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	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	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	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q
Amp Peak  1(1q21.3)	48 (30%)	114	1	1	0.88206	1	0.00067608	0.4	0.96087	1	0.73108	1	0.30171	1	0.032993	1	0.091529	1	0.080473	1	0.6456	1
Amp Peak  2(1q32.2)	48 (30%)	114	0.68588	1	1	1	0.0091792	1	0.57906	1	0.11047	1	0.14204	1	0.11441	1	0.28665	1	0.10974	1	0.38951	1
Amp Peak  3(5q22.3)	19 (12%)	143	0.03046	1	0.44644	1	0.11811	1	0.28086	1	0.6912	1	0.55161	1	0.069081	1	0.39088	1	0.48523	1	0.6501	1
Amp Peak  4(6p21.1)	52 (32%)	110	0.03683	1	0.035711	1	0.0001122	0.0674	0.039744	1	0.51133	1	0.14392	1	0.084616	1	0.087704	1	0.16273	1	0.4132	1
Amp Peak  5(8p11.23)	52 (32%)	110	0.0018119	1	0.037719	1	2.5362e-08	1.55e-05	0.3084	1	0.22485	1	0.39793	1	0.67319	1	0.71645	1	0.056811	1	0.006683	1
Amp Peak  6(8p11.21)	69 (43%)	93	0.01029	1	0.020317	1	2.3766e-13	1.46e-10	0.25707	1	0.36028	1	0.47777	1	0.10687	1	0.079214	1	0.17278	1	0.084031	1
Amp Peak  7(8q24.21)	107 (66%)	55	0.030544	1	0.021382	1	1.6962e-09	1.04e-06	0.2315	1	0.35927	1	0.73445	1	0.019401	1	0.22464	1	0.56639	1	0.1442	1
Amp Peak  8(10q22.2)	11 (7%)	151	0.4254	1	0.87205	1	0.91222	1	1	1	0.55762	1	0.94868	1	0.33243	1	0.31236	1	0.38713	1	0.28022	1
Amp Peak  9(11p15.5)	43 (27%)	119	0.41766	1	0.46815	1	0.02861	1	0.69599	1	0.1489	1	0.85341	1	0.1186	1	0.0026751	1	0.090226	1	0.47006	1
Amp Peak 10(11q13.3)	26 (16%)	136	0.031197	1	0.053576	1	0.00056834	0.338	0.0078889	1	0.82239	1	0.80056	1	0.00010784	0.0649	0.022112	1	0.015119	1	0.13584	1
Amp Peak 11(12p13.33)	41 (25%)	121	0.47546	1	0.56647	1	0.038474	1	0.65368	1	0.17077	1	0.17101	1	0.11329	1	0.0083798	1	0.59317	1	0.83975	1
Amp Peak 12(12p12.1)	40 (25%)	122	0.51098	1	0.78648	1	0.036007	1	0.44569	1	0.11603	1	0.093087	1	0.088578	1	0.0075933	1	0.68075	1	0.42012	1
Amp Peak 13(13q12.13)	121 (75%)	41	0.57316	1	0.57507	1	3.0576e-05	0.0185	0.31669	1	0.27129	1	0.9339	1	0.16172	1	0.018981	1	0.012234	1	0.0084705	1
Amp Peak 14(13q12.2)	120 (74%)	42	0.42638	1	0.42096	1	4.8631e-06	0.00297	0.23963	1	0.50424	1	0.95802	1	0.28479	1	0.040941	1	0.073716	1	0.022669	1
Amp Peak 15(13q22.1)	117 (72%)	45	0.40588	1	0.22349	1	1.0215e-07	6.25e-05	0.051336	1	0.44255	1	0.23501	1	0.05607	1	0.0020091	1	0.0071233	1	0.0030409	1
Amp Peak 16(15q26.1)	15 (9%)	147	0.15108	1	0.11953	1	0.3144	1	0.44097	1	0.10096	1	0.088189	1	0.029091	1	0.12501	1	0.50321	1	0.91887	1
Amp Peak 17(16p11.2)	45 (28%)	117	0.14808	1	0.071927	1	2.957e-05	0.0179	0.13983	1	0.33135	1	0.27442	1	0.49136	1	0.2508	1	0.17842	1	0.81575	1
Amp Peak 18(17q12)	43 (27%)	119	0.0055906	1	0.14599	1	0.00020043	0.12	0.53237	1	0.7923	1	0.81635	1	0.00086452	0.511	0.0029163	1	0.17128	1	0.89783	1
Amp Peak 19(17q24.1)	37 (23%)	125	0.21419	1	0.94276	1	0.0003305	0.197	0.1241	1	0.67708	1	0.90008	1	0.030745	1	0.13819	1	0.59889	1	0.66794	1
Amp Peak 20(19p13.2)	32 (20%)	130	0.044765	1	0.0088532	1	0.00059945	0.355	0.79833	1	0.38942	1	0.23775	1	0.43945	1	0.29864	1	0.64297	1	0.91553	1
Amp Peak 21(20q11.21)	143 (88%)	19	0.063237	1	0.029395	1	0.0011551	0.68	0.023665	1	0.19393	1	0.37977	1	0.087937	1	2.7997e-05	0.017	0.028261	1	0.091641	1
Amp Peak 22(20q11.23)	144 (89%)	18	0.063237	1	0.029395	1	0.0025676	1	0.056143	1	0.19393	1	0.37977	1	0.087937	1	2.7997e-05	0.017	0.050441	1	0.069719	1
Amp Peak 23(20q13.31)	145 (90%)	17	0.050688	1	0.026909	1	0.0054418	1	0.056143	1	0.19393	1	0.37977	1	0.038	1	0.00013061	0.0784	0.072829	1	0.10856	1
Amp Peak 24(Xp22.2)	33 (20%)	129	0.037896	1	0.10931	1	0.64385	1	0.50541	1	0.92718	1	0.56168	1	0.22164	1	0.065346	1	0.77535	1	0.95503	1
Amp Peak 25(Xq27.3)	38 (23%)	124	0.14874	1	0.45823	1	0.025243	1	0.072221	1	0.38393	1	0.17265	1	0.34069	1	0.4045	1	0.56022	1	0.44199	1
Del Peak  1(1p36.11)	71 (44%)	91	0.45041	1	0.30069	1	0.42909	1	0.25589	1	0.33333	1	0.9804	1	0.029986	1	0.040016	1	0.46685	1	0.75544	1
Del Peak  2(1p33)	49 (30%)	113	0.78985	1	0.23877	1	0.0019569	1	0.21694	1	0.63907	1	0.55897	1	0.029091	1	0.039482	1	0.36878	1	0.18664	1
Del Peak  3(1p13.2)	51 (31%)	111	0.74028	1	0.48348	1	0.00017777	0.106	0.63136	1	0.83269	1	0.90151	1	0.2086	1	0.2508	1	0.40427	1	0.10357	1
Del Peak  4(2p12)	17 (10%)	145	0.29521	1	0.32057	1	0.062324	1	0.40862	1	0.72083	1	0.16259	1	0.041117	1	0.42703	1	0.37004	1	0.62042	1
Del Peak  5(3p14.2)	29 (18%)	133	0.59065	1	0.79609	1	0.60562	1	1	1	0.41691	1	0.65462	1	0.83262	1	0.85527	1	0.83154	1	1	1
Del Peak  6(3q26.31)	17 (10%)	145	1	1	0.9087	1	0.60366	1	1	1	0.43712	1	0.92334	1	0.76543	1	0.15637	1	0.098052	1	0.93302	1
Del Peak  7(4p13)	58 (36%)	104	0.85959	1	0.6641	1	0.00089499	0.528	0.083728	1	0.74092	1	0.29441	1	0.048637	1	0.13604	1	0.97511	1	0.06163	1
Del Peak  8(4q22.1)	72 (44%)	90	0.82493	1	0.43603	1	9.6487e-05	0.0582	0.29666	1	0.62924	1	0.58298	1	0.0017417	1	0.12131	1	0.91702	1	0.081595	1
Del Peak  9(4q35.1)	72 (44%)	90	0.4282	1	0.60683	1	0.0005371	0.32	0.13459	1	0.72148	1	0.55503	1	0.0037586	1	0.037274	1	0.43129	1	0.036917	1
Del Peak 10(5q11.2)	49 (30%)	113	0.20498	1	0.082547	1	0.10232	1	0.0021355	1	0.91167	1	0.30513	1	0.024077	1	0.052529	1	0.45773	1	0.037837	1
Del Peak 11(5q22.2)	55 (34%)	107	0.36995	1	0.16486	1	0.084382	1	0.3084	1	0.8642	1	0.72133	1	0.05785	1	0.1024	1	0.65959	1	0.1914	1
Del Peak 12(6p25.3)	24 (15%)	138	1	1	1	1	0.6483	1	0.022219	1	1	1	0.99336	1	1	1	0.57038	1	0.69002	1	0.56801	1
Del Peak 13(6q26)	30 (19%)	132	0.19905	1	0.058369	1	0.15883	1	0.67919	1	0.099334	1	0.21159	1	0.91684	1	0.23616	1	0.077132	1	0.064496	1
Del Peak 14(7q31.1)	4 (2%)	158	NA	NA	NA	NA	0.31082	1	NA	NA	0.46275	1	0.86965	1	NA	NA	NA	NA	0.74868	1	1	1
Del Peak 15(8p23.2)	100 (62%)	62	0.13619	1	0.092848	1	6.4006e-06	0.00389	0.27339	1	0.97183	1	0.59202	1	0.042478	1	0.12106	1	0.64291	1	0.86294	1
Del Peak 16(8p11.21)	24 (15%)	138	0.1747	1	0.42199	1	0.13977	1	0.20359	1	0.53831	1	0.46127	1	0.60625	1	0.80522	1	0.07528	1	0.11678	1
Del Peak 17(10q21.1)	37 (23%)	125	0.16699	1	0.27248	1	0.071628	1	0.43152	1	0.069773	1	0.16173	1	0.77404	1	0.30549	1	0.74738	1	0.89178	1
Del Peak 18(10q25.2)	47 (29%)	115	0.50802	1	0.84287	1	0.80633	1	0.59634	1	1	1	0.39482	1	0.9836	1	0.11311	1	0.70326	1	0.74207	1
Del Peak 19(11q22.3)	37 (23%)	125	0.0014303	0.841	0.010346	1	0.001497	0.879	0.039195	1	0.18378	1	0.043403	1	0.39258	1	0.20741	1	0.4437	1	0.6167	1
Del Peak 20(12p13.1)	33 (20%)	129	1	1	0.65544	1	0.65679	1	0.28534	1	0.92431	1	0.30902	1	0.18245	1	0.17885	1	0.28732	1	0.22381	1
Del Peak 21(12q21.33)	28 (17%)	134	0.72447	1	0.92316	1	0.020619	1	0.69449	1	1	1	0.73656	1	0.040785	1	0.19601	1	0.46703	1	0.24691	1
Del Peak 22(14q11.2)	67 (41%)	95	0.90674	1	0.33501	1	0.0034551	1	0.9308	1	0.57822	1	0.97967	1	0.051503	1	0.25196	1	0.085815	1	0.14089	1
Del Peak 23(14q31.1)	69 (43%)	93	0.90674	1	0.37254	1	0.011517	1	1	1	0.8979	1	0.43048	1	0.062415	1	0.21914	1	0.16147	1	0.19973	1
Del Peak 24(15q22.33)	75 (46%)	87	0.62397	1	0.42081	1	0.000218	0.13	0.69785	1	0.02917	1	0.32935	1	0.26883	1	0.070325	1	0.38355	1	0.77689	1
Del Peak 25(16p13.3)	13 (8%)	149	0.78128	1	0.60877	1	0.5352	1	0.0203	1	0.61654	1	0.62619	1	0.33243	1	0.88541	1	0.23706	1	0.31657	1
Del Peak 26(16q23.1)	23 (14%)	139	0.10553	1	0.10227	1	0.087296	1	0.13473	1	0.46525	1	0.64871	1	0.17289	1	0.79827	1	0.61937	1	0.1031	1
Del Peak 27(17p12)	110 (68%)	52	0.11937	1	0.35566	1	0.029947	1	0.32872	1	0.53743	1	0.43802	1	0.038108	1	0.0941	1	0.86955	1	0.4458	1
Del Peak 28(17p11.2)	102 (63%)	60	0.23734	1	0.55961	1	0.049408	1	0.59307	1	0.94506	1	0.27291	1	0.059131	1	0.088785	1	0.99854	1	0.9146	1
Del Peak 29(17q25.3)	24 (15%)	138	0.60749	1	0.5361	1	0.19208	1	0.0055794	1	0.15729	1	0.11173	1	1	1	0.86699	1	0.35237	1	0.15531	1
Del Peak 30(18q21.2)	143 (88%)	19	0.13555	1	0.094774	1	5.1796e-06	0.00315	0.11257	1	0.6912	1	0.75901	1	0.012213	1	0.57038	1	0.43297	1	0.23061	1
Del Peak 31(18q22.1)	138 (85%)	24	0.069683	1	0.049017	1	2.382e-07	0.000146	0.030939	1	0.43883	1	0.789	1	0.0036076	1	0.58838	1	0.80517	1	0.49327	1
Del Peak 32(19p13.3)	38 (23%)	124	0.2121	1	0.63651	1	0.067096	1	0.046983	1	0.6332	1	0.67265	1	0.19462	1	0.86632	1	0.49243	1	0.012546	1
Del Peak 33(20p12.1)	60 (37%)	102	0.59134	1	0.90865	1	0.036074	1	0.78748	1	0.42057	1	0.21736	1	0.072704	1	0.0093581	1	0.04741	1	0.23436	1
Del Peak 34(20p12.1)	60 (37%)	102	0.59134	1	0.90865	1	0.036074	1	0.78748	1	0.42057	1	0.21736	1	0.072704	1	0.0093581	1	0.04741	1	0.23436	1
Del Peak 35(21q11.2)	70 (43%)	92	0.41406	1	0.30174	1	0.30436	1	0.83715	1	1	1	0.47617	1	0.044754	1	0.25615	1	0.052038	1	0.46549	1
Del Peak 36(22q13.31)	66 (41%)	96	1	1	0.86224	1	0.22235	1	0.83466	1	0.71909	1	0.52819	1	0.49296	1	0.44794	1	0.0061925	1	0.33691	1
Del Peak 37(Xp22.33)	33 (20%)	129	0.93804	1	0.82755	1	0.26577	1	0.0027507	1	0.42803	1	0.7217	1	0.89784	1	0.06093	1	0.64257	1	0.81867	1