		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	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	46 (8%)	543	0.24048	1	0.40761	1	0.0074223	1	0.47524	1	0.0053473	1	0.09229	1	0.98888	1	0.28255	1	0.30545	1	0.55162	1	0.036707	1	0.56053	1
1q gain	113 (19%)	476	0.7587	1	0.90665	1	0.005774	1	0.33632	1	0.12604	1	0.13115	1	0.79587	1	0.11002	1	0.17124	1	0.066956	1	0.015153	1	0.72526	1
2p gain	114 (19%)	475	0.041423	1	0.005163	1	0.00027062	0.223	0.006087	1	0.61735	1	0.33039	1	2.171e-06	0.0019	0.001195	0.944	0.044918	1	0.0091987	1	0.24264	1	0.00078563	0.626
2q gain	112 (19%)	477	0.027306	1	0.0018266	1	6.3189e-06	0.00548	0.0015665	1	0.64465	1	0.56966	1	0.00025186	0.208	0.0012149	0.957	0.1114	1	0.042873	1	0.41892	1	0.042105	1
3p gain	68 (12%)	521	0.014939	1	0.54055	1	1.9102e-05	0.0164	0.14905	1	0.1268	1	0.23352	1	0.3945	1	0.16606	1	0.14761	1	0.23122	1	0.06003	1	0.55638	1
3q gain	94 (16%)	495	0.036045	1	0.039924	1	6.0974e-10	5.51e-07	0.0077158	1	0.12491	1	0.20701	1	0.018475	1	0.010554	1	0.044201	1	0.42389	1	0.0048624	1	0.74549	1
4p gain	17 (3%)	572	0.81462	1	0.46238	1	0.0046022	1	0.26878	1	0.1541	1	0.20676	1	0.075098	1	0.4563	1	0.55661	1	1	1	0.25691	1	0.09313	1
4q gain	19 (3%)	570	0.22764	1	0.25959	1	0.052058	1	0.79346	1	0.11399	1	0.43884	1	0.13668	1	0.025681	1	0.32773	1	0.084118	1	0.05548	1	0.77137	1
5p gain	98 (17%)	491	0.49441	1	0.72949	1	0.00094642	0.751	0.85615	1	0.19792	1	0.88472	1	0.01507	1	0.0099944	1	0.80177	1	0.89014	1	0.015274	1	0.95755	1
5q gain	62 (11%)	527	0.75836	1	0.90115	1	0.0022064	1	0.7552	1	0.71323	1	0.79154	1	0.23395	1	0.10475	1	0.73253	1	0.28756	1	0.28612	1	0.44025	1
6p gain	119 (20%)	470	0.015059	1	0.0033683	1	3.141e-09	2.82e-06	0.22534	1	0.85065	1	0.74025	1	0.093643	1	0.01317	1	0.45145	1	0.8922	1	0.013502	1	0.3174	1
6q gain	106 (18%)	483	0.16276	1	0.045263	1	7.5961e-10	6.85e-07	0.243	1	0.822	1	0.24976	1	0.14605	1	0.052003	1	0.35185	1	0.44453	1	0.0026724	1	0.20734	1
7p gain	334 (57%)	255	0.00046068	0.374	0.00033861	0.277	3.2833e-21	3.05e-18	4.7496e-06	0.00414	0.009025	1	0.030065	1	1.6325e-08	1.46e-05	3.3573e-09	3.01e-06	0.0058437	1	0.0043971	1	7.2913e-06	0.00631	0.53211	1
7q gain	298 (51%)	291	0.00015805	0.132	0.0016669	1	2.0285e-13	1.86e-10	0.00025039	0.207	0.13355	1	0.10628	1	1.6248e-07	0.000145	3.471e-07	0.000307	0.013238	1	0.043049	1	4.6923e-05	0.0399	0.22709	1
8p gain	163 (28%)	426	0.91468	1	0.43181	1	8.5816e-08	7.68e-05	0.89914	1	0.44452	1	0.022446	1	0.0013276	1	0.0024394	1	0.23121	1	0.15173	1	0.76497	1	0.17716	1
8q gain	303 (51%)	286	0.34689	1	0.011443	1	4.7025e-39	4.41e-36	0.021176	1	0.0885	1	0.12544	1	2.4191e-05	0.0208	1.1053e-05	0.00953	0.3568	1	0.36894	1	0.061456	1	0.27519	1
9p gain	116 (20%)	473	0.53714	1	0.79299	1	0.41201	1	0.5322	1	0.12763	1	0.41733	1	0.82591	1	0.21593	1	0.97693	1	0.62098	1	0.082945	1	0.6831	1
9q gain	98 (17%)	491	0.64167	1	0.37485	1	0.71477	1	0.80341	1	0.091975	1	0.24353	1	0.93519	1	0.76969	1	0.55935	1	0.94138	1	0.7152	1	0.90328	1
10p gain	44 (7%)	545	0.10926	1	0.56883	1	0.10655	1	0.89198	1	0.10916	1	0.13667	1	0.55403	1	0.26258	1	0.48765	1	0.14825	1	0.041226	1	0.42185	1
10q gain	24 (4%)	565	0.91122	1	0.4311	1	0.75967	1	0.12251	1	0.16938	1	0.46482	1	0.99014	1	0.91528	1	0.49063	1	0.68427	1	0.12602	1	0.81223	1
11p gain	80 (14%)	509	0.013124	1	0.03059	1	1.2023e-07	0.000107	0.00010305	0.0864	0.66089	1	0.59085	1	0.00077054	0.615	0.00027616	0.227	0.283	1	0.092212	1	0.0082716	1	0.67236	1
11q gain	73 (12%)	516	0.017275	1	0.010779	1	1.66e-07	0.000148	8.0135e-05	0.0676	0.19428	1	0.59583	1	1.0178e-06	0.000896	3.2586e-06	0.00284	0.29742	1	0.067559	1	0.0001277	0.107	0.23656	1
12p gain	123 (21%)	466	0.35104	1	0.71686	1	0.03529	1	0.0051821	1	0.52921	1	0.81694	1	0.83527	1	0.74221	1	0.50628	1	0.54832	1	0.19191	1	0.58095	1
12q gain	107 (18%)	482	0.24943	1	0.77616	1	0.024253	1	0.003087	1	0.57186	1	0.77509	1	0.49192	1	0.4987	1	0.33845	1	0.27927	1	0.073592	1	0.13489	1
13q gain	354 (60%)	235	4.1087e-07	0.000363	5.3813e-05	0.0456	2.9839e-35	2.8e-32	1.7807e-07	0.000158	0.24329	1	0.42157	1	1.2604e-07	0.000112	5.8117e-07	0.000512	0.00063131	0.506	0.34974	1	3.1882e-07	0.000282	0.047728	1
14q gain	42 (7%)	547	0.73514	1	0.35174	1	0.31776	1	0.85144	1	0.78023	1	0.88516	1	0.38004	1	0.82113	1	0.86715	1	0.61974	1	0.58519	1	0.79979	1
15q gain	14 (2%)	575	0.29716	1	0.28202	1	0.042499	1	0.71421	1	0.17348	1	0.27174	1	0.93406	1	1	1	1	1	0.76198	1	0.71493	1	0.42444	1
16p gain	141 (24%)	448	0.011838	1	0.037312	1	8.6052e-20	7.98e-17	0.013968	1	0.16496	1	0.21803	1	5.5413e-05	0.0469	3.3554e-05	0.0287	0.47157	1	0.95823	1	0.015656	1	0.20784	1
16q gain	138 (23%)	451	0.0085513	1	0.013895	1	6.5492e-21	6.08e-18	0.025842	1	0.23207	1	0.20277	1	0.00018563	0.154	1.6977e-05	0.0146	0.7916	1	0.84258	1	0.0028079	1	0.072219	1
17p gain	35 (6%)	554	0.44149	1	0.027856	1	0.63934	1	1	1	0.19978	1	0.94963	1	0.28522	1	0.45696	1	0.16141	1	0.79963	1	0.58603	1	0.51895	1
17q gain	106 (18%)	483	0.011996	1	0.012137	1	9.1945e-05	0.0775	0.0060374	1	0.27536	1	0.26579	1	5.6865e-06	0.00494	0.007229	1	0.0023926	1	0.094835	1	0.39347	1	0.52134	1
18p gain	30 (5%)	559	0.30855	1	0.10087	1	0.0082763	1	0.00026766	0.221	0.60184	1	0.68387	1	0.081913	1	0.019516	1	0.60525	1	0.14619	1	0.11989	1	0.74827	1
18q gain	19 (3%)	570	0.044864	1	0.023098	1	0.069822	1	0.00060924	0.489	0.67272	1	0.36383	1	0.019469	1	0.069445	1	0.23903	1	0.15362	1	0.042166	1	0.90369	1
19p gain	99 (17%)	490	0.41647	1	0.32944	1	3.206e-06	0.0028	0.047994	1	0.1604	1	0.19184	1	0.26594	1	0.094881	1	0.07924	1	0.31757	1	0.074635	1	0.1231	1
19q gain	107 (18%)	482	0.077843	1	0.034498	1	6.6552e-05	0.0562	0.083222	1	0.03203	1	0.28105	1	0.56538	1	0.23692	1	0.29927	1	0.75279	1	0.10025	1	0.078013	1
20p gain	338 (57%)	251	0.0002405	0.199	1.7429e-06	0.00153	5.1105e-10	4.62e-07	0.00027201	0.224	0.018701	1	0.16289	1	0.00010816	0.0905	0.00059661	0.48	0.34273	1	0.60892	1	0.00065606	0.526	0.75929	1
20q gain	446 (76%)	143	1.2527e-13	1.15e-10	5.159e-13	4.71e-10	1.044e-33	9.77e-31	1.0478e-17	9.67e-15	0.0052665	1	0.012784	1	1.4524e-18	1.34e-15	3.412e-14	3.13e-11	0.020272	1	0.1513	1	4.7978e-12	4.37e-09	0.00047566	0.386
21q gain	31 (5%)	558	0.31161	1	0.57994	1	0.042641	1	0.62687	1	0.48693	1	0.31818	1	0.81416	1	0.35113	1	0.41695	1	0.51259	1	0.25253	1	0.86135	1
22q gain	22 (4%)	567	0.11691	1	0.32339	1	0.051264	1	0.41867	1	0.84305	1	0.45925	1	0.17082	1	0.19769	1	0.66855	1	0.30206	1	0.13031	1	0.95612	1
xq gain	101 (17%)	488	0.25826	1	0.60489	1	0.00018572	0.154	0.19732	1	0.10967	1	0.042472	1	0.47467	1	0.16854	1	0.35144	1	0.96222	1	0.69627	1	0.45734	1
1p loss	130 (22%)	459	0.066725	1	0.036989	1	1.9218e-07	0.000171	0.00057925	0.467	0.98364	1	0.60943	1	0.0037351	1	2.1478e-05	0.0184	0.28624	1	0.11511	1	0.044948	1	0.026429	1
1q loss	73 (12%)	516	0.23595	1	0.054492	1	9.6918e-06	0.00837	0.31196	1	0.85991	1	0.73533	1	0.00027602	0.227	0.0015024	1	0.7461	1	0.029614	1	0.13306	1	0.0073048	1
2p loss	17 (3%)	572	1	1	0.85829	1	0.0016008	1	0.045157	1	0.34711	1	1	1	0.21322	1	0.064196	1	0.096144	1	0.11261	1	0.74121	1	0.7046	1
2q loss	13 (2%)	576	0.80524	1	0.41119	1	0.030534	1	0.26277	1	0.53458	1	0.66563	1	0.41333	1	0.042945	1	0.16001	1	0.049563	1	0.19737	1	0.68605	1
3p loss	65 (11%)	524	0.34946	1	0.62337	1	0.53624	1	0.39256	1	0.53417	1	0.75729	1	0.76991	1	0.30998	1	0.7605	1	0.10732	1	0.060853	1	0.16678	1
3q loss	42 (7%)	547	0.24561	1	0.029158	1	0.45726	1	0.1914	1	0.32385	1	0.83552	1	0.71194	1	0.50877	1	0.5814	1	0.11746	1	0.33717	1	0.38029	1
4p loss	185 (31%)	404	0.02913	1	0.13668	1	4.229e-12	3.85e-09	0.00093269	0.741	0.4752	1	0.81914	1	0.00028949	0.237	2.7132e-05	0.0233	0.080997	1	0.082261	1	6.2816e-05	0.0531	0.15137	1
4q loss	178 (30%)	411	0.042373	1	0.15915	1	1.2145e-14	1.12e-11	5.4567e-06	0.00475	0.75577	1	0.5067	1	0.0005695	0.46	0.00010051	0.0844	0.10437	1	0.053148	1	0.0010358	0.82	0.010679	1
5p loss	80 (14%)	509	0.37111	1	0.91249	1	0.00054082	0.438	0.018453	1	0.68463	1	0.10753	1	0.788	1	0.070446	1	1	1	0.44514	1	0.10894	1	0.013983	1
5q loss	113 (19%)	476	0.0093405	1	0.11021	1	1.9633e-06	0.00172	0.031843	1	0.1132	1	0.60847	1	0.024447	1	0.00071064	0.568	0.62294	1	0.11563	1	0.00055911	0.452	0.020957	1
6p loss	45 (8%)	544	0.54892	1	0.36977	1	0.16088	1	0.8537	1	0.072745	1	0.2054	1	0.90337	1	0.2792	1	0.46672	1	0.55162	1	0.068306	1	0.071587	1
6q loss	67 (11%)	522	0.43263	1	0.23862	1	0.10104	1	0.51127	1	0.22991	1	0.20829	1	0.28221	1	0.25473	1	0.512	1	0.252	1	0.78488	1	0.5559	1
7q loss	4 (1%)	585	NA	NA	NA	NA	0.097955	1	1	1	1	1	0.62605	1	0.57387	1	1	1	1	1	0.52554	1	NA	NA	NA	NA
8p loss	206 (35%)	383	0.0092326	1	0.0074436	1	6.0208e-29	5.63e-26	3.8578e-05	0.0329	0.32768	1	0.0081001	1	0.0032866	1	0.0039646	1	0.54342	1	0.11398	1	0.0010243	0.812	0.038311	1
8q loss	31 (5%)	558	0.6828	1	0.88811	1	0.042698	1	0.63732	1	0.85314	1	0.89494	1	0.37826	1	0.13015	1	0.61735	1	0.68588	1	0.54133	1	0.27293	1
9p loss	71 (12%)	518	0.47593	1	0.26112	1	0.00034373	0.28	0.004475	1	0.83739	1	0.036226	1	0.00037662	0.307	0.006601	1	0.20257	1	0.041058	1	0.001528	1	0.074934	1
9q loss	70 (12%)	519	0.049763	1	0.035581	1	4.7449e-05	0.0403	0.001233	0.969	0.92893	1	0.03213	1	0.00018677	0.155	0.010566	1	0.4665	1	0.022016	1	0.00021189	0.176	0.021792	1
10p loss	96 (16%)	493	0.011786	1	0.10842	1	3.5005e-07	0.000309	0.030935	1	0.018113	1	0.73635	1	0.00049742	0.403	0.001426	1	0.2112	1	0.11998	1	0.020268	1	0.0036791	1
10q loss	104 (18%)	485	0.023525	1	0.29324	1	5.212e-12	4.74e-09	0.010214	1	0.013772	1	0.36713	1	0.00011884	0.0993	4.9251e-05	0.0418	0.68366	1	0.21886	1	0.00043396	0.353	0.00058243	0.469
11p loss	73 (12%)	516	0.94301	1	0.60472	1	0.0574	1	0.097489	1	0.50881	1	0.87144	1	0.90397	1	0.19231	1	0.96497	1	0.33883	1	0.087837	1	0.26016	1
11q loss	89 (15%)	500	0.82945	1	0.90263	1	0.016037	1	0.015598	1	0.9498	1	0.75809	1	0.98947	1	0.65488	1	0.79563	1	0.089433	1	0.14944	1	0.41756	1
12p loss	68 (12%)	521	0.069775	1	0.097003	1	7.7955e-10	7.02e-07	0.15905	1	0.86358	1	0.42418	1	0.079253	1	0.023688	1	0.81771	1	0.91819	1	0.0062379	1	0.11255	1
12q loss	68 (12%)	521	0.12959	1	0.050629	1	1.1212e-09	1.01e-06	0.10881	1	0.62464	1	0.71321	1	0.015392	1	0.0089447	1	0.26753	1	0.60067	1	0.0080598	1	0.075926	1
13q loss	20 (3%)	569	0.29721	1	0.13239	1	0.039125	1	0.39041	1	0.29241	1	0.070624	1	0.73969	1	0.22917	1	0.7416	1	0.6608	1	0.018895	1	0.20385	1
14q loss	193 (33%)	396	0.00026442	0.218	4.4526e-05	0.0379	6.7977e-27	6.35e-24	1.8771e-06	0.00164	0.0025846	1	0.098607	1	7.2619e-11	6.59e-08	3.6011e-05	0.0308	0.13322	1	0.96328	1	1.1967e-07	0.000107	0.11762	1
15q loss	217 (37%)	372	0.00010248	0.086	0.0011656	0.922	1.749e-21	1.63e-18	0.0012245	0.964	0.2369	1	0.37928	1	1.0841e-05	0.00936	4.2118e-07	0.000371	0.82509	1	0.61834	1	6.4843e-06	0.00562	0.23349	1
16p loss	36 (6%)	553	0.10712	1	0.076341	1	0.57536	1	1	1	0.22793	1	0.18423	1	0.70647	1	0.178	1	0.63235	1	0.28129	1	0.8254	1	0.48894	1
16q loss	39 (7%)	550	0.026713	1	0.24208	1	0.039063	1	0.63726	1	0.24851	1	0.26976	1	0.91841	1	0.76259	1	0.56309	1	0.67537	1	1	1	0.95508	1
17p loss	323 (55%)	266	2.7798e-05	0.0238	0.00044806	0.364	3.1325e-26	2.92e-23	2.3731e-08	2.13e-05	0.12235	1	0.11056	1	1.0203e-06	0.000897	2.7161e-07	0.000241	0.035294	1	0.036562	1	1.0579e-06	0.000929	0.27645	1
17q loss	85 (14%)	504	0.9595	1	0.48536	1	0.02425	1	0.3081	1	0.80252	1	0.81027	1	0.79999	1	0.034301	1	0.83456	1	0.46821	1	0.11706	1	0.19014	1
18p loss	362 (61%)	227	1.9112e-12	1.74e-09	3.5402e-10	3.21e-07	1.7086e-39	1.6e-36	2.2366e-22	2.08e-19	0.028551	1	0.01799	1	9.4783e-22	8.82e-19	7.1857e-17	6.63e-14	0.0097903	1	0.48502	1	3.3899e-16	3.12e-13	0.00030672	0.251
18q loss	388 (66%)	201	1.3893e-11	1.26e-08	3.6762e-10	3.33e-07	1.088e-40	1.02e-37	9.3792e-20	8.69e-17	0.049327	1	0.083795	1	3.9644e-18	3.66e-15	1.663e-15	1.53e-12	0.00083374	0.664	0.1282	1	6.0937e-14	5.59e-11	0.0013721	1
19p loss	61 (10%)	528	0.37266	1	0.20154	1	9.6847e-05	0.0814	0.35437	1	0.68944	1	0.77717	1	0.085089	1	0.011998	1	0.15656	1	0.00015589	0.13	0.48673	1	0.013793	1
19q loss	53 (9%)	536	0.65173	1	0.017995	1	0.0012008	0.947	0.70986	1	0.12049	1	0.88066	1	0.13481	1	0.031826	1	0.21586	1	0.0015004	1	0.23593	1	0.077242	1
20p loss	61 (10%)	528	0.1157	1	0.35453	1	0.0050509	1	0.029476	1	0.77676	1	0.7131	1	0.15826	1	0.043342	1	0.73884	1	0.96717	1	0.10561	1	0.039557	1
20q loss	5 (1%)	584	NA	NA	NA	NA	0.87838	1	0.18428	1	0.093893	1	0.6491	1	0.39639	1	0.73222	1	0.82802	1	1	1	NA	NA	NA	NA
21q loss	184 (31%)	405	0.026489	1	0.038986	1	5.9449e-06	0.00516	0.018896	1	0.70392	1	0.090404	1	9.3295e-05	0.0786	0.001461	1	0.1244	1	0.075744	1	0.0027422	1	0.1651	1
22q loss	193 (33%)	396	0.0051952	1	0.0054946	1	4.4667e-13	4.08e-10	0.024187	1	0.77586	1	0.90831	1	0.03142	1	0.01016	1	0.96405	1	0.37968	1	0.00069589	0.557	0.16997	1
xq loss	71 (12%)	518	0.98545	1	0.95618	1	0.053944	1	0.035357	1	0.054814	1	0.24496	1	0.65257	1	0.28016	1	0.055709	1	0.17348	1	0.53812	1	0.1667	1
