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)	60 (12%)	433	0.25879	1	0.4912	1	1.0611e-07	2.74e-05	0.35883	1	0.25843	1	0.38787	1	3.8785e-05	0.00857	0.001285	0.236	2.3935e-05	0.00541	0.97837	1
Amp Peak  2(1q32.1)	59 (12%)	434	0.41028	1	0.72409	1	7.4967e-10	2.04e-07	0.17172	1	0.26516	1	0.12297	1	7.9397e-06	0.00186	0.00058778	0.113	2.13e-05	0.00486	1	1
Amp Peak  3(3q26.32)	80 (16%)	413	0.048353	1	0.037174	1	1.5043e-06	0.000366	6.3722e-06	0.00151	0.0035043	0.599	1.0638e-05	0.00247	1.4146e-06	0.000345	9.5312e-08	2.47e-05	1.3518e-06	0.000331	0.0086034	1
Amp Peak  4(4q32.1)	14 (3%)	479	NA	NA	NA	NA	0.69796	1	1	1	0.69317	1	0.5158	1	0.081344	1	0.46574	1	0.020593	1	0.080508	1
Amp Peak  5(5q35.1)	311 (63%)	182	0.017401	1	0.0072942	1	5.5331e-05	0.012	0.88772	1	0.015106	1	0.0033208	0.571	0.013369	1	0.00070052	0.132	0.025643	1	0.0039328	0.649
Amp Peak  6(7q36.3)	163 (33%)	330	0.66681	1	0.63898	1	1.2489e-06	0.000307	0.028281	1	0.00019154	0.0385	0.01745	1	0.00012964	0.027	0.0037292	0.62	0.030497	1	0.081745	1
Amp Peak  7(8q24.22)	73 (15%)	420	0.22618	1	0.27818	1	2.3452e-15	6.61e-13	1.1793e-06	0.000292	3.7669e-06	9e-04	0.0042523	0.683	2.7838e-12	7.66e-10	2.8908e-11	7.89e-09	6.1974e-09	1.65e-06	0.00018079	0.0369
Amp Peak  8(10p14)	16 (3%)	477	0.18897	1	0.1968	1	0.0075331	1	0.34164	1	0.54777	1	0.054012	1	0.032101	1	0.0029529	0.514	0.19916	1	0.061084	1
Amp Peak  9(17q24.3)	37 (8%)	456	0.069157	1	0.097061	1	0.0054109	0.844	0.16296	1	0.24255	1	0.037066	1	0.19684	1	0.020392	1	0.042027	1	0.01984	1
Amp Peak 10(Xp22.2)	35 (7%)	458	1	1	1	1	0.0065518	1	0.1369	1	0.0059787	0.921	0.012856	1	0.10043	1	0.16554	1	0.020533	1	0.17014	1
Amp Peak 11(Xp11.4)	36 (7%)	457	0.84347	1	0.84548	1	0.011287	1	0.057471	1	0.0073198	1	0.0044581	0.709	0.032058	1	0.046919	1	0.020533	1	0.17014	1
Amp Peak 12(Xq11.2)	32 (6%)	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	0.37177	1	0.11589	1
Del Peak  1(1p36.23)	98 (20%)	395	0.00018069	0.0369	7.8725e-05	0.0168	1.2758e-09	3.43e-07	0.020118	1	2.284e-05	0.00518	0.00014708	0.0304	0.00011761	0.0246	0.00044917	0.0885	1.0914e-07	2.8e-05	2.7346e-08	7.19e-06
Del Peak  2(1p31.1)	72 (15%)	421	0.0016701	0.304	0.00054211	0.105	2.8384e-05	0.00636	0.047376	1	3.9971e-05	0.00879	0.0080714	1	0.059588	1	0.007267	1	4.742e-05	0.0104	3.3822e-06	0.000812
Del Peak  3(1q43)	38 (8%)	455	0.010729	1	0.012342	1	0.0052863	0.83	0.69709	1	0.0040888	0.662	0.010754	1	0.0084616	1	0.0047607	0.752	0.074841	1	0.00010207	0.0216
Del Peak  4(2q37.3)	48 (10%)	445	0.0015615	0.286	0.0022165	0.392	0.39629	1	0.75686	1	0.19905	1	0.41282	1	0.00010882	0.023	0.00018973	0.0383	0.27647	1	0.00016077	0.033
Del Peak  5(3p25.3)	432 (88%)	61	1.5518e-07	3.96e-05	1.1917e-08	3.16e-06	5.5389e-30	1.65e-27	0.00065733	0.126	3.422e-05	0.0076	0.031741	1	2.8764e-12	7.88e-10	7.5191e-16	2.13e-13	8.3618e-07	0.000209	1.1341e-09	3.06e-07
Del Peak  6(3p21.32)	435 (88%)	58	1.5518e-07	3.96e-05	1.1917e-08	3.16e-06	1.7382e-29	5.14e-27	0.0016883	0.306	5.4619e-05	0.0119	0.023394	1	1.155e-13	3.2e-11	3.2123e-16	9.12e-14	2.2977e-06	0.000554	1.017e-09	2.76e-07
Del Peak  7(3p12.2)	283 (57%)	210	0.040368	1	0.0145	1	2.2837e-17	6.51e-15	0.34913	1	0.42247	1	0.35754	1	0.0039839	0.653	0.000211	0.0422	0.030392	1	0.15908	1
Del Peak  8(3q11.2)	150 (30%)	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	0.0091373	1	0.041225	1
Del Peak  9(4q34.3)	76 (15%)	417	0.31389	1	0.2919	1	5.4721e-09	1.46e-06	0.00040846	0.0809	0.0031179	0.539	0.13371	1	0.00034392	0.0684	1.1791e-05	0.00271	0.84485	1	0.012207	1
Del Peak 10(6q26)	142 (29%)	351	0.014953	1	0.0036384	0.616	1.8415e-25	5.4e-23	0.017105	1	6.3847e-05	0.0137	0.0039971	0.653	0.00047792	0.0932	0.01908	1	2.103e-05	0.00482	0.021556	1
Del Peak 11(6q26)	142 (29%)	351	0.014953	1	0.0036384	0.616	1.8415e-25	5.4e-23	0.017105	1	3.057e-05	0.00682	0.0054188	0.844	0.00015932	0.0328	0.01908	1	6.5913e-06	0.00155	0.025657	1
Del Peak 12(8p23.2)	146 (30%)	347	0.50239	1	0.47467	1	9.4211e-06	0.0022	0.022316	1	0.0042394	0.683	0.15645	1	0.0025599	0.448	0.0086898	1	0.00051121	0.0992	0.006964	1
Del Peak 13(9p23)	144 (29%)	349	0.0036236	0.616	0.0023046	0.406	3.3609e-30	1e-27	3.4329e-20	9.85e-18	1.414e-07	3.62e-05	0.0020048	0.359	3.5859e-23	1.04e-20	9.2142e-24	2.68e-21	1.8108e-14	5.05e-12	1.1483e-05	0.00265
Del Peak 14(9p21.3)	152 (31%)	341	0.0012492	0.231	0.00066164	0.126	1.9576e-29	5.78e-27	2.2443e-21	6.46e-19	5.2296e-08	1.37e-05	0.00046915	0.092	2.0753e-23	6.02e-21	1.145e-27	3.37e-25	5.1671e-15	1.45e-12	2.7781e-07	7e-05
Del Peak 15(10q23.31)	90 (18%)	403	0.44086	1	0.64324	1	9.2887e-07	0.000231	0.002017	0.359	0.911	1	0.071701	1	0.057827	1	0.034379	1	0.046993	1	0.092216	1
Del Peak 16(13q13.3)	76 (15%)	417	0.014431	1	0.011733	1	4.0483e-06	0.000963	0.00067535	0.128	1.9959e-06	0.000483	0.13955	1	1.2365e-06	0.000305	9.3903e-08	2.44e-05	3.5591e-07	8.93e-05	4.7406e-05	0.0104
Del Peak 17(14q31.1)	218 (44%)	275	5.9184e-05	0.0127	2.7739e-05	0.00624	2.0571e-13	5.68e-11	6.7941e-08	1.77e-05	2.3549e-14	6.55e-12	1.8828e-07	4.76e-05	6.6695e-20	1.91e-17	6.4023e-15	1.79e-12	2.5073e-09	6.72e-07	0.071196	1
Del Peak 18(Xq23)	55 (11%)	438	0.10853	1	0.077607	1	6.5258e-06	0.00154	0.00071458	0.134	0.033047	1	0.0037109	0.62	0.20776	1	0.018328	1	0.0017346	0.312	0.00011062	0.0232