		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	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	93 (25%)	274	0.33776	0.606	0.44386	0.685	0.31461	0.588	0.40155	0.668	0.053449	0.236	0.70576	0.865	0.63287	0.821	0.98624	0.995	0.28105	0.557	0.60679	0.806
1q gain	173 (47%)	194	3e-05	0.00145	0.60772	0.806	0.01367	0.102	0.1545	0.429	0.0032	0.0426	0.1189	0.372	0.01853	0.129	0.068159	0.263	0.01951	0.133	0.32976	0.597
2p gain	67 (18%)	300	0.00194	0.0325	0.00285	0.0399	0.83191	0.917	0.4168	0.673	0.0083099	0.0741	0.00423	0.051	0.3112	0.588	0.00095999	0.0199	0.21248	0.507	0.00122	0.0238
2q gain	65 (18%)	302	0.00131	0.025	0.00222	0.035	0.94331	0.971	0.13161	0.398	0.00152	0.0271	0.0051999	0.0566	0.22815	0.511	3e-04	0.00946	0.28269	0.557	0.00243	0.0367
3p gain	64 (17%)	303	0.32779	0.596	0.69301	0.855	0.71106	0.87	0.80064	0.907	0.65459	0.837	0.73592	0.878	0.2868	0.56	0.2657	0.549	0.83801	0.919	0.87602	0.934
3q gain	74 (20%)	293	0.76023	0.885	0.22527	0.507	0.46814	0.697	0.5383	0.749	0.3132	0.588	0.50525	0.724	0.18755	0.487	0.49625	0.719	0.40467	0.668	0.81934	0.917
4p gain	57 (16%)	310	0.2097	0.505	0.052819	0.234	0.74402	0.883	0.62149	0.818	0.43563	0.683	0.23819	0.519	0.13558	0.402	0.00246	0.0367	0.23179	0.515	0.61397	0.813
4q gain	48 (13%)	319	0.37074	0.639	0.11502	0.366	0.1774	0.472	0.61436	0.813	0.31168	0.588	0.41207	0.67	0.10733	0.346	0.0055899	0.0574	0.32468	0.592	0.79779	0.906
5p gain	74 (20%)	293	9.9999e-06	0.000683	0.35268	0.618	0.64332	0.829	0.39266	0.663	0.40621	0.668	0.21661	0.507	0.078969	0.289	0.54017	0.751	0.30447	0.578	0.031	0.172
5q gain	52 (14%)	315	9.9999e-06	0.000683	0.32979	0.597	0.79565	0.905	0.30206	0.576	0.3419	0.608	0.87481	0.934	0.21383	0.507	0.43416	0.682	0.10644	0.346	0.44253	0.685
6p gain	148 (40%)	219	0.00076999	0.0186	0.01288	0.0982	0.58376	0.787	0.20872	0.505	0.01688	0.119	0.03845	0.195	0.04002	0.199	0.00036	0.0102	3e-05	0.00145	9.9999e-05	0.0039
6q gain	50 (14%)	317	0.52497	0.742	0.91309	0.954	0.76871	0.888	0.69188	0.855	1	1	0.39396	0.663	0.55307	0.762	0.2544	0.536	0.22677	0.509	0.55151	0.761
7p gain	204 (56%)	163	0.00095999	0.0199	0.27317	0.555	0.17974	0.477	0.16108	0.442	0.097199	0.321	0.19991	0.495	0.95985	0.98	0.7366	0.878	0.51529	0.736	0.28846	0.56
7q gain	199 (54%)	168	0.0055899	0.0574	0.18127	0.477	0.22349	0.507	0.24291	0.527	0.01458	0.108	0.080869	0.291	0.95246	0.976	0.41778	0.673	0.068229	0.263	0.04654	0.214
8p gain	123 (34%)	244	2e-05	0.00109	0.090499	0.312	0.1954	0.491	0.25804	0.539	0.0336	0.18	0.023	0.146	0.48486	0.713	0.93312	0.966	0.4983	0.719	0.79555	0.905
8q gain	172 (47%)	195	5e-05	0.00216	9.9999e-06	0.000683	0.49854	0.719	0.69085	0.855	0.00046	0.0122	0.01868	0.129	0.81065	0.911	0.32443	0.592	0.43011	0.68	0.38746	0.662
9p gain	16 (4%)	351	0.52438	0.742	0.27741	0.555	0.083279	0.296	0.04601	0.214	0.57435	0.781	0.89925	0.944	0.49487	0.719	0.72073	0.876	0.495	0.719	0.52306	0.742
9q gain	20 (5%)	347	0.1324	0.398	0.32329	0.592	0.076339	0.282	0.095629	0.321	0.91723	0.956	0.33941	0.608	0.83912	0.919	0.76128	0.885	0.75197	0.885	0.56683	0.774
10p gain	12 (3%)	355	0.27603	0.555	0.97226	0.985	0.72456	0.876	0.77412	0.892	0.93464	0.966	0.93321	0.966	0.23428	0.515	0.32284	0.592	0.68435	0.855	0.4542	0.692
10q gain	3 (1%)	364	0.18984	0.49	0.04324	0.209	NA	NA	NA	NA	0.69789	0.859	1	1	0.86412	0.932	0.84995	0.923	0.35648	0.622	0.50112	0.721
11p gain	34 (9%)	333	0.079929	0.29	0.03778	0.192	0.11786	0.372	0.02832	0.164	0.00401	0.0498	0.00243	0.0367	0.1921	0.491	0.0070699	0.0659	0.63101	0.821	0.089109	0.308
11q gain	28 (8%)	339	0.12715	0.388	0.096559	0.321	0.19109	0.491	0.01129	0.0908	0.00142	0.0259	0.00353	0.0452	0.13976	0.411	0.00032	0.00972	0.22097	0.507	0.067099	0.263
12p gain	64 (17%)	303	0.0082199	0.0741	0.16976	0.459	0.44854	0.687	0.094999	0.321	0.23266	0.515	0.93849	0.968	0.88294	0.935	0.41413	0.671	0.31825	0.59	0.46678	0.696
12q gain	40 (11%)	327	0.054979	0.239	0.64034	0.827	0.97379	0.986	0.15899	0.438	0.79849	0.906	0.69917	0.86	0.95601	0.979	0.22243	0.507	0.57915	0.785	0.03322	0.179
13q gain	92 (25%)	275	4e-05	0.00182	0.00012	0.00428	0.1024	0.336	0.18658	0.487	0.00011	0.0041	0.056969	0.24	0.22114	0.507	0.96627	0.984	0.03054	0.17	0.03253	0.177
14q gain	42 (11%)	325	0.87564	0.934	0.89298	0.941	0.39543	0.663	0.04299	0.209	0.82823	0.917	0.72736	0.876	0.53365	0.748	0.82363	0.917	0.48986	0.717	0.23437	0.515
15q gain	84 (23%)	283	0.04704	0.214	0.27488	0.555	0.83355	0.917	0.63521	0.822	0.0057999	0.058	0.0065199	0.0622	0.03032	0.17	0.11832	0.372	0.14441	0.415	0.04408	0.211
16p gain	57 (16%)	310	6.9999e-05	0.00287	0.00085999	0.0198	0.95928	0.98	0.87719	0.934	0.0056699	0.0574	0.062399	0.254	0.30678	0.581	0.19314	0.491	0.36366	0.632	0.0082499	0.0741
16q gain	45 (12%)	322	2e-05	0.00109	0.0054999	0.0574	0.68545	0.855	0.45709	0.692	0.00337	0.0439	0.01521	0.11	0.20872	0.505	0.21687	0.507	0.39025	0.663	0.00096999	0.0199
17p gain	40 (11%)	327	0.093939	0.318	0.01007	0.0834	0.56947	0.776	0.24376	0.527	0.73351	0.878	0.34793	0.614	0.26982	0.554	0.43822	0.683	0.9077	0.951	0.45559	0.692
17q gain	67 (18%)	300	0.22414	0.507	0.04217	0.207	0.84683	0.922	0.90484	0.949	0.98948	0.996	0.42168	0.676	0.19835	0.494	0.357	0.622	0.46275	0.695	0.15706	0.435
18p gain	56 (15%)	311	0.01293	0.0982	0.054109	0.237	0.38418	0.659	0.72677	0.876	0.68961	0.855	0.45697	0.692	0.85557	0.928	0.81332	0.912	0.0066399	0.0626	0.45805	0.692
18q gain	45 (12%)	322	0.00271	0.0397	0.37	0.639	0.32328	0.592	0.40554	0.668	0.54511	0.755	0.5848	0.787	0.81115	0.911	0.86712	0.933	0.19604	0.492	0.61848	0.815
19p gain	58 (16%)	309	0.02359	0.146	0.18016	0.477	0.53586	0.749	0.49354	0.719	0.02611	0.153	0.060409	0.25	0.98641	0.995	0.49872	0.719	0.062589	0.254	0.41467	0.671
19q gain	56 (15%)	311	0.00375	0.0473	0.073119	0.273	0.56688	0.774	0.16854	0.458	0.02476	0.15	0.02393	0.146	0.94484	0.971	0.29635	0.572	0.073379	0.273	0.40142	0.668
20p gain	147 (40%)	220	9.9999e-06	0.000683	0.00041	0.0112	0.2574	0.539	0.10971	0.353	0.00086999	0.0198	0.01317	0.0991	0.12743	0.388	0.25698	0.539	0.41293	0.67	0.059229	0.247
20q gain	180 (49%)	187	9.9999e-06	0.000683	0.0084799	0.0745	0.14851	0.421	0.04553	0.214	0.084219	0.298	0.04686	0.214	0.45425	0.692	0.21001	0.505	0.93177	0.966	0.14772	0.421
21q gain	67 (18%)	300	0.19021	0.49	0.19443	0.491	0.28679	0.56	0.28513	0.559	0.27094	0.554	0.7535	0.885	0.43231	0.681	0.77248	0.891	0.76051	0.885	0.41141	0.67
22q gain	126 (34%)	241	0.0060399	0.059	0.055569	0.24	0.26212	0.544	0.25823	0.539	0.082229	0.294	0.15371	0.429	0.4436	0.685	0.14692	0.42	0.72293	0.876	0.04301	0.209
xp gain	42 (11%)	325	0.19878	0.494	0.00489	0.0566	0.63283	0.821	0.28117	0.557	0.01264	0.0978	0.0097499	0.0824	0.34107	0.608	0.67941	0.854	0.01181	0.094	0.48622	0.713
xq gain	44 (12%)	323	0.04613	0.214	0.0050499	0.0566	0.40429	0.668	0.69053	0.855	0.00215	0.035	0.0052399	0.0566	0.28734	0.56	0.7166	0.873	0.00056999	0.0146	0.60331	0.803
1p loss	51 (14%)	316	0.00284	0.0399	0.0056299	0.0574	0.68362	0.855	0.3041	0.578	0.50578	0.724	0.27529	0.555	0.20485	0.502	0.84779	0.922	0.0096999	0.0824	0.12517	0.384
1q loss	27 (7%)	340	0.073489	0.273	0.054859	0.239	0.89727	0.943	0.65121	0.836	0.68628	0.855	0.76466	0.885	0.64415	0.829	0.93889	0.968	0.67451	0.851	0.62458	0.819
2p loss	50 (14%)	317	0.31675	0.59	0.084849	0.299	0.13589	0.402	0.25155	0.533	0.29834	0.573	0.03129	0.172	0.00292	0.0399	0.02183	0.14	0.15303	0.429	0.63348	0.821
2q loss	51 (14%)	316	0.15135	0.428	0.02561	0.153	0.067079	0.263	0.03923	0.197	0.22142	0.507	0.13955	0.411	0.0085399	0.0745	0.03573	0.187	0.10719	0.346	0.71353	0.871
3p loss	60 (16%)	307	0.31415	0.588	0.79041	0.904	0.8028	0.907	0.4376	0.683	0.20709	0.504	0.46411	0.696	0.0065199	0.0622	0.66161	0.842	0.9306	0.966	0.1432	0.413
3q loss	51 (14%)	316	0.19529	0.491	0.39535	0.663	0.59039	0.794	0.14264	0.413	0.42329	0.677	0.60276	0.803	0.02341	0.146	0.42798	0.677	0.21537	0.507	0.53489	0.748
4p loss	80 (22%)	287	0.27559	0.555	0.59327	0.795	0.73933	0.88	0.46483	0.696	0.35268	0.618	0.01505	0.11	0.49782	0.719	0.0059599	0.0589	0.72713	0.876	0.83448	0.917
4q loss	85 (23%)	282	0.24885	0.533	0.74762	0.885	0.82343	0.917	0.55653	0.764	0.23384	0.515	0.01632	0.116	0.48095	0.709	0.00322	0.0426	0.64522	0.829	0.47313	0.7
5p loss	79 (22%)	288	9.9999e-06	0.000683	0.75629	0.885	0.096289	0.321	0.85991	0.929	0.42028	0.676	0.75904	0.885	0.75997	0.885	0.34493	0.611	0.40257	0.668	0.46699	0.696
5q loss	97 (26%)	270	9.9999e-06	0.000683	0.43703	0.683	0.03455	0.184	0.93358	0.966	0.35567	0.622	0.27174	0.554	0.9482	0.973	0.66739	0.847	0.83315	0.917	0.98769	0.995
6p loss	70 (19%)	297	0.063489	0.255	0.86718	0.933	0.46896	0.697	0.87976	0.935	0.00072999	0.0181	0.051009	0.23	0.50218	0.721	0.069789	0.266	0.12109	0.374	0.01254	0.0978
6q loss	172 (47%)	195	9.9999e-06	0.000683	0.04457	0.212	0.096649	0.321	0.53212	0.748	0.0051299	0.0566	0.056149	0.24	0.526	0.742	0.23462	0.515	0.45067	0.689	0.28882	0.56
7p loss	18 (5%)	349	0.4614	0.694	0.25217	0.533	0.29212	0.565	0.56725	0.774	0.068109	0.263	0.78355	0.9	0.40943	0.669	0.77773	0.894	0.2177	0.507	0.82397	0.917
7q loss	17 (5%)	350	0.39773	0.666	0.53288	0.748	0.59938	0.802	0.20069	0.496	0.02374	0.146	0.48473	0.713	0.82805	0.917	0.83416	0.917	0.14157	0.412	0.97019	0.985
8p loss	66 (18%)	301	0.067979	0.263	0.36658	0.636	0.0183	0.128	0.072809	0.273	0.03762	0.192	0.84015	0.919	0.24531	0.528	0.052349	0.233	0.51905	0.738	0.58434	0.787
8q loss	25 (7%)	342	0.16345	0.447	0.02358	0.146	0.02063	0.135	0.1736	0.467	0.3229	0.592	0.83408	0.917	0.091739	0.313	0.25116	0.533	0.02096	0.135	0.02016	0.134
9p loss	235 (64%)	132	0.00034	0.00996	0.03509	0.186	0.01119	0.0908	0.057019	0.24	0.080949	0.291	0.04958	0.225	0.44325	0.685	0.099079	0.326	0.96799	0.985	0.0081799	0.0741
9q loss	185 (50%)	182	0.02074	0.135	0.141	0.412	0.091559	0.313	0.56207	0.771	0.14592	0.418	0.74762	0.885	0.21818	0.507	0.02868	0.164	0.87043	0.934	0.0090499	0.0781
10p loss	204 (56%)	163	9.9999e-06	0.000683	0.00427	0.051	0.6295	0.821	0.82782	0.917	0.02592	0.153	0.0098699	0.0826	0.88399	0.935	0.19355	0.491	0.15384	0.429	0.40858	0.669
10q loss	224 (61%)	143	9.9999e-06	0.000683	0.00122	0.0238	0.81832	0.917	0.90951	0.951	0.0052199	0.0566	0.0029	0.0399	0.59257	0.795	0.19203	0.491	0.23425	0.515	0.21069	0.505
11p loss	126 (34%)	241	0.00222	0.035	0.38469	0.659	0.87373	0.934	0.70518	0.865	0.88696	0.937	0.8817	0.935	0.62894	0.821	0.13437	0.401	0.44464	0.685	0.28146	0.557
11q loss	149 (41%)	218	0.0017	0.0297	0.85888	0.929	0.89713	0.943	0.40541	0.668	0.48079	0.709	0.26312	0.545	0.7539	0.885	0.24468	0.528	0.30132	0.576	0.02966	0.168
12p loss	61 (17%)	306	0.24852	0.533	0.18766	0.487	0.9928	0.998	0.76481	0.885	0.3508	0.617	0.79241	0.904	0.28496	0.559	0.13054	0.396	0.8022	0.907	0.1741	0.467
12q loss	68 (19%)	299	0.02054	0.135	0.051379	0.23	0.4484	0.687	0.31316	0.588	0.29845	0.573	0.71305	0.871	0.26983	0.554	0.33349	0.602	0.63115	0.821	0.2768	0.555
13q loss	82 (22%)	285	0.37018	0.639	0.62281	0.818	0.28266	0.557	0.81068	0.911	0.22305	0.507	0.39273	0.663	0.4324	0.681	0.38874	0.663	0.28112	0.557	0.11818	0.372
14q loss	112 (31%)	255	0.00013	0.00444	0.061699	0.254	0.40908	0.669	0.03549	0.187	0.02576	0.153	0.057129	0.24	0.32171	0.592	0.8252	0.917	0.42186	0.676	0.6924	0.855
15q loss	54 (15%)	313	0.51745	0.737	0.7334	0.878	0.15209	0.429	0.063459	0.255	0.34618	0.612	0.616	0.813	0.86899	0.934	0.67035	0.848	0.22497	0.507	0.87625	0.934
16p loss	69 (19%)	298	0.00028	0.00918	0.02935	0.167	0.31825	0.59	0.54589	0.755	0.15929	0.438	0.27008	0.554	0.1975	0.494	0.14175	0.412	0.11244	0.359	0.67297	0.85
16q loss	105 (29%)	262	9.9999e-06	0.000683	0.080049	0.29	0.087259	0.304	0.55417	0.762	0.059269	0.247	0.066289	0.263	0.22513	0.507	0.2017	0.497	0.18138	0.477	0.13448	0.401
17p loss	124 (34%)	243	0.4437	0.685	0.03148	0.172	0.070159	0.266	0.069299	0.266	0.42753	0.677	0.20548	0.502	0.75671	0.885	0.63288	0.821	0.72937	0.877	0.22272	0.507
17q loss	62 (17%)	305	0.68874	0.855	0.97155	0.985	0.02767	0.161	0.20559	0.502	0.67694	0.853	0.42596	0.677	0.84561	0.922	0.51793	0.737	0.23497	0.515	0.80864	0.911
18p loss	104 (28%)	263	0.25111	0.533	0.49298	0.719	0.30076	0.576	0.46024	0.694	0.078319	0.288	0.23553	0.515	0.98771	0.995	0.072429	0.273	0.69023	0.855	0.75914	0.885
18q loss	100 (27%)	267	0.22119	0.507	0.27693	0.555	0.16841	0.458	0.83738	0.919	0.54524	0.755	0.85795	0.929	0.88039	0.935	0.088579	0.308	0.91489	0.954	0.84572	0.922
19p loss	77 (21%)	290	0.0397	0.198	0.74313	0.883	0.53725	0.749	0.72406	0.876	0.12045	0.374	0.66474	0.845	0.22263	0.507	0.94035	0.969	0.66076	0.842	0.76455	0.885
19q loss	73 (20%)	294	0.03721	0.192	0.12147	0.374	0.24129	0.525	0.33586	0.604	0.12064	0.374	0.42455	0.677	0.17403	0.467	0.96352	0.983	0.34124	0.608	0.73209	0.878
20p loss	25 (7%)	342	0.75168	0.885	0.11082	0.355	0.37503	0.645	0.22188	0.507	0.32135	0.592	0.064039	0.256	0.067609	0.263	0.01243	0.0978	0.79137	0.904	0.18686	0.487
20q loss	9 (2%)	358	0.76159	0.885	0.10571	0.345	0.44531	0.685	0.04077	0.201	0.46981	0.697	0.0052499	0.0566	0.26028	0.542	0.38996	0.663	0.57509	0.781	0.45658	0.692
21q loss	70 (19%)	297	0.0106	0.0869	0.39395	0.663	0.53265	0.748	0.67046	0.848	0.25172	0.533	0.33575	0.604	0.01595	0.115	0.72717	0.876	0.13205	0.398	0.73674	0.878
22q loss	39 (11%)	328	0.78702	0.901	0.4058	0.668	0.65906	0.842	0.60193	0.803	0.21889	0.507	0.69167	0.855	0.78513	0.9	0.65383	0.837	0.42546	0.677	0.89043	0.94
xp loss	96 (26%)	271	0.03599	0.187	9.9999e-06	0.000683	0.086479	0.303	0.17526	0.468	0.0014	0.0259	0.00179	0.0306	0.02012	0.134	0.062169	0.254	0.093719	0.318	0.02512	0.151
xq loss	92 (25%)	275	0.04687	0.214	2e-05	0.00109	0.082859	0.295	0.58373	0.787	0.00091999	0.0199	0.00429	0.051	0.04633	0.214	0.34439	0.611	0.056919	0.24	0.01971	0.134
