		Clinical Features	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	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	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	Fisher's exact test_P	Fisher's exact test_Q
1p gain	38 (11%)	313	6.7625e-06	0.00473	0.042228	1	0.004446	1	0.065245	1	0.007579	1	0.38289	1	0.080371	1	0.18343	1	0.00049771	0.305	0.13082	1
1q gain	83 (24%)	268	2.1269e-09	1.61e-06	0.0022808	1	0.041351	1	0.14454	1	9.0897e-06	0.00628	0.0076403	1	0.00059454	0.36	0.0012016	0.699	0.0051229	1	0.0026352	1
2p gain	60 (17%)	291	1.1331e-06	0.000822	0.0080795	1	0.021114	1	0.96726	1	0.11728	1	0.25536	1	0.00048261	0.296	0.0079869	1	0.0054616	1	0.0001508	0.0961
2q gain	51 (15%)	300	1.7764e-05	0.0121	0.11429	1	0.2228	1	0.7355	1	0.028488	1	0.071467	1	0.025015	1	0.062398	1	0.033376	1	0.013765	1
3p gain	39 (11%)	312	0.0019939	1	0.026764	1	0.78912	1	0.076053	1	0.64795	1	0.43651	1	0.565	1	0.1253	1	0.42024	1	0.045522	1
3q gain	66 (19%)	285	0.0092565	1	0.22727	1	0.85153	1	0.32571	1	0.19291	1	0.062772	1	0.93174	1	0.77013	1	0.75512	1	0.37942	1
4p gain	14 (4%)	337	0.34483	1	0.81018	1	0.9125	1	1	1	0.31069	1	0.46946	1	0.72867	1	0.67333	1	0.78455	1	0.66983	1
4q gain	9 (3%)	342	0.38457	1	1	1	0.69166	1	0.48788	1	0.041814	1	0.87839	1	1	1	0.69513	1	0.51664	1	0.58296	1
5p gain	79 (23%)	272	1.5122e-14	1.18e-11	1.0077e-05	0.00694	0.25975	1	0.72392	1	1.5854e-06	0.00114	2.645e-05	0.0178	0.00010954	0.0703	6.9775e-06	0.00488	0.0027075	1	1.3129e-06	0.000949
5q gain	34 (10%)	317	0.00047038	0.289	0.066462	1	0.64401	1	0.73335	1	0.093264	1	0.12498	1	0.05405	1	0.16976	1	0.15753	1	0.078278	1
6p gain	65 (19%)	286	1.6755e-12	1.3e-09	5.1227e-09	3.84e-06	0.079076	1	0.27329	1	7.3612e-05	0.0479	3.1973e-05	0.0214	5.497e-06	0.00386	9.3452e-05	0.0604	6.8347e-05	0.0446	1.3775e-06	0.000993
6q gain	54 (15%)	297	1.0039e-10	7.69e-08	1.3616e-05	0.00934	0.086773	1	0.44116	1	1.771e-05	0.0121	0.00021964	0.138	2.4486e-05	0.0165	0.011892	1	0.00018949	0.12	2.9091e-05	0.0195
7p gain	155 (44%)	196	2.7781e-11	2.13e-08	0.00075705	0.453	0.63884	1	0.92502	1	0.3899	1	0.1012	1	0.39519	1	0.22296	1	0.13435	1	0.0090199	1
7q gain	134 (38%)	217	4.83e-09	3.63e-06	0.021316	1	0.84787	1	0.64881	1	0.51104	1	0.31768	1	0.92883	1	0.86991	1	0.62355	1	0.22746	1
8p gain	148 (42%)	203	1.9218e-05	0.013	0.013204	1	0.64214	1	0.54783	1	0.25723	1	0.097719	1	0.64355	1	0.72747	1	0.063756	1	0.50225	1
8q gain	200 (57%)	151	0.0040775	1	0.011449	1	0.86493	1	0.071542	1	0.015533	1	0.26377	1	0.022005	1	0.042572	1	0.0011095	0.649	0.038733	1
9p gain	44 (13%)	307	0.080057	1	0.82076	1	0.55124	1	0.59035	1	0.35906	1	0.41467	1	0.67626	1	0.71036	1	0.80836	1	0.33282	1
9q gain	56 (16%)	295	0.10196	1	0.67325	1	0.31958	1	0.73152	1	0.60993	1	0.49297	1	0.83734	1	0.82855	1	0.8751	1	0.48421	1
10p gain	84 (24%)	267	4.6709e-12	3.61e-09	1.671e-05	0.0114	0.10391	1	0.42873	1	0.00075022	0.45	0.019925	1	0.0079774	1	0.0005482	0.333	0.084886	1	0.0020873	1
10q gain	59 (17%)	292	4.1231e-10	3.13e-07	0.010134	1	0.090576	1	0.47369	1	0.0045028	1	0.042747	1	0.020972	1	0.045257	1	0.35397	1	0.0053646	1
11p gain	42 (12%)	309	0.020931	1	0.067992	1	0.89736	1	0.80951	1	0.24773	1	0.0071981	1	0.0014849	0.854	0.033142	1	0.20078	1	0.05157	1
11q gain	51 (15%)	300	0.0015257	0.876	0.013211	1	0.79898	1	0.70257	1	0.26288	1	0.0027327	1	0.0003982	0.246	0.009195	1	0.0089668	1	0.0084045	1
12p gain	74 (21%)	277	0.057142	1	0.46181	1	0.24003	1	0.14063	1	0.15425	1	0.31244	1	0.070956	1	0.78958	1	0.010887	1	0.21687	1
12q gain	64 (18%)	287	0.35069	1	0.97374	1	0.4072	1	0.17937	1	0.95777	1	0.77667	1	0.68768	1	0.74544	1	0.1404	1	0.77857	1
13q gain	121 (34%)	230	8.412e-12	6.49e-09	0.0012159	0.706	0.56677	1	0.34827	1	0.022201	1	0.79604	1	0.0013259	0.768	0.0025096	1	0.011681	1	0.00022315	0.14
14q gain	23 (7%)	328	0.00090275	0.534	0.21109	1	0.79893	1	0.77669	1	0.58904	1	0.84842	1	0.040515	1	0.89708	1	0.2578	1	0.7639	1
15q gain	31 (9%)	320	2.9259e-05	0.0196	0.0015906	0.908	0.23328	1	0.78275	1	0.026629	1	0.065976	1	0.62497	1	0.20937	1	0.56913	1	0.027464	1
16p gain	52 (15%)	299	0.072045	1	0.011047	1	0.38046	1	0.15083	1	0.066742	1	0.34266	1	0.76028	1	0.089634	1	0.94335	1	0.4946	1
16q gain	41 (12%)	310	0.14598	1	0.32948	1	0.6881	1	0.14579	1	0.12131	1	0.5136	1	0.58603	1	0.21376	1	0.94053	1	0.88295	1
17p gain	22 (6%)	329	0.011523	1	0.66344	1	0.72668	1	0.20022	1	0.28335	1	0.73364	1	0.54203	1	0.094373	1	0.6014	1	0.79105	1
17q gain	46 (13%)	305	0.0038428	1	0.49009	1	0.93671	1	0.94044	1	0.4767	1	0.38769	1	0.6638	1	0.8943	1	0.75774	1	0.94717	1
18p gain	66 (19%)	285	2.5722e-06	0.00183	4.6575e-06	0.00328	0.056644	1	0.50205	1	0.015848	1	0.076015	1	0.0027234	1	0.00012601	0.0808	0.059501	1	0.0010625	0.624
18q gain	45 (13%)	306	0.003469	1	0.021792	1	0.47308	1	0.48096	1	0.32454	1	0.64913	1	0.039531	1	0.022854	1	0.082549	1	0.1181	1
19p gain	44 (13%)	307	0.028737	1	0.82569	1	0.47308	1	0.037394	1	0.66526	1	0.86566	1	0.69173	1	0.5577	1	0.40825	1	0.58218	1
19q gain	61 (17%)	290	0.0015477	0.887	0.40076	1	0.21395	1	0.079547	1	0.021462	1	0.082715	1	0.11223	1	0.13227	1	0.22552	1	0.14305	1
20p gain	194 (55%)	157	1.1409e-12	8.86e-10	6.5713e-05	0.043	0.084157	1	0.70427	1	0.00077729	0.463	0.0086284	1	0.00043762	0.27	5.9801e-05	0.0392	0.016774	1	0.00014161	0.0905
20q gain	223 (64%)	128	1.8631e-18	1.47e-15	3.1104e-09	2.34e-06	0.052735	1	0.96693	1	1.8369e-06	0.00132	9.3145e-05	0.0603	3.3017e-06	0.00234	1.2748e-09	9.66e-07	0.03132	1	2.972e-09	2.24e-06
21q gain	21 (6%)	330	2.5361e-05	0.0171	0.00020582	0.13	0.14016	1	0.66643	1	0.010089	1	0.06556	1	0.01748	1	0.00015325	0.0975	0.11862	1	3.8414e-05	0.0255
22q gain	27 (8%)	324	0.010469	1	0.17914	1	0.83356	1	0.39183	1	0.23605	1	0.64508	1	0.45603	1	0.63886	1	0.3728	1	0.57548	1
xq gain	43 (12%)	308	1.3461e-05	0.00925	0.00014854	0.0948	0.60757	1	0.14069	1	0.026652	1	0.34364	1	0.011206	1	0.45054	1	0.062274	1	0.036168	1
1p loss	45 (13%)	306	2.4089e-06	0.00172	6.2183e-05	0.0407	0.0562	1	0.58642	1	0.035341	1	0.059196	1	0.006568	1	0.003413	1	0.2144	1	0.0158	1
1q loss	20 (6%)	331	0.00024462	0.153	0.00021127	0.133	0.032817	1	0.073549	1	0.4875	1	0.042426	1	0.35357	1	0.22144	1	0.45068	1	0.15547	1
2p loss	18 (5%)	333	0.0028663	1	0.00082112	0.489	0.51989	1	0.76945	1	0.066288	1	0.28868	1	0.12768	1	0.10776	1	0.33316	1	0.53794	1
2q loss	22 (6%)	329	0.00020188	0.128	8.3241e-05	0.0539	0.85248	1	0.65263	1	0.050182	1	0.51104	1	0.050365	1	0.019811	1	0.22651	1	0.17129	1
3p loss	72 (21%)	279	5.9409e-08	4.4e-05	0.05215	1	0.33146	1	0.45508	1	0.001772	1	0.00087074	0.516	0.0013946	0.806	0.056914	1	0.060689	1	0.014784	1
3q loss	45 (13%)	306	4.1293e-07	0.000301	0.0031548	1	0.19823	1	0.29154	1	7.4966e-06	0.00522	4.3125e-05	0.0285	4.7024e-05	0.031	0.0012581	0.73	0.0058427	1	0.00447	1
4p loss	130 (37%)	221	1.5281e-16	1.19e-13	3.2876e-05	0.0219	0.21178	1	0.33984	1	0.00052736	0.321	0.00074975	0.45	4.6911e-05	0.031	6.0052e-07	0.000437	0.0038423	1	8.8658e-06	0.00614
4q loss	128 (36%)	223	5.3709e-18	4.22e-15	4.3482e-06	0.00307	0.050617	1	0.24917	1	0.0059663	1	0.0015593	0.892	0.00027323	0.17	2.9347e-06	0.00209	0.022455	1	2.2259e-05	0.015
5p loss	46 (13%)	305	3.221e-06	0.00229	0.00050287	0.307	0.22712	1	0.5119	1	0.0034459	1	0.010593	1	0.02202	1	0.032816	1	0.0077151	1	0.0044144	1
5q loss	76 (22%)	275	1.3692e-11	1.05e-08	1.1087e-07	8.18e-05	0.61455	1	0.92903	1	2.3428e-07	0.000172	6.6329e-06	0.00465	0.00055472	0.337	9.5497e-07	0.000694	0.0010266	0.606	9.7675e-08	7.22e-05
6p loss	41 (12%)	310	1.7631e-07	0.000129	0.020562	1	0.14556	1	0.25578	1	0.024782	1	0.04082	1	0.21189	1	0.004332	1	0.1679	1	0.001145	0.669
6q loss	53 (15%)	298	1.5991e-07	0.000118	0.01706	1	0.7487	1	0.75213	1	0.030795	1	0.15389	1	0.55795	1	0.032012	1	0.70593	1	0.029602	1
7p loss	12 (3%)	339	0.003461	1	0.0018695	1	0.4444	1	0.57746	1	0.00058351	0.354	0.13908	1	0.1981	1	0.11769	1	0.010072	1	0.033412	1
7q loss	23 (7%)	328	2.4274e-05	0.0164	0.00084091	0.5	0.43127	1	0.52764	1	0.0057253	1	0.048633	1	0.03809	1	0.041717	1	0.0014708	0.847	0.056991	1
8p loss	62 (18%)	289	1.7418e-08	1.3e-05	0.02984	1	0.38798	1	0.34086	1	0.0051747	1	0.0029042	1	0.0016588	0.946	0.0011003	0.645	0.0059593	1	0.039432	1
8q loss	17 (5%)	334	0.025038	1	0.52207	1	1	1	0.76945	1	0.85117	1	0.41865	1	0.46631	1	0.56475	1	0.8141	1	0.47033	1
9p loss	113 (32%)	238	5.9502e-21	4.69e-18	1.7563e-05	0.012	0.0010367	0.611	0.03881	1	1.7164e-08	1.28e-05	5.8796e-05	0.0386	0.00031725	0.197	8.3034e-06	0.00576	0.22891	1	4.0559e-06	0.00287
9q loss	78 (22%)	273	2.372e-10	1.81e-07	0.0017752	1	0.18343	1	0.28695	1	3.5094e-05	0.0233	0.0035671	1	0.0079252	1	0.0028547	1	0.074351	1	0.00037513	0.232
10p loss	44 (13%)	307	9.9591e-06	0.00687	0.024125	1	0.53356	1	0.26822	1	0.020959	1	0.013719	1	0.014746	1	0.051586	1	0.1439	1	0.055992	1
10q loss	49 (14%)	302	1.586e-08	1.19e-05	0.0059009	1	0.63191	1	0.64021	1	0.0026487	1	0.0081732	1	0.028032	1	0.043667	1	0.40687	1	0.10949	1
11p loss	50 (14%)	301	2.4522e-07	0.00018	0.012177	1	0.0090483	1	0.50348	1	0.07472	1	0.01681	1	0.69329	1	0.019082	1	0.43164	1	0.022777	1
11q loss	46 (13%)	305	0.00030911	0.192	0.18673	1	0.51708	1	0.95544	1	0.71352	1	0.52845	1	0.63565	1	0.22111	1	0.71168	1	0.23603	1
12p loss	47 (13%)	304	5.2928e-14	4.12e-11	3.2443e-10	2.48e-07	0.24882	1	0.51032	1	1.9188e-05	0.013	0.00051941	0.317	0.0031587	1	3.7773e-05	0.0251	0.055086	1	1.7047e-07	0.000125
12q loss	37 (11%)	314	4.0276e-10	3.07e-07	2.1891e-06	0.00157	0.49706	1	1	1	0.0025631	1	0.10126	1	0.20042	1	0.0011744	0.685	0.4975	1	0.0025502	1
13q loss	31 (9%)	320	7.0809e-05	0.0462	0.63725	1	0.67576	1	0.13801	1	0.27893	1	0.53939	1	0.72789	1	0.44538	1	0.31466	1	0.81864	1
14q loss	84 (24%)	267	3.5499e-09	2.67e-06	2.9316e-05	0.0196	0.55905	1	0.47075	1	0.00060778	0.367	0.00025041	0.156	0.00046547	0.286	0.0023839	1	0.033075	1	2.0845e-05	0.0141
15q loss	72 (21%)	279	2.019e-08	1.51e-05	0.0014326	0.827	0.0051223	1	0.069268	1	7.7436e-05	0.0503	7.5199e-05	0.0489	0.00020942	0.132	1.2462e-05	0.00857	0.0024492	1	9.8419e-05	0.0635
16p loss	74 (21%)	277	3.1336e-17	2.46e-14	0.00010067	0.0648	0.81171	1	0.80704	1	4.0839e-10	3.11e-07	5.3023e-07	0.000387	1.7087e-06	0.00123	0.00018322	0.116	3.1044e-06	0.00221	4.8594e-06	0.00342
16q loss	83 (24%)	268	2.8853e-16	2.25e-13	1.0172e-06	0.000738	0.046392	1	0.56385	1	4.9862e-08	3.7e-05	8.211e-06	0.00571	1.9593e-05	0.0133	5.6371e-05	0.0371	0.0044318	1	8.9896e-06	0.00622
17p loss	123 (35%)	228	1.6995e-21	1.34e-18	1.3282e-11	1.02e-08	0.46291	1	0.80875	1	4.4449e-06	0.00314	1.7356e-06	0.00125	0.00013374	0.0856	1.3807e-05	0.00946	0.0027818	1	4.5927e-08	3.41e-05
17q loss	56 (16%)	295	3.9159e-08	2.91e-05	7.4643e-06	0.00521	0.28263	1	1	1	0.0019296	1	0.00041315	0.255	0.0010455	0.615	0.00076728	0.458	0.077144	1	0.00015822	0.1
18p loss	100 (28%)	251	0.00010171	0.0654	0.56906	1	0.68014	1	0.083559	1	0.45118	1	0.30897	1	0.10042	1	0.4402	1	0.049827	1	0.31948	1
18q loss	124 (35%)	227	1.8854e-09	1.43e-06	0.038932	1	0.33752	1	0.3656	1	0.012505	1	0.024223	1	0.0025468	1	0.013796	1	0.11751	1	0.012556	1
19p loss	89 (25%)	262	2.3831e-23	1.88e-20	2.0266e-12	1.57e-09	0.0080979	1	0.56806	1	3.2017e-12	2.48e-09	8.8282e-12	6.81e-09	1.2226e-06	0.000885	1.1273e-12	8.77e-10	0.00036791	0.228	2.23e-10	1.71e-07
19q loss	69 (20%)	282	1.3134e-16	1.03e-13	8.3337e-10	6.33e-07	0.017418	1	0.10031	1	1.5523e-07	0.000114	2.4302e-06	0.00174	3.4151e-05	0.0227	1.6973e-09	1.28e-06	0.00065592	0.396	5.0201e-08	3.72e-05
20p loss	18 (5%)	333	0.01642	1	0.00069137	0.416	1	1	0.52548	1	0.00024897	0.156	0.26758	1	0.06761	1	0.75575	1	0.72614	1	0.35592	1
21q loss	132 (38%)	219	1.5634e-11	1.2e-08	0.0062232	1	0.1266	1	0.25368	1	0.024283	1	4.4728e-05	0.0296	0.0035839	1	0.0051463	1	0.0161	1	0.010023	1
22q loss	111 (32%)	240	3.0248e-17	2.37e-14	7.4685e-06	0.00521	0.015069	1	0.4842	1	0.00097082	0.574	0.0017344	0.987	5.7469e-06	0.00403	3.8914e-08	2.9e-05	0.034187	1	1.3373e-06	0.000966
xq loss	43 (12%)	308	3.4818e-07	0.000255	0.00070132	0.421	0.26206	1	0.80613	1	0.056306	1	0.014434	1	0.032601	1	0.44614	1	0.014157	1	0.85529	1
