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	8 (8%)	94	0.55219	1	0.57671	1	0.59775	1	0.7748	1	0.3316	1	0.16867	1	0.27396	1	0.58895	1
1q gain	29 (28%)	73	0.0092399	1	0.11608	1	0.03516	1	0.47122	1	0.15897	1	0.062309	1	0.01126	1	0.16154	1
2p gain	7 (7%)	95	0.088499	1	0.03291	1	0.88657	1	0.01318	1	1	1	0.0080799	1	1	1	0.18314	1
2q gain	8 (8%)	94	0.26069	1	0.095649	1	0.72535	1	0.02813	1	1	1	0.03435	1	1	1	0.49255	1
3p gain	5 (5%)	97	0.43076	1	0.44232	1	1	1	1	1	0.04195	1	0.03408	1	0.43695	1	0.83911	1
3q gain	10 (10%)	92	0.03558	1	0.02533	1	0.35023	1	0.13669	1	0.55451	1	0.02698	1	0.63537	1	0.49321	1
4p gain	3 (3%)	99	0.38168	1	0.79974	1	0.21602	1	0.10186	1	0.03608	1	0.16256	1	0.3324	1	0.77044	1
4q gain	3 (3%)	99	0.379	1	0.80296	1	0.21612	1	0.10105	1	0.03518	1	0.15985	1	0.32651	1	0.7725	1
5p gain	13 (13%)	89	0.01322	1	0.20269	1	0.68503	1	0.74124	1	0.53752	1	0.097569	1	0.14692	1	0.78926	1
5q gain	10 (10%)	92	0.02262	1	0.57448	1	0.83138	1	0.34189	1	0.82171	1	0.35522	1	0.58487	1	0.9053	1
7p gain	29 (28%)	73	9.9999e-06	0.00608	0.0054599	1	0.01161	1	0.12349	1	0.2106	1	0.04096	1	0.01563	1	0.0053799	1
7q gain	25 (25%)	77	0.00016	0.0946	0.051569	1	0.04967	1	0.32326	1	0.39806	1	0.1569	1	0.03292	1	0.04465	1
8p gain	14 (14%)	88	0.0052299	1	0.1053	1	0.79575	1	0.36744	1	0.97485	1	0.0087099	1	1	1	0.57833	1
8q gain	26 (25%)	76	0.00074999	0.431	0.0055699	1	0.53324	1	0.10749	1	0.76747	1	0.00012	0.0713	0.24174	1	0.14366	1
9p gain	3 (3%)	99	0.21168	1	0.43387	1	0.80225	1	0.93987	1	0.15195	1	0.04268	1	0.33307	1	1	1
9q gain	4 (4%)	98	0.13853	1	0.1774	1	0.46623	1	0.93344	1	0.55795	1	0.20801	1	0.81541	1	0.81124	1
10p gain	5 (5%)	97	0.099949	1	0.44178	1	0.46446	1	0.93192	1	0.68177	1	0.42633	1	0.27572	1	0.81245	1
10q gain	7 (7%)	95	0.077299	1	0.34293	1	0.59273	1	0.60392	1	0.59767	1	0.36997	1	0.24732	1	0.58795	1
11p gain	10 (10%)	92	0.01574	1	0.14017	1	0.83394	1	0.83797	1	0.70732	1	0.42672	1	0.53204	1	0.4072	1
11q gain	8 (8%)	94	0.080099	1	0.16966	1	0.88988	1	0.61206	1	0.95434	1	0.43691	1	0.64465	1	0.49168	1
12p gain	10 (10%)	92	2e-05	0.0121	0.02508	1	0.66241	1	0.58055	1	0.95858	1	0.00052999	0.306	0.48626	1	0.33418	1
12q gain	7 (7%)	95	0.00041	0.239	0.03238	1	0.17555	1	0.68539	1	0.85738	1	0.0073199	1	0.36464	1	0.50665	1
13q gain	11 (11%)	91	0.61489	1	0.75508	1	0.31318	1	0.28602	1	0.31589	1	0.31649	1	0.69462	1	0.1975	1
14q gain	13 (13%)	89	0.0070699	1	0.20561	1	0.50322	1	0.088339	1	0.11234	1	0.49149	1	0.43789	1	0.78814	1
15q gain	8 (8%)	94	0.25874	1	0.34286	1	0.30298	1	0.057059	1	0.70557	1	0.73968	1	0.60498	1	0.44625	1
16p gain	12 (12%)	90	0.00015	0.0888	0.060349	1	0.79127	1	0.43618	1	0.16894	1	0.084919	1	0.21306	1	0.04606	1
16q gain	13 (13%)	89	0.00019	0.112	0.02387	1	0.68408	1	0.3323	1	0.12066	1	0.01512	1	0.14612	1	0.02252	1
17q gain	5 (5%)	97	0.13965	1	1	1	0.50895	1	0.39413	1	0.85372	1	0.086949	1	0.84844	1	0.58928	1
18p gain	15 (15%)	87	0.00144	0.819	0.01282	1	0.00133	0.758	0.11671	1	0.01127	1	0.0056799	1	0.00249	1	0.00242	1
18q gain	5 (5%)	97	0.064589	1	0.18212	1	0.18027	1	0.61441	1	0.45115	1	0.30067	1	0.55978	1	0.24099	1
19p gain	5 (5%)	97	0.20995	1	0.44011	1	1	1	0.02713	1	0.6408	1	0.52966	1	0.84735	1	0.58871	1
19q gain	13 (13%)	89	0.076699	1	0.10666	1	0.68827	1	0.27278	1	0.53413	1	0.54439	1	0.32735	1	0.57773	1
20p gain	20 (20%)	82	0.00011	0.0654	0.066809	1	0.354	1	0.56757	1	0.95104	1	0.02505	1	0.5767	1	0.087579	1
20q gain	26 (25%)	76	9.9999e-06	0.00608	0.092139	1	0.32629	1	0.55832	1	0.85081	1	0.0059599	1	0.2434	1	0.071039	1
22q gain	6 (6%)	96	0.00293	1	0.074889	1	0.074599	1	0.2272	1	0.85638	1	0.087549	1	0.84639	1	0.59002	1
xq gain	4 (4%)	98	1	1	0.36714	1	0.35951	1	0.59565	1	0.50288	1	0.19444	1	0.67979	1	0.31297	1
1p loss	19 (19%)	83	0.02635	1	0.02652	1	0.01734	1	0.070989	1	0.11883	1	0.02906	1	0.083659	1	0.3062	1
1q loss	5 (5%)	97	0.20818	1	0.44025	1	0.46605	1	0.93226	1	0.81875	1	0.42933	1	1	1	0.80947	1
2p loss	7 (7%)	95	0.1773	1	0.67735	1	0.60048	1	0.67745	1	0.81861	1	0.72597	1	0.78495	1	0.59238	1
2q loss	3 (3%)	99	0.076449	1	0.43298	1	0.43284	1	0.59521	1	0.74684	1	0.36695	1	0.78853	1	0.30194	1
3p loss	17 (17%)	85	0.01789	1	0.69965	1	0.49051	1	0.81096	1	0.8746	1	0.16642	1	0.13719	1	0.25431	1
3q loss	13 (13%)	89	0.26349	1	0.64243	1	0.40693	1	0.86255	1	0.65655	1	0.36098	1	0.12688	1	0.51293	1
4p loss	13 (13%)	89	0.28515	1	0.31655	1	0.18501	1	0.54574	1	0.32637	1	0.26631	1	0.21426	1	0.20802	1
4q loss	13 (13%)	89	0.28469	1	0.04802	1	0.13055	1	0.099729	1	0.35905	1	0.47172	1	0.19063	1	0.0307	1
5p loss	6 (6%)	96	0.01462	1	0.03178	1	0.4748	1	0.51445	1	0.19779	1	0.31138	1	0.087409	1	0.32993	1
5q loss	9 (9%)	93	0.00050999	0.296	0.00431	1	0.22128	1	0.68705	1	0.41747	1	0.068449	1	0.0122	1	0.20926	1
6p loss	37 (36%)	65	0.00052999	0.306	0.00021	0.123	0.13278	1	0.31631	1	0.34367	1	0.01163	1	0.27308	1	0.02357	1
6q loss	47 (46%)	55	4e-05	0.024	3e-05	0.0181	0.00377	1	0.00369	1	0.01303	1	6.9999e-05	0.0419	0.01821	1	9.9999e-05	0.0596
7p loss	3 (3%)	99	0.073459	1	0.43719	1	0.80086	1	0.9399	1	0.56161	1	0.0076199	1	0.1774	1	0.43299	1
7q loss	4 (4%)	98	0.0248	1	0.18107	1	0.80814	1	0.93299	1	0.68144	1	0.056129	1	0.27676	1	0.65754	1
8p loss	19 (19%)	83	0.03333	1	0.067239	1	0.094879	1	0.26768	1	0.3368	1	0.04975	1	0.10218	1	0.04766	1
8q loss	7 (7%)	95	0.5281	1	0.67851	1	0.34409	1	0.29088	1	0.6748	1	0.6833	1	0.36749	1	0.58929	1
9p loss	43 (42%)	59	0.00042	0.245	0.58967	1	0.02831	1	0.073669	1	0.094419	1	0.11756	1	0.00109	0.622	0.02616	1
9q loss	28 (27%)	74	0.080769	1	0.80549	1	0.37167	1	0.89223	1	0.25168	1	0.52138	1	0.065979	1	0.7003	1
10p loss	19 (19%)	83	0.0064599	1	0.10209	1	0.16122	1	0.32177	1	0.3823	1	0.00051999	0.301	0.12578	1	0.068609	1
10q loss	18 (18%)	84	0.00012	0.0713	0.14995	1	0.087609	1	0.02146	1	0.6755	1	0.0033	1	0.29877	1	0.02096	1
11p loss	9 (9%)	93	0.21322	1	0.13288	1	0.04332	1	0.19588	1	0.071649	1	0.25083	1	0.17953	1	0.097099	1
11q loss	11 (11%)	91	0.46521	1	0.65287	1	0.22719	1	0.2923	1	0.82107	1	0.56409	1	0.75539	1	0.75078	1
12p loss	9 (9%)	93	0.01839	1	0.04325	1	0.083429	1	0.10383	1	0.46881	1	0.22654	1	0.90072	1	0.057379	1
12q loss	12 (12%)	90	0.01816	1	0.56103	1	0.38776	1	0.36075	1	0.96322	1	0.49514	1	0.52974	1	0.49275	1
13q loss	13 (13%)	89	0.0024	1	0.0239	1	0.0057299	1	0.11981	1	0.10586	1	0.04214	1	0.071319	1	0.0099099	1
14q loss	8 (8%)	94	1	1	0.57519	1	0.64294	1	0.61052	1	0.64637	1	0.83791	1	0.80417	1	0.3412	1
15q loss	17 (17%)	85	0.00083999	0.481	0.00075999	0.436	0.01057	1	0.0053199	1	0.04947	1	0.0091899	1	0.055049	1	0.0025	1
16p loss	5 (5%)	97	0.058509	1	0.073959	1	0.50768	1	0.77111	1	0.41783	1	0.31151	1	0.19966	1	0.58873	1
16q loss	5 (5%)	97	0.057789	1	0.074019	1	0.50789	1	0.7714	1	0.41699	1	0.37129	1	0.19775	1	0.59085	1
17p loss	40 (39%)	62	9.9999e-06	0.00608	9.9999e-06	0.00608	4e-05	0.024	0.00031	0.181	9.9999e-06	0.00608	0.00016	0.0946	3e-05	0.0181	0.00023	0.135
17q loss	15 (15%)	87	8.9999e-05	0.0537	0.03454	1	0.34535	1	0.58845	1	0.5369	1	0.15938	1	0.37923	1	0.57643	1
18p loss	34 (33%)	68	0.35263	1	0.098269	1	0.42597	1	0.80199	1	0.55939	1	0.49457	1	0.056919	1	0.15085	1
18q loss	58 (57%)	44	0.00432	1	0.10445	1	0.1158	1	0.16628	1	0.25729	1	0.58982	1	0.19227	1	0.40514	1
19p loss	14 (14%)	88	0.00044	0.256	0.00103	0.589	0.01914	1	0.057349	1	0.34587	1	0.00049	0.285	0.087159	1	0.084459	1
19q loss	9 (9%)	93	0.03241	1	0.04264	1	0.0487	1	0.053869	1	0.2319	1	0.02361	1	0.48298	1	0.060809	1
20p loss	12 (12%)	90	0.01391	1	0.17395	1	0.11869	1	0.24442	1	0.01685	1	0.089269	1	0.0093999	1	0.22735	1
20q loss	5 (5%)	97	0.058039	1	0.073819	1	0.50595	1	0.49514	1	0.41524	1	0.13147	1	0.1999	1	0.58766	1
21q loss	36 (35%)	66	0.00016	0.0946	0.00070999	0.409	0.03679	1	0.0398	1	0.25982	1	0.0082499	1	0.078899	1	0.03446	1
22q loss	26 (25%)	76	0.00178	1	0.01657	1	0.10695	1	0.11002	1	0.30058	1	0.00449	1	0.18301	1	0.18867	1
xq loss	9 (9%)	93	0.0065699	1	0.11022	1	0.27497	1	0.4999	1	0.24066	1	0.38271	1	0.065209	1	0.38477	1