Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_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
Amp Peak  1(1q24.1)	0 (0%)	433	0.25879	1	0.4912	1	1.0611e-07	2.71e-05	0.35883	1	0.25843	1	0.38787	1	3.8785e-05	0.00838	0.001285	0.234	9.7441e-06	0.00221	0.4167	1
Amp Peak  2(1q32.1)	0 (0%)	434	0.41028	1	0.72409	1	7.4967e-10	2.02e-07	0.17172	1	0.26516	1	0.12297	1	7.9397e-06	0.00183	0.00058778	0.113	8.3853e-06	0.00193	0.17549	1
Amp Peak  3(3q26.32)	0 (0%)	413	0.048353	1	0.037174	1	1.5043e-06	0.000363	6.3722e-06	0.00149	0.0035043	0.592	1.0638e-05	0.0024	1.4146e-06	0.000342	9.5312e-08	2.44e-05	5.447e-08	1.41e-05	0.00097915	0.181
Amp Peak  4(4q32.1)	0 (0%)	479	NA	NA	NA	NA	0.69796	1	1	1	0.69317	1	0.5158	1	0.081344	1	0.46574	1	0.0071049	1	0.055023	1
Amp Peak  5(5q35.1)	0 (0%)	182	0.017401	1	0.0072942	1	5.5331e-05	0.0118	0.88772	1	0.015106	1	0.0033208	0.565	0.013369	1	0.00070052	0.132	0.41064	1	6.6514e-06	0.00154
Amp Peak  6(7q36.3)	0 (0%)	330	0.66681	1	0.63898	1	1.2489e-06	0.000303	0.028281	1	0.00019154	0.0383	0.01745	1	0.00012964	0.0266	0.0037292	0.612	0.027453	1	0.11998	1
Amp Peak  7(8q24.22)	0 (0%)	420	0.22618	1	0.27818	1	2.3452e-15	6.57e-13	1.1793e-06	0.000289	3.7669e-06	0.000889	0.0042523	0.678	2.7838e-12	7.6e-10	2.8908e-11	7.83e-09	3.1789e-09	8.49e-07	5.8824e-05	0.0125
Amp Peak  8(10p14)	0 (0%)	477	0.18897	1	0.1968	1	0.0075331	1	0.34164	1	0.54777	1	0.054012	1	0.032101	1	0.0029529	0.508	0.13403	1	0.11802	1
Amp Peak  9(17q24.3)	0 (0%)	456	0.069157	1	0.097061	1	0.0054109	0.839	0.16296	1	0.24255	1	0.037066	1	0.19684	1	0.020392	1	0.12753	1	0.047552	1
Amp Peak 10(Xp22.2)	0 (0%)	458	1	1	1	1	0.0065518	0.996	0.1369	1	0.0059787	0.915	0.012856	1	0.10043	1	0.16554	1	0.022142	1	0.61809	1
Amp Peak 11(Xp11.4)	0 (0%)	457	0.84347	1	0.84548	1	0.011287	1	0.057471	1	0.0073198	1	0.0044581	0.704	0.032058	1	0.046919	1	0.022142	1	0.37339	1
Amp Peak 12(Xq11.2)	0 (0%)	461	0.17187	1	0.18216	1	0.25263	1	0.23346	1	0.10531	1	0.054484	1	0.10361	1	0.39095	1	0.074542	1	0.16596	1
Del Peak  1(1p36.23)	0 (0%)	395	0.00018069	0.0365	7.8725e-05	0.0165	1.2758e-09	3.42e-07	0.020118	1	2.284e-05	0.00509	0.00014708	0.03	0.00011761	0.0242	0.00044917	0.088	6.8252e-07	0.00017	6.6927e-09	1.77e-06
Del Peak  2(1p31.1)	0 (0%)	421	0.0016701	0.301	0.00054211	0.105	2.8384e-05	0.00627	0.047376	1	3.9971e-05	0.00859	0.0080714	1	0.059588	1	0.007267	1	0.00011129	0.023	2.9156e-06	0.000691
Del Peak  3(1q43)	0 (0%)	455	0.010729	1	0.012342	1	0.0052863	0.825	0.69709	1	0.0040888	0.658	0.010754	1	0.0084616	1	0.0047607	0.747	0.40861	1	9.2569e-07	0.00023
Del Peak  4(2q37.3)	0 (0%)	445	0.0015615	0.283	0.0022165	0.388	0.39629	1	0.75686	1	0.19905	1	0.41282	1	0.00010882	0.0226	0.00018973	0.0381	0.0445	1	8.7198e-06	0.002
Del Peak  5(3p25.3)	0 (0%)	61	1.5518e-07	3.93e-05	1.1917e-08	3.15e-06	5.5389e-30	1.65e-27	0.00065733	0.126	3.422e-05	0.00743	0.031741	1	2.8764e-12	7.82e-10	7.5191e-16	2.12e-13	3.1936e-05	0.00696	1.3396e-14	3.71e-12
Del Peak  6(3p21.32)	0 (0%)	58	1.5518e-07	3.93e-05	1.1917e-08	3.15e-06	1.7382e-29	5.14e-27	0.0016883	0.302	5.4619e-05	0.0117	0.023394	1	1.155e-13	3.18e-11	3.2123e-16	9.12e-14	1.0125e-06	0.000249	2.5358e-15	7.08e-13
Del Peak  7(3p12.2)	0 (0%)	210	0.040368	1	0.0145	1	2.2837e-17	6.51e-15	0.34913	1	0.42247	1	0.35754	1	0.0039839	0.649	0.000211	0.042	0.33544	1	0.0074152	1
Del Peak  8(3q11.2)	0 (0%)	343	0.18332	1	0.098896	1	0.00091885	0.171	0.68659	1	0.86056	1	0.13513	1	0.52298	1	0.1064	1	0.70098	1	0.060082	1
Del Peak  9(4q34.3)	0 (0%)	417	0.31389	1	0.2919	1	5.4721e-09	1.46e-06	0.00040846	0.0805	0.0031179	0.533	0.13371	1	0.00034392	0.0681	1.1791e-05	0.00265	0.24557	1	0.016751	1
Del Peak 10(6q26)	0 (0%)	351	0.014953	1	0.0036384	0.609	1.8415e-25	5.4e-23	0.017105	1	6.3847e-05	0.0134	0.0039971	0.649	0.00047792	0.0927	0.01908	1	4.8891e-08	1.28e-05	0.015681	1
Del Peak 11(6q26)	0 (0%)	351	0.014953	1	0.0036384	0.609	1.8415e-25	5.4e-23	0.017105	1	3.057e-05	0.00673	0.0054188	0.839	0.00015932	0.0323	0.01908	1	1.3515e-08	3.54e-06	0.040313	1
Del Peak 12(8p23.2)	0 (0%)	347	0.50239	1	0.47467	1	9.4211e-06	0.00215	0.022316	1	0.0042394	0.678	0.15645	1	0.0025599	0.443	0.0086898	1	0.0011094	0.204	0.014318	1
Del Peak 13(9p23)	0 (0%)	349	0.0036236	0.609	0.0023046	0.401	3.3609e-30	1e-27	3.4329e-20	9.85e-18	1.414e-07	3.59e-05	0.0020048	0.355	3.5859e-23	1.04e-20	9.2142e-24	2.68e-21	1.0706e-15	3.01e-13	3.0774e-05	0.00674
Del Peak 14(9p21.3)	0 (0%)	341	0.0012492	0.229	0.00066164	0.126	1.9576e-29	5.78e-27	2.2443e-21	6.46e-19	5.2296e-08	1.36e-05	0.00046915	0.0915	2.0753e-23	6.02e-21	1.145e-27	3.37e-25	4.5225e-16	1.28e-13	2.2553e-07	5.64e-05
Del Peak 15(10q23.31)	0 (0%)	403	0.44086	1	0.64324	1	9.2887e-07	0.00023	0.002017	0.355	0.911	1	0.071701	1	0.057827	1	0.034379	1	0.023121	1	0.023763	1
Del Peak 16(13q13.3)	0 (0%)	417	0.014431	1	0.011733	1	4.0483e-06	0.000951	0.00067535	0.128	1.9959e-06	0.000477	0.13955	1	1.2365e-06	0.000302	9.3903e-08	2.41e-05	2.3802e-06	0.000566	1.5882e-06	0.000381
Del Peak 17(14q31.1)	0 (0%)	275	5.9184e-05	0.0125	2.7739e-05	0.00616	2.0571e-13	5.64e-11	6.7941e-08	1.75e-05	2.3549e-14	6.5e-12	1.8828e-07	4.73e-05	6.6695e-20	1.91e-17	6.4023e-15	1.78e-12	5.2535e-11	1.42e-08	0.53586	1
Del Peak 18(Xq23)	0 (0%)	438	0.10853	1	0.077607	1	6.5258e-06	0.00152	0.00071458	0.134	0.033047	1	0.0037109	0.612	0.20776	1	0.018328	1	0.0019414	0.346	1.5764e-05	0.00353