		Clinical Features	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		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	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	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
1p gain	12 (7%)	150	0.51093	1	0.71562	1	0.32252	1	0.46694	1	0.032061	1	0.015369	1	0.21993	1	0.63475	1	0.97749	1	1	1	0.93159	1	0.85424	1
1q gain	32 (20%)	130	0.67102	1	1	1	0.019054	1	0.69926	1	0.03514	1	0.25733	1	0.3159	1	0.69532	1	0.61373	1	0.66445	1	0.14882	1	0.32414	1
2p gain	39 (24%)	123	0.50643	1	0.54034	1	0.05558	1	0.11276	1	0.64848	1	0.90873	1	0.046279	1	0.017998	1	0.2586	1	0.024923	1	0.89767	1	0.033235	1
2q gain	41 (25%)	121	0.08736	1	0.12384	1	0.029657	1	0.089523	1	0.69303	1	0.94481	1	0.084254	1	0.013738	1	0.25679	1	0.13997	1	0.53258	1	0.008534	1
3p gain	27 (17%)	135	1	1	0.79978	1	0.21612	1	0.58789	1	0.089427	1	0.2487	1	0.43065	1	0.4304	1	0.42038	1	0.091923	1	0.63395	1	0.59402	1
3q gain	34 (21%)	128	0.60488	1	1	1	0.091353	1	0.93395	1	0.25059	1	0.090473	1	0.41244	1	0.33564	1	0.24373	1	0.18676	1	0.93407	1	0.84115	1
4p gain	9 (6%)	153	1	1	0.17071	1	0.96269	1	1	1	0.088098	1	0.093051	1	0.35687	1	0.075039	1	0.11529	1	0.3089	1	0.60114	1	0.040368	1
4q gain	5 (3%)	157	0.29668	1	0.44872	1	0.98575	1	NA	NA	0.21921	1	0.58714	1	0.55448	1	1	1	0.84267	1	0.84283	1	NA	NA	NA	NA
5p gain	34 (21%)	128	0.1813	1	0.48542	1	0.043309	1	0.12443	1	0.19786	1	0.47306	1	0.046312	1	0.0089474	1	0.17562	1	0.72526	1	0.20198	1	0.50362	1
5q gain	22 (14%)	140	0.24333	1	0.42106	1	0.40733	1	0.031948	1	0.080097	1	0.68919	1	0.23777	1	0.045352	1	0.37356	1	0.72773	1	0.25346	1	0.17621	1
6p gain	40 (25%)	122	0.32525	1	0.27379	1	8.5928e-05	0.0775	0.0030939	1	0.76747	1	0.35727	1	0.60536	1	0.53063	1	0.25778	1	0.64445	1	0.40953	1	0.69329	1
6q gain	35 (22%)	127	0.67102	1	0.1628	1	2.8582e-05	0.0259	0.025184	1	0.82965	1	0.51604	1	0.64606	1	0.39647	1	0.39819	1	0.43731	1	0.76824	1	0.7197	1
7p gain	100 (62%)	62	0.0023878	1	0.0052751	1	7.0937e-06	0.00646	0.0027437	1	0.48905	1	0.71244	1	0.020018	1	0.0090911	1	0.052378	1	0.019969	1	0.036869	1	0.070531	1
7q gain	83 (51%)	79	0.043951	1	0.043931	1	7.5354e-05	0.068	0.20227	1	0.59494	1	0.92694	1	0.042453	1	0.084147	1	0.49546	1	0.46218	1	0.37658	1	0.50164	1
8p gain	39 (24%)	123	0.58562	1	0.35679	1	0.015065	1	0.61707	1	0.299	1	0.30544	1	0.2153	1	0.17095	1	0.81936	1	0.16872	1	0.18938	1	0.82666	1
8q gain	88 (54%)	74	0.0068393	1	0.035045	1	3.8474e-05	0.0348	0.050449	1	0.51912	1	0.84052	1	0.5617	1	0.14653	1	0.25683	1	0.12229	1	0.86812	1	0.31886	1
9p gain	42 (26%)	120	0.015755	1	0.13829	1	0.62907	1	0.21874	1	0.66722	1	0.31829	1	0.023306	1	1	1	0.28555	1	0.79924	1	0.12958	1	0.47451	1
9q gain	33 (20%)	129	0.015488	1	0.14117	1	0.3217	1	0.51504	1	0.59722	1	0.30921	1	0.24523	1	0.84689	1	0.72694	1	0.70779	1	0.30313	1	0.57408	1
10p gain	12 (7%)	150	1	1	0.75322	1	0.36662	1	0.32139	1	0.66662	1	0.73615	1	0.088488	1	1	1	0.54528	1	1	1	0.3866	1	0.089508	1
10q gain	6 (4%)	156	0.51712	1	0.78746	1	0.29681	1	0.78361	1	1	1	0.84151	1	0.41106	1	0.8488	1	0.54393	1	1	1	NA	NA	NA	NA
11p gain	30 (19%)	132	0.13452	1	0.18694	1	0.020932	1	0.24302	1	0.82965	1	0.58341	1	0.19455	1	0.34748	1	0.034359	1	0.18195	1	0.12763	1	0.48959	1
11q gain	25 (15%)	137	0.23872	1	0.22265	1	0.00079742	0.715	0.017957	1	0.56261	1	0.43102	1	0.053227	1	0.26736	1	0.023299	1	0.47978	1	0.2313	1	0.97993	1
12p gain	33 (20%)	129	0.64862	1	1	1	0.0010468	0.937	0.71657	1	0.18035	1	0.08052	1	0.23578	1	0.22471	1	0.35151	1	0.38958	1	0.37995	1	0.50716	1
12q gain	23 (14%)	139	0.91177	1	0.42106	1	0.04702	1	0.33479	1	0.35577	1	0.085683	1	0.18978	1	0.86553	1	0.35237	1	0.46659	1	0.069191	1	0.099077	1
13q gain	110 (68%)	52	0.29265	1	0.76784	1	0.00014835	0.134	0.13186	1	0.82091	1	0.20982	1	0.0045938	1	0.23539	1	0.0047225	1	0.037342	1	0.19386	1	0.40127	1
14q gain	8 (5%)	154	0.83204	1	0.81966	1	0.29303	1	0.67782	1	0.51961	1	0.50548	1	0.41096	1	0.46317	1	0.038836	1	1	1	NA	NA	NA	NA
15q gain	3 (2%)	159	NA	NA	NA	NA	0.54693	1	0.47526	1	NA	NA	NA	NA	0.35137	1	1	1	NA	NA	NA	NA	NA	NA	NA	NA
16p gain	39 (24%)	123	0.15932	1	0.7201	1	0.003522	1	0.49289	1	0.92491	1	0.99409	1	0.2554	1	0.66106	1	0.14847	1	0.44643	1	0.061716	1	0.46719	1
16q gain	39 (24%)	123	0.052273	1	0.6209	1	3.9618e-05	0.0358	0.63941	1	1	1	0.94993	1	0.030847	1	0.13274	1	0.02502	1	0.10907	1	0.025765	1	0.35795	1
17p gain	8 (5%)	154	0.10994	1	0.20833	1	0.057346	1	0.2878	1	1	1	0.75947	1	0.14567	1	0.90482	1	0.5198	1	0.8702	1	0.22776	1	0.57879	1
17q gain	30 (19%)	132	0.19394	1	0.49089	1	0.00048386	0.435	0.45076	1	0.8526	1	0.8965	1	0.40943	1	0.61627	1	0.074452	1	0.89996	1	0.41426	1	0.43288	1
18p gain	8 (5%)	154	0.51712	1	1	1	0.0017827	1	0.85115	1	0.80667	1	0.65151	1	0.88578	1	0.90482	1	0.5937	1	0.88376	1	0.62225	1	0.60139	1
18q gain	6 (4%)	156	NA	NA	NA	NA	0.044114	1	0.45682	1	0.49218	1	0.66527	1	0.45756	1	0.86625	1	0.51236	1	0.50938	1	0.62225	1	0.60139	1
19p gain	31 (19%)	131	0.068003	1	0.097375	1	0.0077224	1	0.92249	1	0.55585	1	0.38662	1	0.87242	1	0.88245	1	0.10837	1	0.7246	1	0.66451	1	0.57417	1
19q gain	30 (19%)	132	0.078042	1	0.10407	1	0.011949	1	0.77571	1	0.93675	1	0.34873	1	0.26671	1	0.64446	1	0.3413	1	0.63539	1	0.25506	1	0.11906	1
20p gain	104 (64%)	58	0.094552	1	0.24843	1	0.37795	1	0.67942	1	0.061495	1	0.72427	1	0.4832	1	0.5445	1	0.44166	1	0.041207	1	0.5566	1	0.035218	1
20q gain	142 (88%)	20	0.0077699	1	0.37582	1	0.0009726	0.871	0.35896	1	0.16465	1	0.11585	1	0.12058	1	0.36962	1	0.09276	1	0.1995	1	0.33822	1	0.36903	1
21q gain	10 (6%)	152	0.53812	1	0.048729	1	0.20255	1	0.87483	1	0.62086	1	0.51498	1	0.88617	1	0.91609	1	0.25272	1	0.71631	1	0.69525	1	0.49054	1
22q gain	9 (6%)	153	0.72868	1	0.27969	1	0.34098	1	1	1	0.42412	1	0.54257	1	0.47902	1	0.83123	1	0.97508	1	1	1	0.68777	1	0.52758	1
xq gain	32 (20%)	130	0.099093	1	0.12384	1	0.074898	1	0.29892	1	0.79252	1	0.59032	1	0.16169	1	0.80392	1	0.96199	1	0.83769	1	0.71358	1	0.69614	1
1p loss	44 (27%)	118	0.64862	1	0.0042433	1	0.00071669	0.644	0.059189	1	0.90616	1	0.2631	1	0.77592	1	0.84656	1	0.42893	1	0.29317	1	0.90535	1	0.84356	1
1q loss	25 (15%)	137	0.91177	1	0.077087	1	0.026378	1	0.02745	1	0.67417	1	0.3576	1	0.70675	1	0.8621	1	0.60566	1	0.11803	1	0.80428	1	0.11668	1
2p loss	11 (7%)	151	0.63847	1	0.56595	1	0.017224	1	0.78361	1	0.90723	1	0.70799	1	0.12293	1	0.2508	1	0.55999	1	0.73471	1	1	1	0.75448	1
2q loss	6 (4%)	156	1	1	1	1	0.17487	1	NA	NA	0.10197	1	0.45481	1	0.20047	1	0.16269	1	0.30912	1	0.54909	1	NA	NA	NA	NA
3p loss	15 (9%)	147	1	1	0.22897	1	0.13746	1	0.83649	1	0.25482	1	0.45801	1	0.15948	1	0.47603	1	0.48523	1	0.262	1	0.11489	1	0.27417	1
3q loss	10 (6%)	152	0.51712	1	0.44872	1	0.050845	1	0.41257	1	0.32498	1	0.51194	1	0.037585	1	0.39746	1	0.68726	1	0.22196	1	0.2902	1	0.30735	1
4p loss	58 (36%)	104	0.61838	1	0.15364	1	2.3011e-05	0.0209	0.011752	1	0.95578	1	0.36806	1	0.51596	1	0.96981	1	0.97267	1	0.01542	1	0.53421	1	0.21176	1
4q loss	65 (40%)	97	0.78647	1	0.21745	1	1.4715e-05	0.0134	0.0058899	1	0.79766	1	0.57939	1	0.69252	1	0.87935	1	0.80769	1	0.08286	1	0.90931	1	0.65868	1
5p loss	26 (16%)	136	0.23872	1	0.2772	1	0.2493	1	0.47009	1	0.48263	1	0.23583	1	0.68899	1	0.27906	1	0.62482	1	0.15354	1	0.31519	1	0.41596	1
5q loss	40 (25%)	122	0.092932	1	0.027837	1	0.0098068	1	0.45313	1	1	1	0.91338	1	0.95831	1	0.95984	1	0.94587	1	0.077589	1	0.63588	1	0.70372	1
6p loss	13 (8%)	149	0.54396	1	0.68094	1	0.75992	1	0.16597	1	0.31048	1	0.41486	1	0.72413	1	0.45616	1	0.44415	1	0.34991	1	0.3866	1	0.37128	1
6q loss	22 (14%)	140	0.15771	1	0.13154	1	0.073073	1	0.54874	1	0.41404	1	0.9318	1	0.13542	1	0.2025	1	0.27587	1	0.20614	1	0.17155	1	0.62729	1
7q loss	3 (2%)	159	NA	NA	NA	NA	0.23751	1	NA	NA	0.78507	1	0.23696	1	0.59818	1	1	1	0.66881	1	0.74803	1	NA	NA	NA	NA
8p loss	75 (46%)	87	0.1682	1	0.77338	1	0.020806	1	0.61082	1	0.66987	1	0.43724	1	0.27941	1	0.55302	1	0.83132	1	0.56024	1	0.018655	1	0.30344	1
8q loss	11 (7%)	151	0.17819	1	0.23567	1	0.33241	1	1	1	0.79527	1	0.6482	1	0.18332	1	0.13215	1	0.89585	1	0.43635	1	0.74274	1	0.68791	1
9p loss	22 (14%)	140	0.63365	1	0.62362	1	0.29446	1	0.3075	1	0.77364	1	0.33222	1	0.82595	1	0.71392	1	0.29736	1	0.084357	1	0.15526	1	0.019121	1
9q loss	22 (14%)	140	0.20831	1	0.54034	1	0.38423	1	0.16889	1	0.89654	1	0.57236	1	0.98752	1	0.47619	1	0.044152	1	0.015004	1	0.16212	1	0.0072382	1
10p loss	32 (20%)	130	0.1433	1	0.13331	1	0.67352	1	0.048745	1	0.13616	1	0.15585	1	0.85457	1	0.61727	1	0.88384	1	0.39052	1	0.86045	1	0.2032	1
10q loss	37 (23%)	125	0.16328	1	0.58063	1	0.13483	1	0.070268	1	0.13005	1	0.023266	1	0.48429	1	0.22004	1	0.68241	1	0.55353	1	0.81776	1	0.21746	1
11p loss	24 (15%)	138	0.24333	1	0.37582	1	0.0094399	1	0.11694	1	0.19975	1	0.17831	1	0.30957	1	0.85454	1	0.97853	1	0.42782	1	0.49066	1	0.18571	1
11q loss	30 (19%)	132	0.05171	1	0.082304	1	0.0019221	1	0.025263	1	0.57592	1	0.28367	1	0.11444	1	0.21611	1	0.17476	1	0.1605	1	0.31046	1	0.16758	1
12p loss	22 (14%)	140	0.42479	1	0.52556	1	0.15292	1	0.34694	1	0.63986	1	0.13522	1	0.9236	1	0.66935	1	0.37374	1	0.42224	1	0.23568	1	0.67735	1
12q loss	20 (12%)	142	0.28033	1	0.77815	1	0.090924	1	0.60136	1	0.61164	1	0.53413	1	0.93642	1	0.50006	1	0.48039	1	0.08011	1	0.26656	1	0.71237	1
13q loss	8 (5%)	154	0.51712	1	0.10429	1	0.31551	1	0.10047	1	0.055757	1	0.37347	1	1	1	0.81146	1	0.10053	1	1	1	0.74274	1	0.59401	1
14q loss	65 (40%)	97	0.47058	1	0.44392	1	0.012875	1	0.75246	1	0.77556	1	0.34133	1	0.10767	1	0.71807	1	0.32671	1	0.22857	1	0.76804	1	0.97303	1
15q loss	72 (44%)	90	0.42237	1	0.022083	1	0.00173	1	0.93032	1	0.083424	1	0.13937	1	0.86094	1	0.5045	1	0.80169	1	1	1	0.95526	1	0.90657	1
16p loss	9 (6%)	153	0.37779	1	0.076202	1	0.10796	1	0.078907	1	0.65128	1	0.67827	1	0.96457	1	1	1	0.40932	1	0.77528	1	0.67546	1	0.64855	1
16q loss	14 (9%)	148	0.28033	1	0.31392	1	0.00044354	0.399	0.21715	1	0.643	1	0.60337	1	0.75359	1	0.59854	1	0.41302	1	0.3839	1	0.79043	1	0.53519	1
17p loss	104 (64%)	58	0.19365	1	0.48976	1	0.047785	1	0.29124	1	0.95378	1	0.39691	1	0.77977	1	0.85038	1	0.97197	1	0.29017	1	0.5238	1	0.61316	1
17q loss	25 (15%)	137	0.90375	1	0.46962	1	0.0034619	1	0.2694	1	0.70976	1	0.92397	1	0.31629	1	0.34581	1	0.90308	1	0.65994	1	0.39338	1	0.50032	1
18p loss	125 (77%)	37	0.050527	1	0.24873	1	5.2639e-06	0.0048	0.055123	1	0.55834	1	0.32957	1	0.64601	1	0.32167	1	0.17233	1	0.11974	1	0.1774	1	0.96292	1
18q loss	135 (83%)	27	0.020588	1	0.050584	1	1.2135e-05	0.011	0.023252	1	0.79886	1	0.66196	1	0.86587	1	0.7029	1	0.3839	1	0.15721	1	0.023283	1	0.55946	1
19p loss	22 (14%)	140	0.72868	1	0.84047	1	0.10275	1	0.077035	1	0.71304	1	0.99741	1	0.22767	1	0.15083	1	0.28544	1	0.005204	1	0.67458	1	0.36431	1
19q loss	21 (13%)	141	0.83204	1	0.20833	1	0.4702	1	0.077035	1	0.88391	1	0.91788	1	0.33453	1	0.11063	1	0.078702	1	0.0020239	1	0.75858	1	0.20286	1
20p loss	25 (15%)	137	1	1	1	1	0.095734	1	0.33195	1	0.21534	1	0.75877	1	0.65777	1	0.27156	1	0.15683	1	0.16776	1	0.029653	1	0.15787	1
21q loss	66 (41%)	96	0.26378	1	0.20403	1	0.026721	1	1	1	0.95438	1	0.61342	1	0.5704	1	0.87482	1	0.019554	1	0.40038	1	0.42428	1	0.48061	1
22q loss	57 (35%)	105	0.79432	1	0.25155	1	0.067646	1	0.63393	1	0.7385	1	0.56864	1	0.068789	1	0.094174	1	0.0074013	1	0.46717	1	0.37083	1	0.1938	1
xq loss	25 (15%)	137	1	1	0.91697	1	0.080015	1	0.46789	1	0.56165	1	0.97521	1	0.71921	1	0.89947	1	0.95037	1	0.81901	1	0.97211	1	0.72666	1
