Molecular subtypes	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	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
Amp Peak  1(1p34.2)	0 (0%)	105	7.7243e-07	0.000376	4.0864e-05	0.0194	0.89402	1	0.70601	1	0.063255	1	0.092721	1	0.2593	1	0.048059	1
Amp Peak  2(1p22.3)	0 (0%)	107	2.1967e-08	1.08e-05	0.3407	1	0.33037	1	0.58057	1	0.46445	1	0.70941	1	0.2503	1	0.077117	1
Amp Peak  3(1q21.3)	0 (0%)	74	1.2726e-08	6.29e-06	0.00039988	0.182	0.011755	1	0.051123	1	0.052383	1	0.17612	1	0.11222	1	0.11504	1
Amp Peak  4(1q23.3)	0 (0%)	68	7.955e-06	0.0038	0.012382	1	0.9254	1	0.58916	1	0.17656	1	0.61943	1	0.00049643	0.224	0.00476	1
Amp Peak  5(3p25.2)	0 (0%)	80	6.7615e-06	0.00324	0.0090366	1	0.27822	1	0.03928	1	0.00033309	0.153	0.031111	1	0.001554	0.687	0.003227	1
Amp Peak  6(3q26.32)	0 (0%)	66	0.0049399	1	0.66438	1	0.16067	1	0.81172	1	0.055849	1	0.9531	1	0.49526	1	0.62004	1
Amp Peak  7(4p16.3)	0 (0%)	120	0.58491	1	0.14968	1	0.16214	1	0.18857	1	0.090298	1	0.13528	1	0.11682	1	0.3236	1
Amp Peak  8(4q13.3)	0 (0%)	127	0.0039722	1	0.15965	1	0.51704	1	0.86705	1	0.92156	1	0.6425	1	0.23023	1	0.1693	1
Amp Peak  9(5p15.1)	0 (0%)	80	2.3367e-06	0.00113	0.22179	1	0.013987	1	0.45966	1	0.026517	1	0.08859	1	0.17408	1	0.24393	1
Amp Peak 10(6p22.3)	0 (0%)	89	8.1991e-11	4.07e-08	0.0023585	1	0.83415	1	0.87182	1	0.22117	1	0.6289	1	0.057972	1	0.37688	1
Amp Peak 11(6q12)	0 (0%)	125	0.010202	1	0.62748	1	1	1	1	1	0.25454	1	0.6061	1	0.17183	1	0.002843	1
Amp Peak 12(6q21)	0 (0%)	132	0.036298	1	0.05116	1	0.62114	1	0.58438	1	0.054621	1	0.84865	1	0.8529	1	0.62026	1
Amp Peak 13(7p11.2)	0 (0%)	70	6.9884e-08	3.44e-05	0.00098386	0.44	0.48139	1	0.24295	1	0.31943	1	0.88751	1	0.41385	1	0.47994	1
Amp Peak 14(8p11.23)	0 (0%)	101	0.00014369	0.067	0.074528	1	0.073189	1	0.016951	1	0.81404	1	0.40866	1	0.21143	1	0.75109	1
Amp Peak 15(8p11.21)	0 (0%)	100	0.0022899	1	0.012561	1	0.59619	1	0.63731	1	0.27535	1	0.61813	1	0.085189	1	0.68298	1
Amp Peak 16(8q22.3)	0 (0%)	57	2.2545e-07	0.000111	0.0026675	1	0.16764	1	0.20779	1	0.32137	1	0.52286	1	0.012952	1	0.27882	1
Amp Peak 17(8q24.21)	0 (0%)	61	0.00012943	0.0604	0.025644	1	0.22617	1	0.35378	1	0.11516	1	0.67519	1	0.028149	1	0.59716	1
Amp Peak 18(10p15.1)	0 (0%)	89	2.9063e-09	1.44e-06	5.2508e-06	0.00252	0.89314	1	0.21526	1	0.87515	1	0.46741	1	0.24905	1	0.18084	1
Amp Peak 19(11q13.3)	0 (0%)	90	8.0452e-07	0.000391	0.21835	1	0.5536	1	0.5971	1	0.12262	1	0.92789	1	0.00043387	0.197	0.034984	1
Amp Peak 20(12q15)	0 (0%)	102	0.0066231	1	0.10718	1	0.76019	1	0.43903	1	0.060761	1	0.15748	1	0.23238	1	0.038784	1
Amp Peak 21(13q34)	0 (0%)	95	0.05882	1	0.93288	1	0.016406	1	0.031791	1	0.022092	1	0.50093	1	0.21241	1	0.6413	1
Amp Peak 22(16p12.1)	0 (0%)	111	0.0084249	1	0.11247	1	0.078326	1	0.4535	1	0.72764	1	0.26636	1	0.39607	1	0.37578	1
Amp Peak 23(17q11.2)	0 (0%)	82	3.5861e-06	0.00173	0.0012197	0.544	0.76019	1	0.43903	1	9.3123e-05	0.0439	0.010009	1	0.019618	1	0.01307	1
Amp Peak 24(17q12)	0 (0%)	87	0.00020864	0.097	0.15321	1	0.9394	1	0.43903	1	0.041127	1	0.21069	1	0.026481	1	0.00021659	0.1
Amp Peak 25(19q12)	0 (0%)	85	4.8241e-05	0.0229	0.0027118	1	0.37007	1	0.93577	1	0.64486	1	0.46294	1	0.37156	1	0.31848	1
Amp Peak 26(19q13.43)	0 (0%)	87	0.00010451	0.0491	0.025791	1	0.77788	1	0.76681	1	0.1401	1	0.46055	1	0.15169	1	0.094552	1
Amp Peak 27(20q11.21)	0 (0%)	46	2.0703e-06	0.001	0.42783	1	0.34208	1	0.86458	1	0.57908	1	0.65875	1	0.31146	1	0.32024	1
Amp Peak 28(22q11.23)	0 (0%)	115	0.12623	1	0.38329	1	0.83664	1	0.091558	1	0.344	1	0.82247	1	0.21672	1	0.26539	1
Del Peak  1(1p36.11)	0 (0%)	123	0.22553	1	0.0049925	1	0.069891	1	0.011411	1	0.68402	1	0.098979	1	0.7631	1	0.27576	1
Del Peak  2(1q32.1)	0 (0%)	122	0.068614	1	0.11463	1	0.73836	1	0.37988	1	0.97976	1	0.32942	1	0.96271	1	0.29538	1
Del Peak  3(2q22.1)	0 (0%)	107	0.17816	1	0.29465	1	0.3152	1	0.27846	1	0.12005	1	0.66951	1	0.22945	1	0.16044	1
Del Peak  4(2q34)	0 (0%)	90	0.0014929	0.661	0.13729	1	0.3093	1	0.47215	1	0.51111	1	0.46802	1	0.078512	1	0.27848	1
Del Peak  5(2q37.1)	0 (0%)	77	0.00052583	0.237	0.012785	1	0.90782	1	0.87528	1	0.16453	1	0.17196	1	0.043438	1	0.10921	1
Del Peak  6(3p21.31)	0 (0%)	103	0.17914	1	0.12029	1	0.0064897	1	0.0023042	1	0.00011464	0.0538	0.010826	1	0.1051	1	0.20444	1
Del Peak  7(3p14.2)	0 (0%)	102	0.086089	1	0.56029	1	0.075854	1	0.00029355	0.135	0.00048948	0.222	0.0067097	1	0.32612	1	0.29787	1
Del Peak  8(3p12.3)	0 (0%)	109	0.010674	1	0.45467	1	0.018856	1	0.00049489	0.224	0.0013189	0.587	0.087662	1	0.41815	1	0.6328	1
Del Peak  9(4q22.1)	0 (0%)	91	0.12124	1	0.62787	1	0.3577	1	1	1	0.40794	1	0.088382	1	0.88576	1	0.50781	1
Del Peak 10(4q34.2)	0 (0%)	85	7.7903e-05	0.0368	0.37403	1	0.42198	1	0.87528	1	0.38707	1	0.45161	1	0.12142	1	0.013475	1
Del Peak 11(5q11.2)	0 (0%)	75	3.2427e-07	0.000159	0.033567	1	0.8138	1	0.47385	1	0.27094	1	0.66765	1	0.16657	1	0.15131	1
Del Peak 12(5q35.1)	0 (0%)	78	0.00035474	0.162	0.0039393	1	0.56722	1	0.56809	1	0.50117	1	0.28223	1	0.056265	1	0.14069	1
Del Peak 13(6p25.3)	0 (0%)	111	0.12158	1	0.27054	1	0.13456	1	0.66031	1	0.2318	1	0.42626	1	0.65787	1	0.92741	1
Del Peak 14(6q21)	0 (0%)	87	0.0003666	0.168	0.012898	1	0.079914	1	0.27212	1	0.56948	1	0.060299	1	0.34393	1	0.68625	1
Del Peak 15(8p23.1)	0 (0%)	67	8.84e-06	0.00422	0.00064854	0.291	0.16947	1	0.44639	1	0.43753	1	0.84574	1	0.01231	1	0.0083475	1
Del Peak 16(9p23)	0 (0%)	84	0.00050089	0.226	0.75221	1	0.27398	1	0.71654	1	0.72992	1	0.16233	1	0.45017	1	0.95404	1
Del Peak 17(9p21.3)	0 (0%)	63	4.5179e-07	0.00022	0.40579	1	0.071796	1	0.93048	1	0.37859	1	0.098258	1	0.6371	1	0.59088	1
Del Peak 18(10p12.1)	0 (0%)	121	0.10139	1	0.76928	1	0.45485	1	0.90556	1	0.17972	1	0.11941	1	0.28272	1	0.20002	1
Del Peak 19(10q23.31)	0 (0%)	90	0.00011538	0.054	0.0025019	1	0.2284	1	0.92873	1	0.56227	1	0.1948	1	0.32218	1	0.40927	1
Del Peak 20(11p15.5)	0 (0%)	77	7.6908e-05	0.0364	0.037959	1	0.19518	1	0.6729	1	0.059583	1	0.01777	1	0.0047183	1	0.04111	1
Del Peak 21(11q25)	0 (0%)	103	0.0097346	1	0.33748	1	0.37822	1	1	1	0.0052769	1	0.21301	1	0.070367	1	0.05985	1
Del Peak 22(13q14.2)	0 (0%)	92	0.00025413	0.117	0.98586	1	0.00022903	0.106	0.0087455	1	0.0051934	1	0.1099	1	0.84416	1	0.059931	1
Del Peak 23(14q12)	0 (0%)	107	0.0013338	0.592	0.00094091	0.422	0.8053	1	0.59817	1	0.19409	1	0.26146	1	0.088437	1	0.52689	1
Del Peak 24(14q32.31)	0 (0%)	109	0.1281	1	0.027201	1	0.8053	1	0.84344	1	0.40742	1	0.86212	1	0.00024967	0.115	0.084275	1
Del Peak 25(15q13.1)	0 (0%)	95	4.3225e-06	0.00208	0.0053398	1	0.082907	1	0.45966	1	0.072302	1	0.13664	1	0.094157	1	0.1165	1
Del Peak 26(16p13.3)	0 (0%)	96	3.498e-06	0.00169	0.0065187	1	0.19141	1	0.22993	1	0.66466	1	0.97454	1	0.49652	1	0.64157	1
Del Peak 27(16q23.1)	0 (0%)	112	1.759e-05	0.00837	0.043382	1	0.23182	1	0.7533	1	0.11801	1	0.35819	1	0.049244	1	0.21519	1
Del Peak 28(17p12)	0 (0%)	73	0.0021688	0.956	0.017517	1	0.55568	1	0.40504	1	0.039389	1	0.3774	1	0.19242	1	0.77706	1
Del Peak 29(18q23)	0 (0%)	87	0.061574	1	0.48466	1	0.97864	1	0.76299	1	0.90304	1	0.28088	1	0.030834	1	0.019671	1
Del Peak 30(19p13.3)	0 (0%)	91	0.0027365	1	0.050253	1	1	1	0.75741	1	0.59754	1	0.81992	1	0.3451	1	0.11083	1
Del Peak 31(22q13.32)	0 (0%)	90	2.9678e-07	0.000145	0.25987	1	0.12831	1	0.067522	1	0.028316	1	0.14954	1	0.57588	1	0.11452	1
Del Peak 32(Xp11.3)	0 (0%)	110	0.14956	1	0.0053966	1	0.77519	1	0.92232	1	0.6276	1	0.23596	1	0.55359	1	0.33612	1
Del Peak 33(Xq21.33)	0 (0%)	115	0.2108	1	0.078904	1	0.17296	1	0.17311	1	0.02424	1	0.086849	1	0.15334	1	0.31495	1
Del Peak 34(Xq23)	0 (0%)	117	0.29705	1	0.027307	1	0.17296	1	0.17311	1	0.010873	1	0.077485	1	0.16545	1	0.092391	1