		Clinical Features	CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL		MIRSEQ_MATURE_CNMF		MIRSEQ_MATURE_CHIERARCHICAL	
	nCNV (%)	nWild-Type	Chi-square test_P	Chi-square test_Q	Chi-square test_P	Chi-square 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 (3%)	192	0.033097	1	8.8425e-07	0.000451	0.021736	1	0.19386	1	0.12964	1	0.2892	1	0.10632	1	0.026635	1
1q gain	14 (7%)	183	8.7071e-05	0.0415	2.5677e-10	1.39e-07	3.8806e-05	0.0187	0.0038611	1	0.41336	1	0.12478	1	0.61049	1	0.010526	1
2p gain	36 (18%)	161	9.398e-29	5.25e-26	9.4638e-05	0.0449	0.028346	1	0.048794	1	0.083843	1	0.65904	1	0.013459	1	0.566	1
2q gain	39 (20%)	158	1.1905e-28	6.64e-26	3.1254e-05	0.0152	0.048258	1	0.043012	1	0.10759	1	0.89609	1	0.024188	1	0.88199	1
3p gain	55 (28%)	142	9.2714e-18	5.15e-15	1.0585e-05	0.00523	9.0956e-07	0.000463	4.7753e-06	0.00239	0.079459	1	0.28356	1	0.091455	1	0.012962	1
3q gain	65 (33%)	132	1.456e-16	8.07e-14	7.1149e-06	0.00354	2.5634e-07	0.000133	0.0001514	0.0712	0.048944	1	0.093667	1	0.16174	1	0.0028505	1
4p gain	6 (3%)	191	0.33294	1	0.54191	1	0.39338	1	0.87706	1	1	1	0.37255	1	1	1	0.25062	1
4q gain	5 (3%)	192	0.68733	1	0.54191	1	0.62751	1	1	1	1	1	0.84983	1	0.74207	1	0.6753	1
5p gain	26 (13%)	171	1.3447e-06	0.000678	0.1014	1	0.038851	1	2.1209e-05	0.0104	0.11099	1	0.19056	1	0.037396	1	0.35493	1
5q gain	26 (13%)	171	1.7617e-05	0.00863	0.16927	1	0.072859	1	2.1209e-05	0.0104	0.11099	1	0.42899	1	0.11998	1	0.70711	1
6p gain	8 (4%)	189	0.21738	1	0.0055626	1	0.020981	1	0.22642	1	0.07533	1	0.37319	1	0.35634	1	0.046533	1
6q gain	6 (3%)	191	0.032635	1	0.00037038	0.171	0.13098	1	0.67292	1	0.12652	1	0.74502	1	0.24438	1	0.16573	1
7p gain	117 (59%)	80	2.2218e-16	1.23e-13	2.1026e-06	0.00106	3.6158e-14	1.99e-11	2.7608e-13	1.5e-10	0.1609	1	0.49181	1	0.099267	1	0.0012773	0.567
7q gain	118 (60%)	79	6.0492e-16	3.34e-13	5.1375e-06	0.00256	1.4523e-13	7.96e-11	6.288e-13	3.42e-10	0.22078	1	0.65254	1	0.14261	1	0.004702	1
8p gain	14 (7%)	183	0.40557	1	0.13903	1	0.024776	1	0.26648	1	0.22676	1	0.17163	1	0.61049	1	0.11169	1
8q gain	17 (9%)	180	0.17328	1	0.001422	0.626	0.0026622	1	0.1154	1	0.046402	1	0.081971	1	0.14435	1	0.037723	1
9p gain	3 (2%)	194	0.54257	1	NA	NA	0.19427	1	0.28429	1	1	1	0.18729	1	0.50811	1	0.087353	1
10p gain	5 (3%)	192	0.10574	1	0.61924	1	0.51669	1	1	1	0.37403	1	0.45856	1	0.23063	1	0.42333	1
10q gain	5 (3%)	192	0.10574	1	0.61924	1	0.51669	1	1	1	0.37403	1	0.45856	1	0.23063	1	0.42333	1
11p gain	10 (5%)	187	0.026906	1	0.0038431	1	0.14439	1	0.032606	1	0.43489	1	0.82414	1	0.36067	1	0.52935	1
11q gain	8 (4%)	189	0.00043535	0.199	0.0012421	0.553	0.14572	1	0.031701	1	0.36295	1	1	1	0.28792	1	0.59324	1
12p gain	80 (41%)	117	0.00080523	0.364	0.15613	1	0.045194	1	0.0013956	0.618	0.19365	1	0.024929	1	0.10888	1	0.059959	1
12q gain	80 (41%)	117	0.00080523	0.364	0.15613	1	0.045194	1	0.0013956	0.618	0.19365	1	0.024929	1	0.10888	1	0.059959	1
13q gain	22 (11%)	175	0.21943	1	0.52615	1	0.24193	1	0.83191	1	0.74501	1	1	1	0.72221	1	0.7531	1
14q gain	3 (2%)	194	0.72169	1	0.066597	1	0.19427	1	0.28429	1	1	1	0.18729	1	1	1	0.087353	1
15q gain	5 (3%)	192	0.033097	1	0.17444	1	0.20211	1	0.16454	1	0.53598	1	0.57167	1	0.44297	1	0.6753	1
16p gain	105 (53%)	92	3.446e-08	1.82e-05	7.3383e-09	3.91e-06	1.2759e-06	0.000646	3.398e-10	1.83e-07	0.012248	1	0.01848	1	0.00067678	0.307	0.00096364	0.431
16q gain	101 (51%)	96	2.1293e-09	1.14e-06	1.1317e-08	6.01e-06	8.3159e-08	4.36e-05	1.2595e-09	6.75e-07	0.0016004	0.699	0.01323	1	9.5806e-05	0.0453	0.00022545	0.105
17p gain	118 (60%)	79	6.5056e-16	3.58e-13	2.0447e-07	0.000106	2.5471e-13	1.39e-10	9.3436e-12	5.06e-09	0.09366	1	0.17792	1	0.025426	1	0.0032744	1
17q gain	133 (68%)	64	5.3958e-12	2.93e-09	0.0014724	0.646	6.3129e-08	3.32e-05	5.7918e-08	3.05e-05	0.44817	1	0.31574	1	0.3636	1	0.072173	1
18p gain	9 (5%)	188	0.41238	1	0.22554	1	0.66052	1	0.6927	1	0.25015	1	0.0045802	1	0.19541	1	0.067503	1
18q gain	5 (3%)	192	0.23161	1	0.45156	1	0.58901	1	0.22974	1	1	1	0.063309	1	0.62891	1	0.6753	1
19p gain	3 (2%)	194	0.16204	1	0.5613	1	0.19427	1	0.50296	1	0.32327	1	0.53569	1	0.28867	1	0.49115	1
19q gain	3 (2%)	194	0.16204	1	0.5613	1	0.19427	1	0.50296	1	0.32327	1	0.53569	1	0.28867	1	0.49115	1
20p gain	66 (34%)	131	0.00055427	0.252	0.010467	1	0.025515	1	0.06273	1	0.045285	1	0.69049	1	0.16054	1	0.34428	1
20q gain	68 (35%)	129	0.0019702	0.857	0.0071662	1	0.062365	1	0.084809	1	0.031312	1	0.82324	1	0.18325	1	0.52008	1
21q gain	12 (6%)	185	0.24789	1	0.52999	1	0.035317	1	0.23137	1	0.93068	1	0.43771	1	0.53099	1	0.76213	1
22q gain	3 (2%)	194	0.36534	1	0.79051	1	0.51233	1	0.77821	1	0.069616	1	0.27984	1	0.19837	1	0.23007	1
xq gain	63 (32%)	134	7.7736e-18	4.33e-15	2.444e-07	0.000127	1.5024e-07	7.84e-05	6.0793e-10	3.26e-07	0.0076507	1	0.064856	1	0.00042692	0.196	0.0024899	1
1p loss	21 (11%)	176	1.2994e-06	0.000656	0.011388	1	0.0074583	1	0.41192	1	1	1	0.34257	1	1	1	0.87914	1
1q loss	13 (7%)	184	0.00044077	0.201	0.23577	1	0.32807	1	0.51013	1	0.67781	1	0.14186	1	0.72019	1	0.29764	1
3p loss	14 (7%)	183	8.7071e-05	0.0415	1.2035e-06	0.00061	3.8806e-05	0.0187	0.00044625	0.203	0.26737	1	0.0053014	1	0.040367	1	5.064e-06	0.00253
3q loss	4 (2%)	193	0.073884	1	0.0054513	1	0.065225	1	0.10128	1	0.12814	1	0.50298	1	0.20656	1	0.082398	1
4p loss	18 (9%)	179	2.9292e-05	0.0143	1.6144e-13	8.83e-11	9.9507e-07	0.000505	0.0038267	1	0.3319	1	0.17262	1	0.70625	1	0.0058636	1
4q loss	19 (10%)	178	2.2526e-07	0.000117	8.736e-11	4.73e-08	3.4059e-07	0.000175	0.0061968	1	0.40876	1	0.37357	1	0.84182	1	0.052739	1
5p loss	7 (4%)	190	0.33307	1	8.2977e-07	0.000425	0.030873	1	0.0035776	1	0.0063375	1	0.058443	1	0.011091	1	0.045203	1
5q loss	7 (4%)	190	0.43888	1	8.2977e-07	0.000425	0.030873	1	0.0035776	1	0.0063375	1	0.058443	1	0.011091	1	0.045203	1
6p loss	13 (7%)	184	0.092613	1	0.019365	1	0.099742	1	0.33336	1	0.445	1	0.28261	1	0.46942	1	0.56314	1
6q loss	16 (8%)	181	0.015202	1	0.024727	1	0.023144	1	0.32741	1	1	1	0.56686	1	0.69224	1	0.10902	1
8p loss	7 (4%)	190	0.51603	1	0.99153	1	0.27794	1	0.50147	1	0.31226	1	0.10839	1	0.39564	1	0.066982	1
8q loss	4 (2%)	193	0.42596	1	0.66293	1	0.32788	1	0.68218	1	0.84651	1	0.65183	1	1	1	0.58554	1
9p loss	22 (11%)	175	3.4867e-06	0.00175	3.3915e-07	0.000175	1.0469e-07	5.48e-05	8.6146e-05	0.0412	0.15129	1	0.051439	1	0.16875	1	0.0016669	0.727
9q loss	24 (12%)	173	9.8368e-05	0.0464	2.1979e-09	1.17e-06	1.0945e-08	5.82e-06	3.489e-05	0.0169	0.10045	1	0.00086814	0.39	0.06345	1	8.3675e-06	0.00414
10p loss	12 (6%)	185	1.6125e-05	0.00792	8.8526e-05	0.0421	0.00034183	0.159	0.050925	1	0.56555	1	0.0044422	1	0.23471	1	0.0032788	1
10q loss	12 (6%)	185	0.00037858	0.175	7.1202e-06	0.00354	0.00034183	0.159	0.01865	1	0.18732	1	0.0015135	0.663	0.051443	1	0.00021737	0.102
11p loss	10 (5%)	187	0.023117	1	0.0020185	0.876	0.028978	1	0.33061	1	0.77665	1	0.18214	1	0.30314	1	0.070796	1
11q loss	14 (7%)	183	0.00037316	0.172	0.0012358	0.551	0.0034766	1	0.23411	1	0.55098	1	0.37754	1	0.24168	1	0.16492	1
13q loss	18 (9%)	179	0.01126	1	1.3134e-13	7.21e-11	1.5204e-05	0.00748	0.016292	1	0.026436	1	0.0087243	1	0.065927	1	0.00085149	0.383
14q loss	35 (18%)	162	8.0645e-17	4.48e-14	7.8228e-05	0.0375	0.00050621	0.23	0.0021046	0.911	0.38211	1	0.48915	1	0.25543	1	0.21588	1
15q loss	19 (10%)	178	3.7364e-05	0.0181	4.0742e-05	0.0196	0.0039954	1	0.0079162	1	0.18663	1	0.21431	1	0.12383	1	0.15976	1
16p loss	4 (2%)	193	0.064877	1	0.0054513	1	0.065225	1	0.10128	1	0.84651	1	0.3742	1	1	1	0.082398	1
16q loss	5 (3%)	192	0.01167	1	0.00034614	0.161	0.021736	1	0.19386	1	0.53598	1	0.37372	1	0.62891	1	0.019288	1
17p loss	8 (4%)	189	0.13958	1	7.9994e-05	0.0383	0.00092518	0.414	0.027173	1	0.17927	1	0.10896	1	0.22578	1	0.046533	1
18p loss	30 (15%)	167	0.0034948	1	7.625e-08	4e-05	4.0437e-07	0.000208	0.0030829	1	0.043226	1	0.46479	1	0.05149	1	0.044625	1
18q loss	32 (16%)	165	0.00038482	0.177	6.0029e-10	3.23e-07	4.5068e-08	2.38e-05	0.0014031	0.619	0.051874	1	0.32706	1	0.077794	1	0.016643	1
19p loss	12 (6%)	185	0.0040721	1	0.056199	1	0.046441	1	0.08555	1	0.29467	1	0.18483	1	0.073934	1	0.31027	1
19q loss	11 (6%)	186	0.012585	1	0.014569	1	0.070806	1	0.57518	1	0.46838	1	0.27992	1	0.13526	1	0.10631	1
21q loss	32 (16%)	165	0.00015121	0.0712	0.15333	1	0.54593	1	1	1	0.57715	1	0.70429	1	0.32086	1	0.84756	1
22q loss	44 (22%)	153	1.5176e-05	0.00748	1.2614e-08	6.69e-06	1.5019e-07	7.84e-05	0.0057168	1	0.5147	1	0.039425	1	0.10628	1	0.010659	1
xq loss	20 (10%)	177	2.4518e-06	0.00123	4.6419e-07	0.000238	0.00019531	0.0916	0.10519	1	0.097423	1	0.10241	1	0.16683	1	0.034818	1
