Clinical Features	CN_CNMF		METHLYATION_CNMF		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
1p gain	8 (5%)	152	0.00055999	0.281	1	1	0.43	1	0.72555	1	0.81557	1	0.541	1	0.33605	1	0.24543	1
1q gain	19 (12%)	141	9.9999e-06	0.00536	0.35216	1	0.50215	1	0.61222	1	0.90684	1	0.64157	1	0.74283	1	0.71103	1
2p gain	6 (4%)	154	0.34759	1	0.0055899	1	0.25863	1	0.34675	1	0.13526	1	0.29964	1	0.00293	1	0.13892	1
4p gain	4 (2%)	156	0.01845	1	0.37373	1	0.89702	1	0.55308	1	0.45389	1	0.78989	1	0.21645	1	0.45832	1
4q gain	3 (2%)	157	0.16854	1	0.80141	1	0.47268	1	0.74043	1	0.61604	1	0.83583	1	0.24656	1	0.61094	1
5p gain	11 (7%)	149	0.02496	1	0.40231	1	0.94226	1	0.65883	1	0.85425	1	0.61259	1	0.78748	1	0.66872	1
5q gain	7 (4%)	153	0.02575	1	0.0051099	1	0.077469	1	0.29613	1	0.48419	1	0.3834	1	0.6999	1	0.61273	1
6p gain	14 (9%)	146	0.76982	1	0.38616	1	0.32297	1	0.40844	1	0.32743	1	0.34945	1	0.3692	1	0.343	1
6q gain	8 (5%)	152	0.01414	1	0.00166	0.812	0.03178	1	0.11534	1	0.12958	1	0.18818	1	0.03288	1	0.21376	1
7p gain	26 (16%)	134	0.01309	1	0.12237	1	0.081189	1	0.23873	1	0.11872	1	0.04675	1	0.03333	1	0.12624	1
7q gain	21 (13%)	139	0.00014	0.0721	0.01091	1	0.085149	1	0.1677	1	0.064529	1	0.04007	1	0.00209	1	0.03194	1
8p gain	10 (6%)	150	0.02798	1	0.37022	1	0.086109	1	0.093929	1	0.081349	1	0.16081	1	0.077839	1	0.10387	1
8q gain	13 (8%)	147	0.29117	1	0.75152	1	0.082739	1	0.080819	1	0.11338	1	0.21094	1	0.082789	1	0.13983	1
9p gain	4 (2%)	156	0.17382	1	0.069289	1	0.15371	1	0.22346	1	0.29268	1	0.25861	1	0.12162	1	0.35914	1
9q gain	3 (2%)	157	0.35365	1	0.13705	1	0.23942	1	0.2409	1	0.46428	1	0.34831	1	0.11226	1	0.46929	1
10p gain	12 (8%)	148	0.75051	1	0.058919	1	0.54019	1	0.5041	1	1	1	0.84465	1	0.80018	1	0.63653	1
10q gain	10 (6%)	150	0.3833	1	0.69281	1	0.52378	1	0.57915	1	0.70421	1	0.50923	1	0.54458	1	0.54844	1
11p gain	4 (2%)	156	0.88656	1	0.8074	1	0.19965	1	0.203	1	0.12929	1	0.15893	1	0.080829	1	0.12284	1
12p gain	11 (7%)	149	0.00306	1	0.0071199	1	0.33162	1	0.32975	1	0.01885	1	0.21049	1	0.00043	0.218	0.03331	1
12q gain	13 (8%)	147	0.02075	1	0.13242	1	0.78376	1	0.78438	1	0.096849	1	0.4162	1	0.0073099	1	0.12765	1
13q gain	9 (6%)	151	5.9999e-05	0.0311	0.02164	1	0.0112	1	0.01121	1	0.02395	1	0.04858	1	0.00026	0.133	0.02956	1
14q gain	4 (2%)	156	0.49623	1	0.37046	1	0.55189	1	0.55252	1	0.29132	1	0.79117	1	0.053519	1	0.46184	1
15q gain	14 (9%)	146	0.095779	1	0.03174	1	0.3193	1	0.77018	1	0.42491	1	0.77841	1	0.21556	1	0.88211	1
16p gain	6 (4%)	154	0.24577	1	0.55313	1	0.74169	1	0.74199	1	0.33183	1	0.81535	1	0.43714	1	0.5732	1
16q gain	6 (4%)	154	0.27023	1	1	1	0.27203	1	0.69982	1	1	1	0.76916	1	0.76101	1	0.38141	1
17q gain	5 (3%)	155	0.23396	1	0.3123	1	0.30332	1	0.30313	1	0.53885	1	0.77606	1	0.1684	1	0.44592	1
18p gain	8 (5%)	152	0.066319	1	0.22879	1	0.3842	1	0.65007	1	0.46629	1	0.56498	1	0.04305	1	0.58856	1
18q gain	10 (6%)	150	0.1517	1	0.58359	1	0.35192	1	0.53759	1	0.84446	1	0.42586	1	0.14701	1	1	1
19p gain	20 (12%)	140	0.01904	1	0.075409	1	0.74754	1	0.67209	1	0.31416	1	0.95194	1	0.4871	1	0.6467	1
19q gain	14 (9%)	146	0.01976	1	0.0088899	1	0.38881	1	0.252	1	0.49669	1	0.69149	1	0.24654	1	0.45783	1
20p gain	11 (7%)	149	0.32437	1	0.18892	1	0.31019	1	0.58722	1	0.29417	1	0.52963	1	0.22005	1	0.78531	1
20q gain	9 (6%)	151	0.059569	1	0.04336	1	0.060529	1	0.1374	1	0.071959	1	0.11727	1	0.04397	1	0.24916	1
21q gain	3 (2%)	157	0.14284	1	0.13801	1	0.24131	1	0.069289	1	0.12029	1	0.41179	1	0.11173	1	0.18002	1
22q gain	3 (2%)	157	0.12561	1	0.084339	1	0.24052	1	0.15181	1	0.11972	1	0.41094	1	0.01145	1	0.18163	1
xq gain	5 (3%)	155	0.10886	1	0.055119	1	0.053619	1	0.054909	1	0.14193	1	0.068289	1	0.10298	1	0.25358	1
1p loss	94 (59%)	66	9.9999e-06	0.00536	0.02005	1	0.00473	1	0.00275	1	0.00014	0.0721	0.01498	1	0.00046	0.232	0.00364	1
1q loss	26 (16%)	134	0.050929	1	0.2331	1	0.086829	1	0.42088	1	0.50301	1	0.14017	1	0.10187	1	0.10836	1
2p loss	10 (6%)	150	0.083089	1	0.074829	1	0.00465	1	0.17029	1	0.19764	1	0.00079999	0.398	0.25367	1	0.0014	0.689
2q loss	13 (8%)	147	0.059119	1	0.44741	1	0.41841	1	0.14438	1	0.53545	1	0.093769	1	0.61643	1	0.30835	1
3p loss	61 (38%)	99	9.9999e-06	0.00536	0.079679	1	0.00073999	0.369	9.9999e-06	0.00536	0.00112	0.553	0.00172	0.839	0.01125	1	0.01732	1
3q loss	88 (55%)	72	9.9999e-06	0.00536	0.59957	1	0.03836	1	9.9999e-06	0.00536	0.00216	1	0.02418	1	0.37907	1	0.01427	1
4p loss	11 (7%)	149	0.00247	1	0.1439	1	0.0065299	1	0.20482	1	0.29655	1	0.38464	1	0.21804	1	0.3423	1
4q loss	10 (6%)	150	0.0094899	1	0.24054	1	0.01622	1	0.34609	1	0.42004	1	0.52593	1	0.40908	1	0.50139	1
5p loss	5 (3%)	155	0.01401	1	0.3758	1	0.03704	1	0.03828	1	0.14154	1	0.16678	1	0.10198	1	0.16811	1
5q loss	7 (4%)	153	0.27727	1	0.78406	1	0.64744	1	0.50104	1	0.89464	1	0.36517	1	1	1	1	1
6q loss	19 (12%)	141	0.00362	1	0.00041	0.209	0.00047	0.237	9.9999e-05	0.0518	0.00012	0.062	2e-05	0.0105	3e-05	0.0157	3e-05	0.0157
7q loss	6 (4%)	154	0.04407	1	0.42516	1	0.03855	1	0.1638	1	0.02259	1	0.02517	1	0.1527	1	0.01505	1
8p loss	19 (12%)	141	0.11124	1	0.54089	1	0.060899	1	0.12099	1	0.55019	1	0.86741	1	0.17966	1	0.74489	1
8q loss	12 (8%)	148	0.36796	1	0.74408	1	0.34457	1	0.597	1	0.10439	1	0.4127	1	0.54724	1	0.47764	1
9p loss	11 (7%)	149	0.3936	1	0.71964	1	0.17257	1	0.17164	1	0.67286	1	0.065559	1	0.074029	1	0.31604	1
9q loss	11 (7%)	149	0.40553	1	0.60839	1	0.50227	1	0.62697	1	0.7251	1	0.40229	1	0.85301	1	0.78677	1
11p loss	53 (33%)	107	9.9999e-06	0.00536	0.00082999	0.413	0.00012	0.062	9.9999e-06	0.00536	3e-05	0.0157	9.9999e-06	0.00536	5e-05	0.026	9.9999e-06	0.00536
11q loss	39 (24%)	121	9.9999e-06	0.00536	0.04955	1	0.00042	0.213	0.00109	0.54	0.00036	0.184	0.00069999	0.351	0.00044	0.223	0.00033	0.169
13q loss	7 (4%)	153	0.57358	1	0.61116	1	0.32411	1	0.16088	1	0.29821	1	0.10622	1	0.33685	1	0.28809	1
14q loss	20 (12%)	140	0.17456	1	0.04987	1	0.28292	1	0.76491	1	0.16423	1	0.0019	0.925	0.39744	1	0.02277	1
15q loss	3 (2%)	157	0.38582	1	0.3296	1	1	1	0.8659	1	0.61726	1	0.83544	1	0.45026	1	0.61271	1
16p loss	8 (5%)	152	0.16999	1	0.02492	1	0.63108	1	0.62794	1	0.33957	1	0.56332	1	0.65181	1	0.59214	1
16q loss	4 (2%)	156	0.053219	1	0.2747	1	0.89492	1	0.072759	1	0.23331	1	0.62276	1	0.44998	1	1	1
17p loss	61 (38%)	99	3e-04	0.154	0.00222	1	0.062909	1	0.03001	1	0.01956	1	0.01927	1	0.00484	1	0.0095499	1
17q loss	19 (12%)	141	0.00070999	0.355	0.90334	1	0.26754	1	0.22059	1	0.33419	1	0.083149	1	0.57903	1	0.085189	1
18p loss	16 (10%)	144	0.85337	1	0.74421	1	0.85604	1	0.75689	1	0.89307	1	0.30204	1	0.94689	1	0.5313	1
18q loss	6 (4%)	154	0.34415	1	0.87701	1	0.58579	1	0.65921	1	0.57624	1	0.58904	1	0.27627	1	0.57012	1
19q loss	6 (4%)	154	0.83507	1	1	1	0.94175	1	0.94106	1	0.38198	1	0.62605	1	1	1	0.76333	1
20q loss	3 (2%)	157	0.90598	1	1	1	1	1	0.64597	1	0.78921	1	1	1	1	1	0.79106	1
21q loss	34 (21%)	126	0.01752	1	0.076329	1	0.057659	1	0.95535	1	0.47155	1	0.50434	1	0.72922	1	0.25434	1
22q loss	57 (36%)	103	9.9999e-06	0.00536	0.02133	1	0.01749	1	0.00143	0.702	0.03133	1	0.0311	1	0.04437	1	0.0061099	1
xq loss	49 (31%)	111	0.00121	0.597	0.00097999	0.486	0.0072399	1	0.00051999	0.262	0.00334	1	0.0097499	1	0.01105	1	0.00157	0.769