		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	10 (11%)	77	0.01423	0.229	0.78036	0.953	0.38208	0.793	0.44165	0.822	0.76812	0.953	0.68304	0.925	0.43985	0.822	0.82117	0.972	0.23199	0.668	0.34311	0.772
1q gain	21 (24%)	66	0.0091899	0.184	0.03171	0.356	0.84124	0.977	0.77144	0.953	0.10248	0.535	0.15538	0.565	0.22831	0.667	0.20506	0.641	0.57482	0.893	0.50741	0.855
2p gain	4 (5%)	83	0.10381	0.535	0.37463	0.791	0.96613	1	0.74416	0.948	0.60443	0.906	0.78613	0.953	0.12173	0.543	0.14163	0.549	0.35633	0.779	0.18524	0.615
2q gain	7 (8%)	80	0.51584	0.86	0.46191	0.831	0.90392	0.991	0.60411	0.906	0.35963	0.779	0.42539	0.811	0.24683	0.697	0.91234	0.992	0.13541	0.547	0.064379	0.501
3p gain	17 (20%)	70	0.00055999	0.0296	0.93054	0.997	0.10686	0.535	0.40723	0.799	0.61868	0.916	0.62589	0.921	0.88614	0.985	0.88272	0.985	0.43967	0.822	0.60845	0.908
3q gain	19 (22%)	68	0.00012	0.012	0.76775	0.953	0.23049	0.668	0.43075	0.815	0.66808	0.925	0.38814	0.793	0.45577	0.829	0.46678	0.831	0.32831	0.767	0.54019	0.865
5p gain	24 (28%)	63	0.19649	0.638	0.32896	0.767	0.096109	0.529	0.93734	0.997	0.51383	0.86	0.58048	0.893	0.03881	0.399	0.43325	0.818	0.49448	0.852	0.44642	0.823
5q gain	15 (17%)	72	0.060369	0.496	0.3543	0.779	0.50102	0.852	0.99197	1	0.30005	0.75	0.69024	0.925	0.15111	0.565	0.36703	0.785	0.3398	0.772	0.34485	0.772
6p gain	7 (8%)	80	0.075699	0.509	0.095269	0.529	0.86563	0.984	0.12548	0.547	0.068059	0.501	0.38571	0.793	0.071899	0.502	0.96581	1	0.88429	0.985	0.71483	0.94
6q gain	4 (5%)	83	0.10246	0.535	0.63268	0.921	0.90692	0.991	0.74624	0.948	0.40077	0.799	0.69409	0.925	0.6744	0.925	0.93561	0.997	0.67955	0.925	0.75244	0.948
7p gain	25 (29%)	62	0.01412	0.229	0.39082	0.793	0.37135	0.787	0.26329	0.704	0.095449	0.529	0.071899	0.502	0.096589	0.529	0.04213	0.414	0.3192	0.764	0.02443	0.309
7q gain	22 (25%)	65	0.02408	0.309	0.44699	0.823	0.65852	0.925	0.11417	0.535	0.14318	0.549	0.03004	0.342	0.22771	0.667	0.18318	0.611	0.52783	0.865	0.11558	0.535
8p gain	12 (14%)	75	0.04634	0.429	0.52277	0.865	0.34078	0.772	0.23105	0.668	0.66371	0.925	0.75955	0.951	0.14062	0.549	0.03824	0.399	0.60024	0.906	0.2487	0.697
8q gain	14 (16%)	73	0.04884	0.441	0.93418	0.997	0.22772	0.667	0.72268	0.944	0.7001	0.929	0.74971	0.948	0.26242	0.704	0.58582	0.896	0.74605	0.948	0.54101	0.865
9p gain	3 (3%)	84	0.70205	0.929	0.53341	0.865	NA	NA	NA	NA	0.31681	0.764	1	1	0.11188	0.535	0.80695	0.968	0.1003	0.535	0.02632	0.314
9q gain	4 (5%)	83	0.50023	0.852	0.071099	0.502	0.44968	0.824	1	1	0.47317	0.838	0.63624	0.921	0.058569	0.487	0.46846	0.831	0.81443	0.972	0.69314	0.925
10p gain	3 (3%)	84	0.078539	0.51	0.77494	0.953	NA	NA	NA	NA	0.88296	0.985	0.91847	0.992	1	1	0.26498	0.704	1	1	0.88625	0.985
10q gain	3 (3%)	84	0.080789	0.512	0.77463	0.953	NA	NA	NA	NA	0.88478	0.985	0.92051	0.992	1	1	0.2653	0.704	1	1	0.88997	0.987
11p gain	11 (13%)	76	0.0074499	0.153	0.66388	0.925	0.63593	0.921	0.82291	0.972	0.29388	0.749	0.092089	0.529	0.38962	0.793	0.66605	0.925	1	1	0.82625	0.972
11q gain	12 (14%)	75	0.0096799	0.189	0.38083	0.793	0.75074	0.948	0.95526	1	0.065489	0.501	0.03528	0.378	0.52912	0.865	0.54532	0.87	0.56574	0.885	0.48193	0.847
12p gain	18 (21%)	69	0.00031	0.0197	0.81312	0.972	0.4868	0.847	0.14087	0.549	0.89314	0.988	0.85191	0.977	0.75061	0.948	0.92236	0.992	1	1	0.86203	0.983
12q gain	18 (21%)	69	0.00032	0.0197	0.81462	0.972	0.48125	0.847	0.14067	0.549	0.89102	0.987	0.85301	0.977	0.74857	0.948	0.9218	0.992	1	1	0.86103	0.983
13q gain	5 (6%)	82	0.42062	0.807	0.097989	0.533	0.34756	0.772	0.88277	0.985	0.02673	0.314	0.04539	0.425	0.6109	0.91	0.43061	0.815	0.85105	0.977	0.38565	0.793
15q gain	11 (13%)	76	0.02504	0.309	0.0043	0.111	0.17806	0.603	0.01168	0.211	0.01969	0.291	0.12974	0.547	0.00352	0.109	0.078179	0.51	0.77403	0.953	0.22582	0.667
16p gain	17 (20%)	70	0.0066599	0.145	0.56674	0.885	0.5274	0.865	0.75608	0.948	0.01201	0.212	0.066329	0.501	0.17797	0.603	0.18707	0.618	0.63426	0.921	0.080979	0.512
16q gain	16 (18%)	71	0.00238	0.0881	0.8055	0.968	0.5285	0.865	0.87795	0.985	0.0229	0.309	0.10679	0.535	0.56055	0.882	0.66031	0.925	0.8752	0.985	0.37635	0.791
17p gain	7 (8%)	80	0.22102	0.665	1	1	0.15127	0.565	0.070549	0.502	0.4421	0.822	0.68419	0.925	0.69616	0.927	0.11299	0.535	0.46828	0.831	0.24451	0.697
17q gain	17 (20%)	70	0.092879	0.529	0.31848	0.764	0.30025	0.75	0.11409	0.535	0.02169	0.303	0.04435	0.421	0.14551	0.552	0.86806	0.985	0.74046	0.948	0.84572	0.977
18p gain	8 (9%)	79	0.067269	0.501	0.31769	0.764	0.40156	0.799	0.8248	0.972	0.11754	0.54	0.18277	0.611	0.11951	0.54	0.13489	0.547	0.60467	0.906	0.13366	0.547
18q gain	4 (5%)	83	0.085149	0.521	1	1	0.2629	0.704	0.27868	0.721	0.30087	0.75	0.63737	0.921	0.03352	0.369	0.083239	0.518	0.60642	0.907	0.19269	0.628
19p gain	14 (16%)	73	0.27127	0.712	0.03387	0.369	0.85687	0.98	0.58124	0.893	0.16104	0.573	0.17232	0.596	0.4633	0.831	0.17413	0.599	0.69001	0.925	0.20626	0.641
19q gain	10 (11%)	77	0.80237	0.965	0.11841	0.54	0.48421	0.847	0.59066	0.898	0.3254	0.767	0.68613	0.925	0.53181	0.865	0.71154	0.939	0.54121	0.865	0.89521	0.988
20p gain	8 (9%)	79	0.69298	0.925	0.72935	0.947	0.66481	0.925	0.49081	0.851	0.38433	0.793	0.78265	0.953	0.58141	0.893	0.44471	0.823	0.64063	0.921	0.6702	0.925
20q gain	10 (11%)	77	0.20595	0.641	0.9066	0.991	0.84679	0.977	0.75218	0.948	0.64106	0.921	0.93666	0.997	0.32058	0.765	0.74746	0.948	0.52485	0.865	0.59108	0.898
21q gain	6 (7%)	81	0.25213	0.704	0.61408	0.912	0.63929	0.921	0.60458	0.906	0.224	0.667	0.21712	0.658	0.074389	0.505	0.34355	0.772	0.03951	0.401	0.15908	0.571
xp gain	7 (8%)	80	0.13286	0.547	0.36021	0.779	0.98565	1	0.44186	0.822	0.24646	0.697	0.77653	0.953	0.78705	0.953	0.96581	1	0.78273	0.953	0.90565	0.991
xq gain	6 (7%)	81	0.22905	0.667	0.49902	0.852	1	1	0.68535	0.925	0.15586	0.565	0.64329	0.923	0.48759	0.847	0.83798	0.977	1	1	0.88142	0.985
1p loss	8 (9%)	79	0.02505	0.309	0.22654	0.667	0.53585	0.865	0.31481	0.764	0.42081	0.807	0.91239	0.992	0.28479	0.732	0.20762	0.643	0.055189	0.478	0.6477	0.925
2p loss	6 (7%)	81	0.68789	0.925	0.38371	0.793	0.63931	0.921	0.11464	0.535	0.25639	0.704	0.068409	0.501	0.074259	0.505	0.58589	0.896	0.84959	0.977	0.15908	0.571
2q loss	4 (5%)	83	0.63534	0.921	0.3449	0.772	0.75621	0.948	0.42455	0.811	0.30027	0.75	0.50618	0.855	0.55707	0.881	0.39099	0.793	1	1	1	1
3p loss	8 (9%)	79	0.36809	0.785	0.089679	0.529	0.48408	0.847	0.54114	0.865	0.1645	0.58	0.11964	0.54	0.45868	0.831	0.71317	0.939	0.19897	0.64	0.062339	0.501
3q loss	6 (7%)	81	0.72271	0.944	0.091019	0.529	0.39723	0.797	0.26995	0.712	0.1816	0.611	0.41886	0.807	1	1	0.50247	0.853	0.65509	0.925	0.62091	0.917
4p loss	32 (37%)	55	5e-05	0.0074	0.32287	0.766	0.057949	0.487	0.38756	0.793	0.27244	0.712	0.00422	0.111	0.13075	0.547	0.33263	0.769	0.39018	0.793	0.51169	0.86
4q loss	33 (38%)	54	9.9999e-06	0.00247	0.10112	0.535	0.03602	0.381	0.1541	0.565	0.004	0.111	0.00029	0.0197	0.057909	0.487	0.14491	0.552	0.77579	0.953	0.089969	0.529
5p loss	4 (5%)	83	0.49944	0.852	0.69275	0.925	0.34541	0.772	0.53603	0.865	0.36434	0.782	0.63588	0.921	0.35961	0.779	0.93542	0.997	1	1	0.44308	0.822
5q loss	9 (10%)	78	0.02565	0.311	0.8381	0.977	0.27199	0.712	0.20969	0.644	0.49545	0.852	0.10516	0.535	0.36444	0.782	0.66954	0.925	0.4082	0.799	0.91808	0.992
6p loss	9 (10%)	78	0.83713	0.977	0.3214	0.765	0.077469	0.51	0.79451	0.958	0.24787	0.697	0.50598	0.855	0.90192	0.991	0.1708	0.593	0.20328	0.641	0.11154	0.535
6q loss	29 (33%)	58	0.00331	0.106	0.21397	0.652	0.57773	0.893	0.6595	0.925	0.395	0.794	0.64987	0.925	0.65302	0.925	0.52095	0.865	0.11305	0.535	0.081679	0.512
8p loss	13 (15%)	74	0.86966	0.985	0.68981	0.925	0.89623	0.988	0.93487	0.997	0.66369	0.925	0.75216	0.948	0.32879	0.767	0.75053	0.948	0.74722	0.948	0.2816	0.726
8q loss	4 (5%)	83	0.10504	0.535	0.37498	0.791	0.26106	0.704	0.27734	0.72	0.51484	0.86	0.55513	0.881	0.16405	0.58	0.12062	0.541	1	1	0.10647	0.535
9p loss	28 (32%)	59	9.9999e-06	0.00247	0.01497	0.236	0.092529	0.529	0.11312	0.535	0.04169	0.414	0.01055	0.195	0.95779	1	0.48737	0.847	0.91403	0.992	0.15368	0.565
9q loss	21 (24%)	66	0.00181	0.0744	0.20615	0.641	0.0061799	0.139	0.067489	0.501	0.1416	0.549	0.16102	0.573	0.9495	1	0.53784	0.865	0.57762	0.893	0.25939	0.704
10p loss	24 (28%)	63	0.00434	0.111	0.00073999	0.0342	0.12727	0.547	0.59321	0.9	0.1334	0.547	0.13599	0.547	0.87054	0.985	0.30387	0.752	0.70703	0.934	0.7294	0.947
10q loss	19 (22%)	68	0.02328	0.309	0.01708	0.263	0.12911	0.547	0.92124	0.992	0.5005	0.852	0.31805	0.764	0.2582	0.704	0.72109	0.944	1	1	0.83706	0.977
11p loss	4 (5%)	83	0.68237	0.925	0.82879	0.974	0.1673	0.584	0.20367	0.641	0.29574	0.749	0.26551	0.704	0.81857	0.972	0.39324	0.794	0.56703	0.885	0.91246	0.992
11q loss	5 (6%)	82	0.57728	0.893	0.61775	0.916	0.25591	0.704	0.34634	0.772	0.00447	0.111	0.00276	0.0973	0.84793	0.977	0.35797	0.779	0.56132	0.882	0.91293	0.992
12p loss	4 (5%)	83	0.25991	0.704	0.069359	0.502	0.1353	0.547	0.17838	0.603	0.47496	0.839	0.46478	0.831	0.28743	0.736	0.81595	0.972	0.46348	0.831	0.59815	0.905
13q loss	33 (38%)	54	0.10506	0.535	0.73592	0.948	0.70158	0.929	0.11164	0.535	0.16672	0.584	0.66496	0.925	0.75247	0.948	0.18887	0.621	0.02078	0.302	0.46659	0.831
14q loss	35 (40%)	52	0.00055999	0.0296	0.3598	0.779	0.77702	0.953	0.42632	0.811	0.00026	0.0197	9.9999e-06	0.00247	0.04883	0.441	0.00059999	0.0296	0.01415	0.229	0.00167	0.0727
15q loss	11 (13%)	76	0.1153	0.535	0.76051	0.951	0.31349	0.764	0.50071	0.852	0.27454	0.715	0.30033	0.75	0.32893	0.767	0.30382	0.752	0.74592	0.948	0.40582	0.799
16p loss	7 (8%)	80	0.0099399	0.189	0.19205	0.628	0.96501	1	0.32969	0.767	0.53151	0.865	0.34663	0.772	0.41544	0.807	0.36397	0.782	1	1	1	1
16q loss	10 (11%)	77	0.0495	0.441	0.90532	0.991	0.95462	1	0.88349	0.985	0.21903	0.662	0.45188	0.826	0.69335	0.925	0.12605	0.547	1	1	0.87943	0.985
17p loss	23 (26%)	64	0.34995	0.773	0.38052	0.793	0.19813	0.64	0.02987	0.342	0.7656	0.953	0.62664	0.921	0.15273	0.565	0.14023	0.549	0.51256	0.86	0.2616	0.704
17q loss	7 (8%)	80	0.55692	0.881	0.1555	0.565	0.44836	0.823	0.078249	0.51	0.67005	0.925	0.72758	0.947	0.24552	0.697	0.53248	0.865	0.42064	0.807	0.21378	0.652
18p loss	9 (10%)	78	0.13915	0.549	0.78111	0.953	0.085829	0.521	0.54011	0.865	0.67744	0.925	0.69301	0.925	0.33115	0.768	0.75618	0.948	0.40028	0.799	0.68564	0.925
18q loss	14 (16%)	73	0.40274	0.799	0.68533	0.925	0.45315	0.826	0.40624	0.799	0.84772	0.977	0.86421	0.984	0.12251	0.543	0.093539	0.529	0.34048	0.772	0.17856	0.603
19p loss	4 (5%)	83	0.68495	0.925	0.20084	0.641	1	1	0.096229	0.529	0.55566	0.881	0.46492	0.831	1	1	0.34907	0.773	0.20904	0.644	0.37092	0.787
19q loss	7 (8%)	80	0.55818	0.881	0.051029	0.45	0.85025	0.977	0.02161	0.303	1	1	0.93336	0.997	0.78796	0.953	0.79002	0.954	0.31203	0.764	0.82244	0.972
20p loss	14 (16%)	73	0.02456	0.309	0.10925	0.535	0.04435	0.421	0.77071	0.953	0.14246	0.549	0.58854	0.898	0.3437	0.772	0.72342	0.944	0.5697	0.888	0.12662	0.547
20q loss	3 (3%)	84	0.24024	0.689	0.33963	0.772	0.04255	0.414	0.42079	0.807	0.78812	0.953	0.20546	0.641	0.2572	0.704	0.01822	0.275	1	1	0.44344	0.822
21q loss	11 (13%)	76	0.10804	0.535	0.01288	0.222	0.39477	0.794	0.77998	0.953	0.22198	0.665	0.080259	0.512	0.65497	0.925	0.29467	0.749	0.84584	0.977	0.82418	0.972
22q loss	67 (77%)	20	0.0053899	0.125	3e-05	0.00555	0.8207	0.972	0.97286	1	0.055499	0.478	0.0045	0.111	1	1	0.64056	0.921	0.13108	0.547	0.83229	0.976
xp loss	27 (31%)	60	0.0052699	0.125	0.00013	0.012	0.068339	0.501	0.12999	0.547	0.068209	0.501	0.0072399	0.153	0.091659	0.529	0.41785	0.807	0.074119	0.505	0.30484	0.752
xq loss	28 (32%)	59	0.00196	0.0763	0.00012	0.012	0.13358	0.547	0.40542	0.799	0.085929	0.521	0.003	0.101	0.15451	0.565	0.41024	0.801	0.067919	0.501	0.31272	0.764
