		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
amp_1q31.1	145 (24%)	470	0.58471	1	0.54656	1	8.9999e-05	0.0628	0.52441	1	0.36551	1	0.12526	1	0.92598	1	0.3956	1	0.34268	1	0.25694	1	0.38865	1	0.29042	1
amp_2q33.1	141 (23%)	474	0.066979	1	0.00049	0.322	5.9999e-05	0.0425	0.00082999	0.533	0.24167	1	0.65519	1	8.9999e-05	0.0628	0.00013	0.0894	0.054459	1	0.04402	1	0.82785	1	0.79234	1
amp_5p12	119 (19%)	496	0.13175	1	0.02134	1	9.9999e-06	0.00876	0.69719	1	0.00155	0.973	0.13528	1	0.00183	1	3e-05	0.0217	0.9146	1	0.34321	1	0.098659	1	0.18327	1
amp_5q22.3	66 (11%)	549	0.60114	1	0.57512	1	0.00469	1	0.53401	1	0.46714	1	0.30999	1	0.49418	1	0.01127	1	0.62024	1	0.12565	1	0.88905	1	0.10884	1
amp_6p21.1	154 (25%)	461	0.03063	1	0.00015	0.103	9.9999e-06	0.00876	0.19812	1	0.58764	1	0.7317	1	0.067369	1	9.9999e-05	0.0693	0.18257	1	0.70556	1	0.068299	1	0.01548	1
amp_7p21.3	363 (59%)	252	0.00098999	0.633	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.02496	1	0.00248	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.0089899	1	0.16692	1	0.02452	1	0.099779	1
amp_8p11.23	211 (34%)	404	0.39378	1	0.20907	1	9.9999e-06	0.00876	0.36334	1	0.76905	1	0.98835	1	0.01767	1	0.00299	1	0.01282	1	0.082459	1	0.69335	1	0.42118	1
amp_8p11.21	256 (42%)	359	0.17424	1	0.10936	1	9.9999e-06	0.00876	0.22144	1	0.7252	1	0.35646	1	0.01811	1	0.0076899	1	0.079889	1	0.24797	1	0.65022	1	0.77777	1
amp_8q12.1	331 (54%)	284	0.14321	1	0.04313	1	9.9999e-06	0.00876	0.03036	1	0.02886	1	0.02286	1	0.00013	0.0894	3e-05	0.0217	0.11209	1	0.01497	1	0.01637	1	0.2342	1
amp_8q24.21	368 (60%)	247	0.23933	1	0.04923	1	9.9999e-06	0.00876	0.00050999	0.334	0.02556	1	0.04031	1	2e-05	0.0147	9.9999e-06	0.00876	0.14307	1	0.03369	1	0.051939	1	0.51372	1
amp_10q22.3	40 (7%)	575	1	1	0.86093	1	0.16864	1	0.64825	1	0.29626	1	0.6876	1	0.60649	1	0.62477	1	0.43481	1	0.97414	1	0.34798	1	0.48148	1
amp_11p15.5	139 (23%)	476	0.0013	0.823	0.00187	1	0.00014	0.0959	4e-04	0.265	0.03017	1	0.082279	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.42687	1	9.9999e-06	0.00876	0.88921	1	0.52976	1
amp_12p13.32	150 (24%)	465	0.64877	1	0.59426	1	0.03034	1	0.01506	1	0.47622	1	0.30394	1	0.72329	1	0.42761	1	0.71775	1	1	1	0.51326	1	0.17575	1
amp_13q12.13	401 (65%)	214	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01685	1	0.01588	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.00026	0.175	0.48317	1	0.00172	1	0.050679	1
amp_13q12.2	396 (64%)	219	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.02014	1	0.04005	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.00052999	0.346	0.70892	1	0.00331	1	0.04518	1
amp_13q22.1	397 (65%)	218	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.083599	1	0.095989	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.00148	0.934	0.34311	1	0.03951	1	0.17885	1
amp_15q26.1	42 (7%)	573	0.71076	1	0.66299	1	0.092689	1	0.62918	1	0.23711	1	0.46736	1	0.45625	1	0.32725	1	0.71494	1	0.82816	1	0.65505	1	0.74242	1
amp_16p11.2	173 (28%)	442	0.0181	1	0.0021	1	9.9999e-06	0.00876	0.00038	0.253	0.0259	1	0.054279	1	3e-05	0.0217	2e-05	0.0147	0.44801	1	0.71783	1	0.03444	1	0.083409	1
amp_17q12	160 (26%)	455	0.02488	1	0.0073899	1	9.9999e-06	0.00876	0.00024	0.162	0.16039	1	0.087999	1	5e-05	0.0356	8.9999e-05	0.0628	0.0061399	1	0.0223	1	0.37887	1	0.3306	1
amp_17q24.1	144 (23%)	471	0.0090499	1	0.0078699	1	9.9999e-06	0.00876	0.00027	0.181	0.091429	1	0.02421	1	3e-05	0.0217	2e-04	0.136	0.00021	0.143	0.03198	1	0.46638	1	0.24705	1
amp_19p13.2	111 (18%)	504	0.10858	1	0.0078899	1	9.9999e-06	0.00876	0.01059	1	0.45927	1	0.6791	1	0.059009	1	0.00024	0.162	0.11643	1	0.66971	1	0.56427	1	0.078809	1
amp_19q12	139 (23%)	476	0.02886	1	0.00143	0.904	9.9999e-06	0.00876	0.21977	1	0.076249	1	0.43072	1	0.15789	1	0.0061099	1	0.18478	1	0.87727	1	0.46165	1	0.66839	1
amp_20p12.1	278 (45%)	337	0.01756	1	0.0079599	1	9.9999e-06	0.00876	0.16801	1	0.00116	0.738	0.11089	1	0.04176	1	9.9999e-06	0.00876	0.95363	1	0.66918	1	0.16425	1	0.16847	1
amp_20p11.21	363 (59%)	252	0.00012	0.0827	2e-05	0.0147	9.9999e-06	0.00876	2e-05	0.0147	0.0054699	1	0.13856	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.0194	1	0.0078899	1	0.12453	1	0.12758	1
amp_20q11.21	469 (76%)	146	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.0069899	1	0.01338	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01726	1	0.00034	0.227	0.0031	1	0.01688	1
amp_20q12	471 (77%)	144	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01072	1	0.0069699	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.0075699	1	7.9999e-05	0.056	0.00153	0.964	0.02883	1
amp_20q13.31	473 (77%)	142	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01417	1	0.0054699	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01584	1	0.00034	0.227	0.00441	1	0.03319	1
del_1p36.11	244 (40%)	371	0.00011	0.076	0.00053999	0.352	9.9999e-06	0.00876	3e-05	0.0217	0.1103	1	0.10405	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.39951	1	0.01004	1	0.22283	1	0.53736	1
del_1p33	176 (29%)	439	0.02041	1	0.079679	1	9.9999e-06	0.00876	0.00031	0.208	0.82909	1	0.55666	1	8.9999e-05	0.0628	0.00363	1	0.45276	1	0.10726	1	0.7773	1	0.57957	1
del_1p13.2	176 (29%)	439	0.2653	1	0.40104	1	9.9999e-06	0.00876	0.01107	1	0.76337	1	0.83135	1	0.00121	0.768	0.00026	0.175	0.51531	1	0.119	1	0.4936	1	0.22191	1
del_2p12	21 (3%)	594	1	1	0.96224	1	0.00031	0.208	0.0062999	1	0.36709	1	1	1	0.04933	1	0.02107	1	0.0064599	1	0.091389	1	0.12748	1	0.076089	1
del_2q22.1	35 (6%)	580	0.92696	1	0.61009	1	0.099589	1	0.60186	1	0.33982	1	0.35261	1	0.13972	1	0.089659	1	0.57828	1	0.11228	1	0.70606	1	0.6807	1
del_3p26.3	93 (15%)	522	0.36091	1	0.49274	1	0.14157	1	0.8886	1	0.64804	1	0.97853	1	0.17142	1	0.54381	1	0.47512	1	0.5773	1	0.38655	1	0.5789	1
del_3p14.2	119 (19%)	496	0.61998	1	0.46674	1	0.45413	1	0.89989	1	0.4703	1	0.24578	1	0.33856	1	0.33192	1	0.38477	1	0.30867	1	0.99421	1	0.67235	1
del_3q26.31	64 (10%)	551	0.64167	1	0.88294	1	0.38097	1	0.69769	1	0.77041	1	0.55041	1	0.77769	1	0.64686	1	0.72313	1	0.26096	1	0.16074	1	0.92359	1
del_4p16.2	202 (33%)	413	0.054349	1	0.03481	1	9.9999e-06	0.00876	0.00286	1	0.43143	1	0.29349	1	0.0094499	1	8.9999e-05	0.0628	0.37882	1	0.2384	1	0.055389	1	0.92139	1
del_4q22.1	224 (36%)	391	0.01675	1	0.0289	1	9.9999e-06	0.00876	6.9999e-05	0.0495	0.58282	1	0.66959	1	0.00024	0.162	2e-05	0.0147	0.01835	1	0.1302	1	0.03926	1	0.20781	1
del_4q35.1	233 (38%)	382	0.02113	1	0.057419	1	9.9999e-06	0.00876	4e-05	0.0286	0.35018	1	0.76226	1	0.00049	0.322	9.9999e-06	0.00876	0.19447	1	0.4422	1	0.21554	1	0.61326	1
del_5q12.1	158 (26%)	457	0.00049	0.322	2e-04	0.136	9.9999e-06	0.00876	0.00343	1	0.04477	1	0.1712	1	0.0057399	1	5e-05	0.0356	0.7005	1	0.97498	1	0.14823	1	0.6193	1
del_5q21.2	187 (30%)	428	0.054719	1	0.01341	1	9.9999e-06	0.00876	0.062799	1	0.077289	1	0.075969	1	0.20471	1	0.00106	0.676	0.63253	1	0.83578	1	0.15269	1	0.8756	1
del_5q22.2	189 (31%)	426	0.00080999	0.521	0.00072999	0.471	9.9999e-06	0.00876	0.092739	1	0.27306	1	0.37992	1	0.078469	1	0.00022	0.149	0.46873	1	0.35069	1	0.2081	1	0.78385	1
del_6p25.3	80 (13%)	535	0.90763	1	0.34607	1	0.3695	1	0.26061	1	0.03563	1	0.62878	1	0.54758	1	0.75946	1	0.58519	1	0.72393	1	0.62215	1	0.8284	1
del_6q26	92 (15%)	523	0.80116	1	0.85017	1	0.77084	1	0.92104	1	0.04421	1	0.12656	1	0.087899	1	0.085729	1	0.37549	1	0.36028	1	0.21457	1	0.58545	1
del_7q31.1	17 (3%)	598	0.29198	1	0.68741	1	0.63615	1	1	1	0.68614	1	0.21688	1	0.72638	1	0.83323	1	0.10884	1	0.94724	1	0.25294	1	1	1
del_8p23.2	290 (47%)	325	0.00018	0.123	0.00088999	0.57	9.9999e-06	0.00876	9.9999e-06	0.00876	0.1492	1	0.03081	1	2e-05	0.0147	9.9999e-06	0.00876	0.16238	1	0.03087	1	0.004	1	0.51505	1
del_8p22	303 (49%)	312	0.00114	0.726	0.00032	0.214	9.9999e-06	0.00876	9.9999e-06	0.00876	0.14732	1	0.0078699	1	9.9999e-05	0.0693	9.9999e-06	0.00876	0.31691	1	0.061399	1	0.0051799	1	0.61713	1
del_8q11.1	47 (8%)	568	0.58154	1	0.18069	1	2e-05	0.0147	0.39367	1	0.28449	1	0.30356	1	0.32123	1	0.03664	1	0.16477	1	0.093629	1	0.59757	1	0.65198	1
del_9p24.2	84 (14%)	531	0.21803	1	0.29791	1	0.00458	1	0.11174	1	0.59783	1	1	1	0.0096199	1	0.0078299	1	0.2115	1	0.02252	1	0.67941	1	0.56626	1
del_10p15.3	115 (19%)	500	0.15399	1	0.19415	1	9.9999e-06	0.00876	0.00404	1	0.01644	1	0.12437	1	0.00318	1	4e-05	0.0286	0.63682	1	0.49792	1	0.01058	1	0.04381	1
del_10q21.1	139 (23%)	476	0.03267	1	0.11752	1	9.9999e-06	0.00876	0.0141	1	0.04477	1	0.073029	1	3e-05	0.0217	0.00059999	0.389	0.6719	1	0.095629	1	0.35154	1	0.48299	1
del_10q23.31	161 (26%)	454	0.11423	1	0.2413	1	9.9999e-06	0.00876	0.03989	1	0.084719	1	0.30523	1	0.00153	0.964	0.00019	0.13	0.52358	1	0.13449	1	0.12098	1	0.1313	1
del_10q25.2	157 (26%)	458	0.22317	1	0.2991	1	9.9999e-06	0.00876	0.0167	1	0.0060199	1	0.14972	1	0.00044	0.291	9.9999e-06	0.00876	0.99095	1	0.20625	1	0.16641	1	0.36267	1
del_11q22.3	111 (18%)	504	0.38136	1	0.23056	1	0.0069299	1	0.12544	1	0.40805	1	1	1	0.63582	1	0.1145	1	0.81796	1	0.49142	1	0.3697	1	0.37386	1
del_12p13.1	92 (15%)	523	0.00472	1	0.00177	1	9.9999e-06	0.00876	0.04602	1	0.91013	1	0.47321	1	0.02083	1	0.00011	0.076	0.7089	1	0.75678	1	0.02871	1	0.0265	1
del_12q21.33	90 (15%)	525	0.03469	1	0.03433	1	9.9999e-06	0.00876	0.03007	1	0.53858	1	0.89119	1	0.066019	1	0.00319	1	0.83088	1	0.77059	1	0.47684	1	0.19997	1
del_14q11.2	212 (34%)	403	9.9999e-06	0.00876	6.9999e-05	0.0495	9.9999e-06	0.00876	2e-05	0.0147	0.0074899	1	0.14048	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.057599	1	0.12019	1	0.04028	1	0.04379	1
del_14q31.1	218 (35%)	397	0.00055999	0.364	0.00057999	0.376	9.9999e-06	0.00876	4e-05	0.0286	0.00127	0.805	0.14025	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.24252	1	0.10048	1	0.35709	1	0.074219	1
del_15q11.2	253 (41%)	362	0.00054999	0.358	0.00384	1	9.9999e-06	0.00876	0.00025	0.168	0.13225	1	0.36498	1	3e-05	0.0217	9.9999e-06	0.00876	0.43473	1	0.43131	1	0.04527	1	0.066809	1
del_15q15.2	251 (41%)	364	2e-05	0.0147	0.00207	1	9.9999e-06	0.00876	0.00039	0.259	0.094819	1	0.37058	1	3e-05	0.0217	9.9999e-06	0.00876	0.62767	1	0.4157	1	0.056569	1	0.41589	1
del_15q21.1	248 (40%)	367	0.00047	0.31	0.02356	1	9.9999e-06	0.00876	0.00049	0.322	0.095629	1	0.3475	1	6.9999e-05	0.0495	9.9999e-06	0.00876	0.67256	1	0.46644	1	0.066229	1	0.42327	1
del_15q22.33	238 (39%)	377	3e-05	0.0217	0.00092999	0.595	9.9999e-06	0.00876	6.9999e-05	0.0495	0.55502	1	0.32586	1	2e-05	0.0147	9.9999e-06	0.00876	0.78686	1	0.89879	1	0.083529	1	0.14517	1
del_16p13.3	69 (11%)	546	0.092639	1	0.076889	1	0.21989	1	0.38711	1	0.54105	1	0.97137	1	0.52168	1	0.55972	1	0.6703	1	0.13417	1	0.27753	1	0.92899	1
del_16q23.1	84 (14%)	531	0.04468	1	0.00356	1	0.1677	1	0.33284	1	0.25068	1	0.80231	1	0.46644	1	0.04516	1	0.60682	1	0.27314	1	0.93868	1	0.39897	1
del_17p12	370 (60%)	245	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01779	1	0.0069099	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01281	1	0.01199	1	0.03625	1	0.16211	1
del_17q24.3	95 (15%)	520	0.97591	1	0.72875	1	0.0056499	1	1	1	0.90569	1	0.23071	1	0.48135	1	0.14366	1	0.64421	1	0.46808	1	0.30607	1	0.55159	1
del_18p11.31	370 (60%)	245	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.057539	1	0.11592	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.0035	1	0.0070799	1	3e-05	0.0217	0.00041	0.271
del_18q12.2	416 (68%)	199	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.04998	1	0.060529	1	9.9999e-06	0.00876	9.9999e-06	0.00876	0.00073999	0.477	0.0078299	1	9.9999e-06	0.00876	6.9999e-05	0.0495
del_18q21.2	432 (70%)	183	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.01198	1	0.02419	1	9.9999e-06	0.00876	9.9999e-06	0.00876	5.9999e-05	0.0425	0.03093	1	9.9999e-06	0.00876	5e-05	0.0356
del_18q22.1	427 (69%)	188	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	9.9999e-06	0.00876	0.03053	1	0.03775	1	9.9999e-06	0.00876	9.9999e-06	0.00876	6.9999e-05	0.0495	0.088259	1	2e-05	0.0147	0.00066999	0.433
del_19p13.3	97 (16%)	518	0.11827	1	0.46539	1	2e-05	0.0147	0.40363	1	0.88082	1	0.10203	1	0.19784	1	0.02031	1	0.64858	1	0.0050199	1	0.03605	1	0.19132	1
del_20p12.1	135 (22%)	480	0.056309	1	0.00069999	0.452	9.9999e-06	0.00876	9.9999e-06	0.00876	0.60487	1	0.76576	1	7.9999e-05	0.056	9.9999e-06	0.00876	0.03089	1	0.01265	1	0.87077	1	0.12816	1
del_21q11.2	214 (35%)	401	0.0203	1	0.00169	1	9.9999e-06	0.00876	0.02059	1	0.45613	1	0.70779	1	6.9999e-05	0.0495	0.00047	0.31	0.03854	1	0.31709	1	0.66665	1	0.34638	1
del_22q13.32	229 (37%)	386	0.00221	1	0.00013	0.0894	9.9999e-06	0.00876	0.01621	1	0.47565	1	0.54163	1	0.00441	1	9.9999e-06	0.00876	0.89513	1	0.27132	1	0.34744	1	0.47707	1
