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	5 (1%)	496	0.00105	0.407	0.83898	1	NA	NA	NA	NA	0.92154	1	0.88148	1	0.10795	1	0.051639	1	0.27606	1	0.1424	1
1q gain	26 (5%)	475	9.9999e-06	0.00534	0.0166	1	0.00281	1	0.064499	1	0.00112	0.431	6.9999e-05	0.0316	0.085899	1	0.050579	1	0.01331	1	0.0156	1
3p gain	3 (1%)	498	0.00159	0.601	0.54834	1	NA	NA	NA	NA	0.49602	1	0.59165	1	0.30467	1	0.18656	1	1	1	0.19262	1
4p gain	5 (1%)	496	9.9999e-06	0.00534	0.0064499	1	NA	NA	NA	NA	0.01642	1	0.01257	1	0.04161	1	0.01471	1	1	1	0.076689	1
4q gain	5 (1%)	496	5e-05	0.023	0.0067599	1	NA	NA	NA	NA	0.01707	1	0.01231	1	0.04042	1	0.01416	1	1	1	0.077219	1
5p gain	21 (4%)	480	9.9999e-06	0.00534	0.00198	0.739	0.52886	1	0.23259	1	0.0051699	1	0.00011	0.0486	0.00099999	0.389	9.9999e-05	0.0445	0.5981	1	0.00366	1
5q gain	17 (3%)	484	9.9999e-06	0.00534	5e-05	0.023	0.84877	1	0.079489	1	0.00013	0.0573	3e-05	0.0141	2e-04	0.0848	9.9999e-06	0.00534	0.83969	1	0.00425	1
7p gain	18 (4%)	483	9.9999e-06	0.00534	5e-05	0.023	0.6592	1	0.052359	1	0.00064999	0.259	0.00013	0.0573	0.00034	0.14	4e-05	0.0187	0.57772	1	0.0053799	1
7q gain	20 (4%)	481	9.9999e-06	0.00534	9.9999e-06	0.00534	0.57211	1	0.01414	1	9.9999e-05	0.0445	4e-05	0.0187	6.9999e-05	0.0316	9.9999e-06	0.00534	0.61191	1	0.00061999	0.249
8p gain	6 (1%)	495	0.00015	0.0657	0.41607	1	0.45482	1	0.62895	1	0.59721	1	0.53554	1	0.45357	1	0.45166	1	1	1	1	1
8q gain	7 (1%)	494	2e-05	0.00962	0.20183	1	0.45471	1	0.6326	1	0.82967	1	0.52012	1	0.79977	1	0.62973	1	0.89957	1	0.89683	1
9p gain	3 (1%)	498	0.00143	0.545	0.55044	1	NA	NA	NA	NA	0.49547	1	0.58755	1	1	1	1	1	0.4208	1	0.63164	1
9q gain	4 (1%)	497	0.01097	1	0.79268	1	NA	NA	NA	NA	0.90023	1	0.3611	1	0.83931	1	1	1	0.16654	1	0.56783	1
11p gain	6 (1%)	495	0.00112	0.431	0.02843	1	0.77914	1	0.30117	1	0.053799	1	0.04417	1	0.0089299	1	0.0068499	1	0.46759	1	0.097729	1
11q gain	5 (1%)	496	0.00016	0.0696	0.060379	1	0.77876	1	0.30002	1	0.1099	1	0.12364	1	0.02638	1	0.02251	1	0.31051	1	0.27292	1
12p gain	14 (3%)	487	9.9999e-06	0.00534	9.9999e-06	0.00534	0.84957	1	0.081129	1	2e-05	0.00962	9.9999e-06	0.00534	5.9999e-05	0.0271	9.9999e-06	0.00534	0.5516	1	0.00242	0.888
12q gain	15 (3%)	486	9.9999e-06	0.00534	9.9999e-06	0.00534	0.85061	1	0.078899	1	9.9999e-06	0.00534	9.9999e-06	0.00534	3e-05	0.0141	9.9999e-06	0.00534	0.38323	1	0.00085999	0.337
13q gain	5 (1%)	496	4e-05	0.0187	0.01894	1	0.38014	1	0.2127	1	0.04916	1	0.10172	1	0.23942	1	0.070309	1	0.84421	1	0.1975	1
14q gain	11 (2%)	490	9.9999e-06	0.00534	0.00022	0.0931	1	1	0.15783	1	0.00049	0.2	8.9999e-05	0.0401	0.00059999	0.242	5e-05	0.023	0.85158	1	0.00201	0.748
16p gain	15 (3%)	486	9.9999e-06	0.00534	4e-05	0.0187	0.63322	1	0.079599	1	0.00018	0.077	5e-05	0.023	0.00015	0.0657	9.9999e-06	0.00534	0.43493	1	0.00075999	0.3
16q gain	13 (3%)	488	9.9999e-06	0.00534	0.00016	0.0696	0.79674	1	0.27603	1	0.00093999	0.367	0.00031	0.129	0.00181	0.679	0.00017	0.0731	0.61659	1	0.0078899	1
17p gain	16 (3%)	485	9.9999e-06	0.00534	9.9999e-06	0.00534	0.53766	1	0.02785	1	9.9999e-06	0.00534	9.9999e-06	0.00534	2e-05	0.00962	9.9999e-06	0.00534	0.35774	1	0.00024	0.1
17q gain	18 (4%)	483	9.9999e-06	0.00534	9.9999e-06	0.00534	0.63498	1	0.01529	1	9.9999e-06	0.00534	9.9999e-06	0.00534	2e-05	0.00962	9.9999e-06	0.00534	0.5134	1	0.00027	0.112
18p gain	6 (1%)	495	5e-05	0.023	0.091879	1	NA	NA	NA	NA	0.122	1	0.26694	1	0.25597	1	0.11143	1	0.45401	1	0.39873	1
18q gain	6 (1%)	495	3e-05	0.0141	0.091999	1	NA	NA	NA	NA	0.12013	1	0.26515	1	0.25392	1	0.11353	1	0.45414	1	0.39346	1
19p gain	8 (2%)	493	9.9999e-06	0.00534	0.00019	0.0809	NA	NA	NA	NA	0.00062999	0.252	0.00022	0.0931	6.9999e-05	0.0316	2e-05	0.00962	0.44907	1	0.02258	1
19q gain	10 (2%)	491	9.9999e-06	0.00534	2e-05	0.00962	0.63456	1	0.064179	1	9.9999e-05	0.0445	4e-05	0.0187	2e-05	0.00962	9.9999e-06	0.00534	0.63676	1	0.0016	0.603
20p gain	12 (2%)	489	9.9999e-06	0.00534	0.00032	0.132	0.79614	1	0.092929	1	0.00257	0.935	0.00089999	0.352	0.00453	1	0.00049	0.2	0.91306	1	0.095019	1
20q gain	12 (2%)	489	9.9999e-06	0.00534	0.00044	0.18	0.79459	1	0.092689	1	0.00251	0.916	0.00066999	0.267	0.00426	1	0.00076999	0.303	0.91467	1	0.093099	1
21q gain	5 (1%)	496	0.00015	0.0657	0.16899	1	NA	NA	NA	NA	0.23773	1	0.48839	1	0.45294	1	0.31211	1	0.69231	1	0.68098	1
xq gain	9 (2%)	492	9.9999e-06	0.00534	0.01097	1	0.83764	1	0.50135	1	0.097389	1	0.14126	1	0.2771	1	0.13257	1	0.90825	1	0.39821	1
1p loss	4 (1%)	497	0.00019	0.0809	0.18639	1	NA	NA	NA	NA	0.24328	1	0.31608	1	0.11474	1	0.066299	1	0.84522	1	0.19465	1
1q loss	3 (1%)	498	0.00137	0.523	0.050459	1	NA	NA	NA	NA	0.097179	1	0.15366	1	0.02799	1	0.01757	1	1	1	0.19015	1
2p loss	10 (2%)	491	9.9999e-06	0.00534	3e-05	0.0141	0.77491	1	0.092019	1	7.9999e-05	0.0358	2e-05	0.00962	9.9999e-06	0.00534	2e-05	0.00962	0.23499	1	0.00036	0.148
2q loss	10 (2%)	491	9.9999e-06	0.00534	2e-05	0.00962	0.77305	1	0.089299	1	0.00013	0.0573	5e-05	0.023	9.9999e-06	0.00534	9.9999e-06	0.00534	0.23401	1	0.00055999	0.226
3p loss	3 (1%)	498	0.00123	0.471	0.04889	1	NA	NA	NA	NA	0.099519	1	0.15186	1	0.02657	1	0.01622	1	1	1	0.19181	1
3q loss	4 (1%)	497	0.00016	0.0696	0.01808	1	0.49531	1	0.41998	1	0.03723	1	0.04783	1	0.0087799	1	0.00408	1	1	1	0.066929	1
6p loss	4 (1%)	497	0.00016	0.0696	0.04567	1	NA	NA	NA	NA	0.45969	1	0.39852	1	0.11467	1	0.067459	1	0.40073	1	0.19465	1
6q loss	7 (1%)	494	4e-05	0.0187	0.00219	0.808	0.01306	1	0.57353	1	0.02725	1	0.01808	1	0.00489	1	0.00059999	0.242	1	1	0.0099499	1
8p loss	4 (1%)	497	0.00018	0.077	0.01809	1	NA	NA	NA	NA	0.03577	1	0.04712	1	0.0078399	1	0.00398	1	0.11039	1	0.01863	1
8q loss	4 (1%)	497	0.00016	0.0696	0.0182	1	NA	NA	NA	NA	0.03553	1	0.04637	1	0.0084099	1	0.0039	1	0.10981	1	0.0192	1
9p loss	19 (4%)	482	9.9999e-06	0.00534	0.0377	1	0.24269	1	0.64752	1	0.03116	1	0.062359	1	0.0087899	1	0.0070599	1	0.30302	1	0.00387	1
9q loss	25 (5%)	476	9.9999e-06	0.00534	0.10386	1	0.17215	1	0.11611	1	0.17135	1	0.062789	1	0.0097899	1	0.0063699	1	0.27927	1	0.00499	1
10p loss	7 (1%)	494	9.9999e-06	0.00534	0.01112	1	0.49327	1	0.41959	1	0.01954	1	0.01535	1	0.00466	1	0.00068999	0.274	1	1	0.01029	1
10q loss	6 (1%)	495	9.9999e-06	0.00534	0.02906	1	NA	NA	NA	NA	0.051569	1	0.04404	1	0.01438	1	0.00439	1	1	1	0.0287	1
11p loss	7 (1%)	494	9.9999e-06	0.00534	0.01127	1	0.49405	1	0.95835	1	0.0072199	1	0.01864	1	0.00477	1	0.00073999	0.293	0.79761	1	0.01088	1
11q loss	9 (2%)	492	9.9999e-06	0.00534	0.0158	1	0.31936	1	0.8122	1	0.01523	1	0.0184	1	0.00050999	0.207	0.00248	0.908	0.90833	1	0.00201	0.748
13q loss	14 (3%)	487	0.00164	0.617	0.01497	1	0.061079	1	0.13867	1	0.0054699	1	0.0086399	1	0.00108	0.418	0.00054999	0.223	0.10444	1	0.01303	1
15q loss	8 (2%)	493	0.00023	0.0966	0.00022	0.0931	0.19269	1	0.087859	1	0.00048	0.196	0.00026	0.108	6.9999e-05	0.0316	5e-05	0.023	0.40667	1	0.00154	0.585
17p loss	8 (2%)	493	0.01449	1	0.41468	1	1	1	0.39099	1	0.63807	1	0.59896	1	0.091939	1	0.1622	1	0.12865	1	0.20464	1
17q loss	4 (1%)	497	0.11282	1	0.7903	1	NA	NA	NA	NA	0.90147	1	0.66567	1	0.4659	1	0.56763	1	0.33089	1	0.68445	1
18p loss	4 (1%)	497	0.00191	0.714	0.1831	1	1	1	0.38787	1	0.24505	1	0.31559	1	0.075829	1	0.092319	1	0.53127	1	0.27337	1
18q loss	4 (1%)	497	0.0021	0.777	0.18513	1	1	1	0.38742	1	0.24562	1	0.318	1	0.072339	1	0.090649	1	0.5341	1	0.27727	1
19p loss	5 (1%)	496	0.0091499	1	0.0074299	1	0.32133	1	0.23717	1	0.01701	1	0.01252	1	0.00239	0.88	0.00108	0.418	0.087619	1	0.00155	0.587
21q loss	8 (2%)	493	0.00079999	0.314	0.16253	1	0.38381	1	0.21545	1	0.71145	1	0.4201	1	0.093229	1	0.0291	1	0.45987	1	0.054489	1
22q loss	89 (18%)	412	9.9999e-06	0.00534	9.9999e-06	0.00534	0.11648	1	0.50257	1	9.9999e-06	0.00534	9.9999e-06	0.00534	0.00035	0.144	5e-05	0.023	0.00017	0.0731	0.00023	0.0966
xq loss	3 (1%)	498	0.050739	1	0.04898	1	0.28038	1	0.1989	1	0.098879	1	0.15099	1	0.02759	1	0.01651	1	0.11054	1	0.01898	1