		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	142 (24%)	458	0.58347	1	0.55185	1	3e-05	0.0213	0.48686	1	0.36125	1	0.12381	1	0.91324	1	0.15429	1	0.34725	1	0.25376	1	0.0246	1	0.115	1
amp_2q33.1	134 (22%)	466	0.066979	1	0.00042	0.265	9.9999e-06	0.009	0.00128	0.751	0.23789	1	0.65702	1	0.00011	0.0745	5e-05	0.0346	0.055949	1	0.04349	1	0.18217	1	0.00064999	0.4
amp_5p12	112 (19%)	488	0.13071	1	0.02023	1	2e-05	0.0145	0.80755	1	0.00151	0.879	0.13579	1	0.00095999	0.578	0.0097699	1	0.91323	1	0.34261	1	3e-05	0.0213	0.0052899	1
amp_5q22.3	63 (10%)	537	0.60173	1	0.58034	1	0.0053499	1	0.5132	1	0.46538	1	0.30836	1	0.66592	1	0.14383	1	0.61675	1	0.12569	1	0.23582	1	0.076059	1
amp_6p21.1	151 (25%)	449	0.03025	1	0.00017	0.112	9.9999e-06	0.009	0.20881	1	0.58992	1	0.73288	1	0.059739	1	0.00036	0.229	0.18229	1	0.70465	1	0.00254	1	2e-05	0.0145
amp_8p11.23	206 (34%)	394	0.39563	1	0.21005	1	9.9999e-06	0.009	0.3436	1	0.76768	1	0.98743	1	0.00372	1	0.0063699	1	0.0127	1	0.082069	1	0.082569	1	0.058609	1
amp_8p11.21	250 (42%)	350	0.17131	1	0.1099	1	9.9999e-06	0.009	0.20248	1	0.72322	1	0.35778	1	0.01537	1	0.03364	1	0.080529	1	0.24931	1	0.38278	1	0.11707	1
amp_8q12.1	322 (54%)	278	0.14308	1	0.0425	1	9.9999e-06	0.009	0.02359	1	0.0276	1	0.02317	1	5.9999e-05	0.0411	0.00061999	0.384	0.11064	1	0.01554	1	0.00312	1	0.00046	0.288
amp_8q24.21	357 (60%)	243	0.24001	1	0.051289	1	9.9999e-06	0.009	0.00055999	0.349	0.02647	1	0.04015	1	9.9999e-06	0.009	0.00203	1	0.14207	1	0.03314	1	0.00122	0.72	0.00011	0.0745
amp_10q22.3	36 (6%)	564	1	1	0.86005	1	0.41407	1	0.59688	1	0.29628	1	0.68763	1	0.65291	1	0.30565	1	0.43532	1	0.97391	1	0.0060599	1	0.35451	1
amp_11p15.5	135 (22%)	465	0.00144	0.841	0.00192	1	2e-05	0.0145	0.00037	0.235	0.03016	1	0.083129	1	9.9999e-06	0.009	3e-05	0.0213	0.42838	1	9.9999e-06	0.009	0.00022	0.144	9.9999e-06	0.009
amp_12p13.32	147 (24%)	453	0.65004	1	0.59334	1	0.24307	1	0.01961	1	0.47804	1	0.30342	1	0.69059	1	0.69794	1	0.71613	1	1	1	0.41576	1	0.72656	1
amp_13q12.13	390 (65%)	210	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.01658	1	0.01645	1	9.9999e-06	0.009	9.9999e-06	0.009	0.00024	0.156	0.48519	1	9.9999e-06	0.009	9.9999e-06	0.009
amp_13q12.2	385 (64%)	215	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.01921	1	0.04036	1	9.9999e-06	0.009	9.9999e-06	0.009	0.00054999	0.344	0.70971	1	9.9999e-06	0.009	9.9999e-06	0.009
amp_13q22.1	387 (64%)	213	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.084669	1	0.096239	1	9.9999e-06	0.009	9.9999e-06	0.009	0.00108	0.644	0.34257	1	9.9999e-06	0.009	9.9999e-06	0.009
amp_15q26.1	42 (7%)	558	0.70948	1	0.66217	1	0.39411	1	0.60933	1	0.23575	1	0.46993	1	0.51767	1	0.15182	1	0.71628	1	0.8261	1	0.77212	1	0.97866	1
amp_16p11.2	166 (28%)	434	0.01766	1	0.00215	1	9.9999e-06	0.009	0.00073999	0.452	0.02678	1	0.054099	1	0.00011	0.0745	5e-05	0.0346	0.44597	1	0.71967	1	0.00060999	0.378	2e-05	0.0145
amp_17q12	152 (25%)	448	0.02489	1	0.0072399	1	9.9999e-06	0.009	0.00057999	0.361	0.16134	1	0.088579	1	0.00034	0.217	9.9999e-06	0.009	0.0057599	1	0.02246	1	0.26336	1	0.04012	1
amp_17q24.1	138 (23%)	462	0.0095099	1	0.0076699	1	9.9999e-06	0.009	3e-04	0.193	0.088559	1	0.02467	1	0.00041	0.26	9.9999e-06	0.009	0.00021	0.138	0.03185	1	0.41215	1	0.0041	1
amp_19p13.2	105 (18%)	495	0.10775	1	0.0078999	1	9.9999e-06	0.009	0.01773	1	0.46193	1	0.67738	1	0.01751	1	0.00017	0.112	0.11327	1	0.67121	1	0.085629	1	0.01874	1
amp_19q12	132 (22%)	468	0.02897	1	0.00158	0.918	9.9999e-06	0.009	0.28544	1	0.075239	1	0.43134	1	0.067979	1	0.00133	0.779	0.18792	1	0.87726	1	0.24475	1	0.02475	1
amp_20p11.23	315 (52%)	285	0.00417	1	0.00404	1	9.9999e-06	0.009	0.0087899	1	0.00306	1	0.052119	1	0.00011	0.0745	9.9999e-06	0.009	0.18295	1	0.02411	1	3e-05	0.0213	0.00011	0.0745
amp_20p11.21	354 (59%)	246	0.00015	0.0999	2e-05	0.0145	9.9999e-06	0.009	3e-05	0.0213	0.0055899	1	0.13767	1	9.9999e-06	0.009	9.9999e-06	0.009	0.02002	1	0.0078199	1	9.9999e-06	0.009	9.9999e-06	0.009
amp_20q11.21	457 (76%)	143	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.0071099	1	0.01326	1	9.9999e-06	0.009	9.9999e-06	0.009	0.01816	1	0.00027	0.174	9.9999e-06	0.009	9.9999e-06	0.009
amp_20q12	459 (76%)	141	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.01125	1	0.0064299	1	9.9999e-06	0.009	9.9999e-06	0.009	0.0075199	1	0.00017	0.112	9.9999e-06	0.009	9.9999e-06	0.009
amp_20q13.31	461 (77%)	139	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.0145	1	0.0055099	1	9.9999e-06	0.009	9.9999e-06	0.009	0.01561	1	0.00032	0.205	9.9999e-06	0.009	9.9999e-06	0.009
amp_xq28	121 (20%)	479	0.30854	1	0.54787	1	2e-05	0.0145	0.25778	1	0.00482	1	0.024	1	0.70536	1	0.77432	1	0.91073	1	0.87115	1	0.087749	1	0.14356	1
del_1p36.11	238 (40%)	362	5e-05	0.0346	0.00056999	0.355	9.9999e-06	0.009	2e-05	0.0145	0.11217	1	0.106	1	2e-05	0.0145	9.9999e-06	0.009	0.40216	1	0.01041	1	0.00354	1	0.00081999	0.497
del_1p33	171 (28%)	429	0.02035	1	0.082819	1	9.9999e-06	0.009	0.00061999	0.384	0.83106	1	0.55728	1	0.00017	0.112	0.0064099	1	0.454	1	0.11024	1	0.00191	1	0.00081999	0.497
del_1p13.2	171 (28%)	429	0.26756	1	0.40271	1	9.9999e-06	0.009	0.01539	1	0.76343	1	0.83041	1	0.00091999	0.555	0.00101	0.605	0.51086	1	0.11835	1	0.01091	1	0.01296	1
del_2p12	21 (4%)	579	1	1	0.96322	1	0.00099999	0.6	0.00381	1	0.3654	1	1	1	0.04992	1	0.059699	1	0.0062799	1	0.092559	1	1	1	0.61613	1
del_2q22.1	34 (6%)	566	0.92537	1	0.60847	1	0.080829	1	0.72539	1	0.34155	1	0.35117	1	0.49099	1	0.13536	1	0.57882	1	0.11337	1	0.7092	1	1	1
del_2q37.2	31 (5%)	569	0.98446	1	0.54982	1	0.47119	1	0.83215	1	0.93726	1	0.061339	1	0.74725	1	0.21013	1	0.47593	1	0.01559	1	0.20825	1	0.89075	1
del_3p26.3	91 (15%)	509	0.35824	1	0.49376	1	0.10313	1	0.92051	1	0.65198	1	0.97854	1	0.30414	1	0.16235	1	0.47559	1	0.57574	1	0.062669	1	0.51338	1
del_3p14.2	112 (19%)	488	0.62103	1	0.46654	1	0.7547	1	0.79803	1	0.46992	1	0.24518	1	0.37266	1	0.49116	1	0.38333	1	0.30375	1	0.080979	1	0.32245	1
del_3q26.31	62 (10%)	538	0.60526	1	0.87592	1	0.24111	1	0.54506	1	0.25142	1	0.30036	1	0.22854	1	0.36129	1	0.45332	1	0.074449	1	0.25051	1	0.01793	1
del_4p16.1	195 (32%)	405	0.052769	1	0.03617	1	9.9999e-06	0.009	0.00267	1	0.42997	1	0.29887	1	0.0095599	1	0.00014	0.0937	0.35882	1	0.32967	1	0.00016	0.106	0.00025	0.163
del_4q22.1	216 (36%)	384	0.01701	1	0.02961	1	9.9999e-06	0.009	5e-05	0.0346	0.58683	1	0.67114	1	3e-04	0.193	2e-05	0.0145	0.0183	1	0.13036	1	0.00122	0.72	0.00015	0.0999
del_4q35.1	225 (38%)	375	0.01985	1	0.057729	1	9.9999e-06	0.009	2e-05	0.0145	0.28177	1	0.57885	1	0.00028	0.181	0.00118	0.699	0.19508	1	0.3244	1	7.9999e-05	0.0546	0.00042	0.265
del_5q11.2	151 (25%)	449	0.00063999	0.394	0.00025	0.163	9.9999e-06	0.009	0.00316	1	0.0313	1	0.17343	1	0.00205	1	0.00062999	0.389	0.77067	1	0.94309	1	2e-05	0.0145	9.9999e-06	0.009
del_5q22.2	182 (30%)	418	0.00080999	0.492	0.00080999	0.492	9.9999e-06	0.009	0.11665	1	0.27204	1	0.37714	1	0.03324	1	0.00162	0.94	0.46669	1	0.35013	1	0.00145	0.845	4e-05	0.028
del_6p25.3	79 (13%)	521	0.90604	1	0.34823	1	0.04143	1	0.24066	1	0.03573	1	0.63457	1	0.61469	1	0.74455	1	0.58384	1	0.7233	1	0.5001	1	0.84658	1
del_6q26	90 (15%)	510	0.79871	1	0.85415	1	0.077339	1	0.904	1	0.04377	1	0.12443	1	0.10108	1	0.097119	1	0.37578	1	0.36503	1	0.52836	1	0.57458	1
del_7q31.1	16 (3%)	584	0.29092	1	0.69079	1	0.95792	1	1	1	0.68373	1	0.21625	1	0.7424	1	0.65905	1	0.10774	1	0.9482	1	0.14227	1	0.26321	1
del_8p23.2	282 (47%)	318	0.00025	0.163	0.00098999	0.595	9.9999e-06	0.009	9.9999e-06	0.009	0.15049	1	0.03054	1	9.9999e-06	0.009	9.9999e-06	0.009	0.16321	1	0.03021	1	4e-05	0.028	9.9999e-06	0.009
del_8p22	297 (50%)	303	0.00121	0.715	0.00037	0.235	9.9999e-06	0.009	9.9999e-06	0.009	0.10789	1	0.0087299	1	2e-05	0.0145	9.9999e-06	0.009	0.27197	1	0.03059	1	3e-05	0.0213	9.9999e-06	0.009
del_8p11.21	130 (22%)	470	0.03581	1	0.00236	1	9.9999e-06	0.009	0.03268	1	0.082119	1	0.085869	1	0.00025	0.163	0.00101	0.605	0.20125	1	0.00482	1	0.46518	1	0.078139	1
del_8q11.1	46 (8%)	554	0.58194	1	0.18109	1	9.9999e-06	0.009	0.3803	1	0.2851	1	0.30392	1	0.2696	1	0.062139	1	0.16574	1	0.092659	1	0.58969	1	0.64229	1
del_9p24.2	81 (14%)	519	0.2185	1	0.29866	1	0.00021	0.138	0.12881	1	0.5999	1	1	1	0.00314	1	0.00337	1	0.21603	1	0.0232	1	0.03807	1	0.092069	1
del_10q21.1	128 (21%)	472	0.11196	1	0.17676	1	9.9999e-06	0.009	0.01545	1	0.083059	1	0.085539	1	2e-05	0.0145	0.00329	1	0.69039	1	0.22314	1	0.00397	1	0.03089	1
del_10q23.31	156 (26%)	444	0.11385	1	0.24255	1	9.9999e-06	0.009	0.04098	1	0.086199	1	0.30422	1	0.00034	0.217	0.00014	0.0937	0.5294	1	0.13607	1	5e-05	0.0346	0.00021	0.138
del_10q25.2	152 (25%)	448	0.2233	1	0.29597	1	9.9999e-06	0.009	0.01691	1	0.0055099	1	0.15236	1	3e-05	0.0213	9.9999e-06	0.009	0.99148	1	0.20599	1	0.00015	0.0999	8.9999e-05	0.0611
del_11q22.3	111 (18%)	489	0.38538	1	0.23371	1	0.02449	1	0.13113	1	0.24961	1	0.9813	1	0.79328	1	0.62256	1	0.83861	1	0.42839	1	0.23813	1	0.24949	1
del_12p13.1	90 (15%)	510	0.0050899	1	0.00167	0.967	9.9999e-06	0.009	0.03328	1	0.91048	1	0.47232	1	0.093549	1	0.01372	1	0.7095	1	0.75538	1	0.00471	1	0.00113	0.67
del_12q21.33	88 (15%)	512	0.03477	1	0.03508	1	9.9999e-06	0.009	0.0252	1	0.54223	1	0.89083	1	0.04733	1	0.0089399	1	0.83407	1	0.76992	1	0.01798	1	0.04065	1
del_14q11.2	204 (34%)	396	4e-05	0.028	9.9999e-06	0.009	9.9999e-06	0.009	4e-05	0.028	0.0074099	1	0.14219	1	9.9999e-06	0.009	9.9999e-06	0.009	0.058669	1	0.12316	1	9.9999e-06	0.009	9.9999e-06	0.009
del_14q31.1	211 (35%)	389	0.00044	0.276	0.00041	0.26	9.9999e-06	0.009	5.9999e-05	0.0411	0.00112	0.665	0.14211	1	9.9999e-06	0.009	9.9999e-06	0.009	0.27074	1	0.10238	1	9.9999e-06	0.009	9.9999e-06	0.009
del_14q31.1	212 (35%)	388	0.00036	0.229	0.00043	0.27	9.9999e-06	0.009	3e-05	0.0213	0.00102	0.609	0.13148	1	9.9999e-06	0.009	9.9999e-06	0.009	0.20672	1	0.084709	1	9.9999e-06	0.009	9.9999e-06	0.009
del_15q11.2	245 (41%)	355	0.00059999	0.373	0.00375	1	9.9999e-06	0.009	0.00032	0.205	0.13157	1	0.36667	1	2e-05	0.0145	9.9999e-06	0.009	0.43384	1	0.43016	1	9.9999e-06	0.009	2e-05	0.0145
del_15q15.2	243 (40%)	357	4e-05	0.028	0.00178	1	9.9999e-06	0.009	0.00049	0.307	0.094329	1	0.37031	1	5e-05	0.0346	9.9999e-06	0.009	0.62561	1	0.41594	1	5e-05	0.0346	3e-05	0.0213
del_15q21.1	240 (40%)	360	0.00032	0.205	0.02385	1	9.9999e-06	0.009	0.00066999	0.41	0.094969	1	0.34762	1	0.00014	0.0937	9.9999e-06	0.009	0.67266	1	0.46577	1	6.9999e-05	0.0478	3e-05	0.0213
del_15q22.33	231 (38%)	369	0.00015	0.0999	0.00126	0.741	9.9999e-06	0.009	7.9999e-05	0.0546	0.555	1	0.328	1	9.9999e-06	0.009	9.9999e-06	0.009	0.78765	1	0.89834	1	9.9999e-06	0.009	9.9999e-06	0.009
del_16p13.3	68 (11%)	532	0.093289	1	0.077469	1	0.095459	1	0.32946	1	0.54182	1	0.9712	1	0.38885	1	0.53477	1	0.67076	1	0.13243	1	0.565	1	0.86249	1
del_16q23.1	82 (14%)	518	0.04454	1	0.00362	1	0.29138	1	0.37551	1	0.25327	1	0.8012	1	0.55975	1	0.12278	1	0.60632	1	0.26928	1	0.73013	1	0.52374	1
del_17p12	360 (60%)	240	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.01826	1	0.0064599	1	9.9999e-06	0.009	9.9999e-06	0.009	0.01274	1	0.01268	1	9.9999e-06	0.009	9.9999e-06	0.009
del_17q24.3	90 (15%)	510	0.97593	1	0.72755	1	0.01895	1	0.96481	1	0.87536	1	0.55745	1	0.33637	1	0.0324	1	0.84277	1	0.44604	1	0.02487	1	0.26212	1
del_18p11.31	358 (60%)	242	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.057919	1	0.11641	1	9.9999e-06	0.009	9.9999e-06	0.009	0.00313	1	0.0068599	1	9.9999e-06	0.009	9.9999e-06	0.009
del_18q12.2	402 (67%)	198	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.03527	1	0.065399	1	9.9999e-06	0.009	9.9999e-06	0.009	0.0011	0.654	0.0073699	1	9.9999e-06	0.009	9.9999e-06	0.009
del_18q21.2	420 (70%)	180	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.01488	1	0.02583	1	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-05	0.0678	0.02918	1	9.9999e-06	0.009	9.9999e-06	0.009
del_18q22.1	415 (69%)	185	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	9.9999e-06	0.009	0.03113	1	0.03855	1	9.9999e-06	0.009	9.9999e-06	0.009	0.00013	0.0871	0.087619	1	9.9999e-06	0.009	9.9999e-06	0.009
del_19p13.3	97 (16%)	503	0.11775	1	0.46465	1	9.9999e-06	0.009	0.37917	1	0.8816	1	0.10098	1	0.19117	1	0.1185	1	0.64544	1	0.0053099	1	0.01538	1	0.062339	1
del_20p12.1	184 (31%)	416	0.01967	1	0.00065999	0.405	9.9999e-06	0.009	9.9999e-06	0.009	0.79014	1	0.6973	1	0.00076999	0.469	7.9999e-05	0.0546	0.076919	1	0.0073199	1	0.11179	1	0.00025	0.163
del_20p12.1	184 (31%)	416	0.02008	1	0.00086999	0.525	9.9999e-06	0.009	2e-05	0.0145	0.78824	1	0.69758	1	0.00064999	0.4	4e-05	0.028	0.074069	1	0.0074699	1	0.10934	1	0.00017	0.112
del_21q11.2	208 (35%)	392	0.01975	1	0.00173	1	9.9999e-06	0.009	0.02803	1	0.45484	1	0.70839	1	2e-05	0.0145	0.0068699	1	0.03891	1	0.31569	1	0.00011	0.0745	0.00133	0.779
del_22q13.32	222 (37%)	378	0.00253	1	0.00012	0.0805	9.9999e-06	0.009	0.01747	1	0.51294	1	0.59286	1	0.00075999	0.464	4e-05	0.028	0.93807	1	0.22837	1	4e-05	0.028	0.00228	1
