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_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
Amp Peak  1(1q24.1)	0 (0%)	443	0.25879	1	0.24536	1	6.1167e-13	2.17e-10	0.34219	1	0.25843	1	0.38787	1	3.8785e-05	0.0113	0.001285	0.314	9.7441e-06	0.00295	0.4167	1	0.050921	1	0.092771	1
Amp Peak  2(1q32.1)	0 (0%)	444	0.41028	1	0.41105	1	3.0087e-15	1.08e-12	0.16398	1	0.26516	1	0.12297	1	7.9397e-06	0.00243	0.00058778	0.15	8.3853e-06	0.00256	0.17549	1	0.025325	1	0.046815	1
Amp Peak  3(3q26.32)	0 (0%)	422	0.048353	1	0.04908	1	2.1418e-12	7.56e-10	1.8594e-05	0.00558	0.0035043	0.802	1.0638e-05	0.00321	1.4146e-06	0.000447	9.5312e-08	3.15e-05	5.447e-08	1.81e-05	0.00097915	0.245	0.001697	0.409	0.17053	1
Amp Peak  4(4q32.1)	0 (0%)	490	NA	NA	NA	NA	0.47634	1	0.33677	1	0.69317	1	0.5158	1	0.081344	1	0.46574	1	0.0071049	1	0.055023	1	0.053164	1	1	1
Amp Peak  5(5q35.1)	0 (0%)	188	0.017401	1	0.0071729	1	0.0054131	1	0.92772	1	0.015106	1	0.0033208	0.764	0.013369	1	0.00070052	0.176	0.41064	1	6.6514e-06	0.00205	0.94815	1	0.28738	1
Amp Peak  6(7q36.3)	0 (0%)	338	0.66681	1	0.75327	1	9.0956e-14	3.24e-11	0.032511	1	0.00019154	0.051	0.01745	1	0.00012964	0.0358	0.0037292	0.843	0.027453	1	0.11998	1	0.0058105	1	0.022846	1
Amp Peak  7(8q24.22)	0 (0%)	429	0.22618	1	0.32459	1	3.3261e-21	1.24e-18	2.1618e-06	0.000677	3.7669e-06	0.00116	0.0042523	0.937	2.7838e-12	9.77e-10	2.8908e-11	1.01e-08	3.1789e-09	1.08e-06	5.8824e-05	0.0168	6.6944e-07	0.000216	0.00023508	0.0618
Amp Peak  8(10p14)	0 (0%)	488	0.18897	1	0.20731	1	0.001263	0.309	0.17107	1	0.54777	1	0.054012	1	0.032101	1	0.0029529	0.691	0.13403	1	0.11802	1	0.87305	1	0.88055	1
Amp Peak  9(17q24.3)	0 (0%)	467	0.069157	1	0.098773	1	0.0019693	0.469	0.21213	1	0.24255	1	0.037066	1	0.19684	1	0.020392	1	0.12753	1	0.047552	1	0.0064225	1	0.023441	1
Amp Peak 10(Xp22.2)	0 (0%)	468	1	1	1	1	0.0031071	0.721	0.090027	1	0.0059787	1	0.012856	1	0.10043	1	0.16554	1	0.022142	1	0.61809	1	0.07839	1	0.43904	1
Amp Peak 11(Xp11.4)	0 (0%)	467	0.84347	1	0.84165	1	0.0017745	0.426	0.029756	1	0.0073198	1	0.0044581	0.976	0.032058	1	0.046919	1	0.022142	1	0.37339	1	0.07839	1	0.43904	1
Amp Peak 12(Xq11.2)	0 (0%)	471	0.17187	1	0.18166	1	0.047253	1	0.15423	1	0.10531	1	0.054484	1	0.10361	1	0.39095	1	0.074542	1	0.16596	1	0.15582	1	0.41194	1
Amp Peak 13(Xq28)	0 (0%)	465	0.49011	1	0.59084	1	0.17979	1	0.64763	1	0.055183	1	0.029172	1	0.080713	1	0.11853	1	0.25792	1	0.15308	1	0.033995	1	0.04422	1
Del Peak  1(1p36.23)	0 (0%)	406	0.00018069	0.0488	0.0001386	0.0381	2.5964e-12	9.14e-10	0.034842	1	2.284e-05	0.00678	0.00014708	0.0402	0.00011761	0.0327	0.00044917	0.117	6.8252e-07	0.00022	6.6927e-09	2.27e-06	0.0082412	1	0.00056208	0.144
Del Peak  2(1p31.1)	0 (0%)	432	0.0016701	0.404	0.00060559	0.153	2.1062e-09	7.2e-07	0.031787	1	3.9971e-05	0.0116	0.0080714	1	0.059588	1	0.007267	1	0.00011129	0.0312	2.9156e-06	0.000904	0.089397	1	0.0037423	0.843
Del Peak  3(1q43)	0 (0%)	466	0.010729	1	0.013331	1	7.0761e-06	0.00217	0.6399	1	0.0040888	0.908	0.010754	1	0.0084616	1	0.0047607	1	0.40861	1	9.2569e-07	0.000295	0.68468	1	0.65678	1
Del Peak  4(2q37.3)	0 (0%)	454	0.0015615	0.379	0.0029865	0.696	0.8599	1	0.82466	1	0.19905	1	0.41282	1	0.00010882	0.0306	0.00018973	0.0507	0.0445	1	8.7198e-06	0.00265	0.47873	1	0.001793	0.429
Del Peak  5(3p25.3)	0 (0%)	63	1.5518e-07	5.11e-05	1.1917e-08	4.03e-06	7.7831e-31	2.93e-28	0.00022312	0.0589	3.422e-05	0.01	0.031741	1	2.8764e-12	1.01e-09	7.5191e-16	2.73e-13	3.1936e-05	0.00939	1.3396e-14	4.8e-12	0.026891	1	0.00031006	0.0812
Del Peak  6(3p21.32)	0 (0%)	60	1.5518e-07	5.11e-05	1.1917e-08	4.03e-06	2.808e-33	1.06e-30	0.00062954	0.159	5.4619e-05	0.0157	0.023394	1	1.155e-13	4.1e-11	3.2123e-16	1.17e-13	1.0125e-06	0.000322	2.5358e-15	9.15e-13	0.0028154	0.662	2.1068e-05	0.0063
Del Peak  7(3p12.3)	0 (0%)	184	0.0035032	0.802	0.0010323	0.257	6.1999e-37	2.36e-34	0.045862	1	0.48519	1	0.44572	1	8.3935e-05	0.0238	2.5729e-06	8e-04	0.059494	1	0.00018259	0.0491	0.019249	1	0.040913	1
Del Peak  8(3p12.2)	0 (0%)	212	0.040368	1	0.019902	1	2.5952e-32	9.81e-30	0.43893	1	0.42247	1	0.35754	1	0.0039839	0.892	0.000211	0.0559	0.33544	1	0.0074152	1	0.011603	1	0.032307	1
Del Peak  9(3q11.2)	0 (0%)	350	0.18332	1	0.12065	1	1.1509e-09	3.97e-07	0.5782	1	0.86056	1	0.13513	1	0.52298	1	0.1064	1	0.70098	1	0.060082	1	0.16905	1	0.025105	1
Del Peak 10(3q21.3)	0 (0%)	399	0.53774	1	0.46201	1	3.6682e-05	0.0107	0.66978	1	0.47121	1	0.077337	1	0.3423	1	0.096209	1	0.96823	1	0.14017	1	0.25301	1	0.13245	1
Del Peak 11(4q34.3)	0 (0%)	428	0.31389	1	0.26964	1	3.3985e-12	1.19e-09	0.00013946	0.0382	0.0031179	0.721	0.13371	1	0.00034392	0.0898	1.1791e-05	0.00355	0.24557	1	0.016751	1	0.0094431	1	0.046699	1
Del Peak 12(6q26)	0 (0%)	359	0.014953	1	0.0066889	1	1.881e-17	6.9e-15	0.089429	1	6.3847e-05	0.0181	0.0039971	0.892	0.00047792	0.123	0.01908	1	4.8891e-08	1.64e-05	0.015681	1	0.00050778	0.13	5.1779e-05	0.015
Del Peak 13(6q26)	0 (0%)	359	0.014953	1	0.0066889	1	1.881e-17	6.9e-15	0.089429	1	3.057e-05	0.00905	0.0054188	1	0.00015932	0.0433	0.01908	1	1.3515e-08	4.54e-06	0.040313	1	0.00012554	0.0348	5.1779e-05	0.015
Del Peak 14(8p23.2)	0 (0%)	356	0.50239	1	0.62565	1	2.6692e-07	8.67e-05	0.053915	1	0.0042394	0.937	0.15645	1	0.0025599	0.604	0.0086898	1	0.0011094	0.274	0.014318	1	0.010384	1	0.024791	1
Del Peak 15(9p23)	0 (0%)	357	0.0036236	0.823	0.00058681	0.15	9.6572e-51	3.69e-48	1.3388e-19	4.94e-17	1.414e-07	4.67e-05	0.0020048	0.475	3.5859e-23	1.34e-20	9.2142e-24	3.46e-21	1.0706e-15	3.88e-13	3.0774e-05	0.00908	1.1581e-09	3.98e-07	7.8549e-07	0.000252
Del Peak 16(9p21.3)	0 (0%)	350	0.0012492	0.307	0.00016837	0.0456	7.8179e-49	2.98e-46	6.5712e-20	2.44e-17	5.2296e-08	1.75e-05	0.00046915	0.122	2.0753e-23	7.76e-21	1.145e-27	4.31e-25	4.5225e-16	1.65e-13	2.2553e-07	7.35e-05	1.7004e-09	5.83e-07	8.3299e-07	0.000267
Del Peak 17(10q23.31)	0 (0%)	414	0.44086	1	0.55375	1	6.4861e-10	2.24e-07	0.0010349	0.257	0.911	1	0.071701	1	0.057827	1	0.034379	1	0.023121	1	0.023763	1	0.20059	1	0.035422	1
Del Peak 18(13q13.3)	0 (0%)	428	0.014431	1	0.017434	1	3.5597e-09	1.21e-06	0.00010128	0.0286	1.9959e-06	0.000627	0.13955	1	1.2365e-06	0.000392	9.3903e-08	3.12e-05	2.3802e-06	0.000743	1.5882e-06	5e-04	0.029205	1	2.1448e-05	0.00639
Del Peak 19(14q31.1)	0 (0%)	282	5.9184e-05	0.0169	0.00011316	0.0316	1.1454e-17	4.22e-15	5.9786e-07	0.000194	2.3549e-14	8.41e-12	1.8828e-07	6.16e-05	6.6695e-20	2.47e-17	6.4023e-15	2.3e-12	5.2535e-11	1.82e-08	0.53586	1	0.0001854	0.0497	0.0076513	1