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	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(1p12)	70 (30%)	166	3.4262e-05	0.0133	0.43448	1	0.72713	1	0.1209	1	0.10231	1	0.0412	1	0.65943	1	0.53858	1
Amp Peak  2(1q21.3)	120 (51%)	116	6.2179e-06	0.00246	0.11633	1	0.83586	1	0.19901	1	0.050704	1	0.21943	1	0.42405	1	0.52952	1
Amp Peak  3(1q44)	125 (53%)	111	2.944e-06	0.00117	0.011889	1	0.86604	1	0.98582	1	0.17156	1	0.25226	1	0.15554	1	0.11937	1
Amp Peak  4(3p13)	60 (25%)	176	0.62977	1	0.67623	1	0.98233	1	0.0468	1	1	1	0.9797	1	0.80573	1	0.44601	1
Amp Peak  5(4q12)	45 (19%)	191	0.00081459	0.303	0.30907	1	0.33772	1	0.12392	1	0.70302	1	0.26574	1	0.070476	1	0.0081766	1
Amp Peak  6(5p15.33)	71 (30%)	165	0.00037064	0.141	0.25011	1	0.43407	1	0.50526	1	0.2691	1	0.13999	1	0.014013	1	0.088771	1
Amp Peak  7(5q35.3)	37 (16%)	199	0.00063573	0.238	0.0003593	0.137	0.17631	1	0.083602	1	0.10808	1	0.027284	1	0.049027	1	0.019995	1
Amp Peak  8(6p25.1)	136 (58%)	100	7.7591e-08	3.14e-05	0.00073117	0.273	0.014137	1	0.46964	1	0.14602	1	0.015468	1	0.00020092	0.0772	2.8122e-05	0.011
Amp Peak  9(6q12)	55 (23%)	181	0.00079636	0.297	0.60876	1	0.44067	1	0.60647	1	0.048568	1	0.67913	1	0.26739	1	0.25634	1
Amp Peak 10(7p22.3)	126 (53%)	110	2.2798e-11	9.28e-09	0.27611	1	0.77711	1	0.90591	1	0.040456	1	0.041515	1	0.63575	1	0.50866	1
Amp Peak 11(7q34)	140 (59%)	96	5.5203e-15	2.25e-12	0.61506	1	0.67508	1	0.43321	1	0.12802	1	0.6719	1	0.58082	1	0.30998	1
Amp Peak 12(8q11.21)	98 (42%)	138	2.7803e-05	0.0109	0.0043713	1	0.30983	1	0.34317	1	0.038551	1	0.039501	1	0.41227	1	0.83234	1
Amp Peak 13(8q24.21)	115 (49%)	121	1.0964e-07	4.43e-05	0.0034573	1	0.7724	1	0.7204	1	0.029772	1	0.11832	1	0.66661	1	0.26831	1
Amp Peak 14(9p24.1)	21 (9%)	215	0.65371	1	0.3851	1	0.46274	1	0.82696	1	0.562	1	0.95264	1	0.40091	1	0.83603	1
Amp Peak 15(11q13.3)	44 (19%)	192	0.19765	1	0.19851	1	0.76256	1	0.96016	1	0.73388	1	0.92557	1	0.32292	1	0.30153	1
Amp Peak 16(11q13.4)	41 (17%)	195	0.082712	1	0.086533	1	0.88768	1	0.79395	1	0.34367	1	0.43918	1	0.17096	1	0.15336	1
Amp Peak 17(12q14.1)	41 (17%)	195	0.028971	1	0.39247	1	0.41936	1	0.42539	1	0.2071	1	0.064597	1	0.79174	1	0.81436	1
Amp Peak 18(12q15)	39 (17%)	197	0.025991	1	0.90408	1	0.65117	1	0.30537	1	0.77272	1	0.69514	1	0.85094	1	0.60626	1
Amp Peak 19(15q24.3)	76 (32%)	160	0.001559	0.569	0.45787	1	0.46159	1	0.71344	1	0.46288	1	0.75385	1	0.87087	1	0.74364	1
Amp Peak 20(17q25.3)	87 (37%)	149	0.00020417	0.0782	0.0049042	1	0.24794	1	0.13474	1	0.078678	1	0.16562	1	0.087132	1	0.030123	1
Amp Peak 21(19p13.2)	49 (21%)	187	0.01048	1	0.17655	1	0.62208	1	0.25322	1	0.050402	1	0.04312	1	0.47778	1	0.050514	1
Amp Peak 22(20q13.2)	125 (53%)	111	5.891e-07	0.000236	0.0095191	1	0.37178	1	0.99514	1	0.0085652	1	0.041963	1	0.87306	1	0.62138	1
Amp Peak 23(22q13.2)	100 (42%)	136	0.015816	1	0.045515	1	0.65005	1	0.81317	1	0.58397	1	0.50071	1	0.21305	1	0.48118	1
Del Peak  1(1p36.31)	56 (24%)	180	0.0040978	1	7.5185e-05	0.0289	0.46677	1	0.43053	1	0.088322	1	0.00044633	0.168	0.15289	1	0.21425	1
Del Peak  2(1p22.1)	62 (26%)	174	0.0023297	0.841	0.00043169	0.164	0.17131	1	0.14522	1	0.00061953	0.233	0.0044919	1	0.5909	1	0.9024	1
Del Peak  3(2q37.3)	61 (26%)	175	0.38576	1	0.061842	1	0.33365	1	0.12136	1	0.037843	1	4.174e-05	0.0161	0.043426	1	0.017401	1
Del Peak  4(3q23)	37 (16%)	199	0.15337	1	0.011017	1	0.62169	1	0.73564	1	0.51657	1	0.69089	1	0.70857	1	0.71024	1
Del Peak  5(4q34.3)	66 (28%)	170	0.0040985	1	0.12864	1	0.14256	1	0.64259	1	0.031493	1	0.0009469	0.351	0.036546	1	0.0010378	0.384
Del Peak  6(5q11.2)	65 (28%)	171	0.22619	1	0.026975	1	0.383	1	0.16292	1	0.42846	1	0.12332	1	0.7274	1	0.58164	1
Del Peak  7(5q31.3)	88 (37%)	148	0.21478	1	8.6363e-06	0.00341	0.12117	1	0.67215	1	0.78487	1	0.69892	1	0.53464	1	0.3616	1
Del Peak  8(6q26)	149 (63%)	87	5.7859e-07	0.000233	0.017094	1	0.49331	1	0.46378	1	0.0018646	0.677	0.22378	1	0.49236	1	0.89917	1
Del Peak  9(7q31.1)	18 (8%)	218	0.0004325	0.164	0.033939	1	0.29298	1	0.48662	1	0.39526	1	0.20525	1	0.21305	1	0.1814	1
Del Peak 10(8p23.3)	60 (25%)	176	0.029827	1	0.082723	1	0.0083601	1	0.10553	1	0.13307	1	0.72594	1	0.17473	1	0.43208	1
Del Peak 11(9p23)	160 (68%)	76	4.3932e-07	0.000177	0.043667	1	0.27033	1	0.64826	1	0.0011624	0.428	0.0055677	1	0.48664	1	0.23323	1
Del Peak 12(9p21.3)	181 (77%)	55	4.758e-10	1.93e-07	0.0012937	0.475	0.41031	1	0.27854	1	2.723e-05	0.0107	0.0011443	0.422	0.63133	1	0.56061	1
Del Peak 13(10p15.3)	130 (55%)	106	1.7579e-06	0.000701	0.0093453	1	0.71458	1	0.40509	1	1.6567e-05	0.00653	0.0018051	0.657	0.14435	1	0.37383	1
Del Peak 14(10q23.31)	145 (61%)	91	3.061e-06	0.00122	0.025834	1	0.49585	1	0.87019	1	0.00024631	0.0941	0.0059376	1	0.51449	1	0.60666	1
Del Peak 15(10q26.3)	147 (62%)	89	3.2916e-05	0.0128	0.19483	1	0.62864	1	0.98043	1	2.8992e-05	0.0113	0.0013163	0.482	0.4087	1	0.84527	1
Del Peak 16(11q23.3)	132 (56%)	104	7.1248e-07	0.000285	0.071372	1	0.66231	1	0.38767	1	0.29244	1	0.15764	1	0.24942	1	0.060807	1
Del Peak 17(12p13.31)	36 (15%)	200	0.40803	1	0.14162	1	0.19701	1	0.27457	1	0.19831	1	1	1	0.40257	1	0.92634	1
Del Peak 18(12q23.3)	55 (23%)	181	0.01158	1	0.017543	1	0.48126	1	0.4857	1	0.80651	1	0.44558	1	0.93832	1	0.54058	1
Del Peak 19(12q24.33)	54 (23%)	182	0.0078432	1	0.030576	1	0.491	1	0.58632	1	0.68596	1	0.40513	1	0.8812	1	0.44236	1
Del Peak 20(13q34)	57 (24%)	179	0.011125	1	0.0033495	1	0.45055	1	0.97841	1	0.50176	1	0.45531	1	0.44583	1	0.085418	1
Del Peak 21(14q32.2)	78 (33%)	158	2.937e-05	0.0114	0.57932	1	0.020746	1	0.57183	1	0.019957	1	0.4369	1	0.58109	1	0.59765	1
Del Peak 22(15q13.3)	54 (23%)	182	0.0083602	1	0.16575	1	0.74713	1	0.89703	1	0.45124	1	0.057561	1	0.45068	1	0.38138	1
Del Peak 23(15q15.3)	56 (24%)	180	0.037998	1	0.19812	1	0.61576	1	0.92056	1	0.82233	1	0.11049	1	0.32907	1	0.077358	1
Del Peak 24(16p13.3)	46 (19%)	190	0.76461	1	0.028432	1	0.47239	1	0.61851	1	0.3189	1	0.28968	1	0.093187	1	0.85343	1
Del Peak 25(16q12.1)	79 (33%)	157	0.22927	1	0.29722	1	0.81238	1	0.28394	1	0.26943	1	0.85666	1	0.10722	1	0.15049	1
Del Peak 26(16q24.3)	87 (37%)	149	0.21284	1	0.40001	1	0.75873	1	0.16552	1	0.036731	1	0.26029	1	0.024313	1	0.067146	1
Del Peak 27(19p13.3)	70 (30%)	166	0.034864	1	0.29819	1	0.18384	1	0.26542	1	0.0018718	0.678	0.08329	1	0.52448	1	0.49283	1
Del Peak 28(22q13.31)	31 (13%)	205	0.43667	1	0.75853	1	0.41799	1	0.1615	1	1	1	0.82168	1	0.060394	1	0.65164	1