Clinical Features	CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL		MIRSEQ_MATURE_CNMF		MIRSEQ_MATURE_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	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	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q
3p gain	8 (12%)	58	0.27046	1	0.5302	1	0.95186	1	0.61386	1	0.51476	1	0.29802	1	0.020585	1	0.82339	1
3q gain	8 (12%)	58	0.27046	1	0.5302	1	0.95186	1	0.61386	1	0.51476	1	0.29802	1	0.020585	1	0.82339	1
4p gain	24 (36%)	42	0.055224	1	1	1	2.7815e-05	0.0127	0.00021487	0.0956	0.78769	1	0.13924	1	0.73355	1	0.030933	1
4q gain	24 (36%)	42	0.055224	1	1	1	2.7815e-05	0.0127	0.00021487	0.0956	0.78769	1	0.13924	1	0.73355	1	0.030933	1
5p gain	8 (12%)	58	0.4242	1	0.68208	1	0.44783	1	0.62884	1	0.36302	1	0.070568	1	0.63314	1	0.16625	1
5q gain	8 (12%)	58	0.4242	1	0.68208	1	0.44783	1	0.62884	1	0.36302	1	0.070568	1	0.63314	1	0.16625	1
7p gain	24 (36%)	42	0.15131	1	1	1	0.016864	1	0.016718	1	0.84445	1	1	1	0.74065	1	0.42304	1
7q gain	24 (36%)	42	0.15131	1	1	1	0.016864	1	0.016718	1	0.84445	1	1	1	0.74065	1	0.42304	1
8p gain	17 (26%)	49	0.41147	1	0.41092	1	0.0039288	1	0.0070064	1	0.44202	1	1	1	0.71224	1	0.15518	1
8q gain	18 (27%)	48	0.34162	1	0.39876	1	0.0012788	0.54	0.0018148	0.76	0.6789	1	1	1	0.92592	1	0.078508	1
9p gain	10 (15%)	56	1	1	1	1	0.72206	1	0.64424	1	0.83158	1	0.61623	1	0.18846	1	0.46979	1
9q gain	10 (15%)	56	1	1	1	1	0.72206	1	0.64424	1	0.83158	1	0.61623	1	0.18846	1	0.46979	1
10p gain	4 (6%)	62	0.43754	1	0.16157	1	0.51456	1	0.33565	1	1	1	0.45192	1	0.534	1	0.073901	1
11p gain	15 (23%)	51	0.28224	1	0.67904	1	2.0038e-05	0.00928	4.4414e-06	0.00208	0.83526	1	0.10551	1	0.74097	1	0.071003	1
11q gain	15 (23%)	51	0.28224	1	0.67904	1	6.6876e-07	0.000316	1.1145e-07	5.41e-05	0.63027	1	0.10551	1	0.44074	1	0.045327	1
12p gain	19 (29%)	47	0.48167	1	0.76564	1	0.079282	1	0.13025	1	1	1	0.70945	1	0.84534	1	0.087099	1
12q gain	20 (30%)	46	0.4449	1	0.59122	1	0.14007	1	0.051969	1	0.91672	1	1	1	0.92137	1	0.16932	1
14q gain	21 (32%)	45	0.10642	1	0.79551	1	0.0008327	0.36	0.0026083	1	0.42257	1	0.25232	1	0.87756	1	0.04991	1
15q gain	21 (32%)	45	0.10642	1	0.79551	1	0.002093	0.866	0.0078921	1	0.76135	1	0.25232	1	0.99788	1	0.3119	1
16p gain	21 (32%)	45	0.10642	1	1	1	6.2243e-06	0.00291	9.4928e-06	0.00441	0.15846	1	0.04811	1	0.77624	1	0.04991	1
16q gain	21 (32%)	45	0.10642	1	1	1	6.2243e-06	0.00291	9.4928e-06	0.00441	0.15846	1	0.04811	1	0.77624	1	0.04991	1
18p gain	17 (26%)	49	0.51832	1	0.80597	1	0.0021486	0.887	0.0049723	1	0.9048	1	0.68438	1	0.31474	1	0.033008	1
18q gain	16 (24%)	50	0.63798	1	0.92776	1	0.0010484	0.448	0.0037918	1	0.78518	1	1	1	0.38474	1	0.036643	1
19p gain	19 (29%)	47	0.48167	1	0.26839	1	0.021794	1	0.011144	1	0.64181	1	1	1	0.92871	1	0.051754	1
19q gain	17 (26%)	49	0.51832	1	0.30523	1	0.0014327	0.602	0.0012283	0.52	0.39957	1	0.42748	1	0.9115	1	0.0095741	1
20p gain	20 (30%)	46	0.21563	1	0.59122	1	0.031579	1	0.0098654	1	0.68084	1	0.71151	1	0.63651	1	0.34915	1
20q gain	21 (32%)	45	0.22688	1	0.39368	1	0.066984	1	0.021712	1	0.66707	1	1	1	0.51907	1	0.3683	1
21q gain	4 (6%)	62	0.43754	1	0.16157	1	0.51456	1	0.33565	1	0.67766	1	0.45192	1	0.46067	1	0.36092	1
22q gain	19 (29%)	47	0.90118	1	0.69835	1	0.072075	1	0.15991	1	0.50539	1	1	1	0.99643	1	0.16867	1
xq gain	6 (9%)	60	1	1	0.72187	1	0.0068884	1	0.16326	1	0.26395	1	0.58525	1	0.5199	1	0.0099333	1
1p loss	53 (80%)	13	0.67133	1	2.2205e-05	0.0102	0.00036199	0.159	5.7278e-05	0.0259	0.16012	1	0.0011518	0.49	0.16599	1	0.0011795	0.5
1q loss	52 (79%)	14	0.47487	1	2.291e-06	0.00108	5.0456e-05	0.0229	4.2089e-06	0.00198	0.24019	1	0.0019202	0.801	0.13318	1	0.0018376	0.768
2p loss	46 (70%)	20	0.087545	1	3.6954e-07	0.000178	8.5405e-08	4.16e-05	2.9118e-07	0.000141	0.089074	1	0.00016109	0.072	0.027723	1	2.0224e-05	0.00934
2q loss	46 (70%)	20	0.087545	1	3.6954e-07	0.000178	8.5405e-08	4.16e-05	2.9118e-07	0.000141	0.089074	1	0.00016109	0.072	0.027723	1	2.0224e-05	0.00934
3p loss	9 (14%)	57	0.036741	1	0.89533	1	0.064329	1	0.0035235	1	0.904	1	0.34107	1	0.026688	1	0.034473	1
3q loss	8 (12%)	58	0.021127	1	0.36727	1	0.025097	1	0.00086648	0.371	0.57174	1	0.58572	1	0.0076312	1	0.0088989	1
5p loss	10 (15%)	56	0.098714	1	0.25326	1	0.00074756	0.324	0.00084068	0.361	0.42727	1	0.33428	1	0.61864	1	0.15434	1
5q loss	10 (15%)	56	0.098714	1	0.25326	1	0.00074756	0.324	0.00084068	0.361	0.42727	1	0.33428	1	0.61864	1	0.15434	1
6p loss	51 (77%)	15	0.32994	1	0.00010687	0.0482	4.7645e-05	0.0217	0.00033044	0.146	0.35458	1	0.0030466	1	0.30641	1	0.0020109	0.837
6q loss	51 (77%)	15	0.32994	1	0.00010687	0.0482	4.7645e-05	0.0217	0.00033044	0.146	0.35458	1	0.0030466	1	0.30641	1	0.0020109	0.837
8p loss	9 (14%)	57	8.1131e-08	3.96e-05	0.08572	1	0.053142	1	0.0035954	1	0.14831	1	0.34107	1	0.075743	1	0.12036	1
8q loss	8 (12%)	58	5.8622e-07	0.000278	0.043744	1	0.13361	1	0.0043369	1	0.29061	1	0.58572	1	0.16454	1	0.22405	1
9p loss	10 (15%)	56	1	1	0.90207	1	0.064852	1	0.71415	1	0.91158	1	0.61623	1	0.89576	1	0.37092	1
9q loss	10 (15%)	56	1	1	0.90207	1	0.064852	1	0.71415	1	0.91158	1	0.61623	1	0.89576	1	0.37092	1
10p loss	48 (73%)	18	0.34162	1	0.00037965	0.166	8.4711e-05	0.0383	5.2308e-06	0.00245	0.28744	1	0.0097025	1	0.014522	1	0.000336	0.148
10q loss	49 (74%)	17	0.24835	1	0.00026204	0.116	2.5252e-05	0.0116	2.883e-06	0.00136	0.24321	1	0.006811	1	0.02956	1	0.0010753	0.458
11p loss	7 (11%)	59	0.62774	1	0.57404	1	0.10979	1	0.49729	1	0.20257	1	1	1	0.26893	1	0.043575	1
11q loss	7 (11%)	59	0.62774	1	0.57404	1	0.10979	1	0.49729	1	0.20257	1	1	1	0.26893	1	0.043575	1
13q loss	43 (65%)	23	0.26955	1	0.00052899	0.23	0.0036448	1	0.0034282	1	0.85294	1	0.055465	1	0.93004	1	0.15783	1
16p loss	4 (6%)	62	0.68502	1	0.51705	1	0.0232	1	0.0098715	1	0.67766	1	0.45192	1	0.46067	1	1	1
16q loss	5 (8%)	61	0.72059	1	0.38522	1	0.0059185	1	0.00083372	0.36	0.428	1	0.13368	1	0.19236	1	0.61604	1
17p loss	50 (76%)	16	0.29944	1	4.7476e-07	0.000228	5.7394e-07	0.000273	5.5548e-07	0.000266	0.050564	1	0.00039631	0.173	0.04998	1	0.00010823	0.0486
17q loss	50 (76%)	16	0.29944	1	4.7476e-07	0.000228	5.7394e-07	0.000273	5.5548e-07	0.000266	0.050564	1	0.00039631	0.173	0.04998	1	0.00010823	0.0486
18p loss	8 (12%)	58	0.67658	1	0.096502	1	0.31535	1	0.050302	1	0.71973	1	1	1	0.87703	1	1	1
18q loss	10 (15%)	56	0.62023	1	0.079605	1	0.44299	1	0.13831	1	0.57469	1	0.61623	1	0.4895	1	0.9579	1
19q loss	3 (5%)	63	0.64565	1	0.76595	1	0.76707	1	0.82314	1	0.51538	1	0.36058	1	0.69013	1	0.43947	1
20p loss	4 (6%)	62	0.30105	1	0.80682	1	0.20918	1	0.21281	1	0.45	1	1	1	0.37028	1	0.20169	1
20q loss	3 (5%)	63	1	1	0.41794	1	0.22638	1	0.13181	1	0.29379	1	1	1	0.21886	1	0.43947	1
21q loss	35 (53%)	31	0.74217	1	0.008856	1	0.24655	1	0.044304	1	1	1	0.72404	1	0.7541	1	0.14069	1
22q loss	8 (12%)	58	0.82988	1	0.13374	1	0.24652	1	0.064546	1	0.89689	1	0.58572	1	0.73062	1	0.26741	1
xq loss	39 (59%)	27	0.53183	1	0.078709	1	0.0068287	1	0.0012939	0.545	0.29316	1	0.025969	1	0.069091	1	0.028143	1