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	Fisher's exact test_P	Fisher's exact test_Q
Amp Peak  1(1p12)	44 (30%)	103	0.003842	1	0.44748	1	0.59998	1	0.14569	1	0.10817	1	0.75349	1	0.068903	1	0.29117	1
Amp Peak  2(1q31.2)	74 (50%)	73	2.3085e-06	0.000838	0.15237	1	0.54505	1	0.34585	1	0.2397	1	0.34342	1	0.42533	1	0.90822	1
Amp Peak  3(1q44)	76 (52%)	71	7.3276e-05	0.026	0.25655	1	0.54505	1	0.48959	1	0.10346	1	0.53856	1	0.12124	1	0.43022	1
Amp Peak  4(3p13)	34 (23%)	113	0.10709	1	0.28998	1	0.049614	1	0.043327	1	0.67592	1	0.6462	1	0.24226	1	0.72847	1
Amp Peak  5(5p15.33)	38 (26%)	109	0.00066354	0.229	0.4391	1	0.82559	1	0.88148	1	0.86297	1	0.78439	1	0.024965	1	0.2941	1
Amp Peak  6(5q35.3)	16 (11%)	131	0.11054	1	0.030632	1	1	1	0.87795	1	0.18579	1	0.72972	1	0.40161	1	0.43744	1
Amp Peak  7(6p25.3)	84 (57%)	63	4.7632e-05	0.017	0.035837	1	0.065966	1	0.51935	1	0.75555	1	0.40749	1	0.19712	1	0.0069008	1
Amp Peak  8(6q12)	33 (22%)	114	0.52468	1	0.65909	1	0.67355	1	0.89804	1	0.10812	1	0.0647	1	0.056553	1	0.33042	1
Amp Peak  9(7p22.1)	81 (55%)	66	0.00057781	0.201	0.47216	1	0.38121	1	0.25611	1	0.22369	1	0.66354	1	0.58113	1	0.8227	1
Amp Peak 10(7q34)	85 (58%)	62	1.1878e-05	0.00428	0.51158	1	0.8948	1	0.32717	1	0.37888	1	0.30907	1	0.19936	1	0.43746	1
Amp Peak 11(8q24.21)	70 (48%)	77	0.00027558	0.0967	0.0033669	1	0.65152	1	0.45559	1	0.0018123	0.613	0.05811	1	0.061508	1	0.67917	1
Amp Peak 12(9p13.3)	16 (11%)	131	0.12732	1	0.71283	1	0.86705	1	0.78189	1	1	1	0.72972	1	0.37922	1	0.85152	1
Amp Peak 13(11q13.3)	23 (16%)	124	0.17635	1	0.26463	1	1	1	0.96159	1	0.61562	1	0.9551	1	1	1	0.61844	1
Amp Peak 14(12q14.1)	27 (18%)	120	0.0015148	0.514	0.084057	1	0.44339	1	0.056521	1	0.37904	1	0.411	1	0.85311	1	0.62399	1
Amp Peak 15(15q24.3)	48 (33%)	99	2.1722e-06	0.000791	0.53904	1	0.40249	1	0.16315	1	0.79086	1	0.010998	1	0.25766	1	0.51881	1
Amp Peak 16(15q26.3)	53 (36%)	94	4.7762e-05	0.017	0.33204	1	0.29467	1	0.17495	1	0.80033	1	0.010985	1	0.083413	1	0.61223	1
Amp Peak 17(17q25.3)	57 (39%)	90	0.00014638	0.0515	0.0079197	1	0.17195	1	0.28068	1	0.4946	1	0.74006	1	0.14363	1	0.41448	1
Amp Peak 18(19p13.2)	28 (19%)	119	0.33247	1	0.05029	1	0.27918	1	0.32191	1	0.054888	1	0.013512	1	0.46172	1	0.30736	1
Amp Peak 19(22q13.2)	64 (44%)	83	5.1864e-07	0.00019	0.13438	1	0.57832	1	0.84188	1	0.6875	1	0.25602	1	0.3528	1	0.84956	1
Amp Peak 20(Xq28)	24 (16%)	123	0.27694	1	0.077129	1	0.85751	1	0.48868	1	0.098385	1	0.22973	1	0.8053	1	0.66932	1
Del Peak  1(1p36.31)	37 (25%)	110	0.31801	1	0.044856	1	0.89705	1	0.38929	1	0.074401	1	0.0029401	0.979	0.33104	1	0.88094	1
Del Peak  2(1p22.1)	42 (29%)	105	0.0096865	1	0.00068561	0.236	0.90523	1	0.25235	1	2.9319e-05	0.0105	0.00089361	0.305	0.11553	1	0.85744	1
Del Peak  3(2q37.3)	36 (24%)	111	0.42792	1	0.45333	1	0.74923	1	0.34621	1	0.14089	1	0.34515	1	0.16625	1	0.073169	1
Del Peak  4(3p24.3)	21 (14%)	126	0.16512	1	0.43824	1	0.81119	1	0.18706	1	0.23609	1	0.27579	1	0.44789	1	0.76527	1
Del Peak  5(3q23)	21 (14%)	126	0.46762	1	0.036717	1	0.20293	1	0.53702	1	0.63413	1	1	1	0.9526	1	0.13818	1
Del Peak  6(4p16.3)	31 (21%)	116	0.19294	1	0.1625	1	0.95007	1	0.60324	1	0.043751	1	0.017124	1	0.77768	1	0.82852	1
Del Peak  7(4q25)	33 (22%)	114	0.00055331	0.193	0.68057	1	0.82559	1	0.94843	1	0.073007	1	0.12433	1	0.2509	1	0.12261	1
Del Peak  8(4q34.3)	35 (24%)	112	0.0059668	1	0.83148	1	0.95274	1	0.93651	1	0.19533	1	0.29368	1	0.90641	1	0.050426	1
Del Peak  9(5q11.2)	44 (30%)	103	0.42277	1	0.0085179	1	0.38951	1	0.47094	1	0.18478	1	0.52224	1	0.17238	1	0.35272	1
Del Peak 10(5q31.3)	59 (40%)	88	0.060241	1	0.00031142	0.109	0.76229	1	0.98997	1	0.52564	1	0.74455	1	0.073977	1	0.3528	1
Del Peak 11(6q25.3)	89 (61%)	58	3.0472e-08	1.12e-05	0.014293	1	0.2469	1	0.54146	1	0.0026452	0.884	0.62249	1	0.47516	1	0.90418	1
Del Peak 12(6q26)	84 (57%)	63	2.6162e-07	9.6e-05	0.0049543	1	0.6415	1	0.62565	1	0.00086006	0.294	0.49274	1	0.7414	1	0.76856	1
Del Peak 13(9p23)	103 (70%)	44	0.00034865	0.122	0.024244	1	0.92049	1	0.49832	1	0.019202	1	0.068256	1	0.89257	1	0.33278	1
Del Peak 14(9p21.3)	115 (78%)	32	7.7241e-07	0.000282	0.0020143	0.677	0.8468	1	0.36086	1	0.0019239	0.648	0.0072231	1	0.78327	1	0.23168	1
Del Peak 15(10p15.3)	79 (54%)	68	5.4181e-06	0.00196	0.00083912	0.288	0.86684	1	0.5092	1	0.00064031	0.222	0.004119	1	0.72749	1	0.28104	1
Del Peak 16(10q23.31)	91 (62%)	56	6.3289e-06	0.00228	0.1015	1	0.96359	1	0.86129	1	0.0026148	0.876	0.097323	1	0.095747	1	0.64171	1
Del Peak 17(10q26.3)	92 (63%)	55	9.2275e-05	0.0327	0.246	1	0.62383	1	0.99073	1	0.001407	0.478	0.012609	1	0.22961	1	1	1
Del Peak 18(11p11.12)	54 (37%)	93	9.3901e-05	0.0331	0.0063119	1	0.76589	1	0.96253	1	0.022118	1	0.83716	1	0.18588	1	0.70913	1
Del Peak 19(11q23.3)	79 (54%)	68	1.3751e-05	0.00494	0.14982	1	0.83383	1	0.5641	1	0.12936	1	0.096949	1	0.041637	1	0.21544	1
Del Peak 20(12q24.33)	33 (22%)	114	0.20798	1	0.030586	1	0.27463	1	0.51503	1	0.65428	1	0.9672	1	0.96599	1	0.57138	1
Del Peak 21(13q34)	40 (27%)	107	0.12518	1	0.084617	1	0.95874	1	0.85698	1	0.75112	1	1	1	0.36218	1	0.1297	1
Del Peak 22(14q32.2)	47 (32%)	100	0.011472	1	0.37209	1	0.32187	1	0.62857	1	0.11153	1	0.25635	1	0.45388	1	1	1
Del Peak 23(15q13.3)	35 (24%)	112	0.067842	1	0.18415	1	0.44706	1	0.4674	1	0.048217	1	0.36892	1	0.5931	1	0.38055	1
Del Peak 24(15q15.2)	37 (25%)	110	0.082852	1	0.43384	1	0.53799	1	0.8662	1	0.35035	1	0.64217	1	0.42424	1	0.098364	1
Del Peak 25(16p13.3)	26 (18%)	121	0.62556	1	0.016879	1	0.94765	1	0.78061	1	0.093058	1	0.5951	1	0.083418	1	0.947	1
Del Peak 26(16q24.2)	52 (35%)	95	0.019502	1	0.30544	1	0.39562	1	0.48546	1	0.016862	1	0.48509	1	0.010325	1	0.085419	1