		Clinical Features	MRNA_CNMF		MRNA_CHIERARCHICAL		MIR_CNMF		MIR_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		MRNASEQ_CNMF		MRNASEQ_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
amp_1p36.21	92 (16%)	479	0.58925	1	0.5715	1	0.40255	1	0.062839	1	1.3791e-09	9.45e-07	0.61188	1	0.026639	1	0.052563	1	0.011223	1	0.015193	1
amp_1q32.1	159 (28%)	412	0.8146	1	0.47908	1	0.33434	1	0.1622	1	4.0277e-09	2.74e-06	0.77757	1	0.90948	1	0.37342	1	0.53979	1	0.1233	1
amp_1q44	99 (17%)	472	0.14306	1	0.57699	1	0.59883	1	0.42591	1	4.1158e-11	2.84e-08	0.51702	1	0.31848	1	0.12418	1	0.93457	1	0.43307	1
amp_2p24.3	49 (9%)	522	0.10107	1	0.065137	1	0.42923	1	0.606	1	0.0012576	0.727	0.14837	1	0.42015	1	0.20616	1	0.88404	1	0.63204	1
amp_3q26.33	111 (19%)	460	0.0079391	1	0.035879	1	0.44511	1	0.10485	1	7.037e-10	4.83e-07	0.00094989	0.553	0.088712	1	0.30145	1	0.28598	1	0.56245	1
amp_4p16.3	48 (8%)	523	0.30922	1	0.1978	1	0.85112	1	0.35346	1	0.3017	1	0.53065	1	0.70905	1	0.2214	1	1	1	0.73408	1
amp_4q12	107 (19%)	464	0.00070719	0.415	2.8147e-05	0.0177	0.53453	1	0.02687	1	1.6534e-07	0.00011	0.44578	1	0.4646	1	0.32227	1	0.1594	1	0.40805	1
amp_7p11.2	502 (88%)	69	1.1399e-10	7.85e-08	1.9027e-09	1.3e-06	3.7942e-06	0.00247	2.8413e-10	1.95e-07	3.027e-21	2.13e-18	4.7315e-08	3.2e-05	1.7678e-05	0.0112	7.5706e-05	0.0469	1.3809e-05	0.00884	0.000346	0.208
amp_7q11.21	459 (80%)	112	1.6273e-05	0.0104	4.9694e-06	0.00323	3.2987e-05	0.0206	7.9339e-05	0.049	3.0182e-08	2.04e-05	0.0013549	0.779	0.0045328	1	0.32227	1	0.00403	1	0.0016671	0.954
amp_7q21.2	475 (83%)	96	2.9242e-05	0.0183	0.00032451	0.195	0.050658	1	0.0010635	0.618	4.8525e-08	3.28e-05	0.00044056	0.263	0.018987	1	0.091217	1	0.065335	1	0.0045782	1
amp_7q31.2	468 (82%)	103	0.001998	1	0.00043536	0.26	0.01086	1	0.032841	1	5.157e-05	0.032	0.00044056	0.263	0.1106	1	0.13609	1	0.40145	1	0.0058777	1
amp_8q24.21	70 (12%)	501	2.3915e-07	0.000159	0.00014149	0.0865	0.026293	1	0.0045263	1	2.3229e-07	0.000154	0.039217	1	0.33573	1	0.0087026	1	0.08876	1	0.13995	1
amp_11p13	31 (5%)	540	0.77087	1	1	1	0.55067	1	0.89156	1	0.3851	1	0.55135	1	0.71382	1	0.51996	1	1	1	0.89274	1
amp_12p13.32	82 (14%)	489	0.66481	1	0.80884	1	0.34402	1	0.88514	1	3.0533e-05	0.0191	0.14011	1	0.38679	1	0.55602	1	0.3045	1	0.27275	1
amp_12q14.1	133 (23%)	438	0.067764	1	0.11428	1	0.098105	1	0.11208	1	6.5569e-08	4.41e-05	0.65938	1	0.093369	1	0.34547	1	0.042393	1	0.10001	1
amp_12q15	92 (16%)	479	0.72725	1	0.63255	1	0.70446	1	0.81334	1	4.2679e-07	0.000282	0.61332	1	0.2961	1	0.63314	1	0.31242	1	0.69368	1
amp_13q34	32 (6%)	539	0.26171	1	0.52179	1	0.031072	1	0.37619	1	0.056831	1	0.77567	1	0.020537	1	0.088899	1	0.48971	1	0.81656	1
amp_13q34	30 (5%)	541	0.14265	1	0.71617	1	0.21553	1	0.57981	1	0.11616	1	0.77567	1	0.053838	1	0.11634	1	0.36772	1	0.64785	1
amp_14q32.33	36 (6%)	535	0.19036	1	0.49191	1	0.090546	1	1	1	0.82377	1	0.2891	1	0.02495	1	0.13784	1	0.038374	1	0.81656	1
amp_17p13.2	51 (9%)	520	0.00069736	0.41	0.0063725	1	0.049093	1	0.10662	1	0.000885	0.517	0.073283	1	0.12983	1	0.5504	1	0.40537	1	0.49576	1
amp_17q25.1	84 (15%)	487	0.014244	1	0.23812	1	0.28144	1	0.60881	1	0.00010546	0.0649	0.87318	1	0.13966	1	0.27371	1	0.83281	1	0.71124	1
amp_19p13.3	242 (42%)	329	3.5514e-09	2.42e-06	3.3534e-06	0.00219	0.037692	1	0.00010738	0.0659	1.9975e-24	1.41e-21	0.0005826	0.345	0.0096727	1	1.1429e-05	0.00734	0.80954	1	0.051044	1
amp_19p13.2	247 (43%)	324	3.0707e-12	2.13e-09	2.9689e-06	0.00194	0.14798	1	0.00024083	0.145	2.0462e-25	1.45e-22	0.00067285	0.397	0.013055	1	2.6077e-05	0.0165	0.16889	1	0.020341	1
amp_19q12	213 (37%)	358	9.6892e-11	6.69e-08	2.5832e-08	1.75e-05	0.28399	1	0.0019236	1	1.2914e-19	9.05e-17	0.053297	1	0.0091569	1	0.0001306	0.0799	0.066555	1	0.014261	1
amp_21q21.1	69 (12%)	502	0.0054126	1	0.0099792	1	0.01813	1	0.014163	1	0.00041232	0.247	0.673	1	0.66204	1	0.80698	1	0.084582	1	0.060009	1
del_1p36.32	100 (18%)	471	0.91226	1	0.067259	1	0.58251	1	0.14076	1	0.3499	1	0.35118	1	0.59918	1	0.42058	1	0.25014	1	0.046237	1
del_1p36.23	136 (24%)	435	0.070211	1	0.062768	1	0.55791	1	0.50081	1	3.1537e-05	0.0197	0.45236	1	0.27842	1	0.61619	1	0.017437	1	0.10672	1
del_1p32.3	61 (11%)	510	0.24284	1	0.5979	1	0.81708	1	0.17369	1	0.38881	1	0.16745	1	0.70905	1	0.62903	1	0.79033	1	0.16488	1
del_1p22.1	48 (8%)	523	0.96964	1	0.85165	1	0.798	1	0.08422	1	0.13633	1	0.49491	1	0.86522	1	0.33674	1	1	1	0.014951	1
del_1q42.11	51 (9%)	520	0.21892	1	0.78476	1	0.51098	1	0.57041	1	0.66222	1	0.026006	1	0.13998	1	0.014387	1	0.68571	1	0.66392	1
del_1q44	35 (6%)	536	0.78827	1	0.57939	1	0.73406	1	0.48007	1	0.25086	1	0.01893	1	0.66199	1	0.63481	1	0.53861	1	0.90362	1
del_2q22.1	45 (8%)	526	0.0060766	1	0.053969	1	0.38892	1	0.076297	1	5.2825e-06	0.00341	0.048553	1	0.47773	1	0.85985	1	0.18131	1	0.19667	1
del_2q37.1	54 (9%)	517	0.10239	1	0.036677	1	0.31592	1	0.071774	1	0.047136	1	0.085272	1	0.78353	1	0.74093	1	0.18131	1	0.68736	1
del_3p21.1	52 (9%)	519	0.24573	1	0.505	1	0.67075	1	0.97246	1	0.00081163	0.476	0.10007	1	0.13736	1	0.79386	1	0.46101	1	0.088954	1
del_3q13.31	58 (10%)	513	0.51028	1	0.86434	1	0.68934	1	0.93706	1	2.7615e-05	0.0174	0.20672	1	0.96833	1	0.87787	1	1	1	0.054664	1
del_3q22.1	58 (10%)	513	0.78385	1	0.23296	1	0.94419	1	0.82181	1	0.00067966	0.4	0.27242	1	0.96429	1	0.80821	1	1	1	0.103	1
del_3q29	65 (11%)	506	0.092341	1	0.22493	1	0.53476	1	0.62253	1	0.044879	1	0.60055	1	0.44607	1	0.52358	1	0.92808	1	0.75587	1
del_4p16.3	77 (13%)	494	0.048593	1	0.0059146	1	0.32637	1	0.4998	1	0.006618	1	0.92322	1	0.8189	1	0.69221	1	0.84853	1	0.81928	1
del_4q34.3	91 (16%)	480	0.0057388	1	0.0063958	1	0.075052	1	0.12652	1	1.1403e-06	0.000749	0.0013453	0.775	0.0988	1	0.28252	1	0.11833	1	0.94416	1
del_5q35.3	53 (9%)	518	2.5216e-05	0.016	0.0020292	1	0.00034023	0.204	0.0024981	1	7.0885e-06	0.00457	0.005376	1	0.84022	1	0.38811	1	0.20816	1	0.79885	1
del_6q22.31	157 (27%)	414	0.63121	1	0.78076	1	0.29532	1	0.14201	1	5.5166e-08	3.72e-05	0.28898	1	0.34486	1	0.10164	1	0.77635	1	0.4079	1
del_6q26	178 (31%)	393	0.73929	1	0.064077	1	0.47623	1	0.15745	1	0.00021538	0.13	0.55664	1	0.035348	1	0.0075376	1	0.7637	1	0.29571	1
del_8p23.2	65 (11%)	506	0.37675	1	0.45976	1	0.18026	1	0.80034	1	0.12196	1	1	1	0.94352	1	0.83449	1	0.72143	1	0.38433	1
del_9p21.3	416 (73%)	155	5.8022e-06	0.00374	1.1194e-07	7.5e-05	0.69418	1	0.0041602	1	4.1955e-13	2.92e-10	0.082306	1	0.13735	1	0.008538	1	0.029289	1	0.0032295	1
del_9q34.2	78 (14%)	493	0.21501	1	0.062427	1	0.51648	1	0.14613	1	0.33826	1	0.12671	1	0.22241	1	0.14221	1	0.43629	1	0.059279	1
del_10p15.3	465 (81%)	106	4.3155e-06	0.00281	0.00015176	0.0926	0.0087277	1	2.5886e-05	0.0164	2.3382e-20	1.64e-17	0.094587	1	0.0057106	1	0.02752	1	0.014567	1	0.41138	1
del_10p13	466 (82%)	105	6.7596e-07	0.000446	1.5072e-05	0.00963	0.0025666	1	5.1353e-06	0.00332	5.6146e-22	3.96e-19	0.048875	1	0.0001598	0.0973	0.0044418	1	0.082932	1	0.41138	1
del_10p11.23	471 (82%)	100	1.1415e-09	7.83e-07	1.9034e-07	0.000127	0.00010446	0.0643	1.1613e-06	0.000762	4.0133e-25	2.84e-22	0.02006	1	0.00092362	0.538	0.017708	1	0.046676	1	0.074037	1
del_10q23.31	508 (89%)	63	1.2531e-06	0.000821	3.9326e-05	0.0245	0.012514	1	0.00028706	0.173	1.8119e-18	1.27e-15	0.13263	1	0.011823	1	0.13269	1	0.3692	1	0.16075	1
del_10q26.3	509 (89%)	62	3.2126e-07	0.000213	5.0588e-06	0.00328	0.043315	1	0.0034712	1	1.1282e-15	7.89e-13	0.0073337	1	0.12222	1	0.074381	1	0.25023	1	0.37402	1
del_11p15.5	127 (22%)	444	2.1891e-09	1.5e-06	2.0109e-07	0.000134	0.16225	1	0.00035441	0.212	3.4883e-14	2.43e-11	0.011209	1	0.1669	1	0.096178	1	0.0028735	1	0.12834	1
del_11p11.2	103 (18%)	468	1.1069e-07	7.43e-05	0.00017684	0.108	0.50001	1	0.0088137	1	4.4251e-12	3.07e-09	0.05298	1	0.91019	1	0.56762	1	0.093456	1	0.46635	1
del_11q14.1	95 (17%)	476	7.9726e-07	0.000525	0.015119	1	0.87256	1	0.096118	1	1.1617e-15	8.11e-13	0.41081	1	0.73515	1	0.49818	1	0.11895	1	0.58371	1
del_12p13.1	72 (13%)	499	0.050929	1	0.0046778	1	0.25393	1	0.17543	1	0.063406	1	0.51702	1	0.66453	1	0.4783	1	1	1	0.61087	1
del_12q12	76 (13%)	495	0.013875	1	0.00062129	0.367	0.26657	1	0.097857	1	9.1501e-05	0.0565	0.071383	1	0.099884	1	0.4167	1	1	1	0.62588	1
del_12q15	77 (13%)	494	0.00018677	0.113	6.1251e-05	0.038	0.48489	1	0.28531	1	1.4444e-06	0.000945	0.018179	1	0.55351	1	0.50916	1	0.72838	1	0.61196	1
del_13q14.2	237 (42%)	334	1.5998e-07	0.000107	3.8243e-05	0.0238	0.35065	1	0.036605	1	4.7879e-23	3.38e-20	0.0046804	1	0.85317	1	0.12567	1	0.080946	1	0.2796	1
del_14q13.1	176 (31%)	395	1.2949e-05	0.0083	0.010435	1	0.61097	1	0.54801	1	8.7998e-21	6.19e-18	0.3121	1	0.61619	1	0.27253	1	0.42926	1	0.50958	1
del_14q24.2	172 (30%)	399	1.2928e-07	8.65e-05	0.00057738	0.342	0.057782	1	0.54398	1	1.0502e-27	7.46e-25	0.044832	1	0.54102	1	0.1763	1	0.087641	1	0.051525	1
del_15q14	150 (26%)	421	2.2651e-05	0.0144	6.607e-08	4.44e-05	0.001241	0.72	0.00011581	0.071	7.9057e-07	0.000521	0.0012446	0.721	0.058365	1	0.010768	1	0.00083256	0.487	0.055136	1
del_16p12.2	92 (16%)	479	0.40201	1	0.4993	1	0.28429	1	0.90638	1	0.21588	1	0.14281	1	0.40429	1	0.53662	1	0.43109	1	0.41583	1
del_16q23.3	97 (17%)	474	0.022378	1	0.56476	1	0.86228	1	0.8167	1	0.0059695	1	0.53667	1	0.03876	1	0.084752	1	0.51342	1	0.47385	1
del_17p13.2	86 (15%)	485	0.0031774	1	0.7057	1	0.94345	1	0.1807	1	1.4738e-08	1e-05	0.029929	1	0.62382	1	0.45461	1	0.5461	1	0.26619	1
del_17p13.1	95 (17%)	476	0.00045571	0.271	0.33602	1	0.68337	1	0.2506	1	7.7921e-13	5.42e-10	0.0024528	1	0.68922	1	0.44441	1	0.61445	1	0.28234	1
del_17q11.2	71 (12%)	500	8.5121e-06	0.00547	0.00136	0.781	0.0025736	1	0.10114	1	1.6036e-05	0.0102	0.33925	1	0.0068233	1	0.0051011	1	0.52024	1	0.10495	1
del_18q22.3	81 (14%)	490	0.12722	1	0.031161	1	0.77908	1	0.067451	1	2.1958e-05	0.0139	0.040275	1	0.011227	1	0.0012761	0.736	0.19472	1	0.53956	1
del_19q13.41	99 (17%)	472	0.0033052	1	0.00021108	0.128	0.040706	1	0.019443	1	0.0017094	0.976	0.17603	1	0.055213	1	0.5079	1	0.035216	1	0.1392	1
del_21q22.11	46 (8%)	525	0.0015848	0.908	0.0035134	1	0.0058094	1	0.11106	1	0.0020462	1	0.34239	1	0.15428	1	0.35976	1	0.68124	1	0.15989	1
del_22q13.32	211 (37%)	360	0.7142	1	0.22354	1	0.039622	1	0.32592	1	2.6713e-05	0.0168	0.196	1	0.78406	1	0.91653	1	0.051087	1	0.95441	1
del_xp22.2	116 (20%)	455	0.0059225	1	0.029491	1	0.11293	1	0.32342	1	3.0128e-08	2.04e-05	0.013805	1	0.67778	1	0.16935	1	0.28019	1	0.75457	1
del_xq23	107 (19%)	464	0.019251	1	0.022348	1	0.098745	1	0.23681	1	3.3693e-11	2.33e-08	0.041731	1	0.90872	1	0.58186	1	0.16147	1	0.54883	1
