Clinical Features	CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL	
	nCNV (%)	nWild-Type	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
1p gain	3 (2%)	188	0.005114	0.731	0.18478	1	0.18603	1	0.55157	1	0.092257	1	0.04811	1
4p gain	4 (2%)	187	0.025917	1	0.050229	1	NA	NA	0.5502	1	0.3426	1	0.83052	1
4q gain	4 (2%)	187	0.025917	1	0.050229	1	NA	NA	0.5502	1	0.3426	1	0.83052	1
8p gain	22 (12%)	169	0.0009676	0.152	0.00030341	0.0498	0.027411	1	0.0069542	0.953	0.010916	1	0.097177	1
8q gain	23 (12%)	168	0.0016227	0.247	0.00090384	0.143	0.013763	1	0.0039662	0.579	0.0074457	1	0.11445	1
10q gain	3 (2%)	188	0.011971	1	0.18478	1	0.18603	1	0.55157	1	0.5517	1	0.22204	1
11p gain	4 (2%)	187	0.0006866	0.111	0.080833	1	0.46718	1	1	1	0.52305	1	0.070351	1
11q gain	7 (4%)	184	8.1245e-06	0.00141	0.0051592	0.733	0.066765	1	0.42513	1	0.29073	1	0.27065	1
13q gain	6 (3%)	185	0.033298	1	0.013373	1	0.12442	1	0.097819	1	0.8005	1	0.25018	1
17q gain	3 (2%)	188	0.0076728	1	0.38025	1	1	1	0.55157	1	0.4823	1	0.22204	1
19p gain	5 (3%)	186	0.00074942	0.121	0.63341	1	1	1	1	1	0.57837	1	1	1
19q gain	5 (3%)	186	0.00074942	0.121	0.63341	1	1	1	1	1	0.57837	1	1	1
21q gain	8 (4%)	183	3.4063e-07	6e-05	0.20272	1	0.12442	1	1	1	0.081431	1	0.19779	1
22q gain	9 (5%)	182	0.0010904	0.17	0.0083162	1	0.13587	1	0.27514	1	0.055645	1	0.14704	1
xq gain	3 (2%)	188	0.0029647	0.442	0.65837	1	NA	NA	0.5502	1	0.89121	1	0.78694	1
3p loss	3 (2%)	188	0.0076728	1	0.18478	1	0.78607	1	1	1	0.061789	1	0.04811	1
3q loss	3 (2%)	188	0.0076728	1	0.18478	1	0.78607	1	1	1	0.061789	1	0.04811	1
5q loss	6 (3%)	185	3.2302e-05	0.00552	0.013373	1	0.22428	1	0.66376	1	0.031835	1	0.020544	1
7p loss	17 (9%)	174	4.4605e-05	0.00758	0.00025199	0.0416	0.0008517	0.135	0.0014139	0.219	0.0038165	0.561	0.00019372	0.0322
7q loss	20 (10%)	171	3.9462e-06	0.000691	1.1381e-05	0.00196	0.0064144	0.885	0.012475	1	0.0016803	0.254	7.263e-05	0.0123
12p loss	4 (2%)	187	0.008089	1	0.07593	1	0.37387	1	0.30122	1	0.48289	1	0.070351	1
15q loss	4 (2%)	187	0.00050367	0.0821	0.65372	1	0.065952	1	0.30122	1	0.022811	1	0.011553	1
16q loss	4 (2%)	187	0.0015093	0.232	0.080833	1	0.78607	1	1	1	0.014733	1	0.011553	1
17p loss	13 (7%)	178	1.9664e-12	3.48e-10	0.0058103	0.813	0.15118	1	0.062403	1	0.16006	1	0.0053235	0.751
17q loss	7 (4%)	184	5.1126e-06	0.00089	0.20067	1	0.066765	1	0.42513	1	0.038527	1	0.0063292	0.88
18p loss	5 (3%)	186	0.00014163	0.0237	0.033545	1	1	1	1	1	0.24839	1	0.32877	1
18q loss	4 (2%)	187	0.0015093	0.232	0.080833	1	0.46718	1	1	1	0.10107	1	0.070351	1
19p loss	4 (2%)	187	0.0042121	0.611	0.41137	1	0.46718	1	1	1	0.31052	1	0.14365	1
19q loss	4 (2%)	187	0.0042121	0.611	0.41137	1	0.46718	1	1	1	0.31052	1	0.14365	1
xq loss	5 (3%)	186	0.00010145	0.017	0.15046	1	0.22428	1	0.66376	1	0.0033546	0.496	0.0025755	0.386