.0036 (0.0189) |
xp loss | 94 (25%) | 276 |
0.0333 (0.0925) |
0.0571 (0.141) |
0.18 (0.318) |
0.0202 (0.0647) |
0.125 (0.247) |
0.232 (0.38) |
0.0044 (0.0215) |
0.287 (0.425) |
2p gain | 44 (12%) | 326 |
0.161 (0.296) |
0.284 (0.424) |
0.115 (0.234) |
0.00036 (0.00363) |
0.55 (0.658) |
0.94 (0.953) |
0.00895 (0.036) |
0.383 (0.513) |
3q gain | 38 (10%) | 332 |
0.298 (0.434) |
0.135 (0.263) |
0.0039 (0.0199) |
0.0921 (0.199) |
0.213 (0.359) |
0.51 (0.622) |
0.0151 (0.0534) |
0.611 (0.712) |
6q gain | 67 (18%) | 303 |
0.0007 (0.00567) |
0.159 (0.295) |
0.038 (0.102) |
0.602 (0.707) |
0.204 (0.349) |
0.187 (0.327) |
0.205 (0.349) |
0.388 (0.519) |
7p gain | 111 (30%) | 259 |
0.0452 (0.118) |
0.0847 (0.19) |
0.983 (0.985) |
0.904 (0.933) |
0.0436 (0.115) |
0.0714 (0.166) |
0.257 (0.399) |
0.335 (0.468) |
11p gain | 17 (5%) | 353 |
0.471 (0.582) |
0.294 (0.43) |
0.439 (0.558) |
0.0484 (0.124) |
0.303 (0.438) |
0.468 (0.581) |
0.0153 (0.0539) |
0.273 (0.415) |
18p gain | 36 (10%) | 334 |
0.0234 (0.0704) |
0.218 (0.364) |
0.0599 (0.145) |
0.0187 (0.0619) |
0.768 (0.824) |
0.193 (0.336) |
0.0871 (0.192) |
0.457 (0.574) |
2p loss | 33 (9%) | 337 |
0.0592 (0.144) |
0.711 (0.785) |
0.0105 (0.0406) |
0.0393 (0.105) |
0.376 (0.507) |
0.71 (0.785) |
0.2 (0.344) |
0.267 (0.412) |
2q loss | 38 (10%) | 332 |
0.188 (0.327) |
0.603 (0.707) |
0.0103 (0.0401) |
0.0205 (0.0651) |
0.256 (0.399) |
0.593 (0.7) |
0.6 (0.706) |
0.405 (0.531) |
3q loss | 40 (11%) | 330 |
0.328 (0.459) |
0.667 (0.753) |
0.0187 (0.0619) |
0.069 (0.162) |
0.0779 (0.177) |
0.316 (0.448) |
0.00525 (0.0239) |
0.275 (0.415) |
7p loss | 16 (4%) | 354 |
0.365 (0.501) |
0.288 (0.426) |
0.0559 (0.14) |
0.351 (0.485) |
0.879 (0.913) |
0.226 (0.373) |
0.00578 (0.0253) |
0.04 (0.106) |
11q loss | 73 (20%) | 297 |
0.141 (0.271) |
0.78 (0.835) |
0.195 (0.338) |
0.123 (0.245) |
0.663 (0.751) |
0.304 (0.438) |
0.00297 (0.0164) |
0.0161 (0.056) |
12p loss | 65 (18%) | 305 |
0.00085 (0.00664) |
0.116 (0.235) |
0.028 (0.0814) |
0.273 (0.415) |
0.408 (0.532) |
0.164 (0.3) |
0.624 (0.721) |
0.431 (0.552) |
19q loss | 39 (11%) | 331 |
1e-05 (0.000173) |
0.382 (0.513) |
0.114 (0.233) |
0.582 (0.692) |
0.0311 (0.0882) |
0.153 (0.288) |
0.473 (0.583) |
0.247 (0.395) |
21q loss | 110 (30%) | 260 |
0.0005 (0.00446) |
0.74 (0.806) |
0.00021 (0.00246) |
0.124 (0.247) |
0.495 (0.606) |
0.931 (0.948) |
0.122 (0.245) |
0.308 (0.44) |
22q loss | 70 (19%) | 300 |
0.0358 (0.098) |
0.0719 (0.166) |
0.00206 (0.0129) |
0.159 (0.295) |
0.505 (0.617) |
0.462 (0.578) |
0.106 (0.222) |
0.874 (0.911) |
5p gain | 135 (36%) | 235 |
0.00016 (0.00198) |
0.0906 (0.196) |
0.901 (0.931) |
0.802 (0.853) |
0.228 (0.376) |
0.176 (0.315) |
0.302 (0.438) |
0.584 (0.692) |
5q gain | 107 (29%) | 263 |
0.00394 (0.0199) |
0.126 (0.248) |
0.667 (0.753) |
0.944 (0.956) |
0.644 (0.737) |
0.852 (0.893) |
0.929 (0.947) |
0.891 (0.924) |
7q gain | 111 (30%) | 259 |
0.373 (0.505) |
0.00069 (0.00566) |
0.964 (0.974) |
0.878 (0.913) |
0.218 (0.364) |
0.208 (0.352) |
0.521 (0.632) |
0.341 (0.475) |
13q gain | 23 (6%) | 347 |
0.00875 (0.0354) |
0.328 (0.459) |
0.285 (0.424) |
0.409 (0.533) |
0.0795 (0.181) |
0.294 (0.43) |
0.181 (0.318) |
0.213 (0.359) |
16p gain | 31 (8%) | 339 |
0.175 (0.315) |
0.914 (0.936) |
0.00594 (0.0258) |
0.982 (0.985) |
0.767 (0.824) |
0.252 (0.396) |
0.101 (0.213) |
0.318 (0.449) |
16q gain | 17 (5%) | 353 |
0.907 (0.934) |
0.0587 (0.144) |
0.0011 (0.00784) |
0.314 (0.447) |
0.125 (0.247) |
0.912 (0.936) |
0.16 (0.296) |
0.706 (0.785) |
xp gain | 42 (11%) | 328 |
0.00041 (0.0039) |
0.298 (0.434) |
0.0576 (0.142) |
0.653 (0.742) |
0.437 (0.557) |
0.155 (0.289) |
0.984 (0.985) |
0.0537 (0.135) |
8q loss | 43 (12%) | 327 |
0.00145 (0.00942) |
0.113 (0.232) |
0.271 (0.414) |
0.549 (0.658) |
0.76 (0.822) |
0.935 (0.949) |
0.69 (0.774) |
0.901 (0.931) |
20q loss | 13 (4%) | 357 |
0.352 (0.485) |
0.205 (0.349) |
0.138 (0.268) |
0.111 (0.23) |
0.466 (0.579) |
0.64 (0.737) |
0.0135 (0.0491) |
0.256 (0.399) |
xq loss | 70 (19%) | 300 |
0.0125 (0.0465) |
0.141 (0.271) |
0.398 (0.526) |
0.308 (0.44) |
0.133 (0.26) |
0.698 (0.779) |
0.125 (0.247) |
0.746 (0.811) |
4q gain | 7 (2%) | 363 |
0.799 (0.851) |
0.622 (0.721) |
0.756 (0.821) |
0.406 (0.531) |
0.248 (0.395) |
0.848 (0.893) |
0.276 (0.415) |
0.555 (0.664) |
9p gain | 19 (5%) | 351 |
0.465 (0.579) |
0.406 (0.531) |
0.854 (0.893) |
0.669 (0.754) |
0.708 (0.785) |
0.401 (0.528) |
0.096 (0.206) |
0.367 (0.502) |
9q gain | 21 (6%) | 349 |
0.0844 (0.19) |
0.594 (0.7) |
0.249 (0.395) |
0.392 (0.522) |
0.765 (0.824) |
0.414 (0.538) |
0.112 (0.231) |
0.233 (0.381) |
11q gain | 18 (5%) | 352 |
0.911 (0.936) |
0.782 (0.835) |
0.471 (0.582) |
0.246 (0.395) |
0.369 (0.502) |
0.7 (0.78) |
0.18 (0.318) |
0.345 (0.478) |
14q gain | 23 (6%) | 347 |
0.45 (0.567) |
0.469 (0.581) |
0.253 (0.396) |
0.152 (0.286) |
0.761 (0.822) |
0.15 (0.283) |
0.0659 (0.157) |
0.651 (0.742) |
15q gain | 33 (9%) | 337 |
0.646 (0.737) |
0.549 (0.658) |
0.979 (0.985) |
0.719 (0.789) |
0.85 (0.893) |
0.287 (0.425) |
0.529 (0.638) |
0.829 (0.878) |
17p gain | 30 (8%) | 340 |
0.1 (0.212) |
0.0854 (0.19) |
0.496 (0.607) |
0.0997 (0.212) |
0.396 (0.525) |
0.759 (0.822) |
0.0531 (0.135) |
0.144 (0.276) |
21q gain | 26 (7%) | 344 |
0.178 (0.316) |
0.81 (0.86) |
0.0701 (0.164) |
0.388 (0.519) |
0.924 (0.944) |
0.222 (0.37) |
0.25 (0.395) |
0.525 (0.635) |
1q loss | 22 (6%) | 348 |
0.369 (0.502) |
0.852 (0.893) |
0.23 (0.378) |
0.238 (0.387) |
0.356 (0.49) |
0.243 (0.393) |
0.287 (0.425) |
0.0624 (0.151) |
6p loss | 28 (8%) | 342 |
0.641 (0.737) |
0.77 (0.826) |
0.318 (0.449) |
0.714 (0.785) |
0.679 (0.762) |
0.724 (0.793) |
0.27 (0.413) |
0.242 (0.392) |
6q loss | 92 (25%) | 278 |
0.188 (0.327) |
0.431 (0.552) |
0.252 (0.396) |
0.734 (0.802) |
0.52 (0.631) |
0.14 (0.27) |
0.671 (0.755) |
0.833 (0.88) |
12q loss | 36 (10%) | 334 |
0.0881 (0.193) |
0.415 (0.538) |
0.4 (0.528) |
0.66 (0.749) |
0.878 (0.913) |
0.916 (0.937) |
0.699 (0.779) |
0.933 (0.949) |
17q loss | 39 (11%) | 331 |
0.37 (0.502) |
0.198 (0.342) |
0.35 (0.484) |
0.17 (0.309) |
0.176 (0.315) |
0.625 (0.721) |
0.27 (0.413) |
0.463 (0.578) |
20p loss | 26 (7%) | 344 |
0.263 (0.406) |
0.275 (0.415) |
0.623 (0.721) |
0.107 (0.223) |
0.0866 (0.191) |
0.855 (0.893) |
0.712 (0.785) |
0.304 (0.438) |
P value = 0.0292 (Fisher's exact test), Q value = 0.084
Table S1. Gene #1: '1p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
1P GAIN MUTATED | 18 | 10 | 9 | 9 | 9 |
1P GAIN WILD-TYPE | 43 | 87 | 59 | 60 | 60 |
Figure S1. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D1V3.png)
P value = 0.0393 (Fisher's exact test), Q value = 0.1
Table S2. Gene #1: '1p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
1P GAIN MUTATED | 12 | 8 | 11 | 20 | 5 |
1P GAIN WILD-TYPE | 32 | 87 | 45 | 102 | 43 |
Figure S2. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D1V6.png)
P value = 0.0227 (Fisher's exact test), Q value = 0.07
Table S3. Gene #1: '1p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
1P GAIN MUTATED | 17 | 10 | 13 | 10 | 5 |
1P GAIN WILD-TYPE | 50 | 76 | 86 | 25 | 48 |
Figure S3. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D1V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S4. Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
1Q GAIN MUTATED | 82 | 87 | 53 |
1Q GAIN WILD-TYPE | 27 | 37 | 84 |
Figure S4. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D2V1.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.00092
Table S5. Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
1Q GAIN MUTATED | 36 | 103 | 83 |
1Q GAIN WILD-TYPE | 52 | 64 | 32 |
Figure S5. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D2V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S6. Gene #2: '1q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
1Q GAIN MUTATED | 36 | 40 | 55 | 39 | 47 |
1Q GAIN WILD-TYPE | 25 | 57 | 13 | 30 | 22 |
Figure S6. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D2V3.png)
P value = 3e-04 (Fisher's exact test), Q value = 0.0032
Table S7. Gene #2: '1q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
1Q GAIN MUTATED | 28 | 35 | 52 | 63 | 39 |
1Q GAIN WILD-TYPE | 26 | 21 | 62 | 21 | 17 |
Figure S7. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D2V4.png)
P value = 0.00493 (Fisher's exact test), Q value = 0.023
Table S8. Gene #2: '1q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
1Q GAIN MUTATED | 27 | 43 | 40 | 73 | 35 |
1Q GAIN WILD-TYPE | 17 | 52 | 16 | 49 | 13 |
Figure S8. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D2V6.png)
P value = 0.00036 (Fisher's exact test), Q value = 0.0036
Table S9. Gene #3: '2p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
2P GAIN MUTATED | 13 | 2 | 6 | 16 | 5 |
2P GAIN WILD-TYPE | 41 | 54 | 108 | 68 | 51 |
Figure S9. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D3V4.png)
P value = 0.00895 (Fisher's exact test), Q value = 0.036
Table S10. Gene #3: '2p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
2P GAIN MUTATED | 18 | 11 | 6 | 6 |
2P GAIN WILD-TYPE | 74 | 76 | 113 | 36 |
Figure S10. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D3V7.png)
P value = 0.0133 (Fisher's exact test), Q value = 0.049
Table S11. Gene #4: '2q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
2Q GAIN MUTATED | 6 | 3 | 13 | 9 | 8 |
2Q GAIN WILD-TYPE | 55 | 94 | 55 | 60 | 61 |
Figure S11. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D4V3.png)
P value = 0.00045 (Fisher's exact test), Q value = 0.0042
Table S12. Gene #4: '2q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
2Q GAIN MUTATED | 10 | 2 | 4 | 16 | 7 |
2Q GAIN WILD-TYPE | 44 | 54 | 110 | 68 | 49 |
Figure S12. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D4V4.png)
P value = 0.00338 (Fisher's exact test), Q value = 0.018
Table S13. Gene #4: '2q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
2Q GAIN MUTATED | 18 | 9 | 5 | 6 |
2Q GAIN WILD-TYPE | 74 | 78 | 114 | 36 |
Figure S13. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D4V7.png)
P value = 0.037 (Fisher's exact test), Q value = 0.1
Table S14. Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
3P GAIN MUTATED | 10 | 18 | 7 |
3P GAIN WILD-TYPE | 99 | 106 | 130 |
Figure S14. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D5V1.png)
P value = 0.0449 (Fisher's exact test), Q value = 0.12
Table S15. Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
3P GAIN MUTATED | 5 | 23 | 7 |
3P GAIN WILD-TYPE | 83 | 144 | 108 |
Figure S15. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D5V2.png)
P value = 0.00272 (Fisher's exact test), Q value = 0.016
Table S16. Gene #5: '3p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
3P GAIN MUTATED | 10 | 8 | 7 | 0 | 10 |
3P GAIN WILD-TYPE | 51 | 89 | 61 | 69 | 59 |
Figure S16. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D5V3.png)
P value = 0.0235 (Fisher's exact test), Q value = 0.07
Table S17. Gene #5: '3p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
3P GAIN MUTATED | 12 | 2 | 10 | 6 |
3P GAIN WILD-TYPE | 80 | 85 | 109 | 36 |
Figure S17. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D5V7.png)
P value = 0.0039 (Fisher's exact test), Q value = 0.02
Table S18. Gene #6: '3q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
3Q GAIN MUTATED | 13 | 9 | 6 | 1 | 9 |
3Q GAIN WILD-TYPE | 48 | 88 | 62 | 68 | 60 |
Figure S18. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D6V3.png)
P value = 0.0151 (Fisher's exact test), Q value = 0.053
Table S19. Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
3Q GAIN MUTATED | 10 | 3 | 11 | 9 |
3Q GAIN WILD-TYPE | 82 | 84 | 108 | 33 |
Figure S19. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D6V7.png)
P value = 0.0145 (Fisher's exact test), Q value = 0.052
Table S20. Gene #7: '4p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
4P GAIN MUTATED | 6 | 16 | 5 |
4P GAIN WILD-TYPE | 103 | 108 | 132 |
Figure S20. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D7V1.png)
P value = 0.014 (Fisher's exact test), Q value = 0.051
Table S21. Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
4P GAIN MUTATED | 6 | 6 | 15 |
4P GAIN WILD-TYPE | 82 | 161 | 100 |
Figure S21. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D7V2.png)
P value = 0.00532 (Fisher's exact test), Q value = 0.024
Table S22. Gene #7: '4p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
4P GAIN MUTATED | 2 | 6 | 12 | 5 | 1 |
4P GAIN WILD-TYPE | 59 | 91 | 56 | 64 | 68 |
Figure S22. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D7V3.png)
P value = 0.00137 (Fisher's exact test), Q value = 0.0092
Table S23. Gene #7: '4p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
4P GAIN MUTATED | 5 | 3 | 3 | 14 | 1 |
4P GAIN WILD-TYPE | 49 | 53 | 111 | 70 | 55 |
Figure S23. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D7V4.png)
P value = 0.00016 (Fisher's exact test), Q value = 0.002
Table S24. Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
5P GAIN MUTATED | 47 | 56 | 32 |
5P GAIN WILD-TYPE | 62 | 68 | 105 |
Figure S24. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D9V1.png)
P value = 0.00394 (Fisher's exact test), Q value = 0.02
Table S25. Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
5Q GAIN MUTATED | 42 | 38 | 27 |
5Q GAIN WILD-TYPE | 67 | 86 | 110 |
Figure S25. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D10V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S26. Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
6P GAIN MUTATED | 37 | 58 | 22 |
6P GAIN WILD-TYPE | 72 | 66 | 115 |
Figure S26. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D11V1.png)
P value = 0.00231 (Fisher's exact test), Q value = 0.014
Table S27. Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
6P GAIN MUTATED | 15 | 61 | 41 |
6P GAIN WILD-TYPE | 73 | 106 | 74 |
Figure S27. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D11V2.png)
P value = 0.00546 (Fisher's exact test), Q value = 0.024
Table S28. Gene #11: '6p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
6P GAIN MUTATED | 23 | 22 | 26 | 15 | 31 |
6P GAIN WILD-TYPE | 38 | 75 | 42 | 54 | 38 |
Figure S28. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D11V3.png)
P value = 0.0273 (Fisher's exact test), Q value = 0.08
Table S29. Gene #11: '6p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
6P GAIN MUTATED | 16 | 11 | 32 | 33 | 25 |
6P GAIN WILD-TYPE | 38 | 45 | 82 | 51 | 31 |
Figure S29. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D11V4.png)
P value = 0.00252 (Fisher's exact test), Q value = 0.015
Table S30. Gene #11: '6p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
6P GAIN MUTATED | 19 | 18 | 19 | 37 | 23 |
6P GAIN WILD-TYPE | 25 | 77 | 37 | 85 | 25 |
Figure S30. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D11V6.png)
P value = 7e-04 (Fisher's exact test), Q value = 0.0057
Table S31. Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
6Q GAIN MUTATED | 24 | 31 | 12 |
6Q GAIN WILD-TYPE | 85 | 93 | 125 |
Figure S31. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D12V1.png)
P value = 0.038 (Fisher's exact test), Q value = 0.1
Table S32. Gene #12: '6q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
6Q GAIN MUTATED | 18 | 12 | 14 | 8 | 15 |
6Q GAIN WILD-TYPE | 43 | 85 | 54 | 61 | 54 |
Figure S32. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D12V3.png)
P value = 0.0452 (Fisher's exact test), Q value = 0.12
Table S33. Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
7P GAIN MUTATED | 35 | 45 | 31 |
7P GAIN WILD-TYPE | 74 | 79 | 106 |
Figure S33. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D13V1.png)
P value = 0.0436 (Fisher's exact test), Q value = 0.12
Table S34. Gene #13: '7p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
7P GAIN MUTATED | 14 | 49 | 11 | 34 |
7P GAIN WILD-TYPE | 51 | 78 | 38 | 90 |
Figure S34. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D13V5.png)
P value = 0.00069 (Fisher's exact test), Q value = 0.0057
Table S35. Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
7Q GAIN MUTATED | 20 | 67 | 24 |
7Q GAIN WILD-TYPE | 68 | 100 | 91 |
Figure S35. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D14V2.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00046
Table S36. Gene #15: '8p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
8P GAIN MUTATED | 39 | 25 | 16 |
8P GAIN WILD-TYPE | 70 | 99 | 121 |
Figure S36. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D15V1.png)
P value = 0.0208 (Fisher's exact test), Q value = 0.065
Table S37. Gene #15: '8p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
8P GAIN MUTATED | 14 | 11 | 13 | 21 | 19 |
8P GAIN WILD-TYPE | 47 | 86 | 55 | 48 | 50 |
Figure S37. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D15V3.png)
P value = 0.0357 (Fisher's exact test), Q value = 0.098
Table S38. Gene #15: '8p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
8P GAIN MUTATED | 12 | 14 | 14 | 25 | 13 |
8P GAIN WILD-TYPE | 42 | 42 | 100 | 59 | 43 |
Figure S38. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D15V4.png)
P value = 0.0108 (Fisher's exact test), Q value = 0.042
Table S39. Gene #15: '8p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
8P GAIN MUTATED | 5 | 29 | 14 | 31 |
8P GAIN WILD-TYPE | 60 | 98 | 35 | 93 |
Figure S39. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D15V5.png)
P value = 0.0157 (Fisher's exact test), Q value = 0.055
Table S40. Gene #15: '8p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
8P GAIN MUTATED | 17 | 9 | 28 | 7 | 16 |
8P GAIN WILD-TYPE | 50 | 77 | 71 | 28 | 37 |
Figure S40. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D15V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S41. Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
8Q GAIN MUTATED | 97 | 61 | 30 |
8Q GAIN WILD-TYPE | 12 | 63 | 107 |
Figure S41. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D16V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S42. Gene #16: '8q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
8Q GAIN MUTATED | 37 | 25 | 38 | 38 | 45 |
8Q GAIN WILD-TYPE | 24 | 72 | 30 | 31 | 24 |
Figure S42. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D16V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S43. Gene #16: '8q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
8Q GAIN MUTATED | 31 | 31 | 33 | 52 | 36 |
8Q GAIN WILD-TYPE | 23 | 25 | 81 | 32 | 20 |
Figure S43. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D16V4.png)
P value = 0.0277 (Fisher's exact test), Q value = 0.081
Table S44. Gene #16: '8q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
8Q GAIN MUTATED | 22 | 70 | 26 | 67 |
8Q GAIN WILD-TYPE | 43 | 57 | 23 | 57 |
Figure S44. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D16V5.png)
P value = 0.00336 (Fisher's exact test), Q value = 0.018
Table S45. Gene #16: '8q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
8Q GAIN MUTATED | 20 | 34 | 29 | 71 | 31 |
8Q GAIN WILD-TYPE | 24 | 61 | 27 | 51 | 17 |
Figure S45. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D16V6.png)
P value = 0.00023 (Fisher's exact test), Q value = 0.0026
Table S46. Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
8Q GAIN MUTATED | 42 | 29 | 56 | 14 | 35 |
8Q GAIN WILD-TYPE | 25 | 57 | 43 | 21 | 18 |
Figure S46. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D16V8.png)
P value = 0.00041 (Fisher's exact test), Q value = 0.0039
Table S47. Gene #19: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
10P GAIN MUTATED | 21 | 30 | 10 |
10P GAIN WILD-TYPE | 88 | 94 | 127 |
Figure S47. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D19V1.png)
P value = 0.00382 (Fisher's exact test), Q value = 0.02
Table S48. Gene #19: '10p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
10P GAIN MUTATED | 9 | 9 | 21 | 7 | 13 |
10P GAIN WILD-TYPE | 52 | 88 | 47 | 62 | 56 |
Figure S48. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D19V3.png)
P value = 0.0209 (Fisher's exact test), Q value = 0.066
Table S49. Gene #19: '10p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
10P GAIN MUTATED | 11 | 6 | 11 | 22 | 9 |
10P GAIN WILD-TYPE | 43 | 50 | 103 | 62 | 47 |
Figure S49. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D19V4.png)
P value = 0.0222 (Fisher's exact test), Q value = 0.069
Table S50. Gene #19: '10p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
10P GAIN MUTATED | 23 | 12 | 12 | 9 |
10P GAIN WILD-TYPE | 69 | 75 | 107 | 33 |
Figure S50. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D19V7.png)
P value = 0.0184 (Fisher's exact test), Q value = 0.062
Table S51. Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
10P GAIN MUTATED | 18 | 7 | 17 | 8 | 6 |
10P GAIN WILD-TYPE | 49 | 79 | 82 | 27 | 47 |
Figure S51. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D19V8.png)
P value = 0.00101 (Fisher's exact test), Q value = 0.0075
Table S52. Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
10Q GAIN MUTATED | 16 | 17 | 4 |
10Q GAIN WILD-TYPE | 93 | 107 | 133 |
Figure S52. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D20V1.png)
P value = 0.0299 (Fisher's exact test), Q value = 0.085
Table S53. Gene #20: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
10Q GAIN MUTATED | 3 | 18 | 16 |
10Q GAIN WILD-TYPE | 85 | 149 | 99 |
Figure S53. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D20V2.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
Table S54. Gene #20: '10q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
10Q GAIN MUTATED | 1 | 4 | 18 | 4 | 10 |
10Q GAIN WILD-TYPE | 60 | 93 | 50 | 65 | 59 |
Figure S54. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D20V3.png)
P value = 0.0438 (Fisher's exact test), Q value = 0.12
Table S55. Gene #20: '10q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
10Q GAIN MUTATED | 3 | 4 | 11 | 14 | 5 |
10Q GAIN WILD-TYPE | 41 | 91 | 45 | 108 | 43 |
Figure S55. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D20V6.png)
P value = 0.0367 (Fisher's exact test), Q value = 0.1
Table S56. Gene #20: '10q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
10Q GAIN MUTATED | 13 | 6 | 6 | 7 |
10Q GAIN WILD-TYPE | 79 | 81 | 113 | 35 |
Figure S56. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D20V7.png)
P value = 0.0339 (Fisher's exact test), Q value = 0.094
Table S57. Gene #20: '10q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
10Q GAIN MUTATED | 11 | 2 | 11 | 3 | 5 |
10Q GAIN WILD-TYPE | 56 | 84 | 88 | 32 | 48 |
Figure S57. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D20V8.png)
P value = 0.0484 (Fisher's exact test), Q value = 0.12
Table S58. Gene #21: '11p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
11P GAIN MUTATED | 5 | 2 | 3 | 7 | 0 |
11P GAIN WILD-TYPE | 49 | 54 | 111 | 77 | 56 |
Figure S58. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D21V4.png)
P value = 0.0153 (Fisher's exact test), Q value = 0.054
Table S59. Gene #21: '11p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
11P GAIN MUTATED | 5 | 5 | 1 | 5 |
11P GAIN WILD-TYPE | 87 | 82 | 118 | 37 |
Figure S59. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D21V7.png)
P value = 0.0164 (Fisher's exact test), Q value = 0.056
Table S60. Gene #23: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
12P GAIN MUTATED | 12 | 21 | 8 |
12P GAIN WILD-TYPE | 97 | 103 | 129 |
Figure S60. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D23V1.png)
P value = 0.0114 (Fisher's exact test), Q value = 0.044
Table S61. Gene #23: '12p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
12P GAIN MUTATED | 12 | 5 | 12 | 8 | 4 |
12P GAIN WILD-TYPE | 49 | 92 | 56 | 61 | 65 |
Figure S61. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D23V3.png)
P value = 0.00064 (Fisher's exact test), Q value = 0.0053
Table S62. Gene #23: '12p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
12P GAIN MUTATED | 14 | 2 | 10 | 13 | 2 |
12P GAIN WILD-TYPE | 40 | 54 | 104 | 71 | 54 |
Figure S62. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D23V4.png)
P value = 0.00144 (Fisher's exact test), Q value = 0.0094
Table S63. Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
12P GAIN MUTATED | 18 | 10 | 4 | 5 |
12P GAIN WILD-TYPE | 74 | 77 | 115 | 37 |
Figure S63. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D23V7.png)
P value = 0.0243 (Fisher's exact test), Q value = 0.072
Table S64. Gene #23: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
12P GAIN MUTATED | 13 | 7 | 11 | 5 | 1 |
12P GAIN WILD-TYPE | 54 | 79 | 88 | 30 | 52 |
Figure S64. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D23V8.png)
P value = 0.0231 (Fisher's exact test), Q value = 0.07
Table S65. Gene #24: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
12Q GAIN MUTATED | 14 | 23 | 10 |
12Q GAIN WILD-TYPE | 95 | 101 | 127 |
Figure S65. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D24V1.png)
P value = 0.0133 (Fisher's exact test), Q value = 0.049
Table S66. Gene #24: '12q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
12Q GAIN MUTATED | 13 | 7 | 13 | 10 | 4 |
12Q GAIN WILD-TYPE | 48 | 90 | 55 | 59 | 65 |
Figure S66. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D24V3.png)
P value = 0.00269 (Fisher's exact test), Q value = 0.016
Table S67. Gene #24: '12q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
12Q GAIN MUTATED | 14 | 4 | 12 | 15 | 2 |
12Q GAIN WILD-TYPE | 40 | 52 | 102 | 69 | 54 |
Figure S67. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D24V4.png)
P value = 0.00051 (Fisher's exact test), Q value = 0.0045
Table S68. Gene #24: '12q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
12Q GAIN MUTATED | 21 | 11 | 5 | 6 |
12Q GAIN WILD-TYPE | 71 | 76 | 114 | 36 |
Figure S68. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D24V7.png)
P value = 0.00875 (Fisher's exact test), Q value = 0.035
Table S69. Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
13Q GAIN MUTATED | 6 | 14 | 3 |
13Q GAIN WILD-TYPE | 103 | 110 | 134 |
Figure S69. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D25V1.png)
P value = 0.00594 (Fisher's exact test), Q value = 0.026
Table S70. Gene #28: '16p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
16P GAIN MUTATED | 8 | 6 | 1 | 12 | 4 |
16P GAIN WILD-TYPE | 53 | 91 | 67 | 57 | 65 |
Figure S70. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D28V3.png)
P value = 0.0011 (Fisher's exact test), Q value = 0.0078
Table S71. Gene #29: '16q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
16Q GAIN MUTATED | 2 | 2 | 0 | 10 | 3 |
16Q GAIN WILD-TYPE | 59 | 95 | 68 | 59 | 66 |
Figure S71. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D29V3.png)
P value = 0.00148 (Fisher's exact test), Q value = 0.0095
Table S72. Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
17Q GAIN MUTATED | 27 | 45 | 23 |
17Q GAIN WILD-TYPE | 82 | 79 | 114 |
Figure S72. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D31V1.png)
P value = 0.0455 (Fisher's exact test), Q value = 0.12
Table S73. Gene #31: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
17Q GAIN MUTATED | 14 | 47 | 34 |
17Q GAIN WILD-TYPE | 74 | 120 | 81 |
Figure S73. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D31V2.png)
P value = 0.0197 (Fisher's exact test), Q value = 0.064
Table S74. Gene #31: '17q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
17Q GAIN MUTATED | 21 | 42 | 8 | 24 |
17Q GAIN WILD-TYPE | 44 | 85 | 41 | 100 |
Figure S74. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D31V5.png)
P value = 0.00043 (Fisher's exact test), Q value = 0.004
Table S75. Gene #31: '17q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
17Q GAIN MUTATED | 22 | 21 | 17 | 20 | 15 |
17Q GAIN WILD-TYPE | 22 | 74 | 39 | 102 | 33 |
Figure S75. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D31V6.png)
P value = 0.0237 (Fisher's exact test), Q value = 0.071
Table S76. Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
17Q GAIN MUTATED | 23 | 19 | 17 | 14 | 16 |
17Q GAIN WILD-TYPE | 44 | 67 | 82 | 21 | 37 |
Figure S76. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D31V8.png)
P value = 0.0234 (Fisher's exact test), Q value = 0.07
Table S77. Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
18P GAIN MUTATED | 10 | 19 | 7 |
18P GAIN WILD-TYPE | 99 | 105 | 130 |
Figure S77. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D32V1.png)
P value = 0.0187 (Fisher's exact test), Q value = 0.062
Table S78. Gene #32: '18p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
18P GAIN MUTATED | 10 | 4 | 7 | 13 | 2 |
18P GAIN WILD-TYPE | 44 | 52 | 107 | 71 | 54 |
Figure S78. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D32V4.png)
P value = 0.0194 (Fisher's exact test), Q value = 0.063
Table S79. Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
18Q GAIN MUTATED | 7 | 16 | 5 |
18Q GAIN WILD-TYPE | 102 | 108 | 132 |
Figure S79. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D33V1.png)
P value = 0.00302 (Fisher's exact test), Q value = 0.017
Table S80. Gene #33: '18q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
18Q GAIN MUTATED | 9 | 4 | 5 | 10 | 0 |
18Q GAIN WILD-TYPE | 45 | 52 | 109 | 74 | 56 |
Figure S80. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D33V4.png)
P value = 0.0191 (Fisher's exact test), Q value = 0.063
Table S81. Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
18Q GAIN MUTATED | 12 | 9 | 3 | 3 |
18Q GAIN WILD-TYPE | 80 | 78 | 116 | 39 |
Figure S81. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D33V7.png)
P value = 0.00392 (Fisher's exact test), Q value = 0.02
Table S82. Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
19P GAIN MUTATED | 14 | 15 | 27 |
19P GAIN WILD-TYPE | 74 | 152 | 88 |
Figure S82. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D34V2.png)
P value = 0.00104 (Fisher's exact test), Q value = 0.0077
Table S83. Gene #34: '19p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
19P GAIN MUTATED | 7 | 11 | 17 | 17 | 3 |
19P GAIN WILD-TYPE | 54 | 86 | 51 | 52 | 66 |
Figure S83. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D34V3.png)
P value = 0.00846 (Fisher's exact test), Q value = 0.035
Table S84. Gene #34: '19p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
19P GAIN MUTATED | 10 | 11 | 11 | 20 | 3 |
19P GAIN WILD-TYPE | 44 | 45 | 103 | 64 | 53 |
Figure S84. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D34V4.png)
P value = 0.0135 (Fisher's exact test), Q value = 0.049
Table S85. Gene #34: '19p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
19P GAIN MUTATED | 6 | 12 | 9 | 28 |
19P GAIN WILD-TYPE | 59 | 115 | 40 | 96 |
Figure S85. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D34V5.png)
P value = 0.00483 (Fisher's exact test), Q value = 0.023
Table S86. Gene #34: '19p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
19P GAIN MUTATED | 4 | 12 | 11 | 27 | 1 |
19P GAIN WILD-TYPE | 40 | 83 | 45 | 95 | 47 |
Figure S86. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D34V6.png)
P value = 0.00064 (Fisher's exact test), Q value = 0.0053
Table S87. Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
19P GAIN MUTATED | 18 | 19 | 6 | 8 |
19P GAIN WILD-TYPE | 74 | 68 | 113 | 34 |
Figure S87. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D34V7.png)
P value = 0.037 (Fisher's exact test), Q value = 0.1
Table S88. Gene #34: '19p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
19P GAIN MUTATED | 11 | 11 | 23 | 3 | 3 |
19P GAIN WILD-TYPE | 56 | 75 | 76 | 32 | 50 |
Figure S88. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D34V8.png)
P value = 0.00106 (Fisher's exact test), Q value = 0.0077
Table S89. Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
19Q GAIN MUTATED | 16 | 21 | 35 |
19Q GAIN WILD-TYPE | 72 | 146 | 80 |
Figure S89. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D35V2.png)
P value = 0.00227 (Fisher's exact test), Q value = 0.014
Table S90. Gene #35: '19q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
19Q GAIN MUTATED | 10 | 14 | 21 | 20 | 6 |
19Q GAIN WILD-TYPE | 51 | 83 | 47 | 49 | 63 |
Figure S90. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D35V3.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.00082
Table S91. Gene #35: '19q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
19Q GAIN MUTATED | 11 | 15 | 12 | 29 | 4 |
19Q GAIN WILD-TYPE | 43 | 41 | 102 | 55 | 52 |
Figure S91. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D35V4.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.0035
Table S92. Gene #35: '19q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
19Q GAIN MUTATED | 7 | 14 | 13 | 37 |
19Q GAIN WILD-TYPE | 58 | 113 | 36 | 87 |
Figure S92. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D35V5.png)
P value = 0.00099 (Fisher's exact test), Q value = 0.0075
Table S93. Gene #35: '19q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
19Q GAIN MUTATED | 7 | 13 | 17 | 32 | 2 |
19Q GAIN WILD-TYPE | 37 | 82 | 39 | 90 | 46 |
Figure S93. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D35V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S94. Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
19Q GAIN MUTATED | 23 | 24 | 7 | 12 |
19Q GAIN WILD-TYPE | 69 | 63 | 112 | 30 |
Figure S94. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D35V7.png)
P value = 0.00083 (Fisher's exact test), Q value = 0.0066
Table S95. Gene #35: '19q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
19Q GAIN MUTATED | 19 | 12 | 27 | 6 | 2 |
19Q GAIN WILD-TYPE | 48 | 74 | 72 | 29 | 51 |
Figure S95. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D35V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S96. Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
20P GAIN MUTATED | 28 | 58 | 22 |
20P GAIN WILD-TYPE | 81 | 66 | 115 |
Figure S96. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D36V1.png)
P value = 0.0329 (Fisher's exact test), Q value = 0.092
Table S97. Gene #36: '20p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
20P GAIN MUTATED | 21 | 23 | 30 | 18 | 16 |
20P GAIN WILD-TYPE | 40 | 74 | 38 | 51 | 53 |
Figure S97. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D36V3.png)
P value = 0.00217 (Fisher's exact test), Q value = 0.013
Table S98. Gene #36: '20p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
20P GAIN MUTATED | 19 | 15 | 26 | 38 | 10 |
20P GAIN WILD-TYPE | 35 | 41 | 88 | 46 | 46 |
Figure S98. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D36V4.png)
P value = 0.0323 (Fisher's exact test), Q value = 0.091
Table S99. Gene #36: '20p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
20P GAIN MUTATED | 18 | 21 | 22 | 37 | 9 |
20P GAIN WILD-TYPE | 26 | 74 | 34 | 85 | 39 |
Figure S99. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D36V6.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.00082
Table S100. Gene #36: '20p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
20P GAIN MUTATED | 34 | 23 | 20 | 22 |
20P GAIN WILD-TYPE | 58 | 64 | 99 | 20 |
Figure S100. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D36V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S101. Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
20Q GAIN MUTATED | 30 | 59 | 23 |
20Q GAIN WILD-TYPE | 79 | 65 | 114 |
Figure S101. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D37V1.png)
P value = 0.00864 (Fisher's exact test), Q value = 0.035
Table S102. Gene #37: '20q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
20Q GAIN MUTATED | 18 | 15 | 31 | 38 | 10 |
20Q GAIN WILD-TYPE | 36 | 41 | 83 | 46 | 46 |
Figure S102. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D37V4.png)
P value = 8e-05 (Fisher's exact test), Q value = 0.001
Table S103. Gene #37: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
20Q GAIN MUTATED | 36 | 23 | 21 | 22 |
20Q GAIN WILD-TYPE | 56 | 64 | 98 | 20 |
Figure S103. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D37V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S104. Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
22Q GAIN MUTATED | 13 | 29 | 6 |
22Q GAIN WILD-TYPE | 96 | 95 | 131 |
Figure S104. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D39V1.png)
P value = 0.0459 (Fisher's exact test), Q value = 0.12
Table S105. Gene #39: '22q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
22Q GAIN MUTATED | 7 | 8 | 17 | 8 | 8 |
22Q GAIN WILD-TYPE | 54 | 89 | 51 | 61 | 61 |
Figure S105. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D39V3.png)
P value = 0.00198 (Fisher's exact test), Q value = 0.013
Table S106. Gene #39: '22q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
22Q GAIN MUTATED | 14 | 5 | 8 | 17 | 4 |
22Q GAIN WILD-TYPE | 40 | 51 | 106 | 67 | 52 |
Figure S106. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D39V4.png)
P value = 0.00204 (Fisher's exact test), Q value = 0.013
Table S107. Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
22Q GAIN MUTATED | 17 | 10 | 6 | 10 |
22Q GAIN WILD-TYPE | 75 | 77 | 113 | 32 |
Figure S107. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D39V7.png)
P value = 0.00041 (Fisher's exact test), Q value = 0.0039
Table S108. Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
XP GAIN MUTATED | 22 | 14 | 6 |
XP GAIN WILD-TYPE | 87 | 110 | 131 |
Figure S108. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D40V1.png)
P value = 0.00108 (Fisher's exact test), Q value = 0.0078
Table S109. Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
XQ GAIN MUTATED | 30 | 21 | 13 |
XQ GAIN WILD-TYPE | 79 | 103 | 124 |
Figure S109. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D41V1.png)
P value = 0.00222 (Fisher's exact test), Q value = 0.014
Table S110. Gene #41: 'xq gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
XQ GAIN MUTATED | 6 | 16 | 8 | 10 | 24 |
XQ GAIN WILD-TYPE | 55 | 81 | 60 | 59 | 45 |
Figure S110. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D41V3.png)
P value = 0.0135 (Fisher's exact test), Q value = 0.049
Table S111. Gene #41: 'xq gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
XQ GAIN MUTATED | 7 | 7 | 21 | 10 | 19 |
XQ GAIN WILD-TYPE | 47 | 49 | 93 | 74 | 37 |
Figure S111. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D41V4.png)
P value = 0.00634 (Fisher's exact test), Q value = 0.027
Table S112. Gene #41: 'xq gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
XQ GAIN MUTATED | 6 | 34 | 7 | 16 |
XQ GAIN WILD-TYPE | 59 | 93 | 42 | 108 |
Figure S112. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D41V5.png)
P value = 0.00052 (Fisher's exact test), Q value = 0.0045
Table S113. Gene #41: 'xq gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
XQ GAIN MUTATED | 5 | 15 | 9 | 14 | 20 |
XQ GAIN WILD-TYPE | 39 | 80 | 47 | 108 | 28 |
Figure S113. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D41V6.png)
P value = 0.00026 (Fisher's exact test), Q value = 0.0028
Table S114. Gene #41: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
XQ GAIN MUTATED | 12 | 11 | 11 | 3 | 21 |
XQ GAIN WILD-TYPE | 55 | 75 | 88 | 32 | 32 |
Figure S114. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D41V8.png)
P value = 0.00269 (Fisher's exact test), Q value = 0.016
Table S115. Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
1P LOSS MUTATED | 23 | 39 | 19 |
1P LOSS WILD-TYPE | 86 | 85 | 118 |
Figure S115. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D42V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S116. Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
1P LOSS MUTATED | 10 | 27 | 44 |
1P LOSS WILD-TYPE | 78 | 140 | 71 |
Figure S116. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D42V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S117. Gene #42: '1p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
1P LOSS MUTATED | 9 | 13 | 36 | 14 | 8 |
1P LOSS WILD-TYPE | 52 | 84 | 32 | 55 | 61 |
Figure S117. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D42V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S118. Gene #42: '1p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
1P LOSS MUTATED | 12 | 9 | 14 | 38 | 7 |
1P LOSS WILD-TYPE | 42 | 47 | 100 | 46 | 49 |
Figure S118. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D42V4.png)
P value = 0.00399 (Fisher's exact test), Q value = 0.02
Table S119. Gene #42: '1p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
1P LOSS MUTATED | 5 | 26 | 14 | 35 |
1P LOSS WILD-TYPE | 60 | 101 | 35 | 89 |
Figure S119. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D42V5.png)
P value = 0.00754 (Fisher's exact test), Q value = 0.032
Table S120. Gene #42: '1p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
1P LOSS MUTATED | 5 | 17 | 17 | 36 | 5 |
1P LOSS WILD-TYPE | 39 | 78 | 39 | 86 | 43 |
Figure S120. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D42V6.png)
P value = 0.00048 (Fisher's exact test), Q value = 0.0044
Table S121. Gene #42: '1p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
1P LOSS MUTATED | 26 | 20 | 13 | 16 |
1P LOSS WILD-TYPE | 66 | 67 | 106 | 26 |
Figure S121. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D42V7.png)
P value = 0.00447 (Fisher's exact test), Q value = 0.022
Table S122. Gene #42: '1p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
1P LOSS MUTATED | 16 | 15 | 34 | 4 | 6 |
1P LOSS WILD-TYPE | 51 | 71 | 65 | 31 | 47 |
Figure S122. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D42V8.png)
P value = 0.0105 (Fisher's exact test), Q value = 0.041
Table S123. Gene #44: '2p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
2P LOSS MUTATED | 12 | 8 | 6 | 6 | 1 |
2P LOSS WILD-TYPE | 49 | 89 | 62 | 63 | 68 |
Figure S123. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D44V3.png)
P value = 0.0393 (Fisher's exact test), Q value = 0.1
Table S124. Gene #44: '2p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
2P LOSS MUTATED | 6 | 7 | 10 | 10 | 0 |
2P LOSS WILD-TYPE | 48 | 49 | 104 | 74 | 56 |
Figure S124. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D44V4.png)
P value = 0.0103 (Fisher's exact test), Q value = 0.04
Table S125. Gene #45: '2q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
2Q LOSS MUTATED | 11 | 13 | 8 | 5 | 1 |
2Q LOSS WILD-TYPE | 50 | 84 | 60 | 64 | 68 |
Figure S125. Get High-res Image Gene #45: '2q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D45V3.png)
P value = 0.0205 (Fisher's exact test), Q value = 0.065
Table S126. Gene #45: '2q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
2Q LOSS MUTATED | 5 | 7 | 16 | 10 | 0 |
2Q LOSS WILD-TYPE | 49 | 49 | 98 | 74 | 56 |
Figure S126. Get High-res Image Gene #45: '2q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D45V4.png)
P value = 0.032 (Fisher's exact test), Q value = 0.091
Table S127. Gene #46: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
3P LOSS MUTATED | 11 | 26 | 15 |
3P LOSS WILD-TYPE | 98 | 98 | 122 |
Figure S127. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D46V1.png)
P value = 0.00779 (Fisher's exact test), Q value = 0.032
Table S128. Gene #46: '3p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
3P LOSS MUTATED | 9 | 7 | 16 | 14 | 5 |
3P LOSS WILD-TYPE | 52 | 90 | 52 | 55 | 64 |
Figure S128. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D46V3.png)
P value = 0.0095 (Fisher's exact test), Q value = 0.037
Table S129. Gene #46: '3p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
3P LOSS MUTATED | 14 | 5 | 10 | 17 | 5 |
3P LOSS WILD-TYPE | 40 | 51 | 104 | 67 | 51 |
Figure S129. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D46V4.png)
P value = 0.00747 (Fisher's exact test), Q value = 0.031
Table S130. Gene #46: '3p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
3P LOSS MUTATED | 3 | 16 | 5 | 27 |
3P LOSS WILD-TYPE | 62 | 111 | 44 | 97 |
Figure S130. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D46V5.png)
P value = 0.00115 (Fisher's exact test), Q value = 0.0081
Table S131. Gene #46: '3p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
3P LOSS MUTATED | 20 | 17 | 7 | 3 |
3P LOSS WILD-TYPE | 72 | 70 | 112 | 39 |
Figure S131. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D46V7.png)
P value = 0.0494 (Fisher's exact test), Q value = 0.13
Table S132. Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
3P LOSS MUTATED | 12 | 10 | 20 | 2 | 3 |
3P LOSS WILD-TYPE | 55 | 76 | 79 | 33 | 50 |
Figure S132. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D46V8.png)
P value = 0.0187 (Fisher's exact test), Q value = 0.062
Table S133. Gene #47: '3q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
3Q LOSS MUTATED | 7 | 6 | 15 | 7 | 4 |
3Q LOSS WILD-TYPE | 54 | 91 | 53 | 62 | 65 |
Figure S133. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D47V3.png)
P value = 0.00525 (Fisher's exact test), Q value = 0.024
Table S134. Gene #47: '3q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
3Q LOSS MUTATED | 18 | 9 | 6 | 2 |
3Q LOSS WILD-TYPE | 74 | 78 | 113 | 40 |
Figure S134. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D47V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S135. Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
4P LOSS MUTATED | 25 | 60 | 22 |
4P LOSS WILD-TYPE | 84 | 64 | 115 |
Figure S135. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D48V1.png)
P value = 0.001 (Fisher's exact test), Q value = 0.0075
Table S136. Gene #48: '4p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
4P LOSS MUTATED | 26 | 27 | 28 | 13 | 12 |
4P LOSS WILD-TYPE | 35 | 70 | 40 | 56 | 57 |
Figure S136. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D48V3.png)
P value = 0.0141 (Fisher's exact test), Q value = 0.051
Table S137. Gene #48: '4p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
4P LOSS MUTATED | 15 | 11 | 38 | 33 | 9 |
4P LOSS WILD-TYPE | 39 | 45 | 76 | 51 | 47 |
Figure S137. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D48V4.png)
P value = 0.0178 (Fisher's exact test), Q value = 0.06
Table S138. Gene #48: '4p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
4P LOSS MUTATED | 14 | 27 | 25 | 33 | 7 |
4P LOSS WILD-TYPE | 30 | 68 | 31 | 89 | 41 |
Figure S138. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D48V6.png)
P value = 0.00482 (Fisher's exact test), Q value = 0.023
Table S139. Gene #48: '4p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
4P LOSS MUTATED | 39 | 21 | 25 | 14 |
4P LOSS WILD-TYPE | 53 | 66 | 94 | 28 |
Figure S139. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D48V7.png)
P value = 0.00281 (Fisher's exact test), Q value = 0.016
Table S140. Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
4P LOSS MUTATED | 30 | 27 | 24 | 11 | 7 |
4P LOSS WILD-TYPE | 37 | 59 | 75 | 24 | 46 |
Figure S140. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D48V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S141. Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
4Q LOSS MUTATED | 34 | 85 | 29 |
4Q LOSS WILD-TYPE | 75 | 39 | 108 |
Figure S141. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D49V1.png)
P value = 0.00508 (Fisher's exact test), Q value = 0.023
Table S142. Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
4Q LOSS MUTATED | 26 | 63 | 59 |
4Q LOSS WILD-TYPE | 62 | 104 | 56 |
Figure S142. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D49V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S143. Gene #49: '4q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
4Q LOSS MUTATED | 32 | 35 | 45 | 18 | 16 |
4Q LOSS WILD-TYPE | 29 | 62 | 23 | 51 | 53 |
Figure S143. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D49V3.png)
P value = 0.00083 (Fisher's exact test), Q value = 0.0066
Table S144. Gene #49: '4q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
4Q LOSS MUTATED | 24 | 19 | 44 | 47 | 12 |
4Q LOSS WILD-TYPE | 30 | 37 | 70 | 37 | 44 |
Figure S144. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D49V4.png)
P value = 0.00532 (Fisher's exact test), Q value = 0.024
Table S145. Gene #49: '4q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
4Q LOSS MUTATED | 18 | 37 | 30 | 53 | 9 |
4Q LOSS WILD-TYPE | 26 | 58 | 26 | 69 | 39 |
Figure S145. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D49V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S146. Gene #49: '4q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
4Q LOSS MUTATED | 49 | 33 | 32 | 26 |
4Q LOSS WILD-TYPE | 43 | 54 | 87 | 16 |
Figure S146. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D49V7.png)
P value = 0.00924 (Fisher's exact test), Q value = 0.037
Table S147. Gene #49: '4q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
4Q LOSS MUTATED | 35 | 36 | 44 | 14 | 11 |
4Q LOSS WILD-TYPE | 32 | 50 | 55 | 21 | 42 |
Figure S147. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D49V8.png)
P value = 0.0243 (Fisher's exact test), Q value = 0.072
Table S148. Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
5P LOSS MUTATED | 4 | 16 | 8 |
5P LOSS WILD-TYPE | 105 | 108 | 129 |
Figure S148. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D50V1.png)
P value = 0.0164 (Fisher's exact test), Q value = 0.056
Table S149. Gene #50: '5p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
5P LOSS MUTATED | 7 | 1 | 6 | 12 | 2 |
5P LOSS WILD-TYPE | 47 | 55 | 108 | 72 | 54 |
Figure S149. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D50V4.png)
P value = 0.00911 (Fisher's exact test), Q value = 0.036
Table S150. Gene #50: '5p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
5P LOSS MUTATED | 12 | 2 | 6 | 6 |
5P LOSS WILD-TYPE | 80 | 85 | 113 | 36 |
Figure S150. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D50V7.png)
P value = 0.0186 (Fisher's exact test), Q value = 0.062
Table S151. Gene #50: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
5P LOSS MUTATED | 10 | 5 | 7 | 4 | 0 |
5P LOSS WILD-TYPE | 57 | 81 | 92 | 31 | 53 |
Figure S151. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D50V8.png)
P value = 0.0028 (Fisher's exact test), Q value = 0.016
Table S152. Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
5Q LOSS MUTATED | 7 | 23 | 9 |
5Q LOSS WILD-TYPE | 102 | 101 | 128 |
Figure S152. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D51V1.png)
P value = 0.00729 (Fisher's exact test), Q value = 0.031
Table S153. Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
5Q LOSS MUTATED | 7 | 11 | 21 |
5Q LOSS WILD-TYPE | 81 | 156 | 94 |
Figure S153. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D51V2.png)
P value = 0.0231 (Fisher's exact test), Q value = 0.07
Table S154. Gene #51: '5q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
5Q LOSS MUTATED | 10 | 7 | 13 | 6 | 3 |
5Q LOSS WILD-TYPE | 51 | 90 | 55 | 63 | 66 |
Figure S154. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D51V3.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.0019
Table S155. Gene #51: '5q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
5Q LOSS MUTATED | 13 | 1 | 9 | 14 | 2 |
5Q LOSS WILD-TYPE | 41 | 55 | 105 | 70 | 54 |
Figure S155. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D51V4.png)
P value = 0.0478 (Fisher's exact test), Q value = 0.12
Table S156. Gene #51: '5q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
5Q LOSS MUTATED | 6 | 11 | 8 | 14 | 0 |
5Q LOSS WILD-TYPE | 38 | 84 | 48 | 108 | 48 |
Figure S156. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D51V6.png)
P value = 0.00127 (Fisher's exact test), Q value = 0.0086
Table S157. Gene #51: '5q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
5Q LOSS MUTATED | 19 | 5 | 6 | 6 |
5Q LOSS WILD-TYPE | 73 | 82 | 113 | 36 |
Figure S157. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D51V7.png)
P value = 0.00121 (Fisher's exact test), Q value = 0.0084
Table S158. Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
5Q LOSS MUTATED | 15 | 8 | 9 | 4 | 0 |
5Q LOSS WILD-TYPE | 52 | 78 | 90 | 31 | 53 |
Figure S158. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D51V8.png)
P value = 0.00578 (Fisher's exact test), Q value = 0.025
Table S159. Gene #54: '7p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
7P LOSS MUTATED | 10 | 3 | 1 | 2 |
7P LOSS WILD-TYPE | 82 | 84 | 118 | 40 |
Figure S159. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D54V7.png)
P value = 0.04 (Fisher's exact test), Q value = 0.11
Table S160. Gene #54: '7p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
7P LOSS MUTATED | 7 | 5 | 2 | 2 | 0 |
7P LOSS WILD-TYPE | 60 | 81 | 97 | 33 | 53 |
Figure S160. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D54V8.png)
P value = 0.0261 (Fisher's exact test), Q value = 0.077
Table S161. Gene #55: '7q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
7Q LOSS MUTATED | 6 | 6 | 5 | 4 | 0 |
7Q LOSS WILD-TYPE | 38 | 89 | 51 | 118 | 48 |
Figure S161. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D55V6.png)
P value = 0.00017 (Fisher's exact test), Q value = 0.0021
Table S162. Gene #55: '7q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
7Q LOSS MUTATED | 14 | 3 | 1 | 3 |
7Q LOSS WILD-TYPE | 78 | 84 | 118 | 39 |
Figure S162. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D55V7.png)
P value = 0.00507 (Fisher's exact test), Q value = 0.023
Table S163. Gene #55: '7q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
7Q LOSS MUTATED | 7 | 5 | 3 | 6 | 0 |
7Q LOSS WILD-TYPE | 60 | 81 | 96 | 29 | 53 |
Figure S163. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D55V8.png)
P value = 0.00021 (Fisher's exact test), Q value = 0.0025
Table S164. Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
8P LOSS MUTATED | 66 | 73 | 51 |
8P LOSS WILD-TYPE | 43 | 51 | 86 |
Figure S164. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D56V1.png)
P value = 0.0194 (Fisher's exact test), Q value = 0.063
Table S165. Gene #56: '8p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
8P LOSS MUTATED | 34 | 48 | 44 | 25 | 35 |
8P LOSS WILD-TYPE | 27 | 49 | 24 | 44 | 34 |
Figure S165. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D56V3.png)
P value = 0.0291 (Fisher's exact test), Q value = 0.084
Table S166. Gene #56: '8p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
8P LOSS MUTATED | 23 | 45 | 38 | 53 | 28 |
8P LOSS WILD-TYPE | 21 | 50 | 18 | 69 | 20 |
Figure S166. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D56V6.png)
P value = 0.00145 (Fisher's exact test), Q value = 0.0094
Table S167. Gene #57: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
8Q LOSS MUTATED | 6 | 25 | 12 |
8Q LOSS WILD-TYPE | 103 | 99 | 125 |
Figure S167. Get High-res Image Gene #57: '8q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D57V1.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00046
Table S168. Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
9P LOSS MUTATED | 31 | 58 | 29 |
9P LOSS WILD-TYPE | 78 | 66 | 108 |
Figure S168. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D58V1.png)
P value = 0.0221 (Fisher's exact test), Q value = 0.069
Table S169. Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
9P LOSS MUTATED | 22 | 48 | 48 |
9P LOSS WILD-TYPE | 66 | 119 | 67 |
Figure S169. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D58V2.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.0035
Table S170. Gene #58: '9p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
9P LOSS MUTATED | 24 | 26 | 34 | 21 | 11 |
9P LOSS WILD-TYPE | 37 | 71 | 34 | 48 | 58 |
Figure S170. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D58V3.png)
P value = 0.00493 (Fisher's exact test), Q value = 0.023
Table S171. Gene #58: '9p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
9P LOSS MUTATED | 21 | 17 | 30 | 38 | 10 |
9P LOSS WILD-TYPE | 33 | 39 | 84 | 46 | 46 |
Figure S171. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D58V4.png)
P value = 0.00924 (Fisher's exact test), Q value = 0.037
Table S172. Gene #58: '9p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
9P LOSS MUTATED | 15 | 28 | 22 | 47 | 6 |
9P LOSS WILD-TYPE | 29 | 67 | 34 | 75 | 42 |
Figure S172. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D58V6.png)
P value = 0.0297 (Fisher's exact test), Q value = 0.085
Table S173. Gene #58: '9p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
9P LOSS MUTATED | 31 | 31 | 30 | 21 |
9P LOSS WILD-TYPE | 61 | 56 | 89 | 21 |
Figure S173. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D58V7.png)
P value = 0.0117 (Fisher's exact test), Q value = 0.044
Table S174. Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
9P LOSS MUTATED | 28 | 26 | 39 | 12 | 8 |
9P LOSS WILD-TYPE | 39 | 60 | 60 | 23 | 45 |
Figure S174. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D58V8.png)
P value = 0.00037 (Fisher's exact test), Q value = 0.0037
Table S175. Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
9Q LOSS MUTATED | 28 | 52 | 27 |
9Q LOSS WILD-TYPE | 81 | 72 | 110 |
Figure S175. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D59V1.png)
P value = 0.0124 (Fisher's exact test), Q value = 0.046
Table S176. Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
9Q LOSS MUTATED | 19 | 43 | 45 |
9Q LOSS WILD-TYPE | 69 | 124 | 70 |
Figure S176. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D59V2.png)
P value = 0.0121 (Fisher's exact test), Q value = 0.046
Table S177. Gene #59: '9q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
9Q LOSS MUTATED | 23 | 27 | 26 | 20 | 10 |
9Q LOSS WILD-TYPE | 38 | 70 | 42 | 49 | 59 |
Figure S177. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D59V3.png)
P value = 0.00324 (Fisher's exact test), Q value = 0.018
Table S178. Gene #59: '9q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
9Q LOSS MUTATED | 19 | 15 | 30 | 35 | 7 |
9Q LOSS WILD-TYPE | 35 | 41 | 84 | 49 | 49 |
Figure S178. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D59V4.png)
P value = 0.0162 (Fisher's exact test), Q value = 0.056
Table S179. Gene #59: '9q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
9Q LOSS MUTATED | 14 | 25 | 20 | 41 | 5 |
9Q LOSS WILD-TYPE | 30 | 70 | 36 | 81 | 43 |
Figure S179. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D59V6.png)
P value = 0.00139 (Fisher's exact test), Q value = 0.0092
Table S180. Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
9Q LOSS MUTATED | 26 | 22 | 35 | 12 | 5 |
9Q LOSS WILD-TYPE | 41 | 64 | 64 | 23 | 48 |
Figure S180. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D59V8.png)
P value = 0.0235 (Fisher's exact test), Q value = 0.07
Table S181. Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
10P LOSS MUTATED | 6 | 20 | 19 |
10P LOSS WILD-TYPE | 103 | 104 | 118 |
Figure S181. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D60V1.png)
P value = 0.00089 (Fisher's exact test), Q value = 0.0069
Table S182. Gene #60: '10p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
10P LOSS MUTATED | 13 | 17 | 3 | 10 | 2 |
10P LOSS WILD-TYPE | 48 | 80 | 65 | 59 | 67 |
Figure S182. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D60V3.png)
P value = 0.00282 (Fisher's exact test), Q value = 0.016
Table S183. Gene #60: '10p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
10P LOSS MUTATED | 12 | 4 | 21 | 6 | 2 |
10P LOSS WILD-TYPE | 42 | 52 | 93 | 78 | 54 |
Figure S183. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D60V4.png)
P value = 0.00653 (Fisher's exact test), Q value = 0.028
Table S184. Gene #60: '10p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
10P LOSS MUTATED | 4 | 20 | 2 | 17 | 2 |
10P LOSS WILD-TYPE | 40 | 75 | 54 | 105 | 46 |
Figure S184. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D60V6.png)
P value = 0.0199 (Fisher's exact test), Q value = 0.064
Table S185. Gene #60: '10p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
10P LOSS MUTATED | 6 | 19 | 13 | 3 | 2 |
10P LOSS WILD-TYPE | 61 | 67 | 86 | 32 | 51 |
Figure S185. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D60V8.png)
P value = 0.00871 (Fisher's exact test), Q value = 0.035
Table S186. Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
10Q LOSS MUTATED | 12 | 32 | 32 |
10Q LOSS WILD-TYPE | 97 | 92 | 105 |
Figure S186. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D61V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S187. Gene #61: '10q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
10Q LOSS MUTATED | 28 | 25 | 4 | 14 | 4 |
10Q LOSS WILD-TYPE | 33 | 72 | 64 | 55 | 65 |
Figure S187. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D61V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S188. Gene #61: '10q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
10Q LOSS MUTATED | 23 | 8 | 30 | 9 | 5 |
10Q LOSS WILD-TYPE | 31 | 48 | 84 | 75 | 51 |
Figure S188. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D61V4.png)
P value = 4e-05 (Fisher's exact test), Q value = 6e-04
Table S189. Gene #61: '10q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
10Q LOSS MUTATED | 10 | 34 | 7 | 23 | 2 |
10Q LOSS WILD-TYPE | 34 | 61 | 49 | 99 | 46 |
Figure S189. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D61V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S190. Gene #61: '10q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
10Q LOSS MUTATED | 15 | 32 | 17 | 9 | 1 |
10Q LOSS WILD-TYPE | 52 | 54 | 82 | 26 | 52 |
Figure S190. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D61V8.png)
P value = 0.0199 (Fisher's exact test), Q value = 0.064
Table S191. Gene #62: '11p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
11P LOSS MUTATED | 20 | 11 | 12 | 11 | 10 |
11P LOSS WILD-TYPE | 41 | 86 | 56 | 58 | 59 |
Figure S191. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D62V3.png)
P value = 0.00457 (Fisher's exact test), Q value = 0.022
Table S192. Gene #62: '11p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
11P LOSS MUTATED | 15 | 5 | 15 | 23 | 6 |
11P LOSS WILD-TYPE | 39 | 51 | 99 | 61 | 50 |
Figure S192. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D62V4.png)
P value = 0.00125 (Fisher's exact test), Q value = 0.0085
Table S193. Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
11P LOSS MUTATED | 27 | 12 | 11 | 9 |
11P LOSS WILD-TYPE | 65 | 75 | 108 | 33 |
Figure S193. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D62V7.png)
P value = 0.00555 (Fisher's exact test), Q value = 0.024
Table S194. Gene #62: '11p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
11P LOSS MUTATED | 22 | 13 | 14 | 6 | 4 |
11P LOSS WILD-TYPE | 45 | 73 | 85 | 29 | 49 |
Figure S194. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D62V8.png)
P value = 0.00297 (Fisher's exact test), Q value = 0.016
Table S195. Gene #63: '11q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
11Q LOSS MUTATED | 30 | 12 | 16 | 9 |
11Q LOSS WILD-TYPE | 62 | 75 | 103 | 33 |
Figure S195. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D63V7.png)
P value = 0.0161 (Fisher's exact test), Q value = 0.056
Table S196. Gene #63: '11q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
11Q LOSS MUTATED | 22 | 19 | 15 | 6 | 5 |
11Q LOSS WILD-TYPE | 45 | 67 | 84 | 29 | 48 |
Figure S196. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D63V8.png)
P value = 0.00085 (Fisher's exact test), Q value = 0.0066
Table S197. Gene #64: '12p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
12P LOSS MUTATED | 15 | 35 | 15 |
12P LOSS WILD-TYPE | 94 | 89 | 122 |
Figure S197. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D64V1.png)
P value = 0.028 (Fisher's exact test), Q value = 0.081
Table S198. Gene #64: '12p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
12P LOSS MUTATED | 19 | 20 | 9 | 9 | 8 |
12P LOSS WILD-TYPE | 42 | 77 | 59 | 60 | 61 |
Figure S198. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D64V3.png)
P value = 0.00025 (Fisher's exact test), Q value = 0.0028
Table S199. Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
13Q LOSS MUTATED | 27 | 59 | 36 |
13Q LOSS WILD-TYPE | 82 | 65 | 101 |
Figure S199. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D66V1.png)
P value = 0.0359 (Fisher's exact test), Q value = 0.098
Table S200. Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
13Q LOSS MUTATED | 29 | 45 | 48 |
13Q LOSS WILD-TYPE | 59 | 122 | 67 |
Figure S200. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D66V2.png)
P value = 0.00676 (Fisher's exact test), Q value = 0.029
Table S201. Gene #66: '13q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
13Q LOSS MUTATED | 27 | 28 | 27 | 25 | 12 |
13Q LOSS WILD-TYPE | 34 | 69 | 41 | 44 | 57 |
Figure S201. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D66V3.png)
P value = 3e-04 (Fisher's exact test), Q value = 0.0032
Table S202. Gene #66: '13q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
13Q LOSS MUTATED | 26 | 11 | 37 | 36 | 9 |
13Q LOSS WILD-TYPE | 28 | 45 | 77 | 48 | 47 |
Figure S202. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D66V4.png)
P value = 0.00272 (Fisher's exact test), Q value = 0.016
Table S203. Gene #66: '13q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
13Q LOSS MUTATED | 26 | 28 | 14 | 53 |
13Q LOSS WILD-TYPE | 39 | 99 | 35 | 71 |
Figure S203. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D66V5.png)
P value = 0.00494 (Fisher's exact test), Q value = 0.023
Table S204. Gene #66: '13q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
13Q LOSS MUTATED | 19 | 35 | 15 | 46 | 6 |
13Q LOSS WILD-TYPE | 25 | 60 | 41 | 76 | 42 |
Figure S204. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D66V6.png)
P value = 0.0203 (Fisher's exact test), Q value = 0.065
Table S205. Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
13Q LOSS MUTATED | 35 | 37 | 28 | 16 |
13Q LOSS WILD-TYPE | 57 | 50 | 91 | 26 |
Figure S205. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D66V7.png)
P value = 0.00123 (Fisher's exact test), Q value = 0.0085
Table S206. Gene #66: '13q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
13Q LOSS MUTATED | 22 | 33 | 40 | 15 | 6 |
13Q LOSS WILD-TYPE | 45 | 53 | 59 | 20 | 47 |
Figure S206. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D66V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S207. Gene #67: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
14Q LOSS MUTATED | 17 | 64 | 26 |
14Q LOSS WILD-TYPE | 92 | 60 | 111 |
Figure S207. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D67V1.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
Table S208. Gene #67: '14q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
14Q LOSS MUTATED | 32 | 18 | 25 | 21 | 10 |
14Q LOSS WILD-TYPE | 29 | 79 | 43 | 48 | 59 |
Figure S208. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D67V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S209. Gene #67: '14q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
14Q LOSS MUTATED | 30 | 10 | 25 | 33 | 8 |
14Q LOSS WILD-TYPE | 24 | 46 | 89 | 51 | 48 |
Figure S209. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D67V4.png)
P value = 0.00025 (Fisher's exact test), Q value = 0.0028
Table S210. Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
14Q LOSS MUTATED | 40 | 29 | 20 | 13 |
14Q LOSS WILD-TYPE | 52 | 58 | 99 | 29 |
Figure S210. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D67V7.png)
P value = 0.0158 (Fisher's exact test), Q value = 0.055
Table S211. Gene #67: '14q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
14Q LOSS MUTATED | 26 | 23 | 33 | 13 | 7 |
14Q LOSS WILD-TYPE | 41 | 63 | 66 | 22 | 46 |
Figure S211. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D67V8.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.00082
Table S212. Gene #68: '15q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
15Q LOSS MUTATED | 22 | 9 | 19 | 10 | 6 |
15Q LOSS WILD-TYPE | 39 | 88 | 49 | 59 | 63 |
Figure S212. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D68V3.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.00092
Table S213. Gene #68: '15q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
15Q LOSS MUTATED | 20 | 5 | 12 | 22 | 7 |
15Q LOSS WILD-TYPE | 34 | 51 | 102 | 62 | 49 |
Figure S213. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D68V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S214. Gene #68: '15q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
15Q LOSS MUTATED | 28 | 10 | 11 | 15 |
15Q LOSS WILD-TYPE | 64 | 77 | 108 | 27 |
Figure S214. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D68V7.png)
P value = 0.018 (Fisher's exact test), Q value = 0.061
Table S215. Gene #68: '15q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
15Q LOSS MUTATED | 20 | 12 | 22 | 6 | 4 |
15Q LOSS WILD-TYPE | 47 | 74 | 77 | 29 | 49 |
Figure S215. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D68V8.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00032
Table S216. Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
16P LOSS MUTATED | 25 | 57 | 27 |
16P LOSS WILD-TYPE | 84 | 67 | 110 |
Figure S216. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D69V1.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.00073
Table S217. Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
16P LOSS MUTATED | 27 | 32 | 50 |
16P LOSS WILD-TYPE | 61 | 135 | 65 |
Figure S217. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D69V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S218. Gene #69: '16p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
16P LOSS MUTATED | 21 | 19 | 51 | 12 | 4 |
16P LOSS WILD-TYPE | 40 | 78 | 17 | 57 | 65 |
Figure S218. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D69V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S219. Gene #69: '16p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
16P LOSS MUTATED | 22 | 13 | 25 | 44 | 3 |
16P LOSS WILD-TYPE | 32 | 43 | 89 | 40 | 53 |
Figure S219. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D69V4.png)
P value = 0.00401 (Fisher's exact test), Q value = 0.02
Table S220. Gene #69: '16p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
16P LOSS MUTATED | 13 | 34 | 25 | 36 |
16P LOSS WILD-TYPE | 52 | 93 | 24 | 88 |
Figure S220. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D69V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S221. Gene #69: '16p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
16P LOSS MUTATED | 10 | 21 | 27 | 48 | 2 |
16P LOSS WILD-TYPE | 34 | 74 | 29 | 74 | 46 |
Figure S221. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D69V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S222. Gene #69: '16p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
16P LOSS MUTATED | 39 | 22 | 16 | 27 |
16P LOSS WILD-TYPE | 53 | 65 | 103 | 15 |
Figure S222. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D69V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S223. Gene #69: '16p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
16P LOSS MUTATED | 30 | 19 | 42 | 8 | 5 |
16P LOSS WILD-TYPE | 37 | 67 | 57 | 27 | 48 |
Figure S223. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D69V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S224. Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
16Q LOSS MUTATED | 43 | 69 | 33 |
16Q LOSS WILD-TYPE | 66 | 55 | 104 |
Figure S224. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D70V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S225. Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
16Q LOSS MUTATED | 25 | 51 | 69 |
16Q LOSS WILD-TYPE | 63 | 116 | 46 |
Figure S225. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D70V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S226. Gene #70: '16q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
16Q LOSS MUTATED | 30 | 33 | 58 | 15 | 7 |
16Q LOSS WILD-TYPE | 31 | 64 | 10 | 54 | 62 |
Figure S226. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D70V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S227. Gene #70: '16q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
16Q LOSS MUTATED | 23 | 16 | 46 | 53 | 5 |
16Q LOSS WILD-TYPE | 31 | 40 | 68 | 31 | 51 |
Figure S227. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D70V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S228. Gene #70: '16q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
16Q LOSS MUTATED | 15 | 33 | 33 | 60 | 3 |
16Q LOSS WILD-TYPE | 29 | 62 | 23 | 62 | 45 |
Figure S228. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D70V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S229. Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
16Q LOSS MUTATED | 53 | 31 | 28 | 27 |
16Q LOSS WILD-TYPE | 39 | 56 | 91 | 15 |
Figure S229. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D70V7.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S230. Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
16Q LOSS MUTATED | 39 | 32 | 49 | 11 | 8 |
16Q LOSS WILD-TYPE | 28 | 54 | 50 | 24 | 45 |
Figure S230. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D70V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S231. Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
17P LOSS MUTATED | 36 | 84 | 65 |
17P LOSS WILD-TYPE | 73 | 40 | 72 |
Figure S231. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D71V1.png)
P value = 0.022 (Fisher's exact test), Q value = 0.069
Table S232. Gene #71: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
17P LOSS MUTATED | 42 | 96 | 47 |
17P LOSS WILD-TYPE | 46 | 71 | 68 |
Figure S232. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D71V2.png)
P value = 0.00535 (Fisher's exact test), Q value = 0.024
Table S233. Gene #71: '17p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
17P LOSS MUTATED | 42 | 53 | 30 | 29 | 28 |
17P LOSS WILD-TYPE | 19 | 44 | 38 | 40 | 41 |
Figure S233. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D71V3.png)
P value = 0.0232 (Fisher's exact test), Q value = 0.07
Table S234. Gene #71: '17p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
17P LOSS MUTATED | 32 | 23 | 68 | 36 | 23 |
17P LOSS WILD-TYPE | 22 | 33 | 46 | 48 | 33 |
Figure S234. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D71V4.png)
P value = 0.00361 (Fisher's exact test), Q value = 0.019
Table S235. Gene #71: '17p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
17P LOSS MUTATED | 46 | 60 | 23 | 55 |
17P LOSS WILD-TYPE | 19 | 67 | 26 | 69 |
Figure S235. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D71V5.png)
P value = 0.00053 (Fisher's exact test), Q value = 0.0045
Table S236. Gene #71: '17p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
17P LOSS MUTATED | 34 | 54 | 23 | 52 | 21 |
17P LOSS WILD-TYPE | 10 | 41 | 33 | 70 | 27 |
Figure S236. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D71V6.png)
P value = 0.00051 (Fisher's exact test), Q value = 0.0045
Table S237. Gene #71: '17p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
17P LOSS MUTATED | 28 | 52 | 46 | 28 | 22 |
17P LOSS WILD-TYPE | 39 | 34 | 53 | 7 | 31 |
Figure S237. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D71V8.png)
P value = 0.0485 (Fisher's exact test), Q value = 0.12
Table S238. Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
18P LOSS MUTATED | 18 | 34 | 22 |
18P LOSS WILD-TYPE | 91 | 90 | 115 |
Figure S238. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D73V1.png)
P value = 0.0114 (Fisher's exact test), Q value = 0.044
Table S239. Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
18P LOSS MUTATED | 14 | 26 | 34 |
18P LOSS WILD-TYPE | 74 | 141 | 81 |
Figure S239. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D73V2.png)
P value = 0.00285 (Fisher's exact test), Q value = 0.016
Table S240. Gene #73: '18p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
18P LOSS MUTATED | 10 | 5 | 18 | 29 | 12 |
18P LOSS WILD-TYPE | 44 | 51 | 96 | 55 | 44 |
Figure S240. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D73V4.png)
P value = 0.00416 (Fisher's exact test), Q value = 0.021
Table S241. Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
18Q LOSS MUTATED | 19 | 39 | 21 |
18Q LOSS WILD-TYPE | 90 | 85 | 116 |
Figure S241. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D74V1.png)
P value = 0.004 (Fisher's exact test), Q value = 0.02
Table S242. Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 88 | 167 | 115 |
18Q LOSS MUTATED | 13 | 29 | 37 |
18Q LOSS WILD-TYPE | 75 | 138 | 78 |
Figure S242. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D74V2.png)
P value = 0.00041 (Fisher's exact test), Q value = 0.0039
Table S243. Gene #74: '18q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
18Q LOSS MUTATED | 8 | 5 | 21 | 32 | 13 |
18Q LOSS WILD-TYPE | 46 | 51 | 93 | 52 | 43 |
Figure S243. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D74V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S244. Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
19P LOSS MUTATED | 9 | 37 | 9 |
19P LOSS WILD-TYPE | 100 | 87 | 128 |
Figure S244. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D75V1.png)
P value = 0.0324 (Fisher's exact test), Q value = 0.091
Table S245. Gene #75: '19p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
19P LOSS MUTATED | 17 | 14 | 10 | 7 | 6 |
19P LOSS WILD-TYPE | 44 | 83 | 58 | 62 | 63 |
Figure S245. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D75V3.png)
P value = 0.0036 (Fisher's exact test), Q value = 0.019
Table S246. Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 99 | 35 | 53 |
19P LOSS MUTATED | 17 | 12 | 10 | 10 | 3 |
19P LOSS WILD-TYPE | 50 | 74 | 89 | 25 | 50 |
Figure S246. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D75V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S247. Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
19Q LOSS MUTATED | 6 | 29 | 4 |
19Q LOSS WILD-TYPE | 103 | 95 | 133 |
Figure S247. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D76V1.png)
P value = 0.0311 (Fisher's exact test), Q value = 0.088
Table S248. Gene #76: '19q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 65 | 127 | 49 | 124 |
19Q LOSS MUTATED | 12 | 16 | 3 | 7 |
19Q LOSS WILD-TYPE | 53 | 111 | 46 | 117 |
Figure S248. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D76V5.png)
P value = 0.0135 (Fisher's exact test), Q value = 0.049
Table S249. Gene #78: '20q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
20Q LOSS MUTATED | 8 | 3 | 1 | 0 |
20Q LOSS WILD-TYPE | 84 | 84 | 118 | 42 |
Figure S249. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D78V7.png)
P value = 5e-04 (Fisher's exact test), Q value = 0.0045
Table S250. Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
21Q LOSS MUTATED | 37 | 48 | 25 |
21Q LOSS WILD-TYPE | 72 | 76 | 112 |
Figure S250. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D79V1.png)
P value = 0.00021 (Fisher's exact test), Q value = 0.0025
Table S251. Gene #79: '21q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
21Q LOSS MUTATED | 32 | 17 | 21 | 18 | 19 |
21Q LOSS WILD-TYPE | 29 | 80 | 47 | 51 | 50 |
Figure S251. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D79V3.png)
P value = 0.0358 (Fisher's exact test), Q value = 0.098
Table S252. Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
22Q LOSS MUTATED | 12 | 28 | 30 |
22Q LOSS WILD-TYPE | 97 | 96 | 107 |
Figure S252. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D80V1.png)
P value = 0.00206 (Fisher's exact test), Q value = 0.013
Table S253. Gene #80: '22q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 61 | 97 | 68 | 69 | 69 |
22Q LOSS MUTATED | 23 | 19 | 8 | 12 | 8 |
22Q LOSS WILD-TYPE | 38 | 78 | 60 | 57 | 61 |
Figure S253. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D80V3.png)
P value = 0.0333 (Fisher's exact test), Q value = 0.092
Table S254. Gene #81: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
XP LOSS MUTATED | 22 | 42 | 30 |
XP LOSS WILD-TYPE | 87 | 82 | 107 |
Figure S254. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D81V1.png)
P value = 0.0202 (Fisher's exact test), Q value = 0.065
Table S255. Gene #81: 'xp loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 54 | 56 | 114 | 84 | 56 |
XP LOSS MUTATED | 14 | 10 | 39 | 13 | 17 |
XP LOSS WILD-TYPE | 40 | 46 | 75 | 71 | 39 |
Figure S255. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D81V4.png)
P value = 0.0044 (Fisher's exact test), Q value = 0.022
Table S256. Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 92 | 87 | 119 | 42 |
XP LOSS MUTATED | 23 | 18 | 42 | 4 |
XP LOSS WILD-TYPE | 69 | 69 | 77 | 38 |
Figure S256. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D81V7.png)
P value = 0.0125 (Fisher's exact test), Q value = 0.046
Table S257. Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 109 | 124 | 137 |
XQ LOSS MUTATED | 14 | 34 | 22 |
XQ LOSS WILD-TYPE | 95 | 90 | 115 |
Figure S257. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D82V1.png)
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Copy number data file = broad_values_by_arm.txt from GISTIC pipeline
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Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LIHC-TP/15089886/transformed.cor.cli.txt
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Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LIHC-TP/15111045/LIHC-TP.transferedmergedcluster.txt
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Number of patients = 370
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Number of significantly arm-level cnvs = 82
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Number of molecular subtypes = 8
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Exclude genes that fewer than K tumors have mutations, K = 3
For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.
In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.