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	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(1q24.1)	60 (12%)	433	0.25879	1	0.4912	1	1.0611e-07	2.75e-05	0.35883	1	0.0024678	0.42	0.38204	1	3.8785e-05	0.00865	0.001285	0.235	2.3935e-05	0.00543	0.97837	1
Amp Peak  2(1q32.1)	59 (12%)	434	0.41028	1	0.72409	1	7.4967e-10	2.05e-07	0.17172	1	0.00061999	0.122	0.24485	1	7.9397e-06	0.00186	0.00058778	0.116	2.13e-05	0.00488	1	1
Amp Peak  3(3q26.32)	80 (16%)	413	0.048353	1	0.037174	1	1.5043e-06	0.000363	6.3722e-06	0.00151	0.0010302	0.191	0.00021795	0.0447	1.4146e-06	0.000342	9.5312e-08	2.48e-05	1.3518e-06	0.000328	0.0086034	1
Amp Peak  4(4q32.1)	14 (3%)	479	NA	NA	NA	NA	0.69796	1	1	1	0.036628	1	0.38455	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	0.0121	0.88772	1	0.053604	1	0.0023714	0.406	0.013369	1	0.00070052	0.135	0.025643	1	0.0039328	0.633
Amp Peak  6(7q36.3)	163 (33%)	330	0.66681	1	0.63898	1	1.2489e-06	0.000305	0.028281	1	0.00021795	0.0447	0.019755	1	0.00012964	0.0275	0.0037292	0.604	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	0.00029	4.0585e-07	0.000102	0.0008833	0.166	2.7838e-12	7.68e-10	2.8908e-11	7.92e-09	6.1974e-09	1.65e-06	0.00018079	0.0378
Amp Peak  8(10p14)	16 (3%)	477	0.18897	1	0.1968	1	0.0075331	1	0.34164	1	0.043563	1	0.02644	1	0.032101	1	0.0029529	0.49	0.19916	1	0.061084	1
Amp Peak  9(17q24.3)	37 (8%)	456	0.069157	1	0.097061	1	0.0054109	0.85	0.16296	1	0.0779	1	0.42439	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	0.016697	1	0.07669	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	0.052631	1	0.022574	1	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	0.46201	1	0.088302	1	0.10361	1	0.39095	1	0.37177	1	0.11589	1
Del Peak  1(1p36.23)	98 (20%)	395	0.00018069	0.0378	7.8725e-05	0.0171	1.2758e-09	3.44e-07	0.020118	1	4.2761e-05	0.00949	0.00075299	0.143	0.00011761	0.0251	0.00044917	0.0903	1.0914e-07	2.82e-05	2.7346e-08	7.19e-06
Del Peak  2(1p31.1)	72 (15%)	421	0.0016701	0.299	0.00054211	0.107	2.8384e-05	0.00639	0.047376	1	0.0025276	0.427	0.0076253	1	0.059588	1	0.007267	1	4.742e-05	0.0105	3.3822e-06	0.000808
Del Peak  3(1q43)	38 (8%)	455	0.010729	1	0.012342	1	0.0052863	0.835	0.69709	1	0.87851	1	0.016823	1	0.0084616	1	0.0047607	0.757	0.074841	1	0.00010207	0.022
Del Peak  4(2q37.3)	48 (10%)	445	0.0015615	0.281	0.0022165	0.386	0.39629	1	0.75686	1	0.28242	1	0.35557	1	0.00010882	0.0234	0.00018973	0.0393	0.27647	1	0.00016077	0.0338
Del Peak  5(3p25.3)	432 (88%)	61	1.5518e-07	3.99e-05	1.1917e-08	3.16e-06	5.5389e-30	1.65e-27	0.00065733	0.128	0.0026506	0.443	0.0023155	0.399	2.8764e-12	7.91e-10	7.5191e-16	2.13e-13	8.3618e-07	0.000209	1.1341e-09	3.07e-07
Del Peak  6(3p21.32)	435 (88%)	58	1.5518e-07	3.99e-05	1.1917e-08	3.16e-06	1.7382e-29	5.14e-27	0.0016883	0.301	0.011414	1	0.00081931	0.155	1.155e-13	3.21e-11	3.2123e-16	9.12e-14	2.2977e-06	0.000551	1.017e-09	2.77e-07
Del Peak  7(3p12.2)	283 (57%)	210	0.040368	1	0.0145	1	2.2837e-17	6.51e-15	0.34913	1	0.31565	1	0.086383	1	0.0039839	0.637	0.000211	0.0435	0.030392	1	0.15908	1
Del Peak  8(3q11.2)	150 (30%)	343	0.18332	1	0.098896	1	0.00091885	0.172	0.68659	1	0.80769	1	0.16994	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	0.0825	0.010941	1	0.13628	1	0.00034392	0.0698	1.1791e-05	0.00272	0.84485	1	0.012207	1
Del Peak 10(6q26)	142 (29%)	351	0.014953	1	0.0036384	0.598	1.8415e-25	5.4e-23	0.017105	1	1.0651e-06	0.000264	0.00093904	0.175	0.00047792	0.0956	0.01908	1	2.103e-05	0.00484	0.021556	1
Del Peak 11(6q26)	142 (29%)	351	0.014953	1	0.0036384	0.598	1.8415e-25	5.4e-23	0.017105	1	1.0651e-06	0.000264	0.0013491	0.244	0.00015932	0.0336	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	0.087182	1	0.31636	1	0.0025599	0.43	0.0086898	1	0.00051121	0.102	0.006964	1
Del Peak 13(9p23)	144 (29%)	349	0.0036236	0.598	0.0023046	0.399	3.3609e-30	1e-27	3.4329e-20	9.85e-18	3.3261e-07	8.42e-05	0.01642	1	3.5859e-23	1.04e-20	9.2142e-24	2.68e-21	1.8108e-14	5.05e-12	1.1483e-05	0.00266
Del Peak 14(9p21.3)	152 (31%)	341	0.0012492	0.23	0.00066164	0.128	1.9576e-29	5.78e-27	2.2443e-21	6.46e-19	1.8599e-07	4.74e-05	0.0067312	1	2.0753e-23	6.02e-21	1.145e-27	3.37e-25	5.1671e-15	1.45e-12	2.7781e-07	7.06e-05
Del Peak 15(10q23.31)	90 (18%)	403	0.44086	1	0.64324	1	9.2887e-07	0.000231	0.002017	0.355	0.15978	1	0.19232	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	0.13	3.612e-05	0.00809	0.061796	1	1.2365e-06	0.000303	9.3903e-08	2.45e-05	3.5591e-07	8.97e-05	4.7406e-05	0.0105
Del Peak 17(14q31.1)	218 (44%)	275	5.9184e-05	0.0129	2.7739e-05	0.00627	2.0571e-13	5.7e-11	6.7941e-08	1.78e-05	2.8069e-09	7.52e-07	2.3096e-05	0.00527	6.6695e-20	1.91e-17	6.4023e-15	1.79e-12	2.5073e-09	6.74e-07	0.071196	1
Del Peak 18(Xq23)	55 (11%)	438	0.10853	1	0.077607	1	6.5258e-06	0.00154	0.00071458	0.136	0.0021474	0.376	0.0013119	0.239	0.20776	1	0.018328	1	0.0017346	0.307	0.00011062	0.0237