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)	84 (29%)	204	0.020244	1	0.88043	1	0.63482	1	0.71952	1	0.43193	1	0.84165	1	0.98539	1	0.8926	1
Amp Peak  2(1q44)	149 (52%)	139	0.00010239	0.0382	0.040121	1	0.66965	1	0.89936	1	0.13182	1	0.70032	1	0.21215	1	1	1
Amp Peak  3(3p13)	71 (25%)	217	0.3186	1	0.32058	1	0.17061	1	0.30176	1	0.2304	1	0.41382	1	0.79532	1	0.88645	1
Amp Peak  4(4q12)	50 (17%)	238	0.019015	1	0.54238	1	0.72765	1	0.089436	1	0.46687	1	0.95909	1	0.36281	1	0.015181	1
Amp Peak  5(5p15.33)	82 (28%)	206	6.3343e-05	0.024	0.24691	1	0.33116	1	0.70995	1	0.46027	1	0.95779	1	0.071286	1	0.279	1
Amp Peak  6(5q35.3)	42 (15%)	246	0.00010824	0.0403	1.0165e-05	0.00396	0.66023	1	0.72248	1	0.15918	1	0.44478	1	0.113	1	0.16256	1
Amp Peak  7(6p25.1)	157 (55%)	131	7.8597e-09	3.15e-06	0.0012429	0.446	0.0327	1	0.28032	1	0.11949	1	0.18667	1	0.00056884	0.206	2.4138e-05	0.00932
Amp Peak  8(6q12)	61 (21%)	227	0.29444	1	0.93257	1	0.26079	1	0.48652	1	0.0015035	0.535	0.093034	1	0.50539	1	0.18043	1
Amp Peak  9(7p22.3)	153 (53%)	135	2.0163e-09	8.11e-07	0.44807	1	0.66618	1	0.44233	1	0.14514	1	0.12915	1	0.95269	1	0.2677	1
Amp Peak 10(7q34)	172 (60%)	116	1.5021e-07	5.98e-05	0.068879	1	0.67485	1	0.44494	1	0.087637	1	0.06858	1	0.52789	1	0.38103	1
Amp Peak 11(8q11.22)	120 (42%)	168	3.3412e-05	0.0128	0.10497	1	0.33538	1	0.29162	1	0.038503	1	0.042519	1	0.24801	1	1	1
Amp Peak 12(8q24.3)	139 (48%)	149	9.0957e-07	0.000359	0.05881	1	0.91896	1	0.79186	1	0.065875	1	0.2282	1	0.42319	1	0.46249	1
Amp Peak 13(9p24.1)	22 (8%)	266	0.83642	1	0.44026	1	0.4486	1	0.94087	1	0.81607	1	0.32863	1	0.12624	1	0.49361	1
Amp Peak 14(11q13.3)	51 (18%)	237	0.0048957	1	0.09135	1	0.88994	1	0.58246	1	0.2992	1	0.66707	1	0.65909	1	0.74613	1
Amp Peak 15(11q13.4)	48 (17%)	240	0.00049418	0.18	0.0095333	1	0.54856	1	0.57137	1	0.11878	1	0.20083	1	0.39583	1	0.74073	1
Amp Peak 16(12q15)	43 (15%)	245	0.0026587	0.933	0.95536	1	0.68025	1	0.43988	1	0.87217	1	0.95477	1	0.95465	1	0.6084	1
Amp Peak 17(13q31.3)	78 (27%)	210	6.8899e-11	2.78e-08	6.2536e-06	0.00245	0.97292	1	0.97278	1	0.00084176	0.304	0.05643	1	0.47359	1	0.67593	1
Amp Peak 18(15q24.3)	86 (30%)	202	3.0572e-05	0.0117	0.88163	1	0.78984	1	0.34894	1	0.00011489	0.0426	0.0024648	0.868	0.82854	1	0.13804	1
Amp Peak 19(17q25.3)	93 (32%)	195	3.8669e-05	0.0148	0.0037607	1	0.0098524	1	0.0073677	1	0.027298	1	0.44339	1	0.18382	1	0.050138	1
Amp Peak 20(19p13.2)	57 (20%)	231	0.033933	1	0.45191	1	0.87706	1	0.03261	1	0.01331	1	0.00084802	0.305	0.08915	1	0.0050679	1
Amp Peak 21(20q13.2)	148 (51%)	140	4.2447e-06	0.00166	0.064727	1	0.41139	1	0.97912	1	0.032567	1	0.15208	1	0.74858	1	0.2686	1
Amp Peak 22(22q13.2)	114 (40%)	174	1.9297e-08	7.7e-06	0.33489	1	0.38805	1	0.42397	1	0.49505	1	0.82996	1	0.40158	1	0.6153	1
Del Peak  1(1p36.31)	70 (24%)	218	0.00041783	0.153	4.9946e-05	0.019	0.85776	1	0.20207	1	0.019859	1	0.0035001	1	0.14464	1	0.19798	1
Del Peak  2(1p22.1)	73 (25%)	215	0.0019069	0.673	1.1177e-05	0.00435	0.94543	1	0.081012	1	9.5322e-05	0.0357	0.00070968	0.257	0.85381	1	0.481	1
Del Peak  3(2q37.3)	70 (24%)	218	0.025843	1	0.14851	1	0.4961	1	0.1313	1	0.0014262	0.511	0.32436	1	0.038111	1	0.11649	1
Del Peak  4(3p26.1)	51 (18%)	237	0.31394	1	0.61837	1	0.69181	1	0.84486	1	0.2608	1	0.25122	1	0.5278	1	1	1
Del Peak  5(3q23)	40 (14%)	248	0.41385	1	0.018404	1	0.44924	1	0.52349	1	0.45517	1	1	1	0.49459	1	0.37828	1
Del Peak  6(4p16.3)	64 (22%)	224	0.30409	1	0.31982	1	0.9716	1	0.61261	1	0.2005	1	0.50002	1	0.63702	1	0.37626	1
Del Peak  7(4q34.3)	80 (28%)	208	0.0057632	1	0.19917	1	0.53641	1	0.50842	1	0.20912	1	0.11894	1	0.10816	1	0.0093423	1
Del Peak  8(5q11.2)	76 (26%)	212	4.1377e-07	0.000164	0.11746	1	0.40915	1	0.098497	1	0.54713	1	0.98503	1	0.36823	1	0.78057	1
Del Peak  9(5q31.3)	104 (36%)	184	9.3134e-07	0.000367	1.3367e-05	0.00517	0.22465	1	0.69651	1	0.81838	1	0.90272	1	0.28038	1	0.70211	1
Del Peak 10(6q16.3)	160 (56%)	128	2.6688e-18	1.08e-15	0.045164	1	0.52784	1	0.51488	1	0.004866	1	0.088534	1	0.70078	1	0.90196	1
Del Peak 11(6q26)	173 (60%)	115	7.1382e-21	2.91e-18	0.13173	1	0.45277	1	0.80214	1	0.0018807	0.666	0.058501	1	0.40674	1	0.80162	1
Del Peak 12(6q27)	171 (59%)	117	2.3983e-18	9.76e-16	0.23438	1	0.53178	1	0.97849	1	0.0033082	1	0.13324	1	0.55377	1	0.90084	1
Del Peak 13(8p23.3)	75 (26%)	213	0.012701	1	0.0090597	1	0.51477	1	0.41441	1	0.27769	1	0.87051	1	0.19339	1	0.20912	1
Del Peak 14(9p23)	199 (69%)	89	1.0762e-08	4.3e-06	0.041377	1	1	1	0.84615	1	0.0014468	0.517	0.0015447	0.548	0.91941	1	0.35308	1
Del Peak 15(9p21.3)	223 (77%)	65	1.3128e-12	5.32e-10	0.0002846	0.104	0.65792	1	0.83646	1	2.6035e-05	0.01	0.00018201	0.0672	0.80056	1	0.77158	1
Del Peak 16(10p15.3)	161 (56%)	127	2.4773e-06	0.000974	0.023386	1	0.97892	1	0.87906	1	7.065e-05	0.0267	1.2417e-05	0.00482	0.60282	1	1	1
Del Peak 17(10q23.31)	178 (62%)	110	4.1348e-10	1.67e-07	0.041236	1	0.41979	1	0.64593	1	0.00019298	0.071	0.0044594	1	0.52565	1	0.7038	1
Del Peak 18(10q26.3)	180 (62%)	108	7.7301e-07	0.000306	0.1079	1	0.41979	1	0.8968	1	8.3601e-05	0.0315	0.0003324	0.122	0.55027	1	0.80017	1
Del Peak 19(11q23.3)	154 (53%)	134	6.1427e-05	0.0233	0.076584	1	0.47353	1	0.13573	1	0.26744	1	0.4283	1	0.25287	1	0.085284	1
Del Peak 20(12q24.33)	68 (24%)	220	0.11832	1	0.018042	1	0.63214	1	0.8166	1	0.36085	1	0.15653	1	0.96698	1	0.31053	1
Del Peak 21(13q34)	64 (22%)	224	9.7614e-05	0.0365	0.0038579	1	0.69332	1	0.97003	1	0.37244	1	0.042332	1	0.72899	1	0.88238	1
Del Peak 22(14q32.2)	96 (33%)	192	8.3708e-05	0.0315	0.76805	1	0.082447	1	0.34662	1	0.0045596	1	0.0214	1	0.47158	1	0.29855	1
Del Peak 23(15q13.3)	61 (21%)	227	0.14309	1	0.029548	1	0.82817	1	0.7288	1	0.5903	1	0.70232	1	0.39821	1	1	1
Del Peak 24(15q15.1)	67 (23%)	221	0.05143	1	0.031411	1	0.42876	1	0.55513	1	0.62576	1	0.73764	1	0.66774	1	0.31053	1
Del Peak 25(16p13.3)	52 (18%)	236	0.46046	1	0.060277	1	0.047333	1	0.76123	1	0.72398	1	0.15827	1	0.60293	1	0.34152	1
Del Peak 26(16q12.1)	96 (33%)	192	0.0064464	1	0.3813	1	0.14546	1	0.23086	1	0.4173	1	0.14697	1	0.78218	1	0.088848	1
Del Peak 27(16q24.3)	106 (37%)	182	0.011876	1	0.20832	1	0.36313	1	0.8349	1	0.069486	1	0.041639	1	0.28234	1	0.01525	1
Del Peak 28(19p13.3)	83 (29%)	205	0.00017572	0.065	0.65099	1	0.0096198	1	0.0093893	1	0.016291	1	0.038036	1	0.8637	1	0.078368	1
Del Peak 29(22q12.1)	45 (16%)	243	0.011146	1	0.29581	1	0.67065	1	0.44616	1	0.67817	1	0.62565	1	0.026478	1	0.13158	1