		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	133 (27%)	360	0.38747	1	1	1	9.9999e-06	0.00946	0.38721	1	0.074189	1	0.00447	1	0.12854	1	0.03138	1	0.071509	1	0.04963	1	0.31032	1	0.82583	1
1q gain	297 (60%)	196	0.12052	1	1	1	0.0019	1	0.00469	1	0.00076999	0.553	0.03918	1	0.12743	1	0.00015	0.115	0.51917	1	3e-04	0.225	0.01514	1	0.16935	1
2p gain	148 (30%)	345	0.30198	1	0.24258	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.45399	1	0.22306	1	0.00014	0.108	5.9999e-05	0.0479	9.9999e-06	0.00946	0.00024	0.182	0.00193	1	9.9999e-06	0.00946
2q gain	135 (27%)	358	0.1257	1	0.28828	1	2e-05	0.0167	9.9999e-06	0.00946	0.70036	1	0.79328	1	0.078979	1	0.01461	1	0.00184	1	0.01983	1	0.02964	1	0.00247	1
3p gain	40 (8%)	453	NA	NA	NA	NA	0.00344	1	0.01863	1	0.10977	1	0.02873	1	4e-05	0.0323	0.00022	0.167	0.068359	1	0.47479	1	0.17373	1	0.34315	1
3q gain	86 (17%)	407	0.080699	1	0.12628	1	0.0012	0.838	3e-05	0.0244	0.02712	1	0.0347	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.01669	1	0.058629	1	0.0095699	1	0.03836	1
4p gain	80 (16%)	413	0.87648	1	1	1	9.9999e-06	0.00946	0.26934	1	0.29871	1	0.04605	1	0.04357	1	0.28372	1	0.090559	1	0.43542	1	0.43912	1	0.19384	1
4q gain	46 (9%)	447	0.33251	1	0.58458	1	0.01132	1	0.67854	1	0.39994	1	0.13332	1	0.0074399	1	0.00358	1	0.01728	1	0.04917	1	0.16282	1	0.24686	1
5p gain	267 (54%)	226	0.79987	1	0.36289	1	9.9999e-06	0.00946	0.29683	1	0.16216	1	0.84478	1	0.02387	1	9.9999e-06	0.00946	0.0435	1	0.30529	1	0.092139	1	0.0042	1
5q gain	124 (25%)	369	0.19412	1	0.28493	1	0.0057099	1	0.00031	0.231	0.028	1	0.28103	1	0.0058799	1	0.02798	1	0.14622	1	0.00042	0.309	0.03648	1	0.0085099	1
6p gain	141 (29%)	352	0.35257	1	0.088529	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.03011	1	0.64741	1	0.10802	1	0.01216	1	0.02684	1	0.068079	1	0.065999	1	0.0061799	1
6q gain	60 (12%)	433	1	1	1	1	0.01253	1	0.0053899	1	0.16847	1	0.90273	1	0.21684	1	0.0199	1	0.00218	1	0.01609	1	0.28367	1	0.0054499	1
7p gain	251 (51%)	242	0.85595	1	0.53607	1	9.9999e-06	0.00946	0.00317	1	0.00047	0.345	0.00082999	0.592	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00058999	0.429	0.00038	0.28	9.9999e-06	0.00946
7q gain	207 (42%)	286	0.48099	1	0.31077	1	9.9999e-06	0.00946	0.02875	1	0.13054	1	0.11388	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00275	1	0.0069499	1	0.01223	1	6.9999e-05	0.0556
8p gain	123 (25%)	370	0.15171	1	0.25398	1	9.9999e-06	0.00946	0.093689	1	0.43494	1	0.51104	1	0.00167	1	0.00026	0.196	0.45657	1	0.73481	1	0.84515	1	0.2886	1
8q gain	235 (48%)	258	0.02407	1	0.04669	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.28485	1	0.0052599	1	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00076999	0.553	3e-04	0.225	9.9999e-06	0.00946
9p gain	42 (9%)	451	NA	NA	NA	NA	0.01404	1	0.072169	1	0.44016	1	0.21633	1	0.00019	0.145	0.0050899	1	0.21962	1	0.34538	1	0.20628	1	0.28431	1
9q gain	30 (6%)	463	NA	NA	NA	NA	0.26812	1	0.5469	1	0.5723	1	0.62913	1	0.077469	1	0.066619	1	0.4815	1	0.93343	1	0.4455	1	0.34962	1
10p gain	105 (21%)	388	0.2368	1	0.29484	1	0.00070999	0.511	9.9999e-06	0.00946	0.01843	1	0.00117	0.82	5.9999e-05	0.0479	9.9999e-06	0.00946	0.0092399	1	0.0018	1	0.03786	1	5.9999e-05	0.0479
10q gain	76 (15%)	417	NA	NA	NA	NA	0.03788	1	9.9999e-06	0.00946	0.28478	1	0.097329	1	0.00028	0.21	9.9999e-06	0.00946	0.37288	1	0.03394	1	0.21821	1	0.077009	1
11p gain	92 (19%)	401	0.0092399	1	0.0099099	1	2e-05	0.0167	0.34225	1	0.5211	1	0.31922	1	0.21483	1	0.00045	0.331	0.00053999	0.394	9.9999e-06	0.00946	0.00054999	0.401	2e-05	0.0167
11q gain	112 (23%)	381	0.0098999	1	0.01684	1	9.9999e-06	0.00946	0.059539	1	0.26937	1	0.12258	1	0.00451	1	0.00033	0.246	4e-05	0.0323	0.0012	0.838	0.00035	0.26	2e-05	0.0167
12p gain	131 (27%)	362	0.22201	1	0.04708	1	9.9999e-06	0.00946	2e-05	0.0167	0.01569	1	0.0082999	1	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946
12q gain	126 (26%)	367	0.22225	1	0.13643	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.16358	1	0.0166	1	9.9999e-06	0.00946	9.9999e-06	0.00946	2e-05	0.0167	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946
13q gain	43 (9%)	450	0.41336	1	0.54273	1	0.75821	1	0.01525	1	0.051199	1	0.50006	1	0.060539	1	0.12806	1	0.9755	1	0.13081	1	0.79615	1	0.66422	1
14q gain	120 (24%)	373	0.80351	1	0.84394	1	9.9999e-06	0.00946	0.00419	1	0.23635	1	0.074109	1	0.00012	0.0938	2e-05	0.0167	3e-05	0.0244	0.00133	0.918	0.00078999	0.565	0.00102	0.723
15q gain	35 (7%)	458	0.19248	1	0.14925	1	0.3879	1	0.30554	1	0.55856	1	0.46424	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.78795	1	0.50446	1	0.18751	1	0.86412	1
16p gain	127 (26%)	366	0.53442	1	0.33605	1	0.00307	1	0.061859	1	0.31156	1	0.12346	1	0.1755	1	0.0069099	1	0.01018	1	0.071459	1	0.04724	1	0.0303	1
16q gain	94 (19%)	399	0.43559	1	0.15309	1	0.00265	1	0.089779	1	0.070649	1	0.02266	1	0.42375	1	0.02494	1	0.00201	1	0.01293	1	0.02075	1	0.02821	1
17p gain	83 (17%)	410	0.45203	1	0.68732	1	7.9999e-05	0.063	0.01301	1	0.86926	1	0.075649	1	0.0083799	1	0.02263	1	9.9999e-06	0.00946	0.00047	0.345	0.23082	1	0.0072999	1
17q gain	186 (38%)	307	0.30459	1	0.87592	1	9.9999e-06	0.00946	4e-05	0.0323	0.61296	1	0.01814	1	6.9999e-05	0.0556	9.9999e-06	0.00946	2e-05	0.0167	0.00018	0.138	0.057019	1	0.00024	0.182
18p gain	91 (18%)	402	0.87479	1	0.63333	1	6.9999e-05	0.0556	9.9999e-06	0.00946	0.23955	1	0.59515	1	0.02141	1	0.00309	1	0.01511	1	0.00194	1	0.0057899	1	0.00041	0.302
18q gain	66 (13%)	427	0.59507	1	0.147	1	0.00018	0.138	9.9999e-06	0.00946	0.02026	1	0.03042	1	0.00012	0.0938	0.00118	0.826	0.01045	1	0.00070999	0.511	0.00236	1	0.00122	0.848
19p gain	32 (6%)	461	0.1917	1	0.03985	1	0.18809	1	0.76551	1	1	1	0.85184	1	0.99366	1	0.74267	1	0.45252	1	0.88588	1	0.01953	1	0.71045	1
19q gain	71 (14%)	422	0.051329	1	0.04146	1	0.00313	1	0.0146	1	0.94148	1	0.61415	1	0.18238	1	0.01621	1	0.36794	1	0.092159	1	0.071649	1	0.02409	1
20p gain	164 (33%)	329	0.082219	1	0.14193	1	0.00012	0.0938	0.00018	0.138	0.42616	1	0.04377	1	0.00026	0.196	9.9999e-06	0.00946	5e-05	0.04	0.00372	1	0.00018	0.138	4e-05	0.0323
20q gain	189 (38%)	304	0.01012	1	0.02487	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.22428	1	0.03447	1	9.9999e-06	0.00946	9.9999e-06	0.00946	2e-05	0.0167	0.00022	0.167	5e-05	0.04	9.9999e-06	0.00946
21q gain	94 (19%)	399	0.53954	1	0.26466	1	8.9999e-05	0.0707	0.40393	1	0.33536	1	0.072759	1	0.02982	1	6.9999e-05	0.0556	0.34245	1	0.30816	1	0.64355	1	0.58771	1
22q gain	61 (12%)	432	0.10677	1	0.12084	1	0.00333	1	0.76372	1	0.23591	1	0.18995	1	0.17834	1	0.096429	1	0.60748	1	0.77981	1	0.47729	1	0.29784	1
xq gain	68 (14%)	425	0.65622	1	0.24823	1	0.00066999	0.485	0.30964	1	0.27301	1	0.40294	1	0.02877	1	0.0063899	1	0.11712	1	0.42143	1	0.2168	1	0.076309	1
1p loss	79 (16%)	414	0.080639	1	0.12622	1	2e-05	0.0167	0.00116	0.817	0.88764	1	0.24969	1	0.00016	0.123	9.9999e-06	0.00946	0.53042	1	0.00102	0.723	0.4517	1	0.10164	1
1q loss	28 (6%)	465	NA	NA	NA	NA	0.1801	1	0.01284	1	0.19422	1	0.1562	1	0.04783	1	0.1656	1	0.74749	1	0.32322	1	0.30491	1	0.16229	1
2p loss	24 (5%)	469	0.75002	1	0.58104	1	0.12377	1	0.33935	1	0.61006	1	0.92966	1	0.97846	1	0.90212	1	0.083019	1	0.78856	1	0.071949	1	0.35471	1
2q loss	23 (5%)	470	NA	NA	NA	NA	0.00136	0.934	0.11089	1	0.42715	1	1	1	0.29203	1	0.38843	1	0.35304	1	0.38821	1	0.44716	1	0.16561	1
3p loss	205 (42%)	288	0.34208	1	0.11438	1	4e-05	0.0323	0.00112	0.79	0.26187	1	0.30286	1	0.03237	1	9.9999e-06	0.00946	0.02132	1	0.0078599	1	0.12565	1	0.0088399	1
3q loss	140 (28%)	353	0.5536	1	0.14134	1	0.01512	1	0.0071899	1	0.91767	1	0.91353	1	0.066269	1	0.00077999	0.558	0.68858	1	0.065629	1	0.85502	1	0.49792	1
4p loss	116 (24%)	377	0.18401	1	0.37957	1	6.9999e-05	0.0556	9.9999e-06	0.00946	0.19629	1	0.0155	1	8.9999e-05	0.0707	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	0.0058099	1	0.00052999	0.387
4q loss	132 (27%)	361	0.00057999	0.422	0.0076699	1	2e-05	0.0167	9.9999e-06	0.00946	0.27661	1	0.00133	0.918	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00027	0.203	9.9999e-06	0.00946
5p loss	40 (8%)	453	0.59302	1	0.30918	1	0.69535	1	0.02249	1	0.40645	1	0.099429	1	0.01343	1	0.0012	0.838	0.064929	1	0.081319	1	0.01637	1	0.0079499	1
5q loss	137 (28%)	356	0.063589	1	0.03579	1	9.9999e-06	0.00946	2e-05	0.0167	0.00126	0.874	0.00082999	0.592	9.9999e-06	0.00946	0.00014	0.108	9.9999e-06	0.00946	9.9999e-06	0.00946	2e-05	0.0167	9.9999e-06	0.00946
6p loss	101 (20%)	392	0.01225	1	0.00439	1	0.051139	1	0.12584	1	0.53364	1	0.47703	1	0.18796	1	0.27694	1	0.54192	1	0.18266	1	0.49847	1	0.70583	1
6q loss	208 (42%)	285	0.24603	1	0.53986	1	0.03003	1	0.00014	0.108	0.83925	1	0.30274	1	0.080669	1	5e-05	0.04	0.34196	1	0.02993	1	0.74232	1	0.059399	1
7p loss	33 (7%)	460	1	1	1	1	3e-05	0.0244	0.04303	1	0.32947	1	0.94454	1	0.0058799	1	0.00278	1	0.27322	1	0.19699	1	0.89858	1	0.32304	1
7q loss	39 (8%)	454	0.80155	1	0.25567	1	0.0071499	1	0.073999	1	0.90485	1	0.15512	1	0.10427	1	0.03321	1	0.37501	1	0.055869	1	0.27348	1	0.84023	1
8p loss	191 (39%)	302	0.13359	1	0.078069	1	9.9999e-06	0.00946	0.0139	1	0.051609	1	0.0078999	1	0.00013	0.101	3e-05	0.0244	0.00243	1	0.0052099	1	0.0055199	1	0.0082699	1
8q loss	54 (11%)	439	NA	NA	NA	NA	0.00025	0.188	0.93014	1	0.297	1	0.49513	1	0.1739	1	0.063729	1	0.21047	1	0.82843	1	0.42007	1	0.53846	1
9p loss	254 (52%)	239	0.051219	1	0.59782	1	0.00199	1	0.12276	1	0.21665	1	0.02507	1	0.00089999	0.64	7.9999e-05	0.063	0.061659	1	0.01058	1	0.34987	1	0.51515	1
9q loss	238 (48%)	255	0.49867	1	0.90367	1	4e-05	0.0323	0.00224	1	0.41782	1	0.0066599	1	0.1403	1	0.00031	0.231	0.0061599	1	3e-05	0.0244	0.02399	1	0.0089099	1
10p loss	108 (22%)	385	0.8168	1	0.78769	1	2e-05	0.0167	0.12898	1	0.03988	1	0.0042	1	3e-05	0.0244	9.9999e-06	0.00946	0.00414	1	0.00263	1	0.00173	1	0.0073699	1
10q loss	128 (26%)	365	0.81732	1	0.7842	1	2e-05	0.0167	0.065549	1	0.055939	1	0.02716	1	0.00133	0.918	9.9999e-06	0.00946	0.0052899	1	0.00013	0.101	0.00131	0.907	0.00116	0.817
11p loss	108 (22%)	385	0.14451	1	0.070339	1	0.00012	0.0938	0.0099099	1	0.03648	1	0.13537	1	0.00214	1	0.00406	1	0.02632	1	0.03493	1	0.0271	1	0.00432	1
11q loss	88 (18%)	405	0.84013	1	0.4837	1	0.0064499	1	0.00435	1	0.00334	1	0.27666	1	0.00092999	0.66	0.0060199	1	0.055739	1	0.10334	1	0.02928	1	0.03321	1
12p loss	106 (22%)	387	0.63116	1	0.88161	1	0.0063799	1	0.26161	1	0.04571	1	0.058929	1	0.00442	1	0.00035	0.26	0.26371	1	0.11314	1	0.61279	1	0.81236	1
12q loss	93 (19%)	400	0.55564	1	0.42585	1	9.9999e-06	0.00946	0.077229	1	0.095569	1	0.0186	1	0.00067999	0.491	8.9999e-05	0.0707	0.20248	1	0.00453	1	0.55765	1	0.476	1
13q loss	243 (49%)	250	0.10538	1	0.6245	1	9.9999e-06	0.00946	0.01194	1	0.00048	0.351	2e-05	0.0167	9.9999e-06	0.00946	9.9999e-06	0.00946	0.01359	1	0.03806	1	0.04241	1	0.058789	1
14q loss	111 (23%)	382	0.93055	1	0.4081	1	0.060059	1	0.14168	1	0.17402	1	0.28157	1	0.0318	1	0.00486	1	0.073419	1	0.0062299	1	0.00079999	0.571	0.0056499	1
15q loss	233 (47%)	260	0.10108	1	0.28162	1	9.9999e-06	0.00946	2e-05	0.0167	0.12401	1	0.00246	1	9.9999e-06	0.00946	9.9999e-06	0.00946	9.9999e-06	0.00946	0.01757	1	0.01716	1	0.00103	0.728
16p loss	108 (22%)	385	0.45536	1	0.48188	1	2e-05	0.0167	2e-05	0.0167	0.2354	1	0.14333	1	9.9999e-06	0.00946	0.00126	0.874	0.0083399	1	0.0070599	1	0.0080399	1	0.00388	1
16q loss	137 (28%)	356	0.54737	1	0.62343	1	2e-05	0.0167	9.9999e-06	0.00946	0.081909	1	0.03222	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.0066799	1	0.00438	1	0.00159	1	8.9999e-05	0.0707
17p loss	206 (42%)	287	0.54868	1	0.36135	1	9.9999e-06	0.00946	0.00017	0.131	0.13711	1	0.0256	1	0.0011	0.777	0.00118	0.826	0.50107	1	0.18234	1	0.60824	1	0.28874	1
17q loss	55 (11%)	438	0.29628	1	0.47307	1	0.00013	0.101	0.0163	1	0.01013	1	0.02474	1	0.13901	1	0.50849	1	0.4169	1	0.30773	1	0.082079	1	0.076399	1
18p loss	169 (34%)	324	0.43746	1	0.45499	1	3e-05	0.0244	0.71424	1	0.03729	1	0.0084099	1	0.02286	1	0.00152	1	0.029	1	0.79826	1	0.14928	1	0.50377	1
18q loss	207 (42%)	286	0.52029	1	0.42397	1	9.9999e-06	0.00946	0.50799	1	0.0039	1	0.00139	0.954	3e-04	0.225	0.00017	0.131	0.02361	1	0.94299	1	0.69031	1	0.8619	1
19p loss	235 (48%)	258	0.8146	1	1	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.33714	1	0.27617	1	9.9999e-06	0.00946	9.9999e-06	0.00946	5.9999e-05	0.0479	3e-05	0.0244	0.0060599	1	6.9999e-05	0.0556
19q loss	153 (31%)	340	0.34492	1	0.46526	1	9.9999e-06	0.00946	2e-05	0.0167	0.27176	1	0.45482	1	0.00024	0.182	2e-05	0.0167	0.00058999	0.429	0.00141	0.966	0.02519	1	0.00021	0.16
20p loss	114 (23%)	379	0.33542	1	0.45352	1	0.00037	0.274	0.00116	0.817	0.00058999	0.429	0.00187	1	0.01586	1	0.0052999	1	0.96742	1	0.73202	1	0.12937	1	0.85679	1
20q loss	67 (14%)	426	0.51333	1	0.87597	1	0.39632	1	0.51506	1	0.26003	1	0.40361	1	0.6628	1	0.73464	1	0.60825	1	0.72044	1	0.13195	1	0.66892	1
21q loss	157 (32%)	336	0.18431	1	0.14337	1	9.9999e-06	0.00946	0.00066999	0.485	0.03141	1	0.00132	0.912	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00037	0.274	0.00012	0.0938	0.0074699	1	0.00248	1
22q loss	212 (43%)	281	0.12906	1	0.16744	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.80617	1	0.04899	1	9.9999e-06	0.00946	9.9999e-06	0.00946	0.00021	0.16	0.00012	0.0938	0.00035	0.26	9.9999e-06	0.00946
xq loss	64 (13%)	429	0.27229	1	0.054109	1	0.00069999	0.505	0.0082999	1	0.43432	1	0.64337	1	0.42528	1	0.57226	1	0.34892	1	0.47299	1	0.50613	1	0.59702	1
