This pipeline computes the correlation between significant copy number variation (cnv) genes and molecular subtypes.
Testing the association between copy number variation of 63 peak regions and 12 molecular subtypes across 427 patients, 193 significant findings detected with Q value < 0.25.
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Amp Peak 2(5p13.2) cnvs correlated to 'CN_CNMF'.
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Amp Peak 4(6p21.1) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Amp Peak 5(8p11.23) cnvs correlated to 'CN_CNMF'.
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Amp Peak 6(8p11.21) cnvs correlated to 'CN_CNMF'.
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Amp Peak 7(8q12.1) cnvs correlated to 'CN_CNMF'.
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Amp Peak 8(8q24.21) cnvs correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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Amp Peak 9(11p15.5) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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Amp Peak 10(12p13.33) cnvs correlated to 'CN_CNMF'.
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Amp Peak 11(13q12.13) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Amp Peak 12(13q22.1) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Amp Peak 13(16p11.2) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Amp Peak 14(16q12.1) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Amp Peak 15(17q12) cnvs correlated to 'CN_CNMF'.
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Amp Peak 16(17q24.1) cnvs correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Amp Peak 19(20p11.23) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Amp Peak 20(20q11.21) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Amp Peak 21(20q12) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Amp Peak 22(20q13.12) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 1(1p36.11) cnvs correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 2(1p33) cnvs correlated to 'CN_CNMF'.
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Del Peak 4(3p26.1) cnvs correlated to 'CN_CNMF'.
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Del Peak 7(4p16.1) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 8(4q22.1) cnvs correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Del Peak 9(4q35.1) cnvs correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 10(5q11.2) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 11(5q21.3) cnvs correlated to 'CN_CNMF'.
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Del Peak 12(5q23.1) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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Del Peak 16(8p23.3) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 17(8p22) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 18(8p11.22) cnvs correlated to 'CN_CNMF'.
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Del Peak 19(8p11.21) cnvs correlated to 'CN_CNMF'.
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Del Peak 21(10p15.3) cnvs correlated to 'CN_CNMF'.
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Del Peak 22(10q21.1) cnvs correlated to 'CN_CNMF'.
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Del Peak 23(10q23.31) cnvs correlated to 'CN_CNMF'.
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Del Peak 24(10q25.2) cnvs correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 26(14q32.11) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 27(15q11.2) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 28(15q21.1) cnvs correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 29(15q22.33) cnvs correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 32(17p12) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 34(18p11.31) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 35(18q12.2) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 36(18q21.2) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 37(18q22.1) cnvs correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 39(20p12.1) cnvs correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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Del Peak 40(21q11.2) cnvs correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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Del Peak 41(22q13.32) cnvs correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 63 regions and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 193 significant findings detected.
Molecular subtypes |
MRNA CNMF |
MRNA CHIERARCHICAL |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
nCNV (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
Amp Peak 22(20q13 12) | 0 (0%) | 117 |
3.87e-10 (2.63e-07) |
7.28e-12 (5.1e-09) |
3.63e-41 (2.72e-38) |
3.72e-11 (2.58e-08) |
0.000237 (0.138) |
1.3e-05 (0.00821) |
1.62e-13 (1.15e-10) |
1.27e-15 (9.26e-13) |
0.79 (1.00) |
0.00028 (0.161) |
5.84e-13 (4.13e-10) |
0.163 (1.00) |
Amp Peak 20(20q11 21) | 0 (0%) | 121 |
3.87e-10 (2.63e-07) |
7.28e-12 (5.1e-09) |
5.06e-42 (3.8e-39) |
1.91e-12 (1.35e-09) |
0.00073 (0.398) |
0.000108 (0.0652) |
2.4e-15 (1.74e-12) |
3.41e-17 (2.49e-14) |
0.821 (1.00) |
0.000103 (0.0621) |
2.18e-12 (1.53e-09) |
0.143 (1.00) |
Amp Peak 21(20q12) | 0 (0%) | 120 |
4.29e-11 (2.97e-08) |
4.99e-12 (3.51e-09) |
1.74e-41 (1.31e-38) |
1.68e-11 (1.17e-08) |
0.000512 (0.285) |
2.18e-05 (0.0137) |
3.88e-14 (2.79e-11) |
2.6e-16 (1.89e-13) |
0.774 (1.00) |
0.000125 (0.0751) |
1.94e-13 (1.38e-10) |
0.14 (1.00) |
Del Peak 26(14q32 11) | 0 (0%) | 292 |
1.58e-06 (0.00103) |
3.23e-05 (0.0202) |
1.67e-21 (1.24e-18) |
0.000294 (0.168) |
0.000199 (0.117) |
0.0236 (1.00) |
0.000757 (0.411) |
7.38e-05 (0.045) |
0.164 (1.00) |
0.00017 (0.101) |
6.78e-05 (0.0415) |
0.141 (1.00) |
Del Peak 32(17p12) | 0 (0%) | 192 |
2.47e-08 (1.66e-05) |
4.97e-07 (0.000327) |
3.53e-33 (2.65e-30) |
1.08e-10 (7.37e-08) |
0.00726 (1.00) |
7.42e-05 (0.0451) |
3.83e-11 (2.66e-08) |
3.31e-11 (2.3e-08) |
0.597 (1.00) |
0.0261 (1.00) |
8.13e-11 (5.6e-08) |
0.026 (1.00) |
Del Peak 34(18p11 31) | 0 (0%) | 198 |
6.87e-12 (4.82e-09) |
7.49e-10 (5.08e-07) |
3.11e-44 (2.34e-41) |
4.14e-15 (2.99e-12) |
0.00042 (0.238) |
0.00104 (0.548) |
5.06e-18 (3.71e-15) |
7.54e-18 (5.53e-15) |
0.876 (1.00) |
0.0025 (1.00) |
6.5e-14 (4.67e-11) |
0.0188 (1.00) |
Del Peak 35(18q12 2) | 0 (0%) | 171 |
1.09e-11 (7.65e-09) |
2.66e-10 (1.82e-07) |
7.34e-47 (5.54e-44) |
1.24e-17 (9.1e-15) |
0.00224 (1.00) |
0.000421 (0.238) |
2.22e-17 (1.62e-14) |
1.43e-18 (1.05e-15) |
0.943 (1.00) |
0.00272 (1.00) |
9.9e-15 (7.15e-12) |
0.106 (1.00) |
Del Peak 36(18q21 2) | 0 (0%) | 158 |
3.37e-11 (2.34e-08) |
1.46e-10 (9.98e-08) |
1.2e-44 (9.03e-42) |
6.6e-14 (4.73e-11) |
0.001 (0.53) |
0.000225 (0.132) |
3.56e-13 (2.52e-10) |
1.06e-13 (7.59e-11) |
0.444 (1.00) |
0.0704 (1.00) |
1.38e-13 (9.83e-11) |
0.0664 (1.00) |
Del Peak 37(18q22 1) | 0 (0%) | 158 |
8.76e-11 (6.03e-08) |
8.34e-10 (5.63e-07) |
3.76e-47 (2.84e-44) |
3.75e-14 (2.7e-11) |
0.00247 (1.00) |
0.000224 (0.131) |
3.56e-13 (2.52e-10) |
1.06e-13 (7.59e-11) |
0.584 (1.00) |
0.0491 (1.00) |
3.5e-14 (2.52e-11) |
0.0644 (1.00) |
Amp Peak 11(13q12 13) | 0 (0%) | 167 |
1.58e-06 (0.00103) |
2.07e-06 (0.00134) |
3.21e-32 (2.4e-29) |
1.41e-05 (0.00891) |
0.00491 (1.00) |
0.0124 (1.00) |
1.07e-06 (7e-04) |
2.75e-09 (1.85e-06) |
0.563 (1.00) |
0.0181 (1.00) |
2.83e-07 (0.000188) |
0.692 (1.00) |
Del Peak 17(8p22) | 0 (0%) | 237 |
0.00264 (1.00) |
0.000174 (0.103) |
2.78e-26 (2.08e-23) |
4.13e-08 (2.76e-05) |
0.00799 (1.00) |
0.00013 (0.0778) |
5.24e-05 (0.0323) |
3.41e-06 (0.00221) |
0.485 (1.00) |
0.298 (1.00) |
3.34e-07 (0.000221) |
0.386 (1.00) |
Del Peak 29(15q22 33) | 0 (0%) | 279 |
0.000273 (0.157) |
0.000835 (0.451) |
8.89e-20 (6.56e-17) |
0.000136 (0.0811) |
0.0436 (1.00) |
0.0512 (1.00) |
3.82e-07 (0.000252) |
1.77e-08 (1.19e-05) |
0.687 (1.00) |
8.91e-05 (0.054) |
0.000119 (0.0717) |
0.333 (1.00) |
Amp Peak 9(11p15 5) | 0 (0%) | 338 |
6.09e-06 (0.0039) |
0.000343 (0.195) |
9.35e-06 (0.00594) |
8.76e-06 (0.00558) |
0.0028 (1.00) |
0.00358 (1.00) |
0.00186 (0.953) |
0.000461 (0.258) |
0.182 (1.00) |
7.62e-05 (0.0463) |
0.00157 (0.81) |
2e-05 (0.0126) |
Amp Peak 12(13q22 1) | 0 (0%) | 163 |
0.000586 (0.323) |
4.41e-05 (0.0273) |
7.99e-31 (5.97e-28) |
8.28e-06 (0.00529) |
0.0148 (1.00) |
0.0444 (1.00) |
1.31e-06 (0.000853) |
2.87e-08 (1.92e-05) |
0.45 (1.00) |
0.0332 (1.00) |
4.33e-06 (0.00279) |
0.978 (1.00) |
Amp Peak 14(16q12 1) | 0 (0%) | 324 |
0.000126 (0.0757) |
2.53e-05 (0.0159) |
1.52e-20 (1.12e-17) |
0.0499 (1.00) |
0.082 (1.00) |
0.081 (1.00) |
0.000479 (0.268) |
3.69e-05 (0.0229) |
0.963 (1.00) |
0.000191 (0.113) |
0.000155 (0.0919) |
0.241 (1.00) |
Del Peak 1(1p36 11) | 0 (0%) | 275 |
0.00015 (0.0893) |
0.00247 (1.00) |
1.82e-13 (1.3e-10) |
6.08e-05 (0.0373) |
0.00567 (1.00) |
0.0238 (1.00) |
3.98e-05 (0.0247) |
3.29e-05 (0.0205) |
0.45 (1.00) |
0.017 (1.00) |
0.000156 (0.0929) |
0.00279 (1.00) |
Del Peak 8(4q22 1) | 0 (0%) | 295 |
0.000383 (0.218) |
0.00214 (1.00) |
1.38e-13 (9.83e-11) |
0.000212 (0.124) |
0.072 (1.00) |
0.391 (1.00) |
3.91e-06 (0.00252) |
7.21e-07 (0.000472) |
0.455 (1.00) |
0.0129 (1.00) |
0.000984 (0.521) |
0.313 (1.00) |
Del Peak 9(4q35 1) | 0 (0%) | 285 |
0.00098 (0.52) |
0.00363 (1.00) |
3.74e-15 (2.71e-12) |
1.28e-05 (0.00812) |
0.0146 (1.00) |
0.146 (1.00) |
1.5e-05 (0.00949) |
2.05e-05 (0.0129) |
0.351 (1.00) |
0.0286 (1.00) |
5.93e-06 (0.00381) |
0.64 (1.00) |
Del Peak 16(8p23 3) | 0 (0%) | 251 |
0.0114 (1.00) |
6.76e-05 (0.0414) |
6.52e-21 (4.84e-18) |
3.21e-07 (0.000212) |
0.00453 (1.00) |
0.00096 (0.511) |
0.000534 (0.296) |
2.72e-06 (0.00176) |
0.218 (1.00) |
0.152 (1.00) |
2.15e-07 (0.000143) |
0.331 (1.00) |
Del Peak 7(4p16 1) | 0 (0%) | 301 |
0.000733 (0.399) |
0.00397 (1.00) |
1.11e-12 (7.8e-10) |
0.00234 (1.00) |
0.0222 (1.00) |
0.0866 (1.00) |
3.17e-06 (0.00205) |
2.56e-07 (0.00017) |
0.381 (1.00) |
0.0542 (1.00) |
0.000229 (0.134) |
0.511 (1.00) |
Del Peak 10(5q11 2) | 0 (0%) | 333 |
0.00115 (0.6) |
0.00127 (0.663) |
8.17e-10 (5.52e-07) |
0.0231 (1.00) |
0.000855 (0.46) |
0.0118 (1.00) |
4.77e-05 (0.0294) |
7.09e-05 (0.0433) |
0.594 (1.00) |
0.366 (1.00) |
0.000273 (0.157) |
0.511 (1.00) |
Del Peak 27(15q11 2) | 0 (0%) | 264 |
0.000468 (0.262) |
0.00159 (0.817) |
8.07e-21 (5.98e-18) |
0.00442 (1.00) |
0.0415 (1.00) |
0.07 (1.00) |
5.1e-06 (0.00328) |
6.06e-07 (0.000399) |
0.99 (1.00) |
0.00394 (1.00) |
5.77e-05 (0.0355) |
0.917 (1.00) |
Del Peak 28(15q21 1) | 0 (0%) | 274 |
0.0261 (1.00) |
0.0142 (1.00) |
3.06e-17 (2.24e-14) |
0.00424 (1.00) |
0.00959 (1.00) |
0.0657 (1.00) |
1.56e-05 (0.00983) |
6.81e-07 (0.000447) |
0.815 (1.00) |
0.00219 (1.00) |
0.000428 (0.241) |
0.955 (1.00) |
Del Peak 41(22q13 32) | 0 (0%) | 282 |
0.000892 (0.477) |
0.000232 (0.135) |
4.07e-15 (2.94e-12) |
0.00137 (0.715) |
0.0792 (1.00) |
0.218 (1.00) |
0.000457 (0.257) |
2.81e-05 (0.0175) |
0.38 (1.00) |
0.00263 (1.00) |
8.33e-06 (0.00532) |
0.474 (1.00) |
Amp Peak 4(6p21 1) | 0 (0%) | 335 |
0.196 (1.00) |
0.000191 (0.113) |
8.94e-10 (6.03e-07) |
0.0374 (1.00) |
0.505 (1.00) |
0.178 (1.00) |
0.0226 (1.00) |
0.000426 (0.241) |
0.858 (1.00) |
0.165 (1.00) |
0.00149 (0.771) |
0.705 (1.00) |
Amp Peak 13(16p11 2) | 0 (0%) | 310 |
0.00114 (0.597) |
0.000129 (0.0774) |
1.44e-19 (1.06e-16) |
0.022 (1.00) |
0.0218 (1.00) |
0.033 (1.00) |
0.00101 (0.534) |
0.000256 (0.148) |
0.933 (1.00) |
0.00257 (1.00) |
0.000488 (0.272) |
0.426 (1.00) |
Amp Peak 16(17q24 1) | 0 (0%) | 332 |
0.0504 (1.00) |
0.0263 (1.00) |
3.39e-10 (2.31e-07) |
0.000341 (0.194) |
0.0579 (1.00) |
0.00527 (1.00) |
0.000551 (0.305) |
0.000306 (0.175) |
0.00916 (1.00) |
0.213 (1.00) |
0.0345 (1.00) |
0.147 (1.00) |
Amp Peak 19(20p11 23) | 0 (0%) | 219 |
0.0933 (1.00) |
0.000725 (0.396) |
9.01e-11 (6.18e-08) |
0.0767 (1.00) |
0.00595 (1.00) |
0.186 (1.00) |
0.000246 (0.142) |
0.000272 (0.157) |
0.453 (1.00) |
0.0846 (1.00) |
0.00198 (1.00) |
0.98 (1.00) |
Del Peak 12(5q23 1) | 0 (0%) | 317 |
0.0497 (1.00) |
0.0242 (1.00) |
7.91e-11 (5.46e-08) |
0.0234 (1.00) |
0.00895 (1.00) |
0.15 (1.00) |
0.000231 (0.134) |
9.59e-05 (0.058) |
0.873 (1.00) |
0.792 (1.00) |
0.00386 (1.00) |
0.268 (1.00) |
Amp Peak 8(8q24 21) | 0 (0%) | 181 |
0.563 (1.00) |
0.0685 (1.00) |
7.42e-21 (5.51e-18) |
0.000339 (0.193) |
0.0294 (1.00) |
0.0104 (1.00) |
0.0055 (1.00) |
0.0124 (1.00) |
0.771 (1.00) |
0.403 (1.00) |
0.000854 (0.46) |
0.0535 (1.00) |
Del Peak 24(10q25 2) | 0 (0%) | 332 |
0.125 (1.00) |
0.00187 (0.955) |
8.89e-11 (6.11e-08) |
0.00498 (1.00) |
0.00337 (1.00) |
0.319 (1.00) |
0.000982 (0.521) |
0.000922 (0.493) |
0.922 (1.00) |
0.104 (1.00) |
1.27e-05 (0.00809) |
0.806 (1.00) |
Del Peak 39(20p12 1) | 0 (0%) | 347 |
0.0484 (1.00) |
0.203 (1.00) |
7.23e-06 (0.00463) |
0.000455 (0.256) |
0.668 (1.00) |
0.278 (1.00) |
0.00212 (1.00) |
7.09e-05 (0.0433) |
0.135 (1.00) |
0.122 (1.00) |
0.00503 (1.00) |
0.158 (1.00) |
Del Peak 40(21q11 2) | 0 (0%) | 297 |
0.0264 (1.00) |
0.0387 (1.00) |
5.95e-11 (4.11e-08) |
0.0289 (1.00) |
0.182 (1.00) |
0.455 (1.00) |
0.000607 (0.334) |
0.000651 (0.357) |
0.905 (1.00) |
0.12 (1.00) |
0.000184 (0.109) |
0.151 (1.00) |
Amp Peak 2(5p13 2) | 0 (0%) | 344 |
0.38 (1.00) |
0.268 (1.00) |
2.93e-05 (0.0183) |
0.595 (1.00) |
0.00595 (1.00) |
0.724 (1.00) |
0.0343 (1.00) |
0.00182 (0.934) |
0.788 (1.00) |
0.101 (1.00) |
0.0478 (1.00) |
0.507 (1.00) |
Amp Peak 5(8p11 23) | 0 (0%) | 277 |
0.302 (1.00) |
0.126 (1.00) |
3.13e-25 (2.33e-22) |
0.522 (1.00) |
0.652 (1.00) |
0.733 (1.00) |
0.491 (1.00) |
0.179 (1.00) |
0.288 (1.00) |
0.366 (1.00) |
0.319 (1.00) |
0.978 (1.00) |
Amp Peak 6(8p11 21) | 0 (0%) | 248 |
0.444 (1.00) |
0.0716 (1.00) |
3.21e-19 (2.36e-16) |
0.386 (1.00) |
0.152 (1.00) |
0.00672 (1.00) |
0.541 (1.00) |
0.124 (1.00) |
0.635 (1.00) |
0.503 (1.00) |
0.269 (1.00) |
0.658 (1.00) |
Amp Peak 7(8q12 1) | 0 (0%) | 206 |
0.489 (1.00) |
0.0389 (1.00) |
2.41e-20 (1.78e-17) |
0.00299 (1.00) |
0.0059 (1.00) |
0.00068 (0.373) |
0.0127 (1.00) |
0.00517 (1.00) |
0.378 (1.00) |
0.639 (1.00) |
0.000576 (0.318) |
0.0736 (1.00) |
Amp Peak 10(12p13 33) | 0 (0%) | 323 |
0.537 (1.00) |
0.801 (1.00) |
0.000176 (0.104) |
0.235 (1.00) |
0.426 (1.00) |
0.958 (1.00) |
0.343 (1.00) |
0.925 (1.00) |
0.503 (1.00) |
0.827 (1.00) |
0.677 (1.00) |
0.553 (1.00) |
Amp Peak 15(17q12) | 0 (0%) | 323 |
0.0538 (1.00) |
0.075 (1.00) |
4.15e-08 (2.77e-05) |
0.000517 (0.287) |
0.131 (1.00) |
0.00276 (1.00) |
0.00079 (0.427) |
0.00323 (1.00) |
0.0376 (1.00) |
0.176 (1.00) |
0.0282 (1.00) |
0.287 (1.00) |
Del Peak 2(1p33) | 0 (0%) | 319 |
0.0223 (1.00) |
0.376 (1.00) |
1.12e-08 (7.54e-06) |
0.00141 (0.737) |
0.455 (1.00) |
0.395 (1.00) |
0.0112 (1.00) |
0.00477 (1.00) |
0.601 (1.00) |
0.00154 (0.795) |
0.00642 (1.00) |
0.000955 (0.509) |
Del Peak 4(3p26 1) | 0 (0%) | 365 |
0.399 (1.00) |
0.281 (1.00) |
4.05e-05 (0.0251) |
0.0937 (1.00) |
0.852 (1.00) |
0.861 (1.00) |
0.199 (1.00) |
0.0127 (1.00) |
0.686 (1.00) |
0.105 (1.00) |
0.00151 (0.783) |
0.558 (1.00) |
Del Peak 11(5q21 3) | 0 (0%) | 307 |
0.0661 (1.00) |
0.0105 (1.00) |
2.27e-11 (1.58e-08) |
0.00944 (1.00) |
0.0329 (1.00) |
0.0971 (1.00) |
0.00147 (0.765) |
0.00087 (0.466) |
0.933 (1.00) |
0.718 (1.00) |
0.0282 (1.00) |
0.15 (1.00) |
Del Peak 18(8p11 22) | 0 (0%) | 344 |
0.402 (1.00) |
0.137 (1.00) |
6.26e-10 (4.25e-07) |
0.0384 (1.00) |
0.0139 (1.00) |
0.00534 (1.00) |
0.0779 (1.00) |
0.00662 (1.00) |
0.814 (1.00) |
0.148 (1.00) |
0.0151 (1.00) |
0.0481 (1.00) |
Del Peak 19(8p11 21) | 0 (0%) | 383 |
0.0251 (1.00) |
0.355 (1.00) |
6.26e-07 (0.000411) |
0.604 (1.00) |
0.0515 (1.00) |
0.024 (1.00) |
0.342 (1.00) |
0.0188 (1.00) |
0.343 (1.00) |
0.174 (1.00) |
0.0844 (1.00) |
0.287 (1.00) |
Del Peak 21(10p15 3) | 0 (0%) | 358 |
0.115 (1.00) |
0.102 (1.00) |
1.05e-06 (0.000687) |
0.013 (1.00) |
0.0242 (1.00) |
0.104 (1.00) |
0.0674 (1.00) |
0.00735 (1.00) |
0.63 (1.00) |
0.00547 (1.00) |
0.00533 (1.00) |
0.355 (1.00) |
Del Peak 22(10q21 1) | 0 (0%) | 343 |
0.00335 (1.00) |
0.00888 (1.00) |
7.55e-10 (5.11e-07) |
0.0834 (1.00) |
0.0371 (1.00) |
0.144 (1.00) |
0.0779 (1.00) |
0.0447 (1.00) |
0.971 (1.00) |
0.158 (1.00) |
0.00705 (1.00) |
0.745 (1.00) |
Del Peak 23(10q23 31) | 0 (0%) | 330 |
0.146 (1.00) |
0.0306 (1.00) |
1.68e-07 (0.000112) |
0.0649 (1.00) |
0.093 (1.00) |
0.375 (1.00) |
0.0137 (1.00) |
0.109 (1.00) |
0.745 (1.00) |
0.0254 (1.00) |
0.000774 (0.42) |
0.453 (1.00) |
Amp Peak 1(2q33 1) | 0 (0%) | 344 |
0.166 (1.00) |
0.0365 (1.00) |
0.00165 (0.848) |
0.054 (1.00) |
0.054 (1.00) |
0.0652 (1.00) |
0.0141 (1.00) |
0.0339 (1.00) |
0.224 (1.00) |
0.099 (1.00) |
0.191 (1.00) |
0.343 (1.00) |
Amp Peak 3(5q22 3) | 0 (0%) | 386 |
0.915 (1.00) |
0.677 (1.00) |
0.00873 (1.00) |
0.798 (1.00) |
0.385 (1.00) |
0.494 (1.00) |
0.152 (1.00) |
0.0105 (1.00) |
0.902 (1.00) |
1 (1.00) |
0.153 (1.00) |
0.417 (1.00) |
Amp Peak 17(19p13 2) | 0 (0%) | 359 |
0.0674 (1.00) |
0.0263 (1.00) |
0.000707 (0.386) |
0.0533 (1.00) |
0.697 (1.00) |
0.341 (1.00) |
0.344 (1.00) |
0.124 (1.00) |
0.364 (1.00) |
0.018 (1.00) |
0.017 (1.00) |
0.335 (1.00) |
Amp Peak 18(19q13 11) | 0 (0%) | 342 |
0.181 (1.00) |
0.0232 (1.00) |
0.00409 (1.00) |
0.161 (1.00) |
0.0545 (1.00) |
0.688 (1.00) |
0.0841 (1.00) |
0.0122 (1.00) |
0.466 (1.00) |
0.0971 (1.00) |
0.0481 (1.00) |
0.27 (1.00) |
Del Peak 3(2q37 2) | 0 (0%) | 406 |
0.805 (1.00) |
0.0652 (1.00) |
0.656 (1.00) |
0.288 (1.00) |
0.367 (1.00) |
0.208 (1.00) |
0.944 (1.00) |
0.167 (1.00) |
0.245 (1.00) |
0.36 (1.00) |
1 (1.00) |
0.787 (1.00) |
Del Peak 5(3p14 2) | 0 (0%) | 349 |
0.554 (1.00) |
0.556 (1.00) |
0.00798 (1.00) |
0.418 (1.00) |
0.631 (1.00) |
0.29 (1.00) |
0.236 (1.00) |
0.0255 (1.00) |
0.456 (1.00) |
0.761 (1.00) |
0.00533 (1.00) |
0.645 (1.00) |
Del Peak 6(3q26 31) | 0 (0%) | 385 |
0.559 (1.00) |
0.646 (1.00) |
0.00554 (1.00) |
0.246 (1.00) |
0.497 (1.00) |
0.369 (1.00) |
0.113 (1.00) |
0.24 (1.00) |
0.32 (1.00) |
0.569 (1.00) |
0.00968 (1.00) |
0.0187 (1.00) |
Del Peak 13(6p25 3) | 0 (0%) | 373 |
0.852 (1.00) |
0.756 (1.00) |
0.0211 (1.00) |
0.0772 (1.00) |
0.0595 (1.00) |
0.828 (1.00) |
0.666 (1.00) |
0.37 (1.00) |
0.746 (1.00) |
0.45 (1.00) |
0.118 (1.00) |
0.584 (1.00) |
Del Peak 14(6q26) | 0 (0%) | 367 |
0.524 (1.00) |
0.258 (1.00) |
0.227 (1.00) |
0.38 (1.00) |
0.14 (1.00) |
0.355 (1.00) |
0.655 (1.00) |
0.726 (1.00) |
0.715 (1.00) |
0.106 (1.00) |
0.321 (1.00) |
0.423 (1.00) |
Del Peak 15(7q31 1) | 0 (0%) | 416 |
1 (1.00) |
0.504 (1.00) |
0.366 (1.00) |
0.797 (1.00) |
0.278 (1.00) |
0.219 (1.00) |
0.51 (1.00) |
0.131 (1.00) |
0.923 (1.00) |
0.619 (1.00) |
0.877 (1.00) |
0.837 (1.00) |
Del Peak 20(9p21 3) | 0 (0%) | 370 |
0.563 (1.00) |
0.0923 (1.00) |
0.000495 (0.276) |
0.178 (1.00) |
0.69 (1.00) |
0.214 (1.00) |
0.155 (1.00) |
0.152 (1.00) |
0.727 (1.00) |
0.685 (1.00) |
0.0714 (1.00) |
0.684 (1.00) |
Del Peak 25(13q14 13) | 0 (0%) | 409 |
0.275 (1.00) |
0.876 (1.00) |
0.166 (1.00) |
0.18 (1.00) |
0.24 (1.00) |
0.34 (1.00) |
0.211 (1.00) |
1 (1.00) |
0.688 (1.00) |
0.905 (1.00) |
0.632 (1.00) |
0.787 (1.00) |
Del Peak 30(16p13 3) | 0 (0%) | 381 |
0.303 (1.00) |
0.338 (1.00) |
0.249 (1.00) |
0.261 (1.00) |
0.367 (1.00) |
0.913 (1.00) |
0.0901 (1.00) |
0.165 (1.00) |
0.93 (1.00) |
0.563 (1.00) |
0.146 (1.00) |
0.375 (1.00) |
Del Peak 31(16q23 1) | 0 (0%) | 376 |
0.269 (1.00) |
0.00608 (1.00) |
0.255 (1.00) |
0.268 (1.00) |
0.154 (1.00) |
0.821 (1.00) |
0.293 (1.00) |
0.0218 (1.00) |
0.591 (1.00) |
0.708 (1.00) |
1 (1.00) |
0.758 (1.00) |
Del Peak 33(17q24 3) | 0 (0%) | 366 |
0.0956 (1.00) |
0.707 (1.00) |
0.0166 (1.00) |
0.00849 (1.00) |
0.73 (1.00) |
0.338 (1.00) |
0.0278 (1.00) |
0.0293 (1.00) |
0.798 (1.00) |
0.664 (1.00) |
0.0209 (1.00) |
0.162 (1.00) |
Del Peak 38(19p13 3) | 0 (0%) | 369 |
0.131 (1.00) |
0.0385 (1.00) |
0.000866 (0.465) |
0.342 (1.00) |
0.981 (1.00) |
0.0676 (1.00) |
0.0355 (1.00) |
0.0179 (1.00) |
0.446 (1.00) |
0.551 (1.00) |
0.0214 (1.00) |
0.15 (1.00) |
P value = 2.93e-05 (Fisher's exact test), Q value = 0.018
Table S1. Gene #2: 'Amp Peak 2(5p13.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 2(5P13.2) CNV | 50 | 20 | 13 |
AMP PEAK 2(5P13.2) WILD-TYPE | 134 | 176 | 34 |
Figure S1. Get High-res Image Gene #2: 'Amp Peak 2(5p13.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D2V3.png)
P value = 0.000191 (Fisher's exact test), Q value = 0.11
Table S2. Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 4(6P21.1) CNV | 8 | 3 | 19 |
AMP PEAK 4(6P21.1) WILD-TYPE | 48 | 40 | 28 |
Figure S2. Get High-res Image Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D4V2.png)
P value = 8.94e-10 (Fisher's exact test), Q value = 6e-07
Table S3. Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 4(6P21.1) CNV | 66 | 18 | 8 |
AMP PEAK 4(6P21.1) WILD-TYPE | 118 | 178 | 39 |
Figure S3. Get High-res Image Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D4V3.png)
P value = 0.000426 (Fisher's exact test), Q value = 0.24
Table S4. Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 4(6P21.1) CNV | 26 | 6 | 16 |
AMP PEAK 4(6P21.1) WILD-TYPE | 54 | 71 | 58 |
Figure S4. Get High-res Image Gene #4: 'Amp Peak 4(6p21.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D4V8.png)
P value = 3.13e-25 (Fisher's exact test), Q value = 2.3e-22
Table S5. Gene #5: 'Amp Peak 5(8p11.23)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 5(8P11.23) CNV | 61 | 42 | 47 |
AMP PEAK 5(8P11.23) WILD-TYPE | 123 | 154 | 0 |
Figure S5. Get High-res Image Gene #5: 'Amp Peak 5(8p11.23)' versus Molecular Subtype #3: 'CN_CNMF'
![](D5V3.png)
P value = 3.21e-19 (Fisher's exact test), Q value = 2.4e-16
Table S6. Gene #6: 'Amp Peak 6(8p11.21)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 6(8P11.21) CNV | 83 | 51 | 45 |
AMP PEAK 6(8P11.21) WILD-TYPE | 101 | 145 | 2 |
Figure S6. Get High-res Image Gene #6: 'Amp Peak 6(8p11.21)' versus Molecular Subtype #3: 'CN_CNMF'
![](D6V3.png)
P value = 2.41e-20 (Fisher's exact test), Q value = 1.8e-17
Table S7. Gene #7: 'Amp Peak 7(8q12.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 7(8Q12.1) CNV | 116 | 60 | 45 |
AMP PEAK 7(8Q12.1) WILD-TYPE | 68 | 136 | 2 |
Figure S7. Get High-res Image Gene #7: 'Amp Peak 7(8q12.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D7V3.png)
P value = 7.42e-21 (Fisher's exact test), Q value = 5.5e-18
Table S8. Gene #8: 'Amp Peak 8(8q24.21)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 8(8Q24.21) CNV | 130 | 70 | 46 |
AMP PEAK 8(8Q24.21) WILD-TYPE | 54 | 126 | 1 |
Figure S8. Get High-res Image Gene #8: 'Amp Peak 8(8q24.21)' versus Molecular Subtype #3: 'CN_CNMF'
![](D8V3.png)
P value = 0.000339 (Fisher's exact test), Q value = 0.19
Table S9. Gene #8: 'Amp Peak 8(8q24.21)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 8(8Q24.21) CNV | 85 | 42 | 39 |
AMP PEAK 8(8Q24.21) WILD-TYPE | 29 | 46 | 29 |
Figure S9. Get High-res Image Gene #8: 'Amp Peak 8(8q24.21)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D8V4.png)
P value = 6.09e-06 (Fisher's exact test), Q value = 0.0039
Table S10. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 9(11P15.5) CNV | 1 | 18 | 3 | 12 |
AMP PEAK 9(11P15.5) WILD-TYPE | 34 | 43 | 26 | 9 |
Figure S10. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D9V1.png)
P value = 0.000343 (Fisher's exact test), Q value = 0.19
Table S11. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 9(11P15.5) CNV | 14 | 2 | 18 |
AMP PEAK 9(11P15.5) WILD-TYPE | 42 | 41 | 29 |
Figure S11. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D9V2.png)
P value = 9.35e-06 (Fisher's exact test), Q value = 0.0059
Table S12. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 9(11P15.5) CNV | 58 | 23 | 8 |
AMP PEAK 9(11P15.5) WILD-TYPE | 126 | 173 | 39 |
Figure S12. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #3: 'CN_CNMF'
![](D9V3.png)
P value = 8.76e-06 (Fisher's exact test), Q value = 0.0056
Table S13. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 9(11P15.5) CNV | 36 | 5 | 11 |
AMP PEAK 9(11P15.5) WILD-TYPE | 78 | 83 | 57 |
Figure S13. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D9V4.png)
P value = 7.62e-05 (Fisher's exact test), Q value = 0.046
Table S14. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
AMP PEAK 9(11P15.5) CNV | 4 | 45 | 35 |
AMP PEAK 9(11P15.5) WILD-TYPE | 76 | 129 | 108 |
Figure S14. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D9V10.png)
P value = 2e-05 (Fisher's exact test), Q value = 0.013
Table S15. Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 21 | 86 | 113 |
AMP PEAK 9(11P15.5) CNV | 12 | 16 | 12 |
AMP PEAK 9(11P15.5) WILD-TYPE | 9 | 70 | 101 |
Figure S15. Get High-res Image Gene #9: 'Amp Peak 9(11p15.5)' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
![](D9V12.png)
P value = 0.000176 (Fisher's exact test), Q value = 0.1
Table S16. Gene #10: 'Amp Peak 10(12p13.33)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 10(12P13.33) CNV | 30 | 53 | 21 |
AMP PEAK 10(12P13.33) WILD-TYPE | 154 | 143 | 26 |
Figure S16. Get High-res Image Gene #10: 'Amp Peak 10(12p13.33)' versus Molecular Subtype #3: 'CN_CNMF'
![](D10V3.png)
P value = 1.58e-06 (Fisher's exact test), Q value = 0.001
Table S17. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 11(13Q12.13) CNV | 15 | 51 | 10 | 16 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 20 | 10 | 19 | 5 |
Figure S17. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D11V1.png)
P value = 2.07e-06 (Fisher's exact test), Q value = 0.0013
Table S18. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 11(13Q12.13) CNV | 39 | 14 | 39 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 17 | 29 | 8 |
Figure S18. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D11V2.png)
P value = 3.21e-32 (Fisher's exact test), Q value = 2.4e-29
Table S19. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 11(13Q12.13) CNV | 165 | 63 | 32 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 19 | 133 | 15 |
Figure S19. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #3: 'CN_CNMF'
![](D11V3.png)
P value = 1.41e-05 (Fisher's exact test), Q value = 0.0089
Table S20. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 11(13Q12.13) CNV | 88 | 42 | 35 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 26 | 46 | 33 |
Figure S20. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D11V4.png)
P value = 1.07e-06 (Fisher's exact test), Q value = 7e-04
Table S21. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 11(13Q12.13) CNV | 29 | 54 | 33 | 19 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 14 | 16 | 24 | 42 |
Figure S21. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D11V7.png)
P value = 2.75e-09 (Fisher's exact test), Q value = 1.8e-06
Table S22. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 11(13Q12.13) CNV | 60 | 23 | 52 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 20 | 54 | 22 |
Figure S22. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D11V8.png)
P value = 2.83e-07 (Fisher's exact test), Q value = 0.00019
Table S23. Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 11(13Q12.13) CNV | 62 | 29 | 43 |
AMP PEAK 11(13Q12.13) WILD-TYPE | 17 | 49 | 20 |
Figure S23. Get High-res Image Gene #11: 'Amp Peak 11(13q12.13)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D11V11.png)
P value = 4.41e-05 (Fisher's exact test), Q value = 0.027
Table S24. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 12(13Q22.1) CNV | 39 | 15 | 37 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 17 | 28 | 10 |
Figure S24. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D12V2.png)
P value = 7.99e-31 (Fisher's exact test), Q value = 6e-28
Table S25. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 12(13Q22.1) CNV | 165 | 66 | 33 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 19 | 130 | 14 |
Figure S25. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D12V3.png)
P value = 8.28e-06 (Fisher's exact test), Q value = 0.0053
Table S26. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 12(13Q22.1) CNV | 90 | 44 | 35 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 24 | 44 | 33 |
Figure S26. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D12V4.png)
P value = 1.31e-06 (Fisher's exact test), Q value = 0.00085
Table S27. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 12(13Q22.1) CNV | 29 | 57 | 32 | 22 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 14 | 13 | 25 | 39 |
Figure S27. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D12V7.png)
P value = 2.87e-08 (Fisher's exact test), Q value = 1.9e-05
Table S28. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 12(13Q22.1) CNV | 60 | 26 | 54 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 20 | 51 | 20 |
Figure S28. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D12V8.png)
P value = 4.33e-06 (Fisher's exact test), Q value = 0.0028
Table S29. Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 12(13Q22.1) CNV | 63 | 33 | 43 |
AMP PEAK 12(13Q22.1) WILD-TYPE | 16 | 45 | 20 |
Figure S29. Get High-res Image Gene #12: 'Amp Peak 12(13q22.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D12V11.png)
P value = 0.000129 (Fisher's exact test), Q value = 0.077
Table S30. Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 13(16P11.2) CNV | 13 | 6 | 25 |
AMP PEAK 13(16P11.2) WILD-TYPE | 43 | 37 | 22 |
Figure S30. Get High-res Image Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D13V2.png)
P value = 1.44e-19 (Fisher's exact test), Q value = 1.1e-16
Table S31. Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 13(16P11.2) CNV | 92 | 18 | 7 |
AMP PEAK 13(16P11.2) WILD-TYPE | 92 | 178 | 40 |
Figure S31. Get High-res Image Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D13V3.png)
P value = 0.000256 (Fisher's exact test), Q value = 0.15
Table S32. Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 13(16P11.2) CNV | 30 | 8 | 16 |
AMP PEAK 13(16P11.2) WILD-TYPE | 50 | 69 | 58 |
Figure S32. Get High-res Image Gene #13: 'Amp Peak 13(16p11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D13V8.png)
P value = 0.000126 (Fisher's exact test), Q value = 0.076
Table S33. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 14(16Q12.1) CNV | 4 | 22 | 2 | 11 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 31 | 39 | 27 | 10 |
Figure S33. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D14V1.png)
P value = 2.53e-05 (Fisher's exact test), Q value = 0.016
Table S34. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 14(16Q12.1) CNV | 13 | 3 | 23 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 43 | 40 | 24 |
Figure S34. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D14V2.png)
P value = 1.52e-20 (Fisher's exact test), Q value = 1.1e-17
Table S35. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 14(16Q12.1) CNV | 85 | 12 | 6 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 99 | 184 | 41 |
Figure S35. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D14V3.png)
P value = 3.69e-05 (Fisher's exact test), Q value = 0.023
Table S36. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 14(16Q12.1) CNV | 29 | 6 | 12 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 51 | 71 | 62 |
Figure S36. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D14V8.png)
P value = 0.000191 (Fisher's exact test), Q value = 0.11
Table S37. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
AMP PEAK 14(16Q12.1) CNV | 7 | 45 | 46 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 73 | 129 | 97 |
Figure S37. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D14V10.png)
P value = 0.000155 (Fisher's exact test), Q value = 0.092
Table S38. Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 14(16Q12.1) CNV | 27 | 7 | 20 |
AMP PEAK 14(16Q12.1) WILD-TYPE | 52 | 71 | 43 |
Figure S38. Get High-res Image Gene #14: 'Amp Peak 14(16q12.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D14V11.png)
P value = 4.15e-08 (Fisher's exact test), Q value = 2.8e-05
Table S39. Gene #15: 'Amp Peak 15(17q12)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 15(17Q12) CNV | 67 | 23 | 14 |
AMP PEAK 15(17Q12) WILD-TYPE | 117 | 173 | 33 |
Figure S39. Get High-res Image Gene #15: 'Amp Peak 15(17q12)' versus Molecular Subtype #3: 'CN_CNMF'
![](D15V3.png)
P value = 3.39e-10 (Fisher's exact test), Q value = 2.3e-07
Table S40. Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 16(17Q24.1) CNV | 66 | 17 | 12 |
AMP PEAK 16(17Q24.1) WILD-TYPE | 118 | 179 | 35 |
Figure S40. Get High-res Image Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D16V3.png)
P value = 0.000341 (Fisher's exact test), Q value = 0.19
Table S41. Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 16(17Q24.1) CNV | 41 | 16 | 8 |
AMP PEAK 16(17Q24.1) WILD-TYPE | 73 | 72 | 60 |
Figure S41. Get High-res Image Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D16V4.png)
P value = 0.000306 (Fisher's exact test), Q value = 0.18
Table S42. Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 16(17Q24.1) CNV | 22 | 7 | 26 |
AMP PEAK 16(17Q24.1) WILD-TYPE | 58 | 70 | 48 |
Figure S42. Get High-res Image Gene #16: 'Amp Peak 16(17q24.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D16V8.png)
P value = 9.01e-11 (Fisher's exact test), Q value = 6.2e-08
Table S43. Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 19(20P11.23) CNV | 119 | 61 | 28 |
AMP PEAK 19(20P11.23) WILD-TYPE | 65 | 135 | 19 |
Figure S43. Get High-res Image Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #3: 'CN_CNMF'
![](D19V3.png)
P value = 0.000246 (Fisher's exact test), Q value = 0.14
Table S44. Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 19(20P11.23) CNV | 24 | 42 | 24 | 15 |
AMP PEAK 19(20P11.23) WILD-TYPE | 19 | 28 | 33 | 46 |
Figure S44. Get High-res Image Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D19V7.png)
P value = 0.000272 (Fisher's exact test), Q value = 0.16
Table S45. Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 19(20P11.23) CNV | 41 | 21 | 43 |
AMP PEAK 19(20P11.23) WILD-TYPE | 39 | 56 | 31 |
Figure S45. Get High-res Image Gene #19: 'Amp Peak 19(20p11.23)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D19V8.png)
P value = 3.87e-10 (Fisher's exact test), Q value = 2.6e-07
Table S46. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 20(20Q11.21) CNV | 13 | 58 | 16 | 18 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 22 | 3 | 13 | 3 |
Figure S46. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D20V1.png)
P value = 7.28e-12 (Fisher's exact test), Q value = 5.1e-09
Table S47. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 20(20Q11.21) CNV | 50 | 13 | 42 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 6 | 30 | 5 |
Figure S47. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D20V2.png)
P value = 5.06e-42 (Fisher's exact test), Q value = 3.8e-39
Table S48. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 20(20Q11.21) CNV | 181 | 81 | 44 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 3 | 115 | 3 |
Figure S48. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #3: 'CN_CNMF'
![](D20V3.png)
P value = 1.91e-12 (Fisher's exact test), Q value = 1.3e-09
Table S49. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 20(20Q11.21) CNV | 107 | 46 | 42 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 7 | 42 | 26 |
Figure S49. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D20V4.png)
P value = 0.000108 (Fisher's exact test), Q value = 0.065
Table S50. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
AMP PEAK 20(20Q11.21) CNV | 13 | 29 | 53 | 133 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 13 | 27 | 10 | 47 |
Figure S50. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D20V6.png)
P value = 2.4e-15 (Fisher's exact test), Q value = 1.7e-12
Table S51. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 20(20Q11.21) CNV | 31 | 68 | 42 | 20 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 12 | 2 | 15 | 41 |
Figure S51. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D20V7.png)
P value = 3.41e-17 (Fisher's exact test), Q value = 2.5e-14
Table S52. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 20(20Q11.21) CNV | 69 | 25 | 67 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 11 | 52 | 7 |
Figure S52. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D20V8.png)
P value = 0.000103 (Fisher's exact test), Q value = 0.062
Table S53. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
AMP PEAK 20(20Q11.21) CNV | 43 | 125 | 116 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 37 | 49 | 27 |
Figure S53. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D20V10.png)
P value = 2.18e-12 (Fisher's exact test), Q value = 1.5e-09
Table S54. Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 20(20Q11.21) CNV | 74 | 34 | 51 |
AMP PEAK 20(20Q11.21) WILD-TYPE | 5 | 44 | 12 |
Figure S54. Get High-res Image Gene #20: 'Amp Peak 20(20q11.21)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D20V11.png)
P value = 4.29e-11 (Fisher's exact test), Q value = 3e-08
Table S55. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 21(20Q12) CNV | 12 | 58 | 15 | 18 |
AMP PEAK 21(20Q12) WILD-TYPE | 23 | 3 | 14 | 3 |
Figure S55. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D21V1.png)
P value = 4.99e-12 (Fisher's exact test), Q value = 3.5e-09
Table S56. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 21(20Q12) CNV | 49 | 12 | 42 |
AMP PEAK 21(20Q12) WILD-TYPE | 7 | 31 | 5 |
Figure S56. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D21V2.png)
P value = 1.74e-41 (Fisher's exact test), Q value = 1.3e-38
Table S57. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 21(20Q12) CNV | 181 | 82 | 44 |
AMP PEAK 21(20Q12) WILD-TYPE | 3 | 114 | 3 |
Figure S57. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #3: 'CN_CNMF'
![](D21V3.png)
P value = 1.68e-11 (Fisher's exact test), Q value = 1.2e-08
Table S58. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 21(20Q12) CNV | 107 | 48 | 43 |
AMP PEAK 21(20Q12) WILD-TYPE | 7 | 40 | 25 |
Figure S58. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D21V4.png)
P value = 2.18e-05 (Fisher's exact test), Q value = 0.014
Table S59. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
AMP PEAK 21(20Q12) CNV | 13 | 29 | 55 | 132 |
AMP PEAK 21(20Q12) WILD-TYPE | 13 | 27 | 8 | 48 |
Figure S59. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D21V6.png)
P value = 3.88e-14 (Fisher's exact test), Q value = 2.8e-11
Table S60. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 21(20Q12) CNV | 31 | 68 | 43 | 22 |
AMP PEAK 21(20Q12) WILD-TYPE | 12 | 2 | 14 | 39 |
Figure S60. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D21V7.png)
P value = 2.6e-16 (Fisher's exact test), Q value = 1.9e-13
Table S61. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 21(20Q12) CNV | 70 | 27 | 67 |
AMP PEAK 21(20Q12) WILD-TYPE | 10 | 50 | 7 |
Figure S61. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D21V8.png)
P value = 0.000125 (Fisher's exact test), Q value = 0.075
Table S62. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
AMP PEAK 21(20Q12) CNV | 44 | 124 | 117 |
AMP PEAK 21(20Q12) WILD-TYPE | 36 | 50 | 26 |
Figure S62. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D21V10.png)
P value = 1.94e-13 (Fisher's exact test), Q value = 1.4e-10
Table S63. Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 21(20Q12) CNV | 75 | 34 | 52 |
AMP PEAK 21(20Q12) WILD-TYPE | 4 | 44 | 11 |
Figure S63. Get High-res Image Gene #21: 'Amp Peak 21(20q12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D21V11.png)
P value = 3.87e-10 (Fisher's exact test), Q value = 2.6e-07
Table S64. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
AMP PEAK 22(20Q13.12) CNV | 13 | 58 | 16 | 18 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 22 | 3 | 13 | 3 |
Figure S64. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D22V1.png)
P value = 7.28e-12 (Fisher's exact test), Q value = 5.1e-09
Table S65. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
AMP PEAK 22(20Q13.12) CNV | 50 | 13 | 42 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 6 | 30 | 5 |
Figure S65. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D22V2.png)
P value = 3.63e-41 (Fisher's exact test), Q value = 2.7e-38
Table S66. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
AMP PEAK 22(20Q13.12) CNV | 181 | 84 | 45 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 3 | 112 | 2 |
Figure S66. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #3: 'CN_CNMF'
![](D22V3.png)
P value = 3.72e-11 (Fisher's exact test), Q value = 2.6e-08
Table S67. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
AMP PEAK 22(20Q13.12) CNV | 107 | 49 | 43 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 7 | 39 | 25 |
Figure S67. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D22V4.png)
P value = 0.000237 (Fisher's exact test), Q value = 0.14
Table S68. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 78 | 127 | 26 | 94 |
AMP PEAK 22(20Q13.12) CNV | 64 | 96 | 21 | 51 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 14 | 31 | 5 | 43 |
Figure S68. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D22V5.png)
P value = 1.3e-05 (Fisher's exact test), Q value = 0.0082
Table S69. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
AMP PEAK 22(20Q13.12) CNV | 13 | 29 | 55 | 135 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 13 | 27 | 8 | 45 |
Figure S69. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D22V6.png)
P value = 1.62e-13 (Fisher's exact test), Q value = 1.2e-10
Table S70. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
AMP PEAK 22(20Q13.12) CNV | 31 | 68 | 43 | 23 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 12 | 2 | 14 | 38 |
Figure S70. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D22V7.png)
P value = 1.27e-15 (Fisher's exact test), Q value = 9.3e-13
Table S71. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
AMP PEAK 22(20Q13.12) CNV | 70 | 28 | 67 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 10 | 49 | 7 |
Figure S71. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D22V8.png)
P value = 0.00028 (Fisher's exact test), Q value = 0.16
Table S72. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
AMP PEAK 22(20Q13.12) CNV | 45 | 126 | 117 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 35 | 48 | 26 |
Figure S72. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D22V10.png)
P value = 5.84e-13 (Fisher's exact test), Q value = 4.1e-10
Table S73. Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
AMP PEAK 22(20Q13.12) CNV | 75 | 35 | 52 |
AMP PEAK 22(20Q13.12) WILD-TYPE | 4 | 43 | 11 |
Figure S73. Get High-res Image Gene #22: 'Amp Peak 22(20q13.12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D22V11.png)
P value = 0.00015 (Fisher's exact test), Q value = 0.089
Table S74. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 1(1P36.11) CNV | 9 | 35 | 4 | 10 |
DEL PEAK 1(1P36.11) WILD-TYPE | 26 | 26 | 25 | 11 |
Figure S74. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D23V1.png)
P value = 1.82e-13 (Fisher's exact test), Q value = 1.3e-10
Table S75. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 1(1P36.11) CNV | 101 | 35 | 16 |
DEL PEAK 1(1P36.11) WILD-TYPE | 83 | 161 | 31 |
Figure S75. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #3: 'CN_CNMF'
![](D23V3.png)
P value = 6.08e-05 (Fisher's exact test), Q value = 0.037
Table S76. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 1(1P36.11) CNV | 55 | 17 | 20 |
DEL PEAK 1(1P36.11) WILD-TYPE | 59 | 71 | 48 |
Figure S76. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D23V4.png)
P value = 3.98e-05 (Fisher's exact test), Q value = 0.025
Table S77. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 1(1P36.11) CNV | 14 | 36 | 22 | 8 |
DEL PEAK 1(1P36.11) WILD-TYPE | 29 | 34 | 35 | 53 |
Figure S77. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D23V7.png)
P value = 3.29e-05 (Fisher's exact test), Q value = 0.02
Table S78. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 1(1P36.11) CNV | 38 | 12 | 30 |
DEL PEAK 1(1P36.11) WILD-TYPE | 42 | 65 | 44 |
Figure S78. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D23V8.png)
P value = 0.000156 (Fisher's exact test), Q value = 0.093
Table S79. Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 1(1P36.11) CNV | 36 | 13 | 26 |
DEL PEAK 1(1P36.11) WILD-TYPE | 43 | 65 | 37 |
Figure S79. Get High-res Image Gene #23: 'Del Peak 1(1p36.11)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D23V11.png)
P value = 1.12e-08 (Fisher's exact test), Q value = 7.5e-06
Table S80. Gene #24: 'Del Peak 2(1p33)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 2(1P33) CNV | 73 | 26 | 9 |
DEL PEAK 2(1P33) WILD-TYPE | 111 | 170 | 38 |
Figure S80. Get High-res Image Gene #24: 'Del Peak 2(1p33)' versus Molecular Subtype #3: 'CN_CNMF'
![](D24V3.png)
P value = 4.05e-05 (Fisher's exact test), Q value = 0.025
Table S81. Gene #26: 'Del Peak 4(3p26.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 4(3P26.1) CNV | 43 | 15 | 4 |
DEL PEAK 4(3P26.1) WILD-TYPE | 141 | 181 | 43 |
Figure S81. Get High-res Image Gene #26: 'Del Peak 4(3p26.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D26V3.png)
P value = 1.11e-12 (Fisher's exact test), Q value = 7.8e-10
Table S82. Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 7(4P16.1) CNV | 88 | 27 | 11 |
DEL PEAK 7(4P16.1) WILD-TYPE | 96 | 169 | 36 |
Figure S82. Get High-res Image Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D29V3.png)
P value = 3.17e-06 (Fisher's exact test), Q value = 0.0021
Table S83. Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 7(4P16.1) CNV | 12 | 29 | 20 | 3 |
DEL PEAK 7(4P16.1) WILD-TYPE | 31 | 41 | 37 | 58 |
Figure S83. Get High-res Image Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D29V7.png)
P value = 2.56e-07 (Fisher's exact test), Q value = 0.00017
Table S84. Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 7(4P16.1) CNV | 32 | 5 | 27 |
DEL PEAK 7(4P16.1) WILD-TYPE | 48 | 72 | 47 |
Figure S84. Get High-res Image Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D29V8.png)
P value = 0.000229 (Fisher's exact test), Q value = 0.13
Table S85. Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 7(4P16.1) CNV | 27 | 8 | 22 |
DEL PEAK 7(4P16.1) WILD-TYPE | 52 | 70 | 41 |
Figure S85. Get High-res Image Gene #29: 'Del Peak 7(4p16.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D29V11.png)
P value = 0.000383 (Fisher's exact test), Q value = 0.22
Table S86. Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 8(4Q22.1) CNV | 9 | 27 | 2 | 11 |
DEL PEAK 8(4Q22.1) WILD-TYPE | 26 | 34 | 27 | 10 |
Figure S86. Get High-res Image Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D30V1.png)
P value = 1.38e-13 (Fisher's exact test), Q value = 9.8e-11
Table S87. Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 8(4Q22.1) CNV | 93 | 33 | 6 |
DEL PEAK 8(4Q22.1) WILD-TYPE | 91 | 163 | 41 |
Figure S87. Get High-res Image Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D30V3.png)
P value = 0.000212 (Fisher's exact test), Q value = 0.12
Table S88. Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 8(4Q22.1) CNV | 46 | 13 | 23 |
DEL PEAK 8(4Q22.1) WILD-TYPE | 68 | 75 | 45 |
Figure S88. Get High-res Image Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D30V4.png)
P value = 3.91e-06 (Fisher's exact test), Q value = 0.0025
Table S89. Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 8(4Q22.1) CNV | 12 | 34 | 19 | 5 |
DEL PEAK 8(4Q22.1) WILD-TYPE | 31 | 36 | 38 | 56 |
Figure S89. Get High-res Image Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D30V7.png)
P value = 7.21e-07 (Fisher's exact test), Q value = 0.00047
Table S90. Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 8(4Q22.1) CNV | 35 | 7 | 28 |
DEL PEAK 8(4Q22.1) WILD-TYPE | 45 | 70 | 46 |
Figure S90. Get High-res Image Gene #30: 'Del Peak 8(4q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D30V8.png)
P value = 3.74e-15 (Fisher's exact test), Q value = 2.7e-12
Table S91. Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 9(4Q35.1) CNV | 100 | 32 | 10 |
DEL PEAK 9(4Q35.1) WILD-TYPE | 84 | 164 | 37 |
Figure S91. Get High-res Image Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D31V3.png)
P value = 1.28e-05 (Fisher's exact test), Q value = 0.0081
Table S92. Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 9(4Q35.1) CNV | 50 | 12 | 23 |
DEL PEAK 9(4Q35.1) WILD-TYPE | 64 | 76 | 45 |
Figure S92. Get High-res Image Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D31V4.png)
P value = 1.5e-05 (Fisher's exact test), Q value = 0.0095
Table S93. Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 9(4Q35.1) CNV | 14 | 36 | 18 | 7 |
DEL PEAK 9(4Q35.1) WILD-TYPE | 29 | 34 | 39 | 54 |
Figure S93. Get High-res Image Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D31V7.png)
P value = 2.05e-05 (Fisher's exact test), Q value = 0.013
Table S94. Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 9(4Q35.1) CNV | 33 | 10 | 32 |
DEL PEAK 9(4Q35.1) WILD-TYPE | 47 | 67 | 42 |
Figure S94. Get High-res Image Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D31V8.png)
P value = 5.93e-06 (Fisher's exact test), Q value = 0.0038
Table S95. Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 9(4Q35.1) CNV | 33 | 8 | 24 |
DEL PEAK 9(4Q35.1) WILD-TYPE | 46 | 70 | 39 |
Figure S95. Get High-res Image Gene #31: 'Del Peak 9(4q35.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D31V11.png)
P value = 8.17e-10 (Fisher's exact test), Q value = 5.5e-07
Table S96. Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 10(5Q11.2) CNV | 64 | 17 | 13 |
DEL PEAK 10(5Q11.2) WILD-TYPE | 120 | 179 | 34 |
Figure S96. Get High-res Image Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D32V3.png)
P value = 4.77e-05 (Fisher's exact test), Q value = 0.029
Table S97. Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 10(5Q11.2) CNV | 12 | 23 | 10 | 2 |
DEL PEAK 10(5Q11.2) WILD-TYPE | 31 | 47 | 47 | 59 |
Figure S97. Get High-res Image Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D32V7.png)
P value = 7.09e-05 (Fisher's exact test), Q value = 0.043
Table S98. Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 10(5Q11.2) CNV | 23 | 4 | 20 |
DEL PEAK 10(5Q11.2) WILD-TYPE | 57 | 73 | 54 |
Figure S98. Get High-res Image Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D32V8.png)
P value = 0.000273 (Fisher's exact test), Q value = 0.16
Table S99. Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 10(5Q11.2) CNV | 24 | 5 | 15 |
DEL PEAK 10(5Q11.2) WILD-TYPE | 55 | 73 | 48 |
Figure S99. Get High-res Image Gene #32: 'Del Peak 10(5q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D32V11.png)
P value = 2.27e-11 (Fisher's exact test), Q value = 1.6e-08
Table S100. Gene #33: 'Del Peak 11(5q21.3)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 11(5Q21.3) CNV | 79 | 24 | 17 |
DEL PEAK 11(5Q21.3) WILD-TYPE | 105 | 172 | 30 |
Figure S100. Get High-res Image Gene #33: 'Del Peak 11(5q21.3)' versus Molecular Subtype #3: 'CN_CNMF'
![](D33V3.png)
P value = 7.91e-11 (Fisher's exact test), Q value = 5.5e-08
Table S101. Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 12(5Q23.1) CNV | 73 | 21 | 16 |
DEL PEAK 12(5Q23.1) WILD-TYPE | 111 | 175 | 31 |
Figure S101. Get High-res Image Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D34V3.png)
P value = 0.000231 (Fisher's exact test), Q value = 0.13
Table S102. Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 12(5Q23.1) CNV | 13 | 29 | 11 | 6 |
DEL PEAK 12(5Q23.1) WILD-TYPE | 30 | 41 | 46 | 55 |
Figure S102. Get High-res Image Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D34V7.png)
P value = 9.59e-05 (Fisher's exact test), Q value = 0.058
Table S103. Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 12(5Q23.1) CNV | 26 | 7 | 26 |
DEL PEAK 12(5Q23.1) WILD-TYPE | 54 | 70 | 48 |
Figure S103. Get High-res Image Gene #34: 'Del Peak 12(5q23.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D34V8.png)
P value = 6.76e-05 (Fisher's exact test), Q value = 0.041
Table S104. Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 16(8P23.3) CNV | 19 | 11 | 32 |
DEL PEAK 16(8P23.3) WILD-TYPE | 37 | 32 | 15 |
Figure S104. Get High-res Image Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D38V2.png)
P value = 6.52e-21 (Fisher's exact test), Q value = 4.8e-18
Table S105. Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 16(8P23.3) CNV | 120 | 35 | 21 |
DEL PEAK 16(8P23.3) WILD-TYPE | 64 | 161 | 26 |
Figure S105. Get High-res Image Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #3: 'CN_CNMF'
![](D38V3.png)
P value = 3.21e-07 (Fisher's exact test), Q value = 0.00021
Table S106. Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 16(8P23.3) CNV | 68 | 20 | 24 |
DEL PEAK 16(8P23.3) WILD-TYPE | 46 | 68 | 44 |
Figure S106. Get High-res Image Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D38V4.png)
P value = 2.72e-06 (Fisher's exact test), Q value = 0.0018
Table S107. Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 16(8P23.3) CNV | 44 | 14 | 35 |
DEL PEAK 16(8P23.3) WILD-TYPE | 36 | 63 | 39 |
Figure S107. Get High-res Image Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D38V8.png)
P value = 2.15e-07 (Fisher's exact test), Q value = 0.00014
Table S108. Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 16(8P23.3) CNV | 46 | 14 | 32 |
DEL PEAK 16(8P23.3) WILD-TYPE | 33 | 64 | 31 |
Figure S108. Get High-res Image Gene #38: 'Del Peak 16(8p23.3)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D38V11.png)
P value = 0.000174 (Fisher's exact test), Q value = 0.1
Table S109. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 17(8P22) CNV | 25 | 9 | 30 |
DEL PEAK 17(8P22) WILD-TYPE | 31 | 34 | 17 |
Figure S109. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D39V2.png)
P value = 2.78e-26 (Fisher's exact test), Q value = 2.1e-23
Table S110. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 17(8P22) CNV | 131 | 35 | 24 |
DEL PEAK 17(8P22) WILD-TYPE | 53 | 161 | 23 |
Figure S110. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #3: 'CN_CNMF'
![](D39V3.png)
P value = 4.13e-08 (Fisher's exact test), Q value = 2.8e-05
Table S111. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 17(8P22) CNV | 75 | 23 | 26 |
DEL PEAK 17(8P22) WILD-TYPE | 39 | 65 | 42 |
Figure S111. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D39V4.png)
P value = 0.00013 (Fisher's exact test), Q value = 0.078
Table S112. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
DEL PEAK 17(8P22) CNV | 5 | 15 | 38 | 82 |
DEL PEAK 17(8P22) WILD-TYPE | 21 | 41 | 25 | 98 |
Figure S112. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D39V6.png)
P value = 5.24e-05 (Fisher's exact test), Q value = 0.032
Table S113. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 17(8P22) CNV | 20 | 43 | 27 | 13 |
DEL PEAK 17(8P22) WILD-TYPE | 23 | 27 | 30 | 48 |
Figure S113. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D39V7.png)
P value = 3.41e-06 (Fisher's exact test), Q value = 0.0022
Table S114. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 17(8P22) CNV | 47 | 17 | 39 |
DEL PEAK 17(8P22) WILD-TYPE | 33 | 60 | 35 |
Figure S114. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D39V8.png)
P value = 3.34e-07 (Fisher's exact test), Q value = 0.00022
Table S115. Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 17(8P22) CNV | 50 | 18 | 36 |
DEL PEAK 17(8P22) WILD-TYPE | 29 | 60 | 27 |
Figure S115. Get High-res Image Gene #39: 'Del Peak 17(8p22)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D39V11.png)
P value = 6.26e-10 (Fisher's exact test), Q value = 4.2e-07
Table S116. Gene #40: 'Del Peak 18(8p11.22)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 18(8P11.22) CNV | 61 | 21 | 1 |
DEL PEAK 18(8P11.22) WILD-TYPE | 123 | 175 | 46 |
Figure S116. Get High-res Image Gene #40: 'Del Peak 18(8p11.22)' versus Molecular Subtype #3: 'CN_CNMF'
![](D40V3.png)
P value = 6.26e-07 (Fisher's exact test), Q value = 0.00041
Table S117. Gene #41: 'Del Peak 19(8p11.21)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 19(8P11.21) CNV | 35 | 9 | 0 |
DEL PEAK 19(8P11.21) WILD-TYPE | 149 | 187 | 47 |
Figure S117. Get High-res Image Gene #41: 'Del Peak 19(8p11.21)' versus Molecular Subtype #3: 'CN_CNMF'
![](D41V3.png)
P value = 1.05e-06 (Fisher's exact test), Q value = 0.00069
Table S118. Gene #43: 'Del Peak 21(10p15.3)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 21(10P15.3) CNV | 47 | 13 | 9 |
DEL PEAK 21(10P15.3) WILD-TYPE | 137 | 183 | 38 |
Figure S118. Get High-res Image Gene #43: 'Del Peak 21(10p15.3)' versus Molecular Subtype #3: 'CN_CNMF'
![](D43V3.png)
P value = 7.55e-10 (Fisher's exact test), Q value = 5.1e-07
Table S119. Gene #44: 'Del Peak 22(10q21.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 22(10Q21.1) CNV | 60 | 14 | 10 |
DEL PEAK 22(10Q21.1) WILD-TYPE | 124 | 182 | 37 |
Figure S119. Get High-res Image Gene #44: 'Del Peak 22(10q21.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D44V3.png)
P value = 1.68e-07 (Fisher's exact test), Q value = 0.00011
Table S120. Gene #45: 'Del Peak 23(10q23.31)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 23(10Q23.31) CNV | 64 | 22 | 11 |
DEL PEAK 23(10Q23.31) WILD-TYPE | 120 | 174 | 36 |
Figure S120. Get High-res Image Gene #45: 'Del Peak 23(10q23.31)' versus Molecular Subtype #3: 'CN_CNMF'
![](D45V3.png)
P value = 8.89e-11 (Fisher's exact test), Q value = 6.1e-08
Table S121. Gene #46: 'Del Peak 24(10q25.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 24(10Q25.2) CNV | 68 | 17 | 10 |
DEL PEAK 24(10Q25.2) WILD-TYPE | 116 | 179 | 37 |
Figure S121. Get High-res Image Gene #46: 'Del Peak 24(10q25.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D46V3.png)
P value = 1.27e-05 (Fisher's exact test), Q value = 0.0081
Table S122. Gene #46: 'Del Peak 24(10q25.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 24(10Q25.2) CNV | 26 | 4 | 17 |
DEL PEAK 24(10Q25.2) WILD-TYPE | 53 | 74 | 46 |
Figure S122. Get High-res Image Gene #46: 'Del Peak 24(10q25.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D46V11.png)
P value = 1.58e-06 (Fisher's exact test), Q value = 0.001
Table S123. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 26(14Q32.11) CNV | 8 | 36 | 2 | 10 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 27 | 25 | 27 | 11 |
Figure S123. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D48V1.png)
P value = 3.23e-05 (Fisher's exact test), Q value = 0.02
Table S124. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 26(14Q32.11) CNV | 22 | 6 | 28 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 34 | 37 | 19 |
Figure S124. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D48V2.png)
P value = 1.67e-21 (Fisher's exact test), Q value = 1.2e-18
Table S125. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 26(14Q32.11) CNV | 104 | 24 | 7 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 80 | 172 | 40 |
Figure S125. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #3: 'CN_CNMF'
![](D48V3.png)
P value = 0.000294 (Fisher's exact test), Q value = 0.17
Table S126. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 26(14Q32.11) CNV | 47 | 14 | 17 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 67 | 74 | 51 |
Figure S126. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D48V4.png)
P value = 0.000199 (Fisher's exact test), Q value = 0.12
Table S127. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 78 | 127 | 26 | 94 |
DEL PEAK 26(14Q32.11) CNV | 30 | 51 | 9 | 14 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 48 | 76 | 17 | 80 |
Figure S127. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D48V5.png)
P value = 7.38e-05 (Fisher's exact test), Q value = 0.045
Table S128. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 26(14Q32.11) CNV | 31 | 8 | 24 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 49 | 69 | 50 |
Figure S128. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D48V8.png)
P value = 0.00017 (Fisher's exact test), Q value = 0.1
Table S129. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
DEL PEAK 26(14Q32.11) CNV | 11 | 66 | 51 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 69 | 108 | 92 |
Figure S129. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D48V10.png)
P value = 6.78e-05 (Fisher's exact test), Q value = 0.041
Table S130. Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 26(14Q32.11) CNV | 32 | 9 | 22 |
DEL PEAK 26(14Q32.11) WILD-TYPE | 47 | 69 | 41 |
Figure S130. Get High-res Image Gene #48: 'Del Peak 26(14q32.11)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D48V11.png)
P value = 8.07e-21 (Fisher's exact test), Q value = 6e-18
Table S131. Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 27(15Q11.2) CNV | 117 | 34 | 12 |
DEL PEAK 27(15Q11.2) WILD-TYPE | 67 | 162 | 35 |
Figure S131. Get High-res Image Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D49V3.png)
P value = 5.1e-06 (Fisher's exact test), Q value = 0.0033
Table S132. Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 27(15Q11.2) CNV | 15 | 37 | 23 | 7 |
DEL PEAK 27(15Q11.2) WILD-TYPE | 28 | 33 | 34 | 54 |
Figure S132. Get High-res Image Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D49V7.png)
P value = 6.06e-07 (Fisher's exact test), Q value = 4e-04
Table S133. Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 27(15Q11.2) CNV | 40 | 10 | 32 |
DEL PEAK 27(15Q11.2) WILD-TYPE | 40 | 67 | 42 |
Figure S133. Get High-res Image Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D49V8.png)
P value = 5.77e-05 (Fisher's exact test), Q value = 0.035
Table S134. Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 27(15Q11.2) CNV | 40 | 15 | 29 |
DEL PEAK 27(15Q11.2) WILD-TYPE | 39 | 63 | 34 |
Figure S134. Get High-res Image Gene #49: 'Del Peak 27(15q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D49V11.png)
P value = 3.06e-17 (Fisher's exact test), Q value = 2.2e-14
Table S135. Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 28(15Q21.1) CNV | 108 | 34 | 11 |
DEL PEAK 28(15Q21.1) WILD-TYPE | 76 | 162 | 36 |
Figure S135. Get High-res Image Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D50V3.png)
P value = 1.56e-05 (Fisher's exact test), Q value = 0.0098
Table S136. Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 28(15Q21.1) CNV | 14 | 34 | 20 | 6 |
DEL PEAK 28(15Q21.1) WILD-TYPE | 29 | 36 | 37 | 55 |
Figure S136. Get High-res Image Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D50V7.png)
P value = 6.81e-07 (Fisher's exact test), Q value = 0.00045
Table S137. Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 28(15Q21.1) CNV | 37 | 8 | 29 |
DEL PEAK 28(15Q21.1) WILD-TYPE | 43 | 69 | 45 |
Figure S137. Get High-res Image Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D50V8.png)
P value = 0.000428 (Fisher's exact test), Q value = 0.24
Table S138. Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 28(15Q21.1) CNV | 35 | 14 | 27 |
DEL PEAK 28(15Q21.1) WILD-TYPE | 44 | 64 | 36 |
Figure S138. Get High-res Image Gene #50: 'Del Peak 28(15q21.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D50V11.png)
P value = 0.000273 (Fisher's exact test), Q value = 0.16
Table S139. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 29(15Q22.33) CNV | 8 | 31 | 3 | 10 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 27 | 30 | 26 | 11 |
Figure S139. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D51V1.png)
P value = 8.89e-20 (Fisher's exact test), Q value = 6.6e-17
Table S140. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 29(15Q22.33) CNV | 108 | 28 | 12 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 76 | 168 | 35 |
Figure S140. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #3: 'CN_CNMF'
![](D51V3.png)
P value = 0.000136 (Fisher's exact test), Q value = 0.081
Table S141. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 29(15Q22.33) CNV | 54 | 17 | 23 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 60 | 71 | 45 |
Figure S141. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D51V4.png)
P value = 3.82e-07 (Fisher's exact test), Q value = 0.00025
Table S142. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 29(15Q22.33) CNV | 15 | 37 | 20 | 5 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 28 | 33 | 37 | 56 |
Figure S142. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D51V7.png)
P value = 1.77e-08 (Fisher's exact test), Q value = 1.2e-05
Table S143. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 29(15Q22.33) CNV | 40 | 7 | 30 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 40 | 70 | 44 |
Figure S143. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D51V8.png)
P value = 8.91e-05 (Fisher's exact test), Q value = 0.054
Table S144. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 174 | 143 |
DEL PEAK 29(15Q22.33) CNV | 13 | 61 | 63 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 67 | 113 | 80 |
Figure S144. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
![](D51V10.png)
P value = 0.000119 (Fisher's exact test), Q value = 0.072
Table S145. Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 29(15Q22.33) CNV | 35 | 13 | 28 |
DEL PEAK 29(15Q22.33) WILD-TYPE | 44 | 65 | 35 |
Figure S145. Get High-res Image Gene #51: 'Del Peak 29(15q22.33)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D51V11.png)
P value = 2.47e-08 (Fisher's exact test), Q value = 1.7e-05
Table S146. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 32(17P12) CNV | 10 | 49 | 8 | 15 |
DEL PEAK 32(17P12) WILD-TYPE | 25 | 12 | 21 | 6 |
Figure S146. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D54V1.png)
P value = 4.97e-07 (Fisher's exact test), Q value = 0.00033
Table S147. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 32(17P12) CNV | 36 | 10 | 36 |
DEL PEAK 32(17P12) WILD-TYPE | 20 | 33 | 11 |
Figure S147. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D54V2.png)
P value = 3.53e-33 (Fisher's exact test), Q value = 2.6e-30
Table S148. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 32(17P12) CNV | 156 | 49 | 30 |
DEL PEAK 32(17P12) WILD-TYPE | 28 | 147 | 17 |
Figure S148. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #3: 'CN_CNMF'
![](D54V3.png)
P value = 1.08e-10 (Fisher's exact test), Q value = 7.4e-08
Table S149. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 32(17P12) CNV | 89 | 29 | 31 |
DEL PEAK 32(17P12) WILD-TYPE | 25 | 59 | 37 |
Figure S149. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D54V4.png)
P value = 7.42e-05 (Fisher's exact test), Q value = 0.045
Table S150. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
DEL PEAK 32(17P12) CNV | 8 | 19 | 43 | 106 |
DEL PEAK 32(17P12) WILD-TYPE | 18 | 37 | 20 | 74 |
Figure S150. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D54V6.png)
P value = 3.83e-11 (Fisher's exact test), Q value = 2.7e-08
Table S151. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 32(17P12) CNV | 26 | 56 | 29 | 12 |
DEL PEAK 32(17P12) WILD-TYPE | 17 | 14 | 28 | 49 |
Figure S151. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D54V7.png)
P value = 3.31e-11 (Fisher's exact test), Q value = 2.3e-08
Table S152. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 32(17P12) CNV | 51 | 17 | 55 |
DEL PEAK 32(17P12) WILD-TYPE | 29 | 60 | 19 |
Figure S152. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D54V8.png)
P value = 8.13e-11 (Fisher's exact test), Q value = 5.6e-08
Table S153. Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 32(17P12) CNV | 64 | 22 | 36 |
DEL PEAK 32(17P12) WILD-TYPE | 15 | 56 | 27 |
Figure S153. Get High-res Image Gene #54: 'Del Peak 32(17p12)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D54V11.png)
P value = 6.87e-12 (Fisher's exact test), Q value = 4.8e-09
Table S154. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 34(18P11.31) CNV | 6 | 50 | 7 | 15 |
DEL PEAK 34(18P11.31) WILD-TYPE | 29 | 11 | 22 | 6 |
Figure S154. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D56V1.png)
P value = 7.49e-10 (Fisher's exact test), Q value = 5.1e-07
Table S155. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 34(18P11.31) CNV | 36 | 6 | 36 |
DEL PEAK 34(18P11.31) WILD-TYPE | 20 | 37 | 11 |
Figure S155. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D56V2.png)
P value = 3.11e-44 (Fisher's exact test), Q value = 2.3e-41
Table S156. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 34(18P11.31) CNV | 163 | 39 | 27 |
DEL PEAK 34(18P11.31) WILD-TYPE | 21 | 157 | 20 |
Figure S156. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #3: 'CN_CNMF'
![](D56V3.png)
P value = 4.14e-15 (Fisher's exact test), Q value = 3e-12
Table S157. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 34(18P11.31) CNV | 92 | 22 | 34 |
DEL PEAK 34(18P11.31) WILD-TYPE | 22 | 66 | 34 |
Figure S157. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D56V4.png)
P value = 0.00042 (Fisher's exact test), Q value = 0.24
Table S158. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #5: 'RPPA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 78 | 127 | 26 | 94 |
DEL PEAK 34(18P11.31) CNV | 43 | 78 | 16 | 32 |
DEL PEAK 34(18P11.31) WILD-TYPE | 35 | 49 | 10 | 62 |
Figure S158. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #5: 'RPPA_CNMF'
![](D56V5.png)
P value = 5.06e-18 (Fisher's exact test), Q value = 3.7e-15
Table S159. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 34(18P11.31) CNV | 23 | 61 | 31 | 7 |
DEL PEAK 34(18P11.31) WILD-TYPE | 20 | 9 | 26 | 54 |
Figure S159. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D56V7.png)
P value = 7.54e-18 (Fisher's exact test), Q value = 5.5e-15
Table S160. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 34(18P11.31) CNV | 57 | 10 | 55 |
DEL PEAK 34(18P11.31) WILD-TYPE | 23 | 67 | 19 |
Figure S160. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D56V8.png)
P value = 6.5e-14 (Fisher's exact test), Q value = 4.7e-11
Table S161. Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 34(18P11.31) CNV | 62 | 15 | 38 |
DEL PEAK 34(18P11.31) WILD-TYPE | 17 | 63 | 25 |
Figure S161. Get High-res Image Gene #56: 'Del Peak 34(18p11.31)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D56V11.png)
P value = 1.09e-11 (Fisher's exact test), Q value = 7.7e-09
Table S162. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 35(18Q12.2) CNV | 8 | 53 | 9 | 16 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 27 | 8 | 20 | 5 |
Figure S162. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D57V1.png)
P value = 2.66e-10 (Fisher's exact test), Q value = 1.8e-07
Table S163. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 35(18Q12.2) CNV | 39 | 8 | 39 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 17 | 35 | 8 |
Figure S163. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D57V2.png)
P value = 7.34e-47 (Fisher's exact test), Q value = 5.5e-44
Table S164. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 35(18Q12.2) CNV | 173 | 50 | 33 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 11 | 146 | 14 |
Figure S164. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D57V3.png)
P value = 1.24e-17 (Fisher's exact test), Q value = 9.1e-15
Table S165. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 35(18Q12.2) CNV | 102 | 29 | 34 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 12 | 59 | 34 |
Figure S165. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D57V4.png)
P value = 0.000421 (Fisher's exact test), Q value = 0.24
Table S166. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
DEL PEAK 35(18Q12.2) CNV | 9 | 22 | 43 | 113 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 17 | 34 | 20 | 67 |
Figure S166. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D57V6.png)
P value = 2.22e-17 (Fisher's exact test), Q value = 1.6e-14
Table S167. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 35(18Q12.2) CNV | 27 | 63 | 36 | 10 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 16 | 7 | 21 | 51 |
Figure S167. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D57V7.png)
P value = 1.43e-18 (Fisher's exact test), Q value = 1.1e-15
Table S168. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 35(18Q12.2) CNV | 62 | 14 | 60 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 18 | 63 | 14 |
Figure S168. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D57V8.png)
P value = 9.9e-15 (Fisher's exact test), Q value = 7.1e-12
Table S169. Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 35(18Q12.2) CNV | 69 | 21 | 42 |
DEL PEAK 35(18Q12.2) WILD-TYPE | 10 | 57 | 21 |
Figure S169. Get High-res Image Gene #57: 'Del Peak 35(18q12.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D57V11.png)
P value = 3.37e-11 (Fisher's exact test), Q value = 2.3e-08
Table S170. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 36(18Q21.2) CNV | 8 | 53 | 10 | 16 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 27 | 8 | 19 | 5 |
Figure S170. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D58V1.png)
P value = 1.46e-10 (Fisher's exact test), Q value = 1e-07
Table S171. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 36(18Q21.2) CNV | 40 | 8 | 39 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 16 | 35 | 8 |
Figure S171. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D58V2.png)
P value = 1.2e-44 (Fisher's exact test), Q value = 9e-42
Table S172. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 36(18Q21.2) CNV | 175 | 58 | 36 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 9 | 138 | 11 |
Figure S172. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D58V3.png)
P value = 6.6e-14 (Fisher's exact test), Q value = 4.7e-11
Table S173. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 36(18Q21.2) CNV | 103 | 38 | 36 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 11 | 50 | 32 |
Figure S173. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D58V4.png)
P value = 0.000225 (Fisher's exact test), Q value = 0.13
Table S174. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
DEL PEAK 36(18Q21.2) CNV | 10 | 24 | 46 | 120 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 16 | 32 | 17 | 60 |
Figure S174. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D58V6.png)
P value = 3.56e-13 (Fisher's exact test), Q value = 2.5e-10
Table S175. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 36(18Q21.2) CNV | 27 | 64 | 38 | 17 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 16 | 6 | 19 | 44 |
Figure S175. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D58V7.png)
P value = 1.06e-13 (Fisher's exact test), Q value = 7.6e-11
Table S176. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 36(18Q21.2) CNV | 63 | 22 | 61 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 17 | 55 | 13 |
Figure S176. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D58V8.png)
P value = 1.38e-13 (Fisher's exact test), Q value = 9.8e-11
Table S177. Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 36(18Q21.2) CNV | 72 | 27 | 44 |
DEL PEAK 36(18Q21.2) WILD-TYPE | 7 | 51 | 19 |
Figure S177. Get High-res Image Gene #58: 'Del Peak 36(18q21.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D58V11.png)
P value = 8.76e-11 (Fisher's exact test), Q value = 6e-08
Table S178. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 35 | 61 | 29 | 21 |
DEL PEAK 37(18Q22.1) CNV | 8 | 53 | 11 | 16 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 27 | 8 | 18 | 5 |
Figure S178. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #1: 'MRNA_CNMF'
![](D59V1.png)
P value = 8.34e-10 (Fisher's exact test), Q value = 5.6e-07
Table S179. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 37(18Q22.1) CNV | 40 | 9 | 39 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 16 | 34 | 8 |
Figure S179. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D59V2.png)
P value = 3.76e-47 (Fisher's exact test), Q value = 2.8e-44
Table S180. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 37(18Q22.1) CNV | 177 | 57 | 35 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 7 | 139 | 12 |
Figure S180. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D59V3.png)
P value = 3.75e-14 (Fisher's exact test), Q value = 2.7e-11
Table S181. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 88 | 68 |
DEL PEAK 37(18Q22.1) CNV | 103 | 38 | 35 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 11 | 50 | 33 |
Figure S181. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #4: 'METHLYATION_CNMF'
![](D59V4.png)
P value = 0.000224 (Fisher's exact test), Q value = 0.13
Table S182. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 26 | 56 | 63 | 180 |
DEL PEAK 37(18Q22.1) CNV | 10 | 24 | 45 | 122 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 16 | 32 | 18 | 58 |
Figure S182. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
![](D59V6.png)
P value = 3.56e-13 (Fisher's exact test), Q value = 2.5e-10
Table S183. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 43 | 70 | 57 | 61 |
DEL PEAK 37(18Q22.1) CNV | 27 | 64 | 38 | 17 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 16 | 6 | 19 | 44 |
Figure S183. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
![](D59V7.png)
P value = 1.06e-13 (Fisher's exact test), Q value = 7.6e-11
Table S184. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 37(18Q22.1) CNV | 63 | 22 | 61 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 17 | 55 | 13 |
Figure S184. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D59V8.png)
P value = 3.5e-14 (Fisher's exact test), Q value = 2.5e-11
Table S185. Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 37(18Q22.1) CNV | 72 | 26 | 44 |
DEL PEAK 37(18Q22.1) WILD-TYPE | 7 | 52 | 19 |
Figure S185. Get High-res Image Gene #59: 'Del Peak 37(18q22.1)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D59V11.png)
P value = 7.23e-06 (Fisher's exact test), Q value = 0.0046
Table S186. Gene #61: 'Del Peak 39(20p12.1)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 39(20P12.1) CNV | 51 | 18 | 11 |
DEL PEAK 39(20P12.1) WILD-TYPE | 133 | 178 | 36 |
Figure S186. Get High-res Image Gene #61: 'Del Peak 39(20p12.1)' versus Molecular Subtype #3: 'CN_CNMF'
![](D61V3.png)
P value = 7.09e-05 (Fisher's exact test), Q value = 0.043
Table S187. Gene #61: 'Del Peak 39(20p12.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 39(20P12.1) CNV | 23 | 4 | 20 |
DEL PEAK 39(20P12.1) WILD-TYPE | 57 | 73 | 54 |
Figure S187. Get High-res Image Gene #61: 'Del Peak 39(20p12.1)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D61V8.png)
P value = 5.95e-11 (Fisher's exact test), Q value = 4.1e-08
Table S188. Gene #62: 'Del Peak 40(21q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 40(21Q11.2) CNV | 88 | 32 | 10 |
DEL PEAK 40(21Q11.2) WILD-TYPE | 96 | 164 | 37 |
Figure S188. Get High-res Image Gene #62: 'Del Peak 40(21q11.2)' versus Molecular Subtype #3: 'CN_CNMF'
![](D62V3.png)
P value = 0.000184 (Fisher's exact test), Q value = 0.11
Table S189. Gene #62: 'Del Peak 40(21q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 40(21Q11.2) CNV | 34 | 11 | 22 |
DEL PEAK 40(21Q11.2) WILD-TYPE | 45 | 67 | 41 |
Figure S189. Get High-res Image Gene #62: 'Del Peak 40(21q11.2)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D62V11.png)
P value = 0.000232 (Fisher's exact test), Q value = 0.13
Table S190. Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 56 | 43 | 47 |
DEL PEAK 41(22Q13.32) CNV | 26 | 6 | 24 |
DEL PEAK 41(22Q13.32) WILD-TYPE | 30 | 37 | 23 |
Figure S190. Get High-res Image Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
![](D63V2.png)
P value = 4.07e-15 (Fisher's exact test), Q value = 2.9e-12
Table S191. Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #3: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 184 | 196 | 47 |
DEL PEAK 41(22Q13.32) CNV | 101 | 32 | 12 |
DEL PEAK 41(22Q13.32) WILD-TYPE | 83 | 164 | 35 |
Figure S191. Get High-res Image Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #3: 'CN_CNMF'
![](D63V3.png)
P value = 2.81e-05 (Fisher's exact test), Q value = 0.018
Table S192. Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 80 | 77 | 74 |
DEL PEAK 41(22Q13.32) CNV | 33 | 10 | 31 |
DEL PEAK 41(22Q13.32) WILD-TYPE | 47 | 67 | 43 |
Figure S192. Get High-res Image Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
![](D63V8.png)
P value = 8.33e-06 (Fisher's exact test), Q value = 0.0053
Table S193. Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 79 | 78 | 63 |
DEL PEAK 41(22Q13.32) CNV | 34 | 9 | 25 |
DEL PEAK 41(22Q13.32) WILD-TYPE | 45 | 69 | 38 |
Figure S193. Get High-res Image Gene #63: 'Del Peak 41(22q13.32)' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
![](D63V11.png)
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Copy number data file = All Lesions File (all_lesions.conf_##.txt, where ## is the confidence level). The all lesions file is from GISTIC pipeline and summarizes the results from the GISTIC run. It contains data about the significant regions of amplification and deletion as well as which samples are amplified or deleted in each of these regions. The identified regions are listed down the first column, and the samples are listed across the first row, starting in column 10.
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Molecular subtype file = COAD-TP.transferedmergedcluster.txt
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Number of patients = 427
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Number of copy number variation regions = 63
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Number of molecular subtypes = 12
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Exclude regions that fewer than K tumors have alterations, 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.