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, 264 significant findings detected with P value < 0.05 and Q value < 0.25.
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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'.
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2q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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3p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CNMF'.
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3q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CNMF'.
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4p gain cnv correlated to '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', 'MIRSEQ_CNMF', 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', 'METHLYATION_CNMF', and 'MIRSEQ_CNMF'.
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7q gain cnv correlated to 'METHLYATION_CNMF'.
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8p gain cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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11p gain cnv correlated to 'MRNASEQ_CHIERARCHICAL'.
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12p gain cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12q gain cnv correlated to '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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17p gain cnv correlated to 'CN_CNMF'.
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17q gain cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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18q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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19p gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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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', 'MIRSEQ_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', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xq gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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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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1q loss cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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2q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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3p loss cnv correlated to 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q loss cnv correlated to 'MRNASEQ_CNMF', 'MIRSEQ_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_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', '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 'MRNASEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8p loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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9p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11p loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q loss cnv correlated to 'CN_CNMF', '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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12q loss cnv correlated to 'CN_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 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', '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_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p loss cnv correlated to 'CN_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' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19q loss cnv correlated to 'CN_CNMF'.
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20q loss cnv correlated to 'MIRSEQ_MATURE_CNMF'.
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21q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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22q loss cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
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xp loss cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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xq loss cnv correlated to 'CN_CNMF' and 'METHLYATION_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, 264 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 | |
xq gain | 60 (16%) | 310 |
0.0117 (0.0435) |
0.00978 (0.0386) |
0.00106 (0.00717) |
0.00451 (0.0216) |
0.00085 (0.00606) |
9e-05 (0.00107) |
0.00599 (0.0262) |
7e-05 (0.00085) |
1p loss | 78 (21%) | 292 |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
0.00014 (0.00148) |
0.0199 (0.0622) |
0.00087 (0.00614) |
0.0161 (0.0543) |
4q loss | 146 (39%) | 224 |
1e-05 (0.00016) |
0.00613 (0.0265) |
1e-05 (0.00016) |
0.00082 (0.00591) |
0.00239 (0.0134) |
0.00459 (0.0218) |
3e-05 (0.00041) |
0.00267 (0.0145) |
13q loss | 122 (33%) | 248 |
1e-05 (0.00016) |
0.0383 (0.103) |
0.00233 (0.0133) |
0.00033 (0.00305) |
0.00337 (0.017) |
0.00468 (0.0219) |
0.00054 (0.00412) |
0.00064 (0.00472) |
16p loss | 108 (29%) | 262 |
1e-05 (0.00016) |
0.0001 (0.00113) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
16q loss | 145 (39%) | 225 |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
1e-05 (0.00016) |
19q gain | 71 (19%) | 299 |
0.154 (0.284) |
0.00213 (0.0124) |
0.00054 (0.00412) |
3e-05 (0.00041) |
0.0217 (0.0655) |
0.00151 (0.00987) |
4e-05 (0.000536) |
0.00043 (0.00357) |
9p loss | 119 (32%) | 251 |
1e-05 (0.00016) |
0.0402 (0.105) |
0.00014 (0.00148) |
0.00604 (0.0262) |
0.0101 (0.0391) |
0.00845 (0.0349) |
0.0992 (0.206) |
0.00889 (0.0362) |
9q loss | 110 (30%) | 260 |
1e-05 (0.00016) |
0.00991 (0.0387) |
0.00227 (0.0131) |
0.00162 (0.0102) |
0.0277 (0.0787) |
0.00854 (0.035) |
0.261 (0.398) |
0.00041 (0.00354) |
10q loss | 78 (21%) | 292 |
1e-05 (0.00016) |
0.0448 (0.113) |
1e-05 (0.00016) |
3e-05 (0.00041) |
0.00322 (0.0165) |
0.0001 (0.00113) |
0.081 (0.179) |
1e-05 (0.00016) |
6p gain | 116 (31%) | 254 |
1e-05 (0.00016) |
0.00518 (0.0236) |
0.00099 (0.00676) |
0.0231 (0.0685) |
0.00964 (0.0386) |
0.00401 (0.0198) |
0.613 (0.71) |
0.226 (0.366) |
19p gain | 56 (15%) | 314 |
0.245 (0.388) |
0.00974 (0.0386) |
0.00334 (0.017) |
0.0101 (0.0391) |
0.0388 (0.103) |
0.00669 (0.0283) |
0.00247 (0.0137) |
0.0593 (0.138) |
4p loss | 105 (28%) | 265 |
1e-05 (0.00016) |
0.0709 (0.16) |
0.00066 (0.00481) |
0.0187 (0.0596) |
0.133 (0.255) |
0.0159 (0.0543) |
0.017 (0.0558) |
0.00039 (0.00341) |
5q loss | 37 (10%) | 333 |
0.0122 (0.0442) |
0.0153 (0.053) |
0.0532 (0.129) |
0.00035 (0.0031) |
0.00511 (0.0236) |
0.0594 (0.138) |
0.00011 (0.00122) |
0.00061 (0.00455) |
10p loss | 47 (13%) | 323 |
0.00015 (0.00154) |
0.417 (0.542) |
0.00307 (0.0162) |
0.00438 (0.0213) |
0.0104 (0.0398) |
0.0138 (0.049) |
0.124 (0.24) |
0.0151 (0.0524) |
15q loss | 67 (18%) | 303 |
0.00042 (0.00357) |
0.156 (0.286) |
0.00016 (0.00161) |
7e-05 (0.00085) |
0.031 (0.0865) |
0.249 (0.389) |
0.00152 (0.00987) |
0.0204 (0.063) |
17p loss | 185 (50%) | 185 |
1e-05 (0.00016) |
0.0837 (0.183) |
0.00187 (0.0113) |
0.0219 (0.0658) |
0.00199 (0.0118) |
0.00034 (0.00306) |
0.281 (0.421) |
0.00022 (0.00215) |
1q gain | 226 (61%) | 144 |
1e-05 (0.00016) |
0.0001 (0.00113) |
3e-05 (0.00041) |
0.00158 (0.0101) |
0.554 (0.668) |
0.0209 (0.0642) |
0.714 (0.789) |
0.108 (0.221) |
8q gain | 184 (50%) | 186 |
3e-05 (0.00041) |
0.274 (0.412) |
1e-05 (0.00016) |
1e-05 (0.00016) |
0.446 (0.569) |
0.00644 (0.0276) |
0.46 (0.582) |
0.00193 (0.0115) |
18p gain | 36 (10%) | 334 |
0.00159 (0.0101) |
0.546 (0.661) |
0.0216 (0.0655) |
0.0188 (0.0596) |
0.0339 (0.0938) |
0.192 (0.327) |
0.0129 (0.0462) |
0.474 (0.594) |
20p gain | 107 (29%) | 263 |
1e-05 (0.00016) |
0.289 (0.425) |
0.015 (0.0524) |
0.00177 (0.011) |
0.164 (0.294) |
0.0445 (0.113) |
0.00043 (0.00357) |
0.0512 (0.127) |
3p loss | 52 (14%) | 318 |
0.1 (0.207) |
0.0695 (0.158) |
0.00409 (0.02) |
0.00919 (0.037) |
0.00371 (0.0184) |
0.318 (0.445) |
0.00505 (0.0235) |
0.0417 (0.107) |
5p loss | 29 (8%) | 341 |
0.0168 (0.0554) |
0.145 (0.27) |
0.14 (0.265) |
0.0242 (0.071) |
0.0127 (0.0459) |
0.112 (0.228) |
0.00987 (0.0387) |
0.0161 (0.0543) |
14q loss | 109 (29%) | 261 |
1e-05 (0.00016) |
0.165 (0.295) |
6e-05 (0.000772) |
2e-05 (0.000305) |
0.0554 (0.132) |
0.158 (0.287) |
0.00019 (0.00189) |
0.00463 (0.0219) |
3p gain | 35 (9%) | 335 |
0.0174 (0.0565) |
0.0248 (0.0716) |
0.00203 (0.0119) |
0.0877 (0.189) |
0.0364 (0.0987) |
0.516 (0.631) |
0.0681 (0.157) |
0.304 (0.434) |
10p gain | 58 (16%) | 312 |
0.00315 (0.0165) |
0.606 (0.707) |
0.00818 (0.034) |
0.0201 (0.0626) |
0.142 (0.266) |
0.476 (0.594) |
0.0533 (0.129) |
0.0111 (0.0419) |
12p gain | 40 (11%) | 330 |
0.611 (0.71) |
0.282 (0.421) |
0.00518 (0.0236) |
0.0005 (0.00405) |
0.0575 (0.136) |
0.342 (0.471) |
0.00012 (0.00131) |
0.0266 (0.0761) |
18q gain | 28 (8%) | 342 |
0.0466 (0.117) |
0.849 (0.892) |
0.0518 (0.127) |
0.00318 (0.0165) |
0.0171 (0.0559) |
0.0544 (0.13) |
0.00358 (0.0179) |
0.302 (0.434) |
20q gain | 112 (30%) | 258 |
1e-05 (0.00016) |
0.277 (0.416) |
0.118 (0.235) |
0.0104 (0.0398) |
0.297 (0.431) |
0.039 (0.103) |
0.00056 (0.00422) |
0.14 (0.265) |
22q gain | 48 (13%) | 322 |
0.00028 (0.00262) |
0.142 (0.266) |
0.0389 (0.103) |
0.00187 (0.0113) |
0.123 (0.24) |
0.737 (0.806) |
0.0119 (0.0438) |
0.0688 (0.157) |
7q loss | 21 (6%) | 349 |
0.158 (0.287) |
0.285 (0.423) |
0.0185 (0.0595) |
0.0842 (0.183) |
0.674 (0.759) |
0.035 (0.0956) |
7e-05 (0.00085) |
0.00733 (0.0308) |
11p loss | 63 (17%) | 307 |
0.0115 (0.0427) |
0.862 (0.9) |
0.0549 (0.131) |
0.011 (0.0417) |
0.0957 (0.201) |
0.158 (0.287) |
0.0146 (0.0512) |
0.0161 (0.0543) |
2q gain | 40 (11%) | 330 |
0.0485 (0.121) |
0.481 (0.598) |
0.0144 (0.0509) |
0.00052 (0.00411) |
0.0676 (0.156) |
0.9 (0.926) |
0.0816 (0.179) |
0.344 (0.472) |
3q gain | 38 (10%) | 332 |
0.0131 (0.0468) |
0.258 (0.397) |
0.00298 (0.0159) |
0.0921 (0.196) |
0.0306 (0.0859) |
0.511 (0.627) |
0.0586 (0.137) |
0.718 (0.789) |
4p gain | 27 (7%) | 343 |
0.43 (0.556) |
0.00667 (0.0283) |
0.0122 (0.0442) |
0.00188 (0.0113) |
0.256 (0.395) |
0.443 (0.567) |
0.0867 (0.187) |
0.162 (0.292) |
7p gain | 109 (29%) | 261 |
0.00128 (0.00857) |
0.0247 (0.0716) |
0.791 (0.845) |
0.89 (0.922) |
0.0362 (0.0985) |
0.104 (0.214) |
0.641 (0.734) |
0.455 (0.578) |
8p gain | 73 (20%) | 297 |
0.4 (0.527) |
0.407 (0.531) |
0.00253 (0.0139) |
0.0167 (0.0553) |
0.273 (0.412) |
0.37 (0.499) |
0.885 (0.919) |
0.0279 (0.0789) |
10q gain | 36 (10%) | 334 |
0.00045 (0.00369) |
0.0302 (0.085) |
6e-05 (0.000772) |
0.12 (0.237) |
0.19 (0.325) |
0.0789 (0.176) |
0.214 (0.352) |
0.0831 (0.182) |
12q gain | 47 (13%) | 323 |
0.199 (0.334) |
0.716 (0.789) |
0.00907 (0.0367) |
0.0027 (0.0145) |
0.1 (0.207) |
0.624 (0.719) |
0.00028 (0.00262) |
0.0579 (0.136) |
17q gain | 93 (25%) | 277 |
0.00587 (0.026) |
0.341 (0.471) |
0.306 (0.435) |
0.095 (0.2) |
0.0774 (0.173) |
0.00093 (0.00649) |
0.809 (0.861) |
0.0155 (0.0533) |
xp gain | 41 (11%) | 329 |
0.0244 (0.0713) |
0.122 (0.24) |
0.0235 (0.0694) |
0.376 (0.506) |
0.151 (0.279) |
0.0519 (0.127) |
0.847 (0.892) |
0.0394 (0.103) |
2p loss | 33 (9%) | 337 |
0.00545 (0.0245) |
0.394 (0.523) |
0.00539 (0.0244) |
0.0386 (0.103) |
0.254 (0.393) |
0.708 (0.787) |
0.392 (0.522) |
0.265 (0.403) |
2q loss | 38 (10%) | 332 |
0.00132 (0.00875) |
0.386 (0.517) |
0.00097 (0.0067) |
0.0216 (0.0655) |
0.58 (0.689) |
0.593 (0.699) |
0.901 (0.926) |
0.403 (0.529) |
3q loss | 41 (11%) | 329 |
0.0902 (0.193) |
0.342 (0.471) |
0.00566 (0.0253) |
0.0539 (0.129) |
0.0413 (0.107) |
0.466 (0.587) |
0.00811 (0.0339) |
0.236 (0.379) |
11q loss | 72 (19%) | 298 |
0.0391 (0.103) |
0.801 (0.855) |
0.195 (0.331) |
0.177 (0.311) |
0.438 (0.562) |
0.21 (0.346) |
0.012 (0.0441) |
0.0493 (0.122) |
18p loss | 74 (20%) | 296 |
0.0266 (0.0761) |
0.00236 (0.0133) |
0.567 (0.678) |
0.00322 (0.0165) |
0.9 (0.926) |
0.712 (0.789) |
0.217 (0.355) |
0.291 (0.426) |
18q loss | 79 (21%) | 291 |
0.0163 (0.0543) |
0.00164 (0.0102) |
0.519 (0.633) |
0.00054 (0.00412) |
0.759 (0.819) |
0.404 (0.529) |
0.286 (0.423) |
0.282 (0.421) |
21q loss | 110 (30%) | 260 |
0.0162 (0.0543) |
0.592 (0.699) |
0.00034 (0.00306) |
0.124 (0.24) |
0.455 (0.578) |
0.931 (0.942) |
0.0115 (0.0427) |
0.113 (0.228) |
xp loss | 95 (26%) | 275 |
0.286 (0.423) |
0.0198 (0.0622) |
0.124 (0.24) |
0.0242 (0.071) |
0.0717 (0.161) |
0.315 (0.442) |
0.0227 (0.0677) |
0.203 (0.338) |
6q gain | 67 (18%) | 303 |
0.00015 (0.00154) |
0.156 (0.286) |
0.0349 (0.0956) |
0.29 (0.426) |
0.238 (0.381) |
0.24 (0.382) |
0.649 (0.742) |
0.575 (0.685) |
1q loss | 20 (5%) | 350 |
0.0323 (0.0898) |
0.67 (0.758) |
0.29 (0.426) |
0.485 (0.6) |
0.25 (0.39) |
0.113 (0.228) |
0.516 (0.631) |
0.0189 (0.0596) |
7p loss | 16 (4%) | 354 |
0.397 (0.525) |
0.31 (0.44) |
0.12 (0.238) |
0.353 (0.479) |
0.863 (0.9) |
0.227 (0.367) |
0.0204 (0.063) |
0.0404 (0.105) |
8p loss | 196 (53%) | 174 |
1e-05 (0.00016) |
0.182 (0.316) |
0.0345 (0.0952) |
0.777 (0.834) |
0.771 (0.831) |
0.26 (0.397) |
0.302 (0.434) |
0.738 (0.806) |
12p loss | 66 (18%) | 304 |
2e-05 (0.000305) |
0.359 (0.486) |
0.0181 (0.0584) |
0.302 (0.434) |
0.353 (0.479) |
0.124 (0.24) |
0.18 (0.315) |
0.21 (0.346) |
19p loss | 52 (14%) | 318 |
1e-05 (0.00016) |
0.859 (0.899) |
0.0685 (0.157) |
0.247 (0.388) |
0.0765 (0.171) |
0.148 (0.274) |
0.316 (0.442) |
0.0188 (0.0596) |
22q loss | 70 (19%) | 300 |
0.00452 (0.0216) |
0.177 (0.311) |
0.00265 (0.0145) |
0.16 (0.289) |
0.831 (0.882) |
0.464 (0.585) |
0.566 (0.678) |
0.989 (0.993) |
xq loss | 74 (20%) | 296 |
0.0489 (0.122) |
0.0419 (0.107) |
0.202 (0.338) |
0.186 (0.32) |
0.357 (0.484) |
0.568 (0.678) |
0.619 (0.715) |
0.531 (0.646) |
2p gain | 43 (12%) | 327 |
0.137 (0.26) |
0.249 (0.389) |
0.146 (0.271) |
0.00024 (0.00232) |
0.0946 (0.2) |
0.968 (0.974) |
0.117 (0.234) |
0.299 (0.433) |
5p gain | 134 (36%) | 236 |
1e-05 (0.00016) |
0.252 (0.39) |
0.909 (0.928) |
0.749 (0.812) |
0.632 (0.726) |
0.145 (0.27) |
0.0985 (0.206) |
0.554 (0.668) |
5q gain | 110 (30%) | 260 |
1e-05 (0.00016) |
0.0816 (0.179) |
0.742 (0.807) |
0.906 (0.926) |
0.559 (0.671) |
0.904 (0.926) |
0.786 (0.841) |
0.891 (0.922) |
7q gain | 110 (30%) | 260 |
0.205 (0.339) |
0.00051 (0.00408) |
0.537 (0.652) |
0.841 (0.889) |
0.246 (0.388) |
0.238 (0.38) |
0.679 (0.761) |
0.44 (0.564) |
11p gain | 18 (5%) | 352 |
0.435 (0.561) |
0.306 (0.435) |
0.199 (0.334) |
0.0227 (0.0677) |
0.615 (0.712) |
0.483 (0.599) |
0.0579 (0.136) |
0.229 (0.369) |
13q gain | 23 (6%) | 347 |
0.0366 (0.0987) |
0.474 (0.594) |
0.169 (0.3) |
0.409 (0.532) |
0.0525 (0.128) |
0.292 (0.426) |
0.168 (0.298) |
0.242 (0.384) |
16p gain | 32 (9%) | 338 |
0.175 (0.309) |
0.919 (0.933) |
0.0451 (0.114) |
0.995 (0.997) |
0.208 (0.344) |
0.183 (0.317) |
0.117 (0.233) |
0.217 (0.355) |
16q gain | 17 (5%) | 353 |
0.123 (0.24) |
0.07 (0.159) |
0.00604 (0.0262) |
0.313 (0.44) |
0.936 (0.945) |
0.912 (0.929) |
0.19 (0.325) |
0.717 (0.789) |
17p gain | 30 (8%) | 340 |
0.0367 (0.0988) |
0.384 (0.515) |
0.457 (0.579) |
0.0988 (0.206) |
0.274 (0.412) |
0.755 (0.816) |
0.178 (0.312) |
0.325 (0.451) |
12q loss | 36 (10%) | 334 |
0.0267 (0.0761) |
0.902 (0.926) |
0.3 (0.433) |
0.66 (0.751) |
0.6 (0.703) |
0.917 (0.932) |
0.804 (0.856) |
0.882 (0.917) |
19q loss | 39 (11%) | 331 |
1e-05 (0.00016) |
0.323 (0.45) |
0.156 (0.286) |
0.905 (0.926) |
0.113 (0.228) |
0.0949 (0.2) |
0.24 (0.382) |
0.135 (0.257) |
20q loss | 13 (4%) | 357 |
1 (1.00) |
0.259 (0.397) |
0.202 (0.338) |
0.113 (0.228) |
0.557 (0.671) |
0.638 (0.732) |
0.0416 (0.107) |
0.3 (0.433) |
1p gain | 62 (17%) | 308 |
0.0584 (0.137) |
0.238 (0.38) |
0.167 (0.298) |
0.659 (0.751) |
0.35 (0.477) |
0.105 (0.215) |
0.196 (0.331) |
0.0801 (0.178) |
4q gain | 7 (2%) | 363 |
0.304 (0.434) |
0.707 (0.787) |
0.728 (0.798) |
0.406 (0.531) |
0.194 (0.331) |
0.85 (0.892) |
0.293 (0.426) |
0.594 (0.699) |
9p gain | 19 (5%) | 351 |
0.313 (0.44) |
0.687 (0.767) |
0.751 (0.813) |
0.668 (0.757) |
0.599 (0.703) |
0.401 (0.527) |
0.125 (0.241) |
0.323 (0.45) |
9q gain | 19 (5%) | 351 |
0.602 (0.704) |
0.687 (0.767) |
0.597 (0.702) |
0.658 (0.751) |
0.741 (0.807) |
0.397 (0.525) |
0.593 (0.699) |
0.437 (0.562) |
11q gain | 20 (5%) | 350 |
0.346 (0.473) |
0.671 (0.758) |
0.475 (0.594) |
0.0929 (0.197) |
0.782 (0.838) |
0.611 (0.71) |
0.0519 (0.127) |
0.251 (0.39) |
14q gain | 22 (6%) | 348 |
0.185 (0.319) |
0.5 (0.615) |
0.362 (0.488) |
0.133 (0.255) |
0.562 (0.674) |
0.174 (0.308) |
0.142 (0.266) |
0.734 (0.804) |
15q gain | 33 (9%) | 337 |
0.182 (0.317) |
0.584 (0.693) |
0.899 (0.926) |
0.715 (0.789) |
0.952 (0.959) |
0.284 (0.423) |
0.544 (0.66) |
0.843 (0.891) |
21q gain | 26 (7%) | 344 |
0.184 (0.318) |
0.934 (0.944) |
0.09 (0.193) |
0.388 (0.518) |
0.925 (0.938) |
0.225 (0.365) |
0.303 (0.434) |
0.492 (0.607) |
6p loss | 31 (8%) | 339 |
0.746 (0.81) |
0.486 (0.6) |
0.395 (0.524) |
0.483 (0.599) |
0.0713 (0.161) |
0.85 (0.892) |
0.343 (0.471) |
0.394 (0.523) |
6q loss | 94 (25%) | 276 |
0.203 (0.338) |
0.164 (0.294) |
0.427 (0.553) |
0.836 (0.886) |
0.126 (0.242) |
0.26 (0.397) |
0.664 (0.754) |
0.996 (0.997) |
8q loss | 45 (12%) | 325 |
0.199 (0.334) |
0.224 (0.364) |
0.0863 (0.187) |
0.632 (0.726) |
0.709 (0.787) |
0.882 (0.917) |
0.776 (0.834) |
0.673 (0.758) |
17q loss | 40 (11%) | 330 |
0.0536 (0.129) |
0.457 (0.579) |
0.517 (0.631) |
0.249 (0.389) |
0.68 (0.761) |
0.612 (0.71) |
0.473 (0.594) |
0.339 (0.469) |
20p loss | 26 (7%) | 344 |
0.42 (0.545) |
0.338 (0.469) |
0.271 (0.411) |
0.104 (0.214) |
0.263 (0.4) |
0.853 (0.894) |
0.675 (0.759) |
0.312 (0.44) |
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S1. Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
1Q GAIN MUTATED | 37 | 87 | 102 |
1Q GAIN WILD-TYPE | 56 | 64 | 24 |
Figure S1. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D2V1.png)
P value = 1e-04 (Fisher's exact test), Q value = 0.0011
Table S2. Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
1Q GAIN MUTATED | 41 | 99 | 86 |
1Q GAIN WILD-TYPE | 52 | 62 | 30 |
Figure S2. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D2V2.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00041
Table S3. Gene #2: '1q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
1Q GAIN MUTATED | 39 | 37 | 58 | 41 | 46 |
1Q GAIN WILD-TYPE | 28 | 49 | 13 | 30 | 23 |
Figure S3. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D2V3.png)
P value = 0.00158 (Fisher's exact test), Q value = 0.01
Table S4. 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 | 56 | 63 | 39 |
1Q GAIN WILD-TYPE | 26 | 21 | 58 | 21 | 17 |
Figure S4. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D2V4.png)
P value = 0.0209 (Fisher's exact test), Q value = 0.064
Table S5. 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 | 46 | 40 | 74 | 35 |
1Q GAIN WILD-TYPE | 17 | 49 | 16 | 48 | 13 |
Figure S5. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D2V6.png)
P value = 0.00024 (Fisher's exact test), Q value = 0.0023
Table S6. 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 | 4 |
2P GAIN WILD-TYPE | 41 | 54 | 108 | 68 | 52 |
Figure S6. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D3V4.png)
P value = 0.0485 (Fisher's exact test), Q value = 0.12
Table S7. Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
2Q GAIN MUTATED | 5 | 15 | 20 |
2Q GAIN WILD-TYPE | 88 | 136 | 106 |
Figure S7. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D4V1.png)
P value = 0.0144 (Fisher's exact test), Q value = 0.051
Table S8. Gene #4: '2q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
2Q GAIN MUTATED | 7 | 2 | 13 | 8 | 8 |
2Q GAIN WILD-TYPE | 60 | 84 | 58 | 63 | 61 |
Figure S8. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D4V3.png)
P value = 0.00052 (Fisher's exact test), Q value = 0.0041
Table S9. 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 | 6 |
2Q GAIN WILD-TYPE | 44 | 54 | 110 | 68 | 50 |
Figure S9. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D4V4.png)
P value = 0.0174 (Fisher's exact test), Q value = 0.057
Table S10. Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
3P GAIN MUTATED | 4 | 22 | 9 |
3P GAIN WILD-TYPE | 89 | 129 | 117 |
Figure S10. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D5V1.png)
P value = 0.0248 (Fisher's exact test), Q value = 0.072
Table S11. Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
3P GAIN MUTATED | 5 | 23 | 7 |
3P GAIN WILD-TYPE | 88 | 138 | 109 |
Figure S11. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D5V2.png)
P value = 0.00203 (Fisher's exact test), Q value = 0.012
Table S12. Gene #5: '3p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
3P GAIN MUTATED | 11 | 7 | 7 | 0 | 10 |
3P GAIN WILD-TYPE | 56 | 79 | 64 | 71 | 59 |
Figure S12. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D5V3.png)
P value = 0.0364 (Fisher's exact test), Q value = 0.099
Table S13. Gene #5: '3p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
3P GAIN MUTATED | 5 | 5 | 2 | 13 | 5 | 4 |
3P GAIN WILD-TYPE | 35 | 58 | 90 | 71 | 41 | 36 |
Figure S13. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D5V5.png)
P value = 0.0131 (Fisher's exact test), Q value = 0.047
Table S14. Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
3Q GAIN MUTATED | 5 | 24 | 9 |
3Q GAIN WILD-TYPE | 88 | 127 | 117 |
Figure S14. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D6V1.png)
P value = 0.00298 (Fisher's exact test), Q value = 0.016
Table S15. Gene #6: '3q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
3Q GAIN MUTATED | 14 | 8 | 6 | 1 | 9 |
3Q GAIN WILD-TYPE | 53 | 78 | 65 | 70 | 60 |
Figure S15. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D6V3.png)
P value = 0.0306 (Fisher's exact test), Q value = 0.086
Table S16. Gene #6: '3q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
3Q GAIN MUTATED | 7 | 5 | 3 | 11 | 8 | 3 |
3Q GAIN WILD-TYPE | 33 | 58 | 89 | 73 | 38 | 37 |
Figure S16. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D6V5.png)
P value = 0.00667 (Fisher's exact test), Q value = 0.028
Table S17. Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
4P GAIN MUTATED | 5 | 6 | 16 |
4P GAIN WILD-TYPE | 88 | 155 | 100 |
Figure S17. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D7V2.png)
P value = 0.0122 (Fisher's exact test), Q value = 0.044
Table S18. Gene #7: '4p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
4P GAIN MUTATED | 4 | 5 | 12 | 4 | 1 |
4P GAIN WILD-TYPE | 63 | 81 | 59 | 67 | 68 |
Figure S18. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D7V3.png)
P value = 0.00188 (Fisher's exact test), Q value = 0.011
Table S19. 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 S19. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D7V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S20. Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
5P GAIN MUTATED | 13 | 63 | 58 |
5P GAIN WILD-TYPE | 80 | 88 | 68 |
Figure S20. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D9V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S21. Gene #10: '5q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
5Q GAIN MUTATED | 10 | 46 | 54 |
5Q GAIN WILD-TYPE | 83 | 105 | 72 |
Figure S21. 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 = 0.00016
Table S22. Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
6P GAIN MUTATED | 10 | 57 | 49 |
6P GAIN WILD-TYPE | 83 | 94 | 77 |
Figure S22. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D11V1.png)
P value = 0.00518 (Fisher's exact test), Q value = 0.024
Table S23. Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
6P GAIN MUTATED | 17 | 57 | 42 |
6P GAIN WILD-TYPE | 76 | 104 | 74 |
Figure S23. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D11V2.png)
P value = 0.00099 (Fisher's exact test), Q value = 0.0068
Table S24. Gene #11: '6p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
6P GAIN MUTATED | 25 | 18 | 28 | 14 | 31 |
6P GAIN WILD-TYPE | 42 | 68 | 43 | 57 | 38 |
Figure S24. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D11V3.png)
P value = 0.0231 (Fisher's exact test), Q value = 0.069
Table S25. 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 | 31 | 33 | 25 |
6P GAIN WILD-TYPE | 38 | 45 | 83 | 51 | 31 |
Figure S25. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D11V4.png)
P value = 0.00964 (Fisher's exact test), Q value = 0.039
Table S26. Gene #11: '6p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
6P GAIN MUTATED | 18 | 15 | 19 | 35 | 17 | 11 |
6P GAIN WILD-TYPE | 22 | 48 | 73 | 49 | 29 | 29 |
Figure S26. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D11V5.png)
P value = 0.00401 (Fisher's exact test), Q value = 0.02
Table S27. 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 | 18 | 18 | 19 | 37 | 23 |
6P GAIN WILD-TYPE | 26 | 77 | 37 | 85 | 25 |
Figure S27. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D11V6.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.0015
Table S28. Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
6Q GAIN MUTATED | 5 | 36 | 26 |
6Q GAIN WILD-TYPE | 88 | 115 | 100 |
Figure S28. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D12V1.png)
P value = 0.0349 (Fisher's exact test), Q value = 0.096
Table S29. Gene #12: '6q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
6Q GAIN MUTATED | 19 | 10 | 15 | 8 | 15 |
6Q GAIN WILD-TYPE | 48 | 76 | 56 | 63 | 54 |
Figure S29. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D12V3.png)
P value = 0.00128 (Fisher's exact test), Q value = 0.0086
Table S30. Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
7P GAIN MUTATED | 14 | 51 | 44 |
7P GAIN WILD-TYPE | 79 | 100 | 82 |
Figure S30. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D13V1.png)
P value = 0.0247 (Fisher's exact test), Q value = 0.072
Table S31. Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
7P GAIN MUTATED | 20 | 59 | 30 |
7P GAIN WILD-TYPE | 73 | 102 | 86 |
Figure S31. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D13V2.png)
P value = 0.0362 (Fisher's exact test), Q value = 0.099
Table S32. Gene #13: '7p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
7P GAIN MUTATED | 8 | 18 | 22 | 31 | 9 | 18 |
7P GAIN WILD-TYPE | 32 | 45 | 70 | 53 | 37 | 22 |
Figure S32. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D13V5.png)
P value = 0.00051 (Fisher's exact test), Q value = 0.0041
Table S33. Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
7Q GAIN MUTATED | 21 | 65 | 24 |
7Q GAIN WILD-TYPE | 72 | 96 | 92 |
Figure S33. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D14V2.png)
P value = 0.00253 (Fisher's exact test), Q value = 0.014
Table S34. Gene #15: '8p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
8P GAIN MUTATED | 15 | 6 | 12 | 18 | 20 |
8P GAIN WILD-TYPE | 52 | 80 | 59 | 53 | 49 |
Figure S34. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D15V3.png)
P value = 0.0167 (Fisher's exact test), Q value = 0.055
Table S35. 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 | 12 | 11 | 22 | 14 |
8P GAIN WILD-TYPE | 42 | 44 | 103 | 62 | 42 |
Figure S35. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D15V4.png)
P value = 0.0279 (Fisher's exact test), Q value = 0.079
Table S36. Gene #15: '8p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
8P GAIN MUTATED | 19 | 8 | 22 | 5 | 15 |
8P GAIN WILD-TYPE | 51 | 74 | 78 | 29 | 39 |
Figure S36. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D15V8.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00041
Table S37. Gene #16: '8q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
8Q GAIN MUTATED | 38 | 61 | 85 |
8Q GAIN WILD-TYPE | 55 | 90 | 41 |
Figure S37. 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 = 0.00016
Table S38. Gene #16: '8q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
8Q GAIN MUTATED | 39 | 21 | 38 | 37 | 44 |
8Q GAIN WILD-TYPE | 28 | 65 | 33 | 34 | 25 |
Figure S38. 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 = 0.00016
Table S39. 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 | 30 | 51 | 36 |
8Q GAIN WILD-TYPE | 23 | 25 | 84 | 33 | 20 |
Figure S39. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D16V4.png)
P value = 0.00644 (Fisher's exact test), Q value = 0.028
Table S40. 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 | 19 | 34 | 28 | 70 | 30 |
8Q GAIN WILD-TYPE | 25 | 61 | 28 | 52 | 18 |
Figure S40. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D16V6.png)
P value = 0.00193 (Fisher's exact test), Q value = 0.012
Table S41. Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
8Q GAIN MUTATED | 42 | 29 | 54 | 13 | 35 |
8Q GAIN WILD-TYPE | 28 | 53 | 46 | 21 | 19 |
Figure S41. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D16V8.png)
P value = 0.00315 (Fisher's exact test), Q value = 0.017
Table S42. Gene #19: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
10P GAIN MUTATED | 5 | 29 | 24 |
10P GAIN WILD-TYPE | 88 | 122 | 102 |
Figure S42. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D19V1.png)
P value = 0.00818 (Fisher's exact test), Q value = 0.034
Table S43. Gene #19: '10p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
10P GAIN MUTATED | 10 | 8 | 20 | 6 | 13 |
10P GAIN WILD-TYPE | 57 | 78 | 51 | 65 | 56 |
Figure S43. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D19V3.png)
P value = 0.0201 (Fisher's exact test), Q value = 0.063
Table S44. 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 | 10 | 21 | 9 |
10P GAIN WILD-TYPE | 43 | 50 | 104 | 63 | 47 |
Figure S44. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D19V4.png)
P value = 0.0111 (Fisher's exact test), Q value = 0.042
Table S45. Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
10P GAIN MUTATED | 17 | 5 | 17 | 8 | 6 |
10P GAIN WILD-TYPE | 53 | 77 | 83 | 26 | 48 |
Figure S45. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D19V8.png)
P value = 0.00045 (Fisher's exact test), Q value = 0.0037
Table S46. Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
10Q GAIN MUTATED | 2 | 12 | 22 |
10Q GAIN WILD-TYPE | 91 | 139 | 104 |
Figure S46. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D20V1.png)
P value = 0.0302 (Fisher's exact test), Q value = 0.085
Table S47. Gene #20: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
10Q GAIN MUTATED | 3 | 18 | 15 |
10Q GAIN WILD-TYPE | 90 | 143 | 101 |
Figure S47. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D20V2.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.00077
Table S48. Gene #20: '10q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
10Q GAIN MUTATED | 2 | 4 | 17 | 3 | 10 |
10Q GAIN WILD-TYPE | 65 | 82 | 54 | 68 | 59 |
Figure S48. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D20V3.png)
P value = 0.0227 (Fisher's exact test), Q value = 0.068
Table S49. 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 | 6 | 2 | 3 | 7 | 0 |
11P GAIN WILD-TYPE | 48 | 54 | 111 | 77 | 56 |
Figure S49. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D21V4.png)
P value = 0.00518 (Fisher's exact test), Q value = 0.024
Table S50. Gene #23: '12p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
12P GAIN MUTATED | 12 | 3 | 13 | 8 | 4 |
12P GAIN WILD-TYPE | 55 | 83 | 58 | 63 | 65 |
Figure S50. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D23V3.png)
P value = 5e-04 (Fisher's exact test), Q value = 0.004
Table S51. 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 | 9 | 13 | 2 |
12P GAIN WILD-TYPE | 40 | 54 | 105 | 71 | 54 |
Figure S51. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D23V4.png)
P value = 0.00012 (Fisher's exact test), Q value = 0.0013
Table S52. Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
12P GAIN MUTATED | 19 | 9 | 1 | 7 |
12P GAIN WILD-TYPE | 88 | 72 | 101 | 43 |
Figure S52. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D23V7.png)
P value = 0.0266 (Fisher's exact test), Q value = 0.076
Table S53. Gene #23: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
12P GAIN MUTATED | 13 | 6 | 12 | 4 | 1 |
12P GAIN WILD-TYPE | 57 | 76 | 88 | 30 | 53 |
Figure S53. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D23V8.png)
P value = 0.00907 (Fisher's exact test), Q value = 0.037
Table S54. Gene #24: '12q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
12Q GAIN MUTATED | 13 | 5 | 14 | 11 | 4 |
12Q GAIN WILD-TYPE | 54 | 81 | 57 | 60 | 65 |
Figure S54. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D24V3.png)
P value = 0.0027 (Fisher's exact test), Q value = 0.015
Table S55. 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 S55. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D24V4.png)
P value = 0.00028 (Fisher's exact test), Q value = 0.0026
Table S56. Gene #24: '12q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
12Q GAIN MUTATED | 23 | 9 | 3 | 8 |
12Q GAIN WILD-TYPE | 84 | 72 | 99 | 42 |
Figure S56. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D24V7.png)
P value = 0.0366 (Fisher's exact test), Q value = 0.099
Table S57. Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
13Q GAIN MUTATED | 1 | 12 | 10 |
13Q GAIN WILD-TYPE | 92 | 139 | 116 |
Figure S57. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D25V1.png)
P value = 0.0451 (Fisher's exact test), Q value = 0.11
Table S58. Gene #28: '16p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
16P GAIN MUTATED | 7 | 7 | 2 | 12 | 4 |
16P GAIN WILD-TYPE | 60 | 79 | 69 | 59 | 65 |
Figure S58. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D28V3.png)
P value = 0.00604 (Fisher's exact test), Q value = 0.026
Table S59. Gene #29: '16q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
16Q GAIN MUTATED | 3 | 2 | 0 | 9 | 3 |
16Q GAIN WILD-TYPE | 64 | 84 | 71 | 62 | 66 |
Figure S59. Get High-res Image Gene #29: '16q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D29V3.png)
P value = 0.0367 (Fisher's exact test), Q value = 0.099
Table S60. Gene #30: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
17P GAIN MUTATED | 5 | 8 | 17 |
17P GAIN WILD-TYPE | 88 | 143 | 109 |
Figure S60. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D30V1.png)
P value = 0.00587 (Fisher's exact test), Q value = 0.026
Table S61. Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
17Q GAIN MUTATED | 13 | 48 | 32 |
17Q GAIN WILD-TYPE | 80 | 103 | 94 |
Figure S61. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D31V1.png)
P value = 0.00093 (Fisher's exact test), Q value = 0.0065
Table S62. 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 | 21 | 20 | 17 | 20 | 15 |
17Q GAIN WILD-TYPE | 23 | 75 | 39 | 102 | 33 |
Figure S62. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D31V6.png)
P value = 0.0155 (Fisher's exact test), Q value = 0.053
Table S63. Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
17Q GAIN MUTATED | 24 | 18 | 16 | 13 | 17 |
17Q GAIN WILD-TYPE | 46 | 64 | 84 | 21 | 37 |
Figure S63. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D31V8.png)
P value = 0.00159 (Fisher's exact test), Q value = 0.01
Table S64. Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
18P GAIN MUTATED | 2 | 14 | 20 |
18P GAIN WILD-TYPE | 91 | 137 | 106 |
Figure S64. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D32V1.png)
P value = 0.0216 (Fisher's exact test), Q value = 0.066
Table S65. Gene #32: '18p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
18P GAIN MUTATED | 9 | 4 | 13 | 7 | 3 |
18P GAIN WILD-TYPE | 58 | 82 | 58 | 64 | 66 |
Figure S65. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D32V3.png)
P value = 0.0188 (Fisher's exact test), Q value = 0.06
Table S66. 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 S66. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D32V4.png)
P value = 0.0339 (Fisher's exact test), Q value = 0.094
Table S67. Gene #32: '18p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
18P GAIN MUTATED | 7 | 3 | 6 | 7 | 4 | 9 |
18P GAIN WILD-TYPE | 33 | 60 | 86 | 77 | 42 | 31 |
Figure S67. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D32V5.png)
P value = 0.0129 (Fisher's exact test), Q value = 0.046
Table S68. Gene #32: '18p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
18P GAIN MUTATED | 16 | 9 | 3 | 7 |
18P GAIN WILD-TYPE | 91 | 72 | 99 | 43 |
Figure S68. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D32V7.png)
P value = 0.0466 (Fisher's exact test), Q value = 0.12
Table S69. Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
18Q GAIN MUTATED | 2 | 13 | 13 |
18Q GAIN WILD-TYPE | 91 | 138 | 113 |
Figure S69. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D33V1.png)
P value = 0.00318 (Fisher's exact test), Q value = 0.017
Table S70. 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 S70. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D33V4.png)
P value = 0.0171 (Fisher's exact test), Q value = 0.056
Table S71. Gene #33: '18q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
18Q GAIN MUTATED | 6 | 4 | 5 | 3 | 2 | 8 |
18Q GAIN WILD-TYPE | 34 | 59 | 87 | 81 | 44 | 32 |
Figure S71. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D33V5.png)
P value = 0.00358 (Fisher's exact test), Q value = 0.018
Table S72. Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
18Q GAIN MUTATED | 14 | 8 | 1 | 4 |
18Q GAIN WILD-TYPE | 93 | 73 | 101 | 46 |
Figure S72. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D33V7.png)
P value = 0.00974 (Fisher's exact test), Q value = 0.039
Table S73. Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
19P GAIN MUTATED | 15 | 15 | 26 |
19P GAIN WILD-TYPE | 78 | 146 | 90 |
Figure S73. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D34V2.png)
P value = 0.00334 (Fisher's exact test), Q value = 0.017
Table S74. Gene #34: '19p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
19P GAIN MUTATED | 9 | 10 | 18 | 15 | 3 |
19P GAIN WILD-TYPE | 58 | 76 | 53 | 56 | 66 |
Figure S74. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D34V3.png)
P value = 0.0101 (Fisher's exact test), Q value = 0.039
Table S75. 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 | 11 | 11 | 11 | 19 | 3 |
19P GAIN WILD-TYPE | 43 | 45 | 103 | 65 | 53 |
Figure S75. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D34V4.png)
P value = 0.0388 (Fisher's exact test), Q value = 0.1
Table S76. Gene #34: '19p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
19P GAIN MUTATED | 4 | 8 | 18 | 6 | 8 | 11 |
19P GAIN WILD-TYPE | 36 | 55 | 74 | 78 | 38 | 29 |
Figure S76. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D34V5.png)
P value = 0.00669 (Fisher's exact test), Q value = 0.028
Table S77. 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 | 13 | 10 | 27 | 1 |
19P GAIN WILD-TYPE | 40 | 82 | 46 | 95 | 47 |
Figure S77. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D34V6.png)
P value = 0.00247 (Fisher's exact test), Q value = 0.014
Table S78. Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
19P GAIN MUTATED | 19 | 16 | 5 | 11 |
19P GAIN WILD-TYPE | 88 | 65 | 97 | 39 |
Figure S78. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D34V7.png)
P value = 0.00213 (Fisher's exact test), Q value = 0.012
Table S79. Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
19Q GAIN MUTATED | 19 | 19 | 33 |
19Q GAIN WILD-TYPE | 74 | 142 | 83 |
Figure S79. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D35V2.png)
P value = 0.00054 (Fisher's exact test), Q value = 0.0041
Table S80. Gene #35: '19q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
19Q GAIN MUTATED | 12 | 11 | 23 | 19 | 5 |
19Q GAIN WILD-TYPE | 55 | 75 | 48 | 52 | 64 |
Figure S80. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D35V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00041
Table S81. 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 | 12 | 15 | 11 | 28 | 4 |
19Q GAIN WILD-TYPE | 42 | 41 | 103 | 56 | 52 |
Figure S81. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D35V4.png)
P value = 0.0217 (Fisher's exact test), Q value = 0.066
Table S82. Gene #35: '19q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
19Q GAIN MUTATED | 6 | 7 | 23 | 10 | 11 | 13 |
19Q GAIN WILD-TYPE | 34 | 56 | 69 | 74 | 35 | 27 |
Figure S82. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D35V5.png)
P value = 0.00151 (Fisher's exact test), Q value = 0.0099
Table S83. 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 | 6 | 14 | 17 | 31 | 2 |
19Q GAIN WILD-TYPE | 38 | 81 | 39 | 91 | 46 |
Figure S83. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D35V6.png)
P value = 4e-05 (Fisher's exact test), Q value = 0.00054
Table S84. Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
19Q GAIN MUTATED | 25 | 21 | 5 | 14 |
19Q GAIN WILD-TYPE | 82 | 60 | 97 | 36 |
Figure S84. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D35V7.png)
P value = 0.00043 (Fisher's exact test), Q value = 0.0036
Table S85. Gene #35: '19q gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
19Q GAIN MUTATED | 20 | 11 | 27 | 5 | 2 |
19Q GAIN WILD-TYPE | 50 | 71 | 73 | 29 | 52 |
Figure S85. 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 = 0.00016
Table S86. Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
20P GAIN MUTATED | 8 | 60 | 39 |
20P GAIN WILD-TYPE | 85 | 91 | 87 |
Figure S86. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D36V1.png)
P value = 0.015 (Fisher's exact test), Q value = 0.052
Table S87. Gene #36: '20p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
20P GAIN MUTATED | 24 | 19 | 31 | 17 | 16 |
20P GAIN WILD-TYPE | 43 | 67 | 40 | 54 | 53 |
Figure S87. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D36V3.png)
P value = 0.00177 (Fisher's exact test), Q value = 0.011
Table S88. 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 | 25 | 38 | 10 |
20P GAIN WILD-TYPE | 35 | 41 | 89 | 46 | 46 |
Figure S88. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D36V4.png)
P value = 0.0445 (Fisher's exact test), Q value = 0.11
Table S89. 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 | 21 | 37 | 9 |
20P GAIN WILD-TYPE | 26 | 74 | 35 | 85 | 39 |
Figure S89. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D36V6.png)
P value = 0.00043 (Fisher's exact test), Q value = 0.0036
Table S90. Gene #36: '20p gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
20P GAIN MUTATED | 36 | 22 | 16 | 24 |
20P GAIN WILD-TYPE | 71 | 59 | 86 | 26 |
Figure S90. 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 = 0.00016
Table S91. Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
20Q GAIN MUTATED | 8 | 63 | 41 |
20Q GAIN WILD-TYPE | 85 | 88 | 85 |
Figure S91. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D37V1.png)
P value = 0.0104 (Fisher's exact test), Q value = 0.04
Table S92. 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 | 17 | 15 | 32 | 38 | 10 |
20Q GAIN WILD-TYPE | 37 | 41 | 82 | 46 | 46 |
Figure S92. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D37V4.png)
P value = 0.039 (Fisher's exact test), Q value = 0.1
Table S93. Gene #37: '20q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 44 | 95 | 56 | 122 | 48 |
20Q GAIN MUTATED | 19 | 23 | 23 | 36 | 10 |
20Q GAIN WILD-TYPE | 25 | 72 | 33 | 86 | 38 |
Figure S93. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D37V6.png)
P value = 0.00056 (Fisher's exact test), Q value = 0.0042
Table S94. Gene #37: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
20Q GAIN MUTATED | 39 | 21 | 18 | 24 |
20Q GAIN WILD-TYPE | 68 | 60 | 84 | 26 |
Figure S94. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D37V7.png)
P value = 0.00028 (Fisher's exact test), Q value = 0.0026
Table S95. Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
22Q GAIN MUTATED | 2 | 27 | 19 |
22Q GAIN WILD-TYPE | 91 | 124 | 107 |
Figure S95. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D39V1.png)
P value = 0.0389 (Fisher's exact test), Q value = 0.1
Table S96. Gene #39: '22q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
22Q GAIN MUTATED | 8 | 8 | 18 | 7 | 7 |
22Q GAIN WILD-TYPE | 59 | 78 | 53 | 64 | 62 |
Figure S96. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D39V3.png)
P value = 0.00187 (Fisher's exact test), Q value = 0.011
Table S97. 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 S97. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D39V4.png)
P value = 0.0119 (Fisher's exact test), Q value = 0.044
Table S98. Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
22Q GAIN MUTATED | 16 | 11 | 5 | 11 |
22Q GAIN WILD-TYPE | 91 | 70 | 97 | 39 |
Figure S98. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D39V7.png)
P value = 0.0244 (Fisher's exact test), Q value = 0.071
Table S99. Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
XP GAIN MUTATED | 7 | 12 | 22 |
XP GAIN WILD-TYPE | 86 | 139 | 104 |
Figure S99. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D40V1.png)
P value = 0.0235 (Fisher's exact test), Q value = 0.069
Table S100. Gene #40: 'xp gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
XP GAIN MUTATED | 5 | 6 | 6 | 8 | 16 |
XP GAIN WILD-TYPE | 62 | 80 | 65 | 63 | 53 |
Figure S100. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D40V3.png)
P value = 0.0394 (Fisher's exact test), Q value = 0.1
Table S101. Gene #40: 'xp gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
XP GAIN MUTATED | 9 | 4 | 10 | 3 | 12 |
XP GAIN WILD-TYPE | 61 | 78 | 90 | 31 | 42 |
Figure S101. Get High-res Image Gene #40: 'xp gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D40V8.png)
P value = 0.0117 (Fisher's exact test), Q value = 0.043
Table S102. Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
XQ GAIN MUTATED | 14 | 16 | 30 |
XQ GAIN WILD-TYPE | 79 | 135 | 96 |
Figure S102. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #1: 'CN_CNMF'
![](D41V1.png)
P value = 0.00978 (Fisher's exact test), Q value = 0.039
Table S103. Gene #41: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
XQ GAIN MUTATED | 7 | 35 | 18 |
XQ GAIN WILD-TYPE | 86 | 126 | 98 |
Figure S103. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D41V2.png)
P value = 0.00106 (Fisher's exact test), Q value = 0.0072
Table S104. Gene #41: 'xq gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
XQ GAIN MUTATED | 7 | 13 | 8 | 8 | 24 |
XQ GAIN WILD-TYPE | 60 | 73 | 63 | 63 | 45 |
Figure S104. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D41V3.png)
P value = 0.00451 (Fisher's exact test), Q value = 0.022
Table S105. 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 | 5 | 6 | 20 | 10 | 19 |
XQ GAIN WILD-TYPE | 49 | 50 | 94 | 74 | 37 |
Figure S105. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D41V4.png)
P value = 0.00085 (Fisher's exact test), Q value = 0.0061
Table S106. Gene #41: 'xq gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
XQ GAIN MUTATED | 3 | 11 | 10 | 27 | 5 | 3 |
XQ GAIN WILD-TYPE | 37 | 52 | 82 | 57 | 41 | 37 |
Figure S106. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D41V5.png)
P value = 9e-05 (Fisher's exact test), Q value = 0.0011
Table S107. 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 | 13 | 9 | 12 | 20 |
XQ GAIN WILD-TYPE | 39 | 82 | 47 | 110 | 28 |
Figure S107. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D41V6.png)
P value = 0.00599 (Fisher's exact test), Q value = 0.026
Table S108. Gene #41: 'xq gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
XQ GAIN MUTATED | 15 | 7 | 27 | 5 |
XQ GAIN WILD-TYPE | 92 | 74 | 75 | 45 |
Figure S108. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D41V7.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.00085
Table S109. Gene #41: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
XQ GAIN MUTATED | 12 | 9 | 9 | 3 | 21 |
XQ GAIN WILD-TYPE | 58 | 73 | 91 | 31 | 33 |
Figure S109. Get High-res Image Gene #41: 'xq gain' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D41V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S110. Gene #42: '1p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
1P LOSS MUTATED | 4 | 32 | 42 |
1P LOSS WILD-TYPE | 89 | 119 | 84 |
Figure S110. 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 = 0.00016
Table S111. Gene #42: '1p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
1P LOSS MUTATED | 8 | 26 | 44 |
1P LOSS WILD-TYPE | 85 | 135 | 72 |
Figure S111. 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 = 0.00016
Table S112. Gene #42: '1p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
1P LOSS MUTATED | 8 | 11 | 37 | 14 | 7 |
1P LOSS WILD-TYPE | 59 | 75 | 34 | 57 | 62 |
Figure S112. 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 = 0.00016
Table S113. 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 | 11 | 8 | 15 | 37 | 6 |
1P LOSS WILD-TYPE | 43 | 48 | 99 | 47 | 50 |
Figure S113. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D42V4.png)
P value = 0.00014 (Fisher's exact test), Q value = 0.0015
Table S114. Gene #42: '1p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
1P LOSS MUTATED | 5 | 8 | 15 | 14 | 17 | 18 |
1P LOSS WILD-TYPE | 35 | 55 | 77 | 70 | 29 | 22 |
Figure S114. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D42V5.png)
P value = 0.0199 (Fisher's exact test), Q value = 0.062
Table S115. 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 | 15 | 35 | 5 |
1P LOSS WILD-TYPE | 39 | 78 | 41 | 87 | 43 |
Figure S115. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D42V6.png)
P value = 0.00087 (Fisher's exact test), Q value = 0.0061
Table S116. Gene #42: '1p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
1P LOSS MUTATED | 27 | 18 | 10 | 18 |
1P LOSS WILD-TYPE | 80 | 63 | 92 | 32 |
Figure S116. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D42V7.png)
P value = 0.0161 (Fisher's exact test), Q value = 0.054
Table S117. Gene #42: '1p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
1P LOSS MUTATED | 16 | 15 | 32 | 4 | 6 |
1P LOSS WILD-TYPE | 54 | 67 | 68 | 30 | 48 |
Figure S117. Get High-res Image Gene #42: '1p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D42V8.png)
P value = 0.0323 (Fisher's exact test), Q value = 0.09
Table S118. Gene #43: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
1Q LOSS MUTATED | 1 | 13 | 6 |
1Q LOSS WILD-TYPE | 92 | 138 | 120 |
Figure S118. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D43V1.png)
P value = 0.0189 (Fisher's exact test), Q value = 0.06
Table S119. Gene #43: '1q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
1Q LOSS MUTATED | 1 | 7 | 10 | 1 | 0 |
1Q LOSS WILD-TYPE | 69 | 75 | 90 | 33 | 54 |
Figure S119. Get High-res Image Gene #43: '1q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D43V8.png)
P value = 0.00545 (Fisher's exact test), Q value = 0.024
Table S120. Gene #44: '2p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
2P LOSS MUTATED | 3 | 22 | 8 |
2P LOSS WILD-TYPE | 90 | 129 | 118 |
Figure S120. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D44V1.png)
P value = 0.00539 (Fisher's exact test), Q value = 0.024
Table S121. Gene #44: '2p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
2P LOSS MUTATED | 11 | 9 | 7 | 6 | 0 |
2P LOSS WILD-TYPE | 56 | 77 | 64 | 65 | 69 |
Figure S121. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D44V3.png)
P value = 0.0386 (Fisher's exact test), Q value = 0.1
Table S122. 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 S122. Get High-res Image Gene #44: '2p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D44V4.png)
P value = 0.00132 (Fisher's exact test), Q value = 0.0087
Table S123. Gene #45: '2q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
2Q LOSS MUTATED | 4 | 26 | 8 |
2Q LOSS WILD-TYPE | 89 | 125 | 118 |
Figure S123. Get High-res Image Gene #45: '2q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D45V1.png)
P value = 0.00097 (Fisher's exact test), Q value = 0.0067
Table S124. Gene #45: '2q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
2Q LOSS MUTATED | 10 | 14 | 9 | 5 | 0 |
2Q LOSS WILD-TYPE | 57 | 72 | 62 | 66 | 69 |
Figure S124. Get High-res Image Gene #45: '2q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D45V3.png)
P value = 0.0216 (Fisher's exact test), Q value = 0.066
Table S125. 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 S125. Get High-res Image Gene #45: '2q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D45V4.png)
P value = 0.00409 (Fisher's exact test), Q value = 0.02
Table S126. Gene #46: '3p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
3P LOSS MUTATED | 8 | 6 | 18 | 14 | 5 |
3P LOSS WILD-TYPE | 59 | 80 | 53 | 57 | 64 |
Figure S126. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D46V3.png)
P value = 0.00919 (Fisher's exact test), Q value = 0.037
Table S127. 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 S127. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D46V4.png)
P value = 0.00371 (Fisher's exact test), Q value = 0.018
Table S128. Gene #46: '3p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
3P LOSS MUTATED | 4 | 4 | 15 | 8 | 6 | 14 |
3P LOSS WILD-TYPE | 36 | 59 | 77 | 76 | 40 | 26 |
Figure S128. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D46V5.png)
P value = 0.00505 (Fisher's exact test), Q value = 0.023
Table S129. Gene #46: '3p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
3P LOSS MUTATED | 20 | 17 | 6 | 4 |
3P LOSS WILD-TYPE | 87 | 64 | 96 | 46 |
Figure S129. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D46V7.png)
P value = 0.0417 (Fisher's exact test), Q value = 0.11
Table S130. Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
3P LOSS MUTATED | 13 | 9 | 20 | 2 | 3 |
3P LOSS WILD-TYPE | 57 | 73 | 80 | 32 | 51 |
Figure S130. Get High-res Image Gene #46: '3p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D46V8.png)
P value = 0.00566 (Fisher's exact test), Q value = 0.025
Table S131. Gene #47: '3q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
3Q LOSS MUTATED | 7 | 5 | 17 | 7 | 4 |
3Q LOSS WILD-TYPE | 60 | 81 | 54 | 64 | 65 |
Figure S131. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D47V3.png)
P value = 0.0413 (Fisher's exact test), Q value = 0.11
Table S132. Gene #47: '3q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
3Q LOSS MUTATED | 3 | 4 | 11 | 7 | 4 | 11 |
3Q LOSS WILD-TYPE | 37 | 59 | 81 | 77 | 42 | 29 |
Figure S132. Get High-res Image Gene #47: '3q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D47V5.png)
P value = 0.00811 (Fisher's exact test), Q value = 0.034
Table S133. Gene #47: '3q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
3Q LOSS MUTATED | 19 | 10 | 5 | 2 |
3Q LOSS WILD-TYPE | 88 | 71 | 97 | 48 |
Figure S133. 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 = 0.00016
Table S134. Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
4P LOSS MUTATED | 3 | 65 | 37 |
4P LOSS WILD-TYPE | 90 | 86 | 89 |
Figure S134. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D48V1.png)
P value = 0.00066 (Fisher's exact test), Q value = 0.0048
Table S135. Gene #48: '4p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
4P LOSS MUTATED | 26 | 26 | 29 | 12 | 11 |
4P LOSS WILD-TYPE | 41 | 60 | 42 | 59 | 58 |
Figure S135. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D48V3.png)
P value = 0.0187 (Fisher's exact test), Q value = 0.06
Table S136. 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 | 36 | 33 | 9 |
4P LOSS WILD-TYPE | 39 | 45 | 78 | 51 | 47 |
Figure S136. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D48V4.png)
P value = 0.0159 (Fisher's exact test), Q value = 0.054
Table S137. 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 | 25 | 25 | 33 | 7 |
4P LOSS WILD-TYPE | 30 | 70 | 31 | 89 | 41 |
Figure S137. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D48V6.png)
P value = 0.017 (Fisher's exact test), Q value = 0.056
Table S138. Gene #48: '4p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
4P LOSS MUTATED | 40 | 18 | 21 | 18 |
4P LOSS WILD-TYPE | 67 | 63 | 81 | 32 |
Figure S138. Get High-res Image Gene #48: '4p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D48V7.png)
P value = 0.00039 (Fisher's exact test), Q value = 0.0034
Table S139. Gene #48: '4p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
4P LOSS MUTATED | 33 | 25 | 22 | 10 | 7 |
4P LOSS WILD-TYPE | 37 | 57 | 78 | 24 | 47 |
Figure S139. 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 = 0.00016
Table S140. Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
4Q LOSS MUTATED | 4 | 91 | 51 |
4Q LOSS WILD-TYPE | 89 | 60 | 75 |
Figure S140. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D49V1.png)
P value = 0.00613 (Fisher's exact test), Q value = 0.026
Table S141. Gene #49: '4q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
4Q LOSS MUTATED | 28 | 59 | 59 |
4Q LOSS WILD-TYPE | 65 | 102 | 57 |
Figure S141. 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 = 0.00016
Table S142. Gene #49: '4q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
4Q LOSS MUTATED | 33 | 33 | 46 | 17 | 15 |
4Q LOSS WILD-TYPE | 34 | 53 | 25 | 54 | 54 |
Figure S142. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D49V3.png)
P value = 0.00082 (Fisher's exact test), Q value = 0.0059
Table S143. 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 | 42 | 47 | 12 |
4Q LOSS WILD-TYPE | 30 | 37 | 72 | 37 | 44 |
Figure S143. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D49V4.png)
P value = 0.00239 (Fisher's exact test), Q value = 0.013
Table S144. Gene #49: '4q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
4Q LOSS MUTATED | 18 | 22 | 30 | 25 | 26 | 24 |
4Q LOSS WILD-TYPE | 22 | 41 | 62 | 59 | 20 | 16 |
Figure S144. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D49V5.png)
P value = 0.00459 (Fisher's exact test), Q value = 0.022
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 | 35 | 30 | 53 | 9 |
4Q LOSS WILD-TYPE | 26 | 60 | 26 | 69 | 39 |
Figure S145. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D49V6.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00041
Table S146. Gene #49: '4q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
4Q LOSS MUTATED | 53 | 28 | 26 | 31 |
4Q LOSS WILD-TYPE | 54 | 53 | 76 | 19 |
Figure S146. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D49V7.png)
P value = 0.00267 (Fisher's exact test), Q value = 0.014
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 | 70 | 82 | 100 | 34 | 54 |
4Q LOSS MUTATED | 39 | 33 | 42 | 13 | 11 |
4Q LOSS WILD-TYPE | 31 | 49 | 58 | 21 | 43 |
Figure S147. Get High-res Image Gene #49: '4q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D49V8.png)
P value = 0.0168 (Fisher's exact test), Q value = 0.055
Table S148. Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
5P LOSS MUTATED | 2 | 18 | 9 |
5P LOSS WILD-TYPE | 91 | 133 | 117 |
Figure S148. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D50V1.png)
P value = 0.0242 (Fisher's exact test), Q value = 0.071
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 | 7 | 12 | 2 |
5P LOSS WILD-TYPE | 47 | 55 | 107 | 72 | 54 |
Figure S149. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D50V4.png)
P value = 0.0127 (Fisher's exact test), Q value = 0.046
Table S150. Gene #50: '5p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
5P LOSS MUTATED | 5 | 3 | 3 | 4 | 7 | 7 |
5P LOSS WILD-TYPE | 35 | 60 | 89 | 80 | 39 | 33 |
Figure S150. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D50V5.png)
P value = 0.00987 (Fisher's exact test), Q value = 0.039
Table S151. Gene #50: '5p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
5P LOSS MUTATED | 14 | 2 | 4 | 6 |
5P LOSS WILD-TYPE | 93 | 79 | 98 | 44 |
Figure S151. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D50V7.png)
P value = 0.0161 (Fisher's exact test), Q value = 0.054
Table S152. Gene #50: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
5P LOSS MUTATED | 11 | 5 | 7 | 3 | 0 |
5P LOSS WILD-TYPE | 59 | 77 | 93 | 31 | 54 |
Figure S152. Get High-res Image Gene #50: '5p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D50V8.png)
P value = 0.0122 (Fisher's exact test), Q value = 0.044
Table S153. Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
5Q LOSS MUTATED | 3 | 22 | 12 |
5Q LOSS WILD-TYPE | 90 | 129 | 114 |
Figure S153. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D51V1.png)
P value = 0.0153 (Fisher's exact test), Q value = 0.053
Table S154. Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
5Q LOSS MUTATED | 9 | 9 | 19 |
5Q LOSS WILD-TYPE | 84 | 152 | 97 |
Figure S154. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D51V2.png)
P value = 0.00035 (Fisher's exact test), Q value = 0.0031
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 | 12 | 1 | 8 | 14 | 2 |
5Q LOSS WILD-TYPE | 42 | 55 | 106 | 70 | 54 |
Figure S155. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D51V4.png)
P value = 0.00511 (Fisher's exact test), Q value = 0.024
Table S156. Gene #51: '5q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
5Q LOSS MUTATED | 5 | 4 | 4 | 6 | 8 | 10 |
5Q LOSS WILD-TYPE | 35 | 59 | 88 | 78 | 38 | 30 |
Figure S156. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D51V5.png)
P value = 0.00011 (Fisher's exact test), Q value = 0.0012
Table S157. Gene #51: '5q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
5Q LOSS MUTATED | 21 | 3 | 3 | 7 |
5Q LOSS WILD-TYPE | 86 | 78 | 99 | 43 |
Figure S157. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D51V7.png)
P value = 0.00061 (Fisher's exact test), Q value = 0.0045
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 | 70 | 82 | 100 | 34 | 54 |
5Q LOSS MUTATED | 16 | 7 | 9 | 2 | 0 |
5Q LOSS WILD-TYPE | 54 | 75 | 91 | 32 | 54 |
Figure S158. Get High-res Image Gene #51: '5q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D51V8.png)
P value = 0.0204 (Fisher's exact test), Q value = 0.063
Table S159. Gene #54: '7p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
7P LOSS MUTATED | 10 | 2 | 1 | 3 |
7P LOSS WILD-TYPE | 97 | 79 | 101 | 47 |
Figure S159. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D54V7.png)
P value = 0.0404 (Fisher's exact test), Q value = 0.1
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 | 70 | 82 | 100 | 34 | 54 |
7P LOSS MUTATED | 7 | 5 | 2 | 2 | 0 |
7P LOSS WILD-TYPE | 63 | 77 | 98 | 32 | 54 |
Figure S160. Get High-res Image Gene #54: '7p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D54V8.png)
P value = 0.0185 (Fisher's exact test), Q value = 0.06
Table S161. Gene #55: '7q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
7Q LOSS MUTATED | 8 | 1 | 7 | 3 | 2 |
7Q LOSS WILD-TYPE | 59 | 85 | 64 | 68 | 67 |
Figure S161. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D55V3.png)
P value = 0.035 (Fisher's exact test), Q value = 0.096
Table S162. 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 | 5 | 6 | 6 | 4 | 0 |
7Q LOSS WILD-TYPE | 39 | 89 | 50 | 118 | 48 |
Figure S162. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D55V6.png)
P value = 7e-05 (Fisher's exact test), Q value = 0.00085
Table S163. Gene #55: '7q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
7Q LOSS MUTATED | 15 | 3 | 0 | 3 |
7Q LOSS WILD-TYPE | 92 | 78 | 102 | 47 |
Figure S163. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D55V7.png)
P value = 0.00733 (Fisher's exact test), Q value = 0.031
Table S164. Gene #55: '7q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
7Q LOSS MUTATED | 8 | 5 | 3 | 5 | 0 |
7Q LOSS WILD-TYPE | 62 | 77 | 97 | 29 | 54 |
Figure S164. Get High-res Image Gene #55: '7q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D55V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S165. Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
8P LOSS MUTATED | 30 | 82 | 84 |
8P LOSS WILD-TYPE | 63 | 69 | 42 |
Figure S165. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D56V1.png)
P value = 0.0345 (Fisher's exact test), Q value = 0.095
Table S166. Gene #56: '8p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
8P LOSS MUTATED | 37 | 44 | 48 | 30 | 33 |
8P LOSS WILD-TYPE | 30 | 42 | 23 | 41 | 36 |
Figure S166. Get High-res Image Gene #56: '8p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D56V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S167. Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
9P LOSS MUTATED | 7 | 67 | 45 |
9P LOSS WILD-TYPE | 86 | 84 | 81 |
Figure S167. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D58V1.png)
P value = 0.0402 (Fisher's exact test), Q value = 0.1
Table S168. Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
9P LOSS MUTATED | 26 | 45 | 48 |
9P LOSS WILD-TYPE | 67 | 116 | 68 |
Figure S168. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D58V2.png)
P value = 0.00014 (Fisher's exact test), Q value = 0.0015
Table S169. Gene #58: '9p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
9P LOSS MUTATED | 25 | 24 | 36 | 22 | 10 |
9P LOSS WILD-TYPE | 42 | 62 | 35 | 49 | 59 |
Figure S169. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D58V3.png)
P value = 0.00604 (Fisher's exact test), Q value = 0.026
Table S170. 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 | 31 | 38 | 10 |
9P LOSS WILD-TYPE | 33 | 39 | 83 | 46 | 46 |
Figure S170. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D58V4.png)
P value = 0.0101 (Fisher's exact test), Q value = 0.039
Table S171. Gene #58: '9p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
9P LOSS MUTATED | 15 | 15 | 31 | 18 | 21 | 19 |
9P LOSS WILD-TYPE | 25 | 48 | 61 | 66 | 25 | 21 |
Figure S171. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D58V5.png)
P value = 0.00845 (Fisher's exact test), Q value = 0.035
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 | 16 | 28 | 22 | 47 | 6 |
9P LOSS WILD-TYPE | 28 | 67 | 34 | 75 | 42 |
Figure S172. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D58V6.png)
P value = 0.00889 (Fisher's exact test), Q value = 0.036
Table S173. Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
9P LOSS MUTATED | 30 | 25 | 38 | 13 | 8 |
9P LOSS WILD-TYPE | 40 | 57 | 62 | 21 | 46 |
Figure S173. Get High-res Image Gene #58: '9p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D58V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S174. Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
9Q LOSS MUTATED | 7 | 61 | 42 |
9Q LOSS WILD-TYPE | 86 | 90 | 84 |
Figure S174. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D59V1.png)
P value = 0.00991 (Fisher's exact test), Q value = 0.039
Table S175. Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
9Q LOSS MUTATED | 22 | 41 | 47 |
9Q LOSS WILD-TYPE | 71 | 120 | 69 |
Figure S175. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D59V2.png)
P value = 0.00227 (Fisher's exact test), Q value = 0.013
Table S176. Gene #59: '9q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
9Q LOSS MUTATED | 24 | 25 | 30 | 21 | 9 |
9Q LOSS WILD-TYPE | 43 | 61 | 41 | 50 | 60 |
Figure S176. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D59V3.png)
P value = 0.00162 (Fisher's exact test), Q value = 0.01
Table S177. 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 | 20 | 15 | 31 | 36 | 7 |
9Q LOSS WILD-TYPE | 34 | 41 | 83 | 48 | 49 |
Figure S177. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D59V4.png)
P value = 0.0277 (Fisher's exact test), Q value = 0.079
Table S178. Gene #59: '9q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
9Q LOSS MUTATED | 15 | 15 | 27 | 16 | 17 | 18 |
9Q LOSS WILD-TYPE | 25 | 48 | 65 | 68 | 29 | 22 |
Figure S178. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D59V5.png)
P value = 0.00854 (Fisher's exact test), Q value = 0.035
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 | 15 | 25 | 21 | 42 | 5 |
9Q LOSS WILD-TYPE | 29 | 70 | 35 | 80 | 43 |
Figure S179. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D59V6.png)
P value = 0.00041 (Fisher's exact test), Q value = 0.0035
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 | 70 | 82 | 100 | 34 | 54 |
9Q LOSS MUTATED | 29 | 21 | 35 | 13 | 5 |
9Q LOSS WILD-TYPE | 41 | 61 | 65 | 21 | 49 |
Figure S180. Get High-res Image Gene #59: '9q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D59V8.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.0015
Table S181. Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
10P LOSS MUTATED | 5 | 33 | 9 |
10P LOSS WILD-TYPE | 88 | 118 | 117 |
Figure S181. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D60V1.png)
P value = 0.00307 (Fisher's exact test), Q value = 0.016
Table S182. Gene #60: '10p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
10P LOSS MUTATED | 15 | 13 | 5 | 11 | 2 |
10P LOSS WILD-TYPE | 52 | 73 | 66 | 60 | 67 |
Figure S182. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D60V3.png)
P value = 0.00438 (Fisher's exact test), Q value = 0.021
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 | 7 | 2 |
10P LOSS WILD-TYPE | 42 | 52 | 93 | 77 | 54 |
Figure S183. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D60V4.png)
P value = 0.0104 (Fisher's exact test), Q value = 0.04
Table S184. Gene #60: '10p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
10P LOSS MUTATED | 4 | 15 | 9 | 4 | 9 | 6 |
10P LOSS WILD-TYPE | 36 | 48 | 83 | 80 | 37 | 34 |
Figure S184. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D60V5.png)
P value = 0.0138 (Fisher's exact test), Q value = 0.049
Table S185. 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 | 3 | 18 | 2 |
10P LOSS WILD-TYPE | 40 | 75 | 53 | 104 | 46 |
Figure S185. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D60V6.png)
P value = 0.0151 (Fisher's exact test), Q value = 0.052
Table S186. Gene #60: '10p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
10P LOSS MUTATED | 7 | 19 | 14 | 3 | 2 |
10P LOSS WILD-TYPE | 63 | 63 | 86 | 31 | 52 |
Figure S186. Get High-res Image Gene #60: '10p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D60V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S187. Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
10Q LOSS MUTATED | 10 | 56 | 12 |
10Q LOSS WILD-TYPE | 83 | 95 | 114 |
Figure S187. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D61V1.png)
P value = 0.0448 (Fisher's exact test), Q value = 0.11
Table S188. Gene #61: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
10Q LOSS MUTATED | 28 | 31 | 19 |
10Q LOSS WILD-TYPE | 65 | 130 | 97 |
Figure S188. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D61V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S189. Gene #61: '10q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
10Q LOSS MUTATED | 30 | 21 | 6 | 15 | 4 |
10Q LOSS WILD-TYPE | 37 | 65 | 65 | 56 | 65 |
Figure S189. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D61V3.png)
P value = 3e-05 (Fisher's exact test), Q value = 0.00041
Table S190. 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 | 10 | 5 |
10Q LOSS WILD-TYPE | 31 | 48 | 84 | 74 | 51 |
Figure S190. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D61V4.png)
P value = 0.00322 (Fisher's exact test), Q value = 0.017
Table S191. Gene #61: '10q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
10Q LOSS MUTATED | 10 | 23 | 15 | 9 | 9 | 12 |
10Q LOSS WILD-TYPE | 30 | 40 | 77 | 75 | 37 | 28 |
Figure S191. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D61V5.png)
P value = 1e-04 (Fisher's exact test), Q value = 0.0011
Table S192. 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 | 8 | 24 | 2 |
10Q LOSS WILD-TYPE | 34 | 61 | 48 | 98 | 46 |
Figure S192. 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 = 0.00016
Table S193. Gene #61: '10q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
10Q LOSS MUTATED | 16 | 31 | 19 | 9 | 1 |
10Q LOSS WILD-TYPE | 54 | 51 | 81 | 25 | 53 |
Figure S193. Get High-res Image Gene #61: '10q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D61V8.png)
P value = 0.0115 (Fisher's exact test), Q value = 0.043
Table S194. Gene #62: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
11P LOSS MUTATED | 7 | 32 | 24 |
11P LOSS WILD-TYPE | 86 | 119 | 102 |
Figure S194. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D62V1.png)
P value = 0.011 (Fisher's exact test), Q value = 0.042
Table S195. 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 | 14 | 5 | 15 | 22 | 6 |
11P LOSS WILD-TYPE | 40 | 51 | 99 | 62 | 50 |
Figure S195. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D62V4.png)
P value = 0.0146 (Fisher's exact test), Q value = 0.051
Table S196. Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
11P LOSS MUTATED | 27 | 12 | 9 | 9 |
11P LOSS WILD-TYPE | 80 | 69 | 93 | 41 |
Figure S196. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D62V7.png)
P value = 0.0161 (Fisher's exact test), Q value = 0.054
Table S197. Gene #62: '11p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
11P LOSS MUTATED | 21 | 13 | 15 | 4 | 4 |
11P LOSS WILD-TYPE | 49 | 69 | 85 | 30 | 50 |
Figure S197. Get High-res Image Gene #62: '11p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D62V8.png)
P value = 0.0391 (Fisher's exact test), Q value = 0.1
Table S198. Gene #63: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
11Q LOSS MUTATED | 10 | 35 | 27 |
11Q LOSS WILD-TYPE | 83 | 116 | 99 |
Figure S198. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D63V1.png)
P value = 0.012 (Fisher's exact test), Q value = 0.044
Table S199. Gene #63: '11q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
11Q LOSS MUTATED | 32 | 12 | 13 | 9 |
11Q LOSS WILD-TYPE | 75 | 69 | 89 | 41 |
Figure S199. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D63V7.png)
P value = 0.0493 (Fisher's exact test), Q value = 0.12
Table S200. Gene #63: '11q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
11Q LOSS MUTATED | 21 | 19 | 15 | 5 | 6 |
11Q LOSS WILD-TYPE | 49 | 63 | 85 | 29 | 48 |
Figure S200. Get High-res Image Gene #63: '11q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D63V8.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00031
Table S201. Gene #64: '12p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
12P LOSS MUTATED | 4 | 40 | 22 |
12P LOSS WILD-TYPE | 89 | 111 | 104 |
Figure S201. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D64V1.png)
P value = 0.0181 (Fisher's exact test), Q value = 0.058
Table S202. Gene #64: '12p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
12P LOSS MUTATED | 19 | 21 | 9 | 10 | 7 |
12P LOSS WILD-TYPE | 48 | 65 | 62 | 61 | 62 |
Figure S202. Get High-res Image Gene #64: '12p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D64V3.png)
P value = 0.0267 (Fisher's exact test), Q value = 0.076
Table S203. Gene #65: '12q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
12Q LOSS MUTATED | 3 | 20 | 13 |
12Q LOSS WILD-TYPE | 90 | 131 | 113 |
Figure S203. Get High-res Image Gene #65: '12q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D65V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S204. Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
13Q LOSS MUTATED | 13 | 72 | 37 |
13Q LOSS WILD-TYPE | 80 | 79 | 89 |
Figure S204. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D66V1.png)
P value = 0.0383 (Fisher's exact test), Q value = 0.1
Table S205. Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
13Q LOSS MUTATED | 31 | 43 | 48 |
13Q LOSS WILD-TYPE | 62 | 118 | 68 |
Figure S205. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D66V2.png)
P value = 0.00233 (Fisher's exact test), Q value = 0.013
Table S206. Gene #66: '13q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
13Q LOSS MUTATED | 30 | 24 | 28 | 26 | 11 |
13Q LOSS WILD-TYPE | 37 | 62 | 43 | 45 | 58 |
Figure S206. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D66V3.png)
P value = 0.00033 (Fisher's exact test), Q value = 0.003
Table S207. 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 | 24 | 11 | 38 | 37 | 9 |
13Q LOSS WILD-TYPE | 30 | 45 | 76 | 47 | 47 |
Figure S207. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D66V4.png)
P value = 0.00337 (Fisher's exact test), Q value = 0.017
Table S208. Gene #66: '13q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
13Q LOSS MUTATED | 18 | 25 | 34 | 14 | 13 | 17 |
13Q LOSS WILD-TYPE | 22 | 38 | 58 | 70 | 33 | 23 |
Figure S208. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D66V5.png)
P value = 0.00468 (Fisher's exact test), Q value = 0.022
Table S209. 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 S209. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D66V6.png)
P value = 0.00054 (Fisher's exact test), Q value = 0.0041
Table S210. Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
13Q LOSS MUTATED | 40 | 37 | 19 | 20 |
13Q LOSS WILD-TYPE | 67 | 44 | 83 | 30 |
Figure S210. Get High-res Image Gene #66: '13q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D66V7.png)
P value = 0.00064 (Fisher's exact test), Q value = 0.0047
Table S211. Gene #66: '13q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
13Q LOSS MUTATED | 23 | 30 | 42 | 15 | 6 |
13Q LOSS WILD-TYPE | 47 | 52 | 58 | 19 | 48 |
Figure S211. 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 = 0.00016
Table S212. Gene #67: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
14Q LOSS MUTATED | 5 | 72 | 32 |
14Q LOSS WILD-TYPE | 88 | 79 | 94 |
Figure S212. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D67V1.png)
P value = 6e-05 (Fisher's exact test), Q value = 0.00077
Table S213. Gene #67: '14q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
14Q LOSS MUTATED | 32 | 17 | 27 | 22 | 10 |
14Q LOSS WILD-TYPE | 35 | 69 | 44 | 49 | 59 |
Figure S213. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D67V3.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.00031
Table S214. 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 | 11 | 26 | 33 | 8 |
14Q LOSS WILD-TYPE | 24 | 45 | 88 | 51 | 48 |
Figure S214. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D67V4.png)
P value = 0.00019 (Fisher's exact test), Q value = 0.0019
Table S215. Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
14Q LOSS MUTATED | 44 | 28 | 15 | 17 |
14Q LOSS WILD-TYPE | 63 | 53 | 87 | 33 |
Figure S215. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D67V7.png)
P value = 0.00463 (Fisher's exact test), Q value = 0.022
Table S216. Gene #67: '14q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
14Q LOSS MUTATED | 29 | 21 | 35 | 12 | 7 |
14Q LOSS WILD-TYPE | 41 | 61 | 65 | 22 | 47 |
Figure S216. Get High-res Image Gene #67: '14q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D67V8.png)
P value = 0.00042 (Fisher's exact test), Q value = 0.0036
Table S217. Gene #68: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
15Q LOSS MUTATED | 7 | 40 | 20 |
15Q LOSS WILD-TYPE | 86 | 111 | 106 |
Figure S217. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D68V1.png)
P value = 0.00016 (Fisher's exact test), Q value = 0.0016
Table S218. Gene #68: '15q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
15Q LOSS MUTATED | 22 | 9 | 20 | 9 | 6 |
15Q LOSS WILD-TYPE | 45 | 77 | 51 | 62 | 63 |
Figure S218. 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 = 0.00085
Table S219. 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 S219. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D68V4.png)
P value = 0.031 (Fisher's exact test), Q value = 0.086
Table S220. Gene #68: '15q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
15Q LOSS MUTATED | 6 | 11 | 10 | 13 | 13 | 13 |
15Q LOSS WILD-TYPE | 34 | 52 | 82 | 71 | 33 | 27 |
Figure S220. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D68V5.png)
P value = 0.00152 (Fisher's exact test), Q value = 0.0099
Table S221. Gene #68: '15q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
15Q LOSS MUTATED | 27 | 11 | 10 | 16 |
15Q LOSS WILD-TYPE | 80 | 70 | 92 | 34 |
Figure S221. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D68V7.png)
P value = 0.0204 (Fisher's exact test), Q value = 0.063
Table S222. Gene #68: '15q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
15Q LOSS MUTATED | 20 | 12 | 23 | 5 | 4 |
15Q LOSS WILD-TYPE | 50 | 70 | 77 | 29 | 50 |
Figure S222. Get High-res Image Gene #68: '15q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D68V8.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S223. Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
16P LOSS MUTATED | 6 | 60 | 42 |
16P LOSS WILD-TYPE | 87 | 91 | 84 |
Figure S223. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D69V1.png)
P value = 1e-04 (Fisher's exact test), Q value = 0.0011
Table S224. Gene #69: '16p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
16P LOSS MUTATED | 26 | 31 | 51 |
16P LOSS WILD-TYPE | 67 | 130 | 65 |
Figure S224. 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 = 0.00016
Table S225. Gene #69: '16p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
16P LOSS MUTATED | 24 | 16 | 51 | 11 | 4 |
16P LOSS WILD-TYPE | 43 | 70 | 20 | 60 | 65 |
Figure S225. 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 = 0.00016
Table S226. 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 | 24 | 44 | 3 |
16P LOSS WILD-TYPE | 32 | 43 | 90 | 40 | 53 |
Figure S226. Get High-res Image Gene #69: '16p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D69V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S227. Gene #69: '16p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
16P LOSS MUTATED | 9 | 12 | 16 | 17 | 30 | 23 |
16P LOSS WILD-TYPE | 31 | 51 | 76 | 67 | 16 | 17 |
Figure S227. 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 = 0.00016
Table S228. 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 | 20 | 27 | 48 | 2 |
16P LOSS WILD-TYPE | 34 | 75 | 29 | 74 | 46 |
Figure S228. 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 = 0.00016
Table S229. Gene #69: '16p loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
16P LOSS MUTATED | 39 | 20 | 13 | 31 |
16P LOSS WILD-TYPE | 68 | 61 | 89 | 19 |
Figure S229. 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 = 0.00016
Table S230. Gene #69: '16p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
16P LOSS MUTATED | 32 | 18 | 41 | 7 | 5 |
16P LOSS WILD-TYPE | 38 | 64 | 59 | 27 | 49 |
Figure S230. 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 = 0.00016
Table S231. Gene #70: '16q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
16Q LOSS MUTATED | 6 | 75 | 64 |
16Q LOSS WILD-TYPE | 87 | 76 | 62 |
Figure S231. 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 = 0.00016
Table S232. Gene #70: '16q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
16Q LOSS MUTATED | 26 | 48 | 71 |
16Q LOSS WILD-TYPE | 67 | 113 | 45 |
Figure S232. 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 = 0.00016
Table S233. Gene #70: '16q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
16Q LOSS MUTATED | 33 | 26 | 60 | 17 | 7 |
16Q LOSS WILD-TYPE | 34 | 60 | 11 | 54 | 62 |
Figure S233. 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 = 0.00016
Table S234. 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 S234. 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 = 0.00016
Table S235. Gene #70: '16q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
16Q LOSS MUTATED | 15 | 25 | 27 | 20 | 31 | 26 |
16Q LOSS WILD-TYPE | 25 | 38 | 65 | 64 | 15 | 14 |
Figure S235. Get High-res Image Gene #70: '16q loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D70V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00016
Table S236. 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 S236. 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 = 0.00016
Table S237. Gene #70: '16q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
16Q LOSS MUTATED | 59 | 28 | 21 | 31 |
16Q LOSS WILD-TYPE | 48 | 53 | 81 | 19 |
Figure S237. 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 = 0.00016
Table S238. Gene #70: '16q loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
16Q LOSS MUTATED | 41 | 32 | 48 | 10 | 8 |
16Q LOSS WILD-TYPE | 29 | 50 | 52 | 24 | 46 |
Figure S238. 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 = 0.00016
Table S239. Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
17P LOSS MUTATED | 32 | 119 | 34 |
17P LOSS WILD-TYPE | 61 | 32 | 92 |
Figure S239. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D71V1.png)
P value = 0.00187 (Fisher's exact test), Q value = 0.011
Table S240. Gene #71: '17p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
17P LOSS MUTATED | 45 | 50 | 31 | 29 | 27 |
17P LOSS WILD-TYPE | 22 | 36 | 40 | 42 | 42 |
Figure S240. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D71V3.png)
P value = 0.0219 (Fisher's exact test), Q value = 0.066
Table S241. 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 S241. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D71V4.png)
P value = 0.00199 (Fisher's exact test), Q value = 0.012
Table S242. Gene #71: '17p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 40 | 63 | 92 | 84 | 46 | 40 |
17P LOSS MUTATED | 29 | 40 | 38 | 34 | 24 | 19 |
17P LOSS WILD-TYPE | 11 | 23 | 54 | 50 | 22 | 21 |
Figure S242. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D71V5.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.0031
Table S243. 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 S243. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D71V6.png)
P value = 0.00022 (Fisher's exact test), Q value = 0.0022
Table S244. Gene #71: '17p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
17P LOSS MUTATED | 30 | 51 | 46 | 27 | 22 |
17P LOSS WILD-TYPE | 40 | 31 | 54 | 7 | 32 |
Figure S244. Get High-res Image Gene #71: '17p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D71V8.png)
P value = 0.0266 (Fisher's exact test), Q value = 0.076
Table S245. Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
18P LOSS MUTATED | 11 | 39 | 24 |
18P LOSS WILD-TYPE | 82 | 112 | 102 |
Figure S245. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D73V1.png)
P value = 0.00236 (Fisher's exact test), Q value = 0.013
Table S246. Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
18P LOSS MUTATED | 13 | 25 | 36 |
18P LOSS WILD-TYPE | 80 | 136 | 80 |
Figure S246. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D73V2.png)
P value = 0.00322 (Fisher's exact test), Q value = 0.017
Table S247. 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 S247. Get High-res Image Gene #73: '18p loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D73V4.png)
P value = 0.0163 (Fisher's exact test), Q value = 0.054
Table S248. Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
18Q LOSS MUTATED | 11 | 41 | 27 |
18Q LOSS WILD-TYPE | 82 | 110 | 99 |
Figure S248. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D74V1.png)
P value = 0.00164 (Fisher's exact test), Q value = 0.01
Table S249. Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
18Q LOSS MUTATED | 13 | 28 | 38 |
18Q LOSS WILD-TYPE | 80 | 133 | 78 |
Figure S249. Get High-res Image Gene #74: '18q loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D74V2.png)
P value = 0.00054 (Fisher's exact test), Q value = 0.0041
Table S250. 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 S250. 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 = 0.00016
Table S251. Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
19P LOSS MUTATED | 3 | 37 | 12 |
19P LOSS WILD-TYPE | 90 | 114 | 114 |
Figure S251. Get High-res Image Gene #75: '19p loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D75V1.png)
P value = 0.0188 (Fisher's exact test), Q value = 0.06
Table S252. Gene #75: '19p loss' versus Molecular Subtype #8: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 70 | 82 | 100 | 34 | 54 |
19P LOSS MUTATED | 15 | 12 | 10 | 9 | 3 |
19P LOSS WILD-TYPE | 55 | 70 | 90 | 25 | 51 |
Figure S252. 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 = 0.00016
Table S253. Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
19Q LOSS MUTATED | 2 | 30 | 7 |
19Q LOSS WILD-TYPE | 91 | 121 | 119 |
Figure S253. Get High-res Image Gene #76: '19q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D76V1.png)
P value = 0.0416 (Fisher's exact test), Q value = 0.11
Table S254. Gene #78: '20q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
20Q LOSS MUTATED | 8 | 3 | 1 | 0 |
20Q LOSS WILD-TYPE | 99 | 78 | 101 | 50 |
Figure S254. Get High-res Image Gene #78: '20q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D78V7.png)
P value = 0.0162 (Fisher's exact test), Q value = 0.054
Table S255. Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
21Q LOSS MUTATED | 17 | 50 | 43 |
21Q LOSS WILD-TYPE | 76 | 101 | 83 |
Figure S255. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D79V1.png)
P value = 0.00034 (Fisher's exact test), Q value = 0.0031
Table S256. Gene #79: '21q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
21Q LOSS MUTATED | 34 | 15 | 22 | 17 | 19 |
21Q LOSS WILD-TYPE | 33 | 71 | 49 | 54 | 50 |
Figure S256. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D79V3.png)
P value = 0.0115 (Fisher's exact test), Q value = 0.043
Table S257. Gene #79: '21q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
21Q LOSS MUTATED | 43 | 23 | 21 | 19 |
21Q LOSS WILD-TYPE | 64 | 58 | 81 | 31 |
Figure S257. Get High-res Image Gene #79: '21q loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D79V7.png)
P value = 0.00452 (Fisher's exact test), Q value = 0.022
Table S258. Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
22Q LOSS MUTATED | 16 | 40 | 14 |
22Q LOSS WILD-TYPE | 77 | 111 | 112 |
Figure S258. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D80V1.png)
P value = 0.00265 (Fisher's exact test), Q value = 0.014
Table S259. Gene #80: '22q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
---|---|---|---|---|---|
ALL | 67 | 86 | 71 | 71 | 69 |
22Q LOSS MUTATED | 24 | 17 | 8 | 13 | 8 |
22Q LOSS WILD-TYPE | 43 | 69 | 63 | 58 | 61 |
Figure S259. Get High-res Image Gene #80: '22q loss' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D80V3.png)
P value = 0.0198 (Fisher's exact test), Q value = 0.062
Table S260. Gene #81: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
XP LOSS MUTATED | 14 | 46 | 35 |
XP LOSS WILD-TYPE | 79 | 115 | 81 |
Figure S260. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D81V2.png)
P value = 0.0242 (Fisher's exact test), Q value = 0.071
Table S261. 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 | 11 | 40 | 13 | 16 |
XP LOSS WILD-TYPE | 40 | 45 | 74 | 71 | 40 |
Figure S261. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D81V4.png)
P value = 0.0227 (Fisher's exact test), Q value = 0.068
Table S262. Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 107 | 81 | 102 | 50 |
XP LOSS MUTATED | 27 | 16 | 37 | 8 |
XP LOSS WILD-TYPE | 80 | 65 | 65 | 42 |
Figure S262. Get High-res Image Gene #81: 'xp loss' versus Molecular Subtype #7: 'MIRSEQ_MATURE_CNMF'
![](D81V7.png)
P value = 0.0489 (Fisher's exact test), Q value = 0.12
Table S263. Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 151 | 126 |
XQ LOSS MUTATED | 11 | 37 | 26 |
XQ LOSS WILD-TYPE | 82 | 114 | 100 |
Figure S263. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #1: 'CN_CNMF'
![](D82V1.png)
P value = 0.0419 (Fisher's exact test), Q value = 0.11
Table S264. Gene #82: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 93 | 161 | 116 |
XQ LOSS MUTATED | 12 | 31 | 31 |
XQ LOSS WILD-TYPE | 81 | 130 | 85 |
Figure S264. Get High-res Image Gene #82: 'xq loss' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D82V2.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/22531240/transformed.cor.cli.txt
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Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LIHC-TP/22542932/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.