Clinical Features	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
1p gain	3 (1%)	491	0.25456	1	0.39369	1	NA	NA	NA	NA	0.55947	1	0.5858	1	0.41284	1	0.34787	1	0.2139	1	0.26396	1
1q gain	24 (5%)	470	4e-05	0.0176	0.02861	1	0.00113	0.401	0.054739	1	0.00069999	0.258	2e-05	0.00938	0.15627	1	0.079189	1	0.088699	1	0.00098999	0.357
3p gain	3 (1%)	491	0.00029	0.113	0.5524	1	NA	NA	NA	NA	0.48576	1	0.33631	1	0.20805	1	0.11658	1	0.32499	1	0.21408	1
4p gain	5 (1%)	489	9.9999e-06	0.00534	0.00414	1	NA	NA	NA	NA	0.0185	1	0.0085699	1	0.02647	1	0.0114	1	0.068709	1	0.029	1
4q gain	5 (1%)	489	9.9999e-06	0.00534	0.00444	1	NA	NA	NA	NA	0.01822	1	0.0084099	1	0.02545	1	0.01147	1	0.069309	1	0.02915	1
5p gain	21 (4%)	473	9.9999e-06	0.00534	0.00199	0.691	0.5304	1	0.23391	1	0.0058299	1	0.00070999	0.261	0.00376	1	9.9999e-06	0.00534	0.00099999	0.36	5e-05	0.0218
5q gain	17 (3%)	477	9.9999e-06	0.00534	6.9999e-05	0.0297	0.8489	1	0.078989	1	0.00023	0.0911	0.00022	0.088	4e-04	0.151	9.9999e-06	0.00534	6.9999e-05	0.0297	3e-05	0.0136
7p gain	18 (4%)	476	9.9999e-06	0.00534	8.9999e-05	0.0377	0.65978	1	0.051239	1	0.00055999	0.208	0.00060999	0.226	0.00108	0.388	2e-05	0.00938	0.00026	0.102	0.00012	0.0494
7q gain	20 (4%)	474	9.9999e-06	0.00534	2e-05	0.00938	0.57273	1	0.01368	1	5.9999e-05	0.0257	5.9999e-05	0.0257	0.00013	0.0533	2e-05	0.00938	5e-05	0.0218	2e-05	0.00938
8p gain	6 (1%)	488	0.00033	0.127	0.42349	1	0.45903	1	0.63025	1	0.62524	1	0.28642	1	0.52573	1	0.44511	1	0.33281	1	0.46701	1
8q gain	7 (1%)	487	3e-05	0.0136	0.20314	1	0.45843	1	0.62947	1	0.8692	1	0.32892	1	0.80028	1	0.55789	1	0.31903	1	0.30201	1
9p gain	3 (1%)	491	0.00245	0.835	0.54788	1	NA	NA	NA	NA	0.48605	1	0.33975	1	1	1	1	1	1	1	1	1
9q gain	4 (1%)	490	0.0097299	1	0.79415	1	NA	NA	NA	NA	0.89578	1	0.12356	1	1	1	1	1	1	1	1	1
11p gain	6 (1%)	488	0.00022	0.088	0.02039	1	0.78209	1	0.29805	1	0.053209	1	0.01866	1	0.01413	1	0.0061499	1	0.00239	0.817	0.01963	1
11q gain	5 (1%)	489	9.9999e-06	0.00534	0.059229	1	0.78171	1	0.30167	1	0.11606	1	0.059719	1	0.04227	1	0.01949	1	0.0072199	1	0.064419	1
12p gain	14 (3%)	480	9.9999e-06	0.00534	9.9999e-06	0.00534	0.852	1	0.079719	1	3e-05	0.0136	9.9999e-06	0.00534	5e-05	0.0218	2e-05	0.00938	3e-05	0.0136	3e-05	0.0136
12q gain	15 (3%)	479	9.9999e-06	0.00534	9.9999e-06	0.00534	0.84984	1	0.080129	1	9.9999e-06	0.00534	4e-05	0.0176	9.9999e-06	0.00534	9.9999e-06	0.00534	2e-05	0.00938	9.9999e-06	0.00534
13q gain	5 (1%)	489	9.9999e-06	0.00534	0.01913	1	0.38287	1	0.21534	1	0.04433	1	0.11315	1	0.1678	1	0.062859	1	0.21147	1	0.056429	1
14q gain	11 (2%)	483	9.9999e-06	0.00534	0.00023	0.0911	1	1	0.15757	1	0.00049	0.183	8.9999e-05	0.0377	0.00045	0.169	6.9999e-05	0.0297	0.00091999	0.334	0.00013	0.0533
16p gain	15 (3%)	479	9.9999e-06	0.00534	3e-05	0.0136	0.63198	1	0.078509	1	0.00011	0.0455	0.00029	0.113	0.00013	0.0533	0.00037	0.141	4e-05	0.0176	3e-05	0.0136
16q gain	13 (3%)	481	9.9999e-06	0.00534	0.00011	0.0455	0.7953	1	0.27741	1	0.00109	0.39	0.00213	0.731	0.00167	0.584	0.00021	0.0844	0.00022	0.088	0.00052999	0.197
17p gain	16 (3%)	478	9.9999e-06	0.00534	9.9999e-06	0.00534	0.53824	1	0.02794	1	2e-05	0.00938	9.9999e-06	0.00534	9.9999e-06	0.00534	9.9999e-06	0.00534	9.9999e-06	0.00534	9.9999e-06	0.00534
17q gain	18 (4%)	476	9.9999e-06	0.00534	9.9999e-06	0.00534	0.63088	1	0.01575	1	3e-05	0.0136	9.9999e-06	0.00534	3e-05	0.0136	9.9999e-06	0.00534	9.9999e-06	0.00534	9.9999e-06	0.00534
18p gain	6 (1%)	488	2e-05	0.00938	0.091639	1	NA	NA	NA	NA	0.10773	1	0.19095	1	0.25629	1	0.084759	1	0.02624	1	0.16296	1
18q gain	6 (1%)	488	2e-05	0.00938	0.093639	1	NA	NA	NA	NA	0.10756	1	0.19112	1	0.25589	1	0.081179	1	0.02597	1	0.16227	1
19p gain	8 (2%)	486	9.9999e-06	0.00534	0.00021	0.0844	NA	NA	NA	NA	0.00062999	0.232	0.00014	0.057	9.9999e-05	0.0416	9.9999e-06	0.00534	3e-04	0.116	4e-05	0.0176
19q gain	10 (2%)	484	9.9999e-06	0.00534	2e-05	0.00938	0.63738	1	0.063729	1	0.00012	0.0494	3e-05	0.0136	9.9999e-06	0.00534	9.9999e-06	0.00534	5e-05	0.0218	9.9999e-06	0.00534
20p gain	12 (2%)	482	9.9999e-06	0.00534	0.00025	0.0985	0.79412	1	0.092509	1	0.00304	1	0.00042	0.158	0.00444	1	0.00044	0.165	0.00038	0.145	0.00177	0.618
20q gain	12 (2%)	482	9.9999e-06	0.00534	0.00033	0.127	0.79294	1	0.091209	1	0.00291	0.972	0.00039	0.148	0.00403	1	0.00039	0.148	0.00036	0.138	0.002	0.692
21q gain	5 (1%)	489	3e-05	0.0136	0.17223	1	NA	NA	NA	NA	0.21821	1	0.37386	1	0.45048	1	0.22261	1	0.070049	1	0.36616	1
xq gain	9 (2%)	485	2e-05	0.00938	0.01112	1	0.83951	1	0.50512	1	0.095869	1	0.34698	1	0.33712	1	0.17615	1	0.48433	1	0.29613	1
1p loss	4 (1%)	490	2e-05	0.00938	0.18719	1	NA	NA	NA	NA	0.23578	1	0.27974	1	0.074569	1	0.03771	1	0.12816	1	0.073259	1
1q loss	3 (1%)	491	0.00036	0.138	0.04924	1	NA	NA	NA	NA	0.097229	1	0.11056	1	0.0273	1	0.01585	1	0.070309	1	0.0292	1
2p loss	10 (2%)	484	9.9999e-06	0.00534	3e-05	0.0136	0.77058	1	0.090639	1	7.9999e-05	0.0337	2e-05	0.00938	9.9999e-06	0.00534	9.9999e-06	0.00534	5.9999e-05	0.0257	9.9999e-06	0.00534
2q loss	10 (2%)	484	9.9999e-06	0.00534	9.9999e-06	0.00534	0.77429	1	0.090069	1	7.9999e-05	0.0337	9.9999e-06	0.00534	2e-05	0.00938	9.9999e-06	0.00534	5e-05	0.0218	9.9999e-06	0.00534
3p loss	3 (1%)	491	0.00026	0.102	0.04907	1	NA	NA	NA	NA	0.095579	1	0.10914	1	0.02777	1	0.01652	1	0.071149	1	0.02923	1
3q loss	4 (1%)	490	9.9999e-06	0.00534	0.01847	1	0.49451	1	0.42043	1	0.04283	1	0.0369	1	0.0078999	1	0.00397	1	0.02216	1	0.0098599	1
6p loss	4 (1%)	490	0.00267	0.9	0.04521	1	NA	NA	NA	NA	0.4525	1	0.33775	1	0.076439	1	0.0367	1	0.12819	1	0.060519	1
6q loss	7 (1%)	487	5.9999e-05	0.0257	0.00209	0.719	0.01329	1	0.57295	1	0.03168	1	0.0134	1	0.00287	0.961	0.00093999	0.34	0.0094799	1	0.00183	0.637
8p loss	4 (1%)	490	5e-05	0.0218	0.01794	1	NA	NA	NA	NA	0.0433	1	0.03826	1	0.0081699	1	0.00411	1	0.02292	1	0.0098999	1
8q loss	4 (1%)	490	9.9999e-06	0.00534	0.01806	1	NA	NA	NA	NA	0.0429	1	0.03752	1	0.0082799	1	0.00419	1	0.02292	1	0.0097399	1
9p loss	19 (4%)	475	9.9999e-06	0.00534	0.03637	1	0.24258	1	0.64637	1	0.0283	1	0.04283	1	0.0053399	1	0.00309	1	0.0094499	1	0.00111	0.395
9q loss	24 (5%)	470	9.9999e-06	0.00534	0.056799	1	0.17219	1	0.11442	1	0.10459	1	0.04026	1	0.0092999	1	0.00444	1	0.01249	1	0.00273	0.917
10p loss	7 (1%)	487	9.9999e-06	0.00534	0.01101	1	0.49433	1	0.41996	1	0.02181	1	0.01031	1	0.00323	1	0.0011	0.393	0.0099599	1	0.00291	0.972
10q loss	6 (1%)	488	9.9999e-06	0.00534	0.0192	1	NA	NA	NA	NA	0.052899	1	0.03568	1	0.0091399	1	0.00345	1	0.02701	1	0.0082899	1
11p loss	7 (1%)	487	9.9999e-06	0.00534	0.01143	1	0.49343	1	0.95911	1	0.0068099	1	0.01376	1	0.00311	1	0.00125	0.442	0.01057	1	0.00313	1
11q loss	9 (2%)	485	9.9999e-06	0.00534	0.0168	1	0.32064	1	0.81397	1	0.01735	1	0.015	1	0.00032	0.124	0.00248	0.843	0.00131	0.462	0.0068199	1
13q loss	14 (3%)	480	0.0086399	1	0.01471	1	0.061609	1	0.13687	1	0.00494	1	0.00438	1	0.00145	0.51	0.00082999	0.304	0.00201	0.693	0.0077799	1
15q loss	8 (2%)	486	9.9999e-05	0.0416	0.00016	0.065	0.19327	1	0.088729	1	0.00045	0.169	0.00016	0.065	8.9999e-05	0.0377	9.9999e-06	0.00534	0.00022	0.088	5e-05	0.0218
17p loss	8 (2%)	486	0.00165	0.579	0.41934	1	1	1	0.38857	1	0.65343	1	0.64544	1	0.3293	1	0.14102	1	0.67109	1	0.19153	1
17q loss	4 (1%)	490	0.054099	1	0.79212	1	NA	NA	NA	NA	0.89733	1	0.63564	1	0.39803	1	0.57197	1	0.84667	1	0.76152	1
18p loss	4 (1%)	490	0.00029	0.113	0.18666	1	1	1	0.38721	1	0.23768	1	0.16137	1	0.11342	1	0.063949	1	0.0226	1	0.2086	1
18q loss	4 (1%)	490	0.00017	0.0687	0.18493	1	1	1	0.38743	1	0.23636	1	0.16097	1	0.1152	1	0.062949	1	0.02244	1	0.20874	1
19p loss	5 (1%)	489	0.02539	1	0.00424	1	0.32067	1	0.23667	1	0.01783	1	0.0082599	1	0.00262	0.888	0.00086999	0.318	0.0075199	1	0.00264	0.892
21q loss	8 (2%)	486	5.9999e-05	0.0257	0.14119	1	0.38275	1	0.21323	1	0.65188	1	0.57475	1	0.075159	1	0.14136	1	0.098289	1	0.0080499	1
22q loss	86 (17%)	408	9.9999e-06	0.00534	3e-05	0.0136	0.11798	1	0.50152	1	9.9999e-06	0.00534	9.9999e-06	0.00534	0.00087999	0.32	0.00018	0.0725	9.9999e-06	0.00534	2e-05	0.00938
xq loss	3 (1%)	491	0.02187	1	0.04978	1	0.27804	1	0.19841	1	0.096459	1	0.11096	1	0.02791	1	0.01573	1	0.068599	1	0.02869	1