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	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
1p gain	7 (3%)	217	0.059989	1	0.00128	0.556	0.0096399	1	0.04132	1	0.31157	1	0.23491	1	0.30659	1	0.00012	0.0565
1q gain	16 (7%)	208	0.01358	1	9.9999e-06	0.00565	9.9999e-06	0.00565	0.0061199	1	0.49072	1	0.01927	1	0.55246	1	4e-05	0.0197
2p gain	39 (17%)	185	9.9999e-06	0.00565	0.01391	1	0.04852	1	0.095209	1	0.01693	1	0.61317	1	0.050439	1	0.36821	1
2q gain	42 (19%)	182	9.9999e-06	0.00565	0.0231	1	0.098239	1	0.098109	1	0.065189	1	0.41744	1	0.22309	1	0.70741	1
3p gain	63 (28%)	161	9.9999e-06	0.00565	0.00033	0.151	9.9999e-06	0.00565	8.9999e-05	0.0429	0.078919	1	0.0031	1	0.2352	1	9.9999e-06	0.00565
3q gain	74 (33%)	150	9.9999e-06	0.00565	0.0060599	1	2e-05	0.01	0.00061999	0.281	0.056809	1	0.00427	1	0.53915	1	9.9999e-06	0.00565
4p gain	7 (3%)	217	0.37703	1	0.16857	1	0.18804	1	0.89599	1	0.79913	1	0.78477	1	0.79797	1	0.86942	1
4q gain	6 (3%)	218	0.52648	1	0.16821	1	0.30777	1	1	1	0.4496	1	0.58014	1	0.44542	1	0.9447	1
5p gain	30 (13%)	194	0.00019	0.0889	0.00334	1	0.02563	1	0.00063999	0.289	0.4583	1	0.068969	1	0.13472	1	0.01627	1
5q gain	30 (13%)	194	0.00024	0.112	0.00387	1	0.04435	1	0.00053999	0.246	0.26431	1	0.053759	1	0.13448	1	0.02138	1
6p gain	9 (4%)	215	0.00497	1	0.01733	1	0.01685	1	0.49331	1	0.14208	1	0.15418	1	0.52134	1	0.074859	1
6q gain	7 (3%)	217	0.02434	1	0.01159	1	0.10548	1	0.32933	1	0.4573	1	0.47909	1	0.50658	1	0.1024	1
7p gain	133 (59%)	91	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	0.12351	1	0.0059399	1	0.02348	1	9.9999e-06	0.00565
7q gain	134 (60%)	90	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	0.16547	1	0.0077499	1	0.03646	1	2e-05	0.01
8p gain	15 (7%)	209	0.32863	1	0.00393	1	0.074719	1	0.47839	1	0.47664	1	0.15619	1	0.71586	1	0.02441	1
8q gain	19 (8%)	205	0.097869	1	4e-05	0.0197	0.00433	1	0.35515	1	0.15214	1	0.01412	1	0.1493	1	0.00344	1
9p gain	3 (1%)	221	0.3788	1	NA	NA	0.15375	1	0.65326	1	0.77633	1	0.45575	1	0.77589	1	0.01688	1
10p gain	8 (4%)	216	0.62848	1	0.11014	1	0.16063	1	0.82084	1	0.04224	1	0.57608	1	0.15502	1	0.17019	1
10q gain	8 (4%)	216	0.63066	1	0.1093	1	0.1578	1	0.82168	1	0.04281	1	0.57602	1	0.1551	1	0.17069	1
11p gain	12 (5%)	212	0.064999	1	0.0061899	1	0.02921	1	0.02312	1	0.70673	1	0.86208	1	0.70755	1	0.14721	1
11q gain	10 (4%)	214	0.02007	1	0.00452	1	0.0231	1	0.058869	1	0.92114	1	1	1	0.92224	1	0.10051	1
12p gain	91 (41%)	133	9.9999e-06	0.00565	0.12823	1	0.13694	1	0.00295	1	0.01648	1	0.11517	1	0.094319	1	0.00202	0.865
12q gain	91 (41%)	133	9.9999e-06	0.00565	0.12955	1	0.13332	1	0.00311	1	0.0168	1	0.11589	1	0.093989	1	0.00235	1
13q gain	25 (11%)	199	0.0062799	1	0.81527	1	0.19886	1	0.63234	1	0.7732	1	0.083989	1	0.62197	1	0.7893	1
14q gain	3 (1%)	221	0.27186	1	0.03841	1	0.59626	1	0.65387	1	1	1	0.45377	1	1	1	0.01796	1
15q gain	5 (2%)	219	0.14145	1	0.03834	1	0.25733	1	0.62413	1	0.53352	1	0.51144	1	0.52594	1	0.10851	1
16p gain	118 (53%)	106	9.9999e-06	0.00565	0.096859	1	9.9999e-06	0.00565	9.9999e-06	0.00565	0.00102	0.451	9.9999e-06	0.00565	0.00070999	0.319	7.9999e-05	0.0384
16q gain	114 (51%)	110	9.9999e-06	0.00565	0.057909	1	9.9999e-06	0.00565	9.9999e-06	0.00565	0.00011	0.0522	9.9999e-06	0.00565	0.00032	0.147	2e-05	0.01
17p gain	133 (59%)	91	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	0.02182	1	0.0054499	1	0.01988	1	9.9999e-06	0.00565
17q gain	149 (67%)	75	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	0.15594	1	0.01657	1	0.18786	1	0.00062999	0.285
18p gain	11 (5%)	213	0.57685	1	0.063649	1	0.4513	1	0.43113	1	0.19269	1	0.14045	1	0.195	1	0.8517	1
18q gain	8 (4%)	216	0.32683	1	0.04027	1	0.54973	1	0.32312	1	0.4059	1	0.01564	1	0.39733	1	0.30227	1
19p gain	5 (2%)	219	0.14043	1	0.8528	1	0.02311	1	0.32866	1	0.74367	1	0.60972	1	0.73732	1	0.1663	1
19q gain	5 (2%)	219	0.14155	1	0.85572	1	0.02454	1	0.32586	1	0.74291	1	0.6084	1	0.73979	1	0.16408	1
20p gain	77 (34%)	147	2e-05	0.01	0.056179	1	0.050539	1	0.01437	1	0.02174	1	0.01353	1	0.0086399	1	0.04197	1
20q gain	79 (35%)	145	2e-05	0.01	0.067299	1	0.097539	1	0.01979	1	0.03163	1	0.02597	1	0.01399	1	0.0409	1
21q gain	14 (6%)	210	1	1	0.23221	1	0.11087	1	0.65019	1	0.13865	1	0.24328	1	0.12645	1	0.88148	1
22q gain	4 (2%)	220	0.49034	1	1	1	0.69381	1	0.21821	1	0.16959	1	0.43143	1	0.83622	1	0.77895	1
xq gain	70 (31%)	154	9.9999e-06	0.00565	0.00022	0.103	9.9999e-06	0.00565	9.9999e-06	0.00565	0.00091999	0.408	0.01719	1	0.00088999	0.397	2e-05	0.01
1p loss	23 (10%)	201	5.9999e-05	0.029	0.077619	1	0.00292	1	0.49606	1	0.88941	1	0.29011	1	0.78925	1	0.4592	1
1q loss	16 (7%)	208	0.00056999	0.259	0.58018	1	0.30588	1	0.39212	1	0.5495	1	0.096779	1	0.64769	1	0.46218	1
2p loss	3 (1%)	221	0.27364	1	0.03724	1	NA	NA	NA	NA	0.31666	1	1	1	0.30529	1	0.057749	1
3p loss	17 (8%)	207	0.00071999	0.323	4e-05	0.0197	9.9999e-06	0.00565	0.00335	1	0.15832	1	0.19374	1	0.10673	1	4e-05	0.0197
3q loss	5 (2%)	219	0.1414	1	0.03789	1	0.02346	1	0.10709	1	0.62465	1	0.2996	1	0.62664	1	0.47421	1
4p loss	21 (9%)	203	5.9999e-05	0.029	9.9999e-06	0.00565	9.9999e-06	0.00565	0.00108	0.476	0.19324	1	0.01218	1	0.84268	1	9.9999e-06	0.00565
4q loss	22 (10%)	202	5.9999e-05	0.029	9.9999e-06	0.00565	9.9999e-06	0.00565	0.00311	1	0.30414	1	0.056859	1	0.88555	1	2e-05	0.01
5p loss	7 (3%)	217	0.071639	1	0.00117	0.511	0.03015	1	0.015	1	0.01841	1	0.01504	1	0.01819	1	0.00015	0.0703
5q loss	7 (3%)	217	0.071119	1	0.0011	0.483	0.02912	1	0.01515	1	0.01879	1	0.01528	1	0.01939	1	9.9999e-06	0.00565
6p loss	16 (7%)	208	0.00232	0.991	0.2409	1	0.01319	1	0.15752	1	0.13557	1	0.11791	1	0.056529	1	0.02397	1
6q loss	19 (8%)	205	0.00080999	0.362	0.04036	1	0.00163	0.701	0.26207	1	0.6303	1	0.44736	1	0.75581	1	0.01193	1
8p loss	11 (5%)	213	0.063119	1	0.56877	1	0.0093499	1	0.0376	1	0.54807	1	0.77983	1	0.42735	1	0.19528	1
8q loss	6 (3%)	218	0.02993	1	0.85748	1	0.073889	1	0.32824	1	0.60969	1	0.26831	1	0.60104	1	0.34837	1
9p loss	27 (12%)	197	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	4e-05	0.0197	0.051169	1	0.093549	1	0.32972	1	5e-05	0.0243
9q loss	29 (13%)	195	9.9999e-06	0.00565	9.9999e-06	0.00565	9.9999e-06	0.00565	2e-05	0.01	0.01983	1	0.016	1	0.14905	1	2e-05	0.01
10p loss	13 (6%)	211	0.00443	1	0.00029	0.134	7.9999e-05	0.0384	0.15761	1	0.146	1	0.93272	1	0.4595	1	0.04024	1
10q loss	13 (6%)	211	0.00459	1	0.00127	0.552	0.00011	0.0522	0.12048	1	0.03788	1	0.8719	1	0.18297	1	0.01552	1
11p loss	14 (6%)	210	0.00109	0.48	0.00303	1	0.00338	1	0.067099	1	0.24099	1	0.15469	1	0.30773	1	0.01254	1
11q loss	16 (7%)	208	0.00028	0.129	5e-04	0.228	0.00153	0.659	0.25885	1	0.51828	1	0.53	1	0.61511	1	0.12582	1
13q loss	21 (9%)	203	5e-05	0.0243	5e-05	0.0243	9.9999e-06	0.00565	0.00117	0.511	0.01039	1	0.00147	0.635	0.02493	1	9.9999e-06	0.00565
14q loss	39 (17%)	185	9.9999e-06	0.00565	0.0060499	1	5e-05	0.0243	0.00146	0.632	0.21132	1	0.49053	1	0.36172	1	0.078149	1
15q loss	25 (11%)	199	0.00024	0.112	0.00092999	0.412	0.00011	0.0522	0.01748	1	0.14933	1	0.1122	1	0.25228	1	0.02773	1
16p loss	4 (2%)	220	0.26655	1	0.0093199	1	0.04462	1	0.27414	1	1	1	0.2008	1	1	1	0.076069	1
16q loss	6 (3%)	218	0.12561	1	0.00065999	0.297	0.0092199	1	0.14623	1	0.37653	1	0.19168	1	0.37986	1	0.0079599	1
17p loss	10 (4%)	214	0.01991	1	9.9999e-06	0.00565	0.00011	0.0522	0.0166	1	0.085329	1	0.02667	1	0.095959	1	0.00088999	0.397
18p loss	34 (15%)	190	0.00024	0.112	9.9999e-06	0.00565	9.9999e-06	0.00565	0.0061799	1	0.19323	1	0.0053599	1	0.26885	1	0.00176	0.755
18q loss	35 (16%)	189	0.00019	0.0889	9.9999e-06	0.00565	9.9999e-06	0.00565	0.0054099	1	0.04768	1	0.00281	1	0.074609	1	0.00041	0.187
19p loss	13 (6%)	211	0.0072199	1	0.00383	1	0.03783	1	0.39835	1	0.13699	1	0.49386	1	0.15041	1	0.15046	1
19q loss	12 (5%)	212	0.0070199	1	0.01004	1	0.050139	1	0.93173	1	0.17699	1	0.5506	1	0.21386	1	0.11205	1
21q loss	35 (16%)	189	0.00012	0.0565	0.30631	1	0.15513	1	0.97132	1	0.27112	1	0.43407	1	0.3372	1	0.10111	1
22q loss	50 (22%)	174	7.9999e-05	0.0384	9.9999e-06	0.00565	9.9999e-06	0.00565	0.03958	1	0.89966	1	0.91218	1	0.392	1	2e-05	0.01
xq loss	21 (9%)	203	0.00112	0.491	0.00029	0.134	9.9999e-05	0.0476	0.21213	1	0.02706	1	0.49895	1	0.088769	1	0.075629	1