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
3p gain	8 (12%)	58	0.27089	1	0.53155	1	0.95223	1	0.64775	1	0.51689	1	0.69241	1	0.01329	1	0.79513	1
3q gain	8 (12%)	58	0.27106	1	0.52809	1	0.95228	1	0.65117	1	0.51412	1	0.69085	1	0.01339	1	0.79462	1
4p gain	24 (36%)	42	0.055339	1	1	1	3e-05	0.0137	5.9999e-05	0.0269	0.77017	1	0.0085899	1	0.77501	1	0.12911	1
4q gain	24 (36%)	42	0.056559	1	1	1	2e-05	0.0092	4e-05	0.0181	0.76945	1	0.0090799	1	0.77487	1	0.12731	1
5p gain	8 (12%)	58	0.42721	1	0.68245	1	0.4482	1	0.44758	1	0.3629	1	0.059599	1	0.68274	1	0.31353	1
5q gain	8 (12%)	58	0.42473	1	0.6787	1	0.44999	1	0.44888	1	0.36252	1	0.061619	1	0.68227	1	0.31211	1
7p gain	24 (36%)	42	0.15248	1	1	1	0.01627	1	0.061599	1	0.89987	1	0.11717	1	0.77451	1	0.41493	1
7q gain	24 (36%)	42	0.15144	1	1	1	0.0157	1	0.061279	1	0.90053	1	0.11878	1	0.77604	1	0.41793	1
8p gain	17 (26%)	49	0.41008	1	0.41785	1	0.0038	1	0.03175	1	0.46375	1	0.10023	1	0.73066	1	0.30099	1
8q gain	18 (27%)	48	0.34078	1	0.37753	1	0.0012	0.504	0.01041	1	0.69356	1	0.087289	1	0.93819	1	0.191	1
9p gain	10 (15%)	56	1	1	1	1	0.72383	1	0.81368	1	0.83086	1	0.60095	1	0.21872	1	0.65622	1
9q gain	10 (15%)	56	1	1	1	1	0.72414	1	0.81063	1	0.83318	1	0.60082	1	0.22107	1	0.65964	1
10p gain	4 (6%)	62	0.43978	1	0.16362	1	0.51539	1	0.20478	1	1	1	0.1652	1	0.58845	1	0.11001	1
11p gain	15 (23%)	51	0.2844	1	0.67672	1	3e-05	0.0137	0.00043	0.184	0.87004	1	0.02715	1	0.71839	1	0.15291	1
11q gain	15 (23%)	51	0.28143	1	0.68095	1	9.9999e-06	0.00488	9.9999e-06	0.00488	0.62163	1	0.0206	1	0.38691	1	0.055789	1
12p gain	19 (29%)	47	0.48222	1	0.76518	1	0.077999	1	0.15704	1	1	1	0.067229	1	0.86827	1	0.42945	1
12q gain	20 (30%)	46	0.44454	1	0.59272	1	0.14632	1	0.082949	1	0.94438	1	0.03299	1	0.941	1	0.32989	1
14q gain	21 (32%)	45	0.10683	1	0.82933	1	0.00066999	0.285	0.00459	1	0.42553	1	0.057029	1	0.88108	1	0.16185	1
15q gain	21 (32%)	45	0.10711	1	0.82702	1	0.00184	0.76	0.062069	1	0.75453	1	0.21438	1	1	1	0.13551	1
16p gain	21 (32%)	45	0.10785	1	1	1	9.9999e-06	0.00488	6.9999e-05	0.0313	0.15823	1	0.0050099	1	0.80046	1	0.084439	1
16q gain	21 (32%)	45	0.10602	1	1	1	2e-05	0.0092	7.9999e-05	0.0354	0.1601	1	0.0053599	1	0.80095	1	0.084309	1
18p gain	17 (26%)	49	0.51638	1	0.8055	1	0.00195	0.803	0.01278	1	0.93846	1	0.04962	1	0.3298	1	0.03809	1
18q gain	16 (24%)	50	0.63961	1	0.92746	1	0.00107	0.453	0.01913	1	0.82059	1	0.051899	1	0.41645	1	0.02603	1
19p gain	19 (29%)	47	0.48424	1	0.27494	1	0.02198	1	0.0093899	1	0.66143	1	0.03862	1	0.96358	1	0.1258	1
19q gain	17 (26%)	49	0.52065	1	0.307	1	0.00124	0.518	0.00155	0.643	0.4122	1	0.04772	1	0.91918	1	0.024	1
20p gain	20 (30%)	46	0.21315	1	0.59695	1	0.03018	1	0.03141	1	0.70746	1	0.03125	1	0.647	1	0.30988	1
20q gain	21 (32%)	45	0.22598	1	0.38841	1	0.068449	1	0.01678	1	0.67595	1	0.03715	1	0.5264	1	0.43585	1
21q gain	4 (6%)	62	0.43931	1	0.16075	1	0.5122	1	0.10577	1	0.67725	1	0.16487	1	0.4974	1	0.13098	1
22q gain	19 (29%)	47	0.90103	1	0.7116	1	0.069879	1	0.36274	1	0.55132	1	0.023	1	1	1	0.25146	1
xq gain	6 (9%)	60	1	1	0.72217	1	0.0066999	1	0.12249	1	0.26321	1	0.11713	1	0.51	1	0.02474	1
1p loss	53 (80%)	13	0.6741	1	3e-05	0.0137	4e-04	0.172	0.00029	0.125	0.16367	1	0.00129	0.538	0.099089	1	0.00143	0.595
1q loss	52 (79%)	14	0.47387	1	9.9999e-06	0.00488	6.9999e-05	0.0313	5e-05	0.0225	0.23335	1	0.00047	0.201	0.076109	1	4e-05	0.0181
2p loss	46 (70%)	20	0.088119	1	9.9999e-06	0.00488	9.9999e-06	0.00488	9.9999e-06	0.00488	0.083049	1	9.9999e-06	0.00488	0.02315	1	9.9999e-06	0.00488
2q loss	46 (70%)	20	0.088279	1	9.9999e-06	0.00488	9.9999e-06	0.00488	9.9999e-06	0.00488	0.083809	1	9.9999e-06	0.00488	0.0225	1	9.9999e-06	0.00488
3p loss	9 (14%)	57	0.03706	1	0.89481	1	0.065669	1	0.00331	1	0.90419	1	0.20358	1	0.02912	1	0.069929	1
3q loss	8 (12%)	58	0.02166	1	0.36932	1	0.02541	1	0.0017	0.704	0.5754	1	0.17815	1	0.0053199	1	0.02455	1
5p loss	10 (15%)	56	0.099919	1	0.25191	1	0.00066999	0.285	0.01872	1	0.42558	1	0.01341	1	0.63547	1	0.03072	1
5q loss	10 (15%)	56	0.098329	1	0.25069	1	0.00073999	0.314	0.01887	1	0.4282	1	0.01528	1	0.63293	1	0.03188	1
6p loss	51 (77%)	15	0.33001	1	7.9999e-05	0.0354	8.9999e-05	0.0395	9.9999e-06	0.00488	0.35292	1	0.0012	0.504	0.3044	1	0.00012	0.0524
6q loss	51 (77%)	15	0.32909	1	0.00012	0.0524	6.9999e-05	0.0313	9.9999e-06	0.00488	0.35223	1	0.00111	0.468	0.30203	1	4e-05	0.0181
8p loss	9 (14%)	57	9.9999e-06	0.00488	0.084439	1	0.053169	1	0.03912	1	0.14749	1	0.46629	1	0.073039	1	0.0087999	1
8q loss	8 (12%)	58	9.9999e-06	0.00488	0.04203	1	0.13366	1	0.071549	1	0.28744	1	0.52724	1	0.17136	1	0.04967	1
9p loss	10 (15%)	56	1	1	0.90033	1	0.064909	1	0.01616	1	0.91247	1	0.5983	1	0.92224	1	0.49764	1
9q loss	10 (15%)	56	1	1	0.90155	1	0.064349	1	0.01558	1	0.91254	1	0.60051	1	0.92204	1	0.49962	1
10p loss	48 (73%)	18	0.34142	1	0.00032	0.138	6.9999e-05	0.0313	9.9999e-06	0.00488	0.27447	1	0.00017	0.0739	0.0063899	1	9.9999e-06	0.00488
10q loss	49 (74%)	17	0.24956	1	0.00018	0.0781	2e-05	0.0092	9.9999e-06	0.00488	0.22562	1	0.00025	0.108	0.01323	1	8.9999e-05	0.0395
11p loss	7 (11%)	59	0.62692	1	0.57346	1	0.11122	1	0.3168	1	0.20313	1	0.93804	1	0.40056	1	0.33422	1
11q loss	7 (11%)	59	0.62768	1	0.57188	1	0.11	1	0.31391	1	0.20372	1	0.9392	1	0.40188	1	0.33374	1
13q loss	43 (65%)	23	0.25986	1	0.00052999	0.226	0.00353	1	7.9999e-05	0.0354	0.85185	1	0.19685	1	0.93476	1	0.098669	1
16p loss	4 (6%)	62	0.68644	1	0.51702	1	0.02313	1	0.03726	1	0.68279	1	0.086879	1	0.49575	1	0.80653	1
16q loss	5 (8%)	61	0.72048	1	0.38826	1	0.0058299	1	0.0074799	1	0.4274	1	0.04812	1	0.19515	1	0.52092	1
17p loss	50 (76%)	16	0.29962	1	9.9999e-06	0.00488	9.9999e-06	0.00488	9.9999e-06	0.00488	0.050879	1	6.9999e-05	0.0313	0.02509	1	2e-05	0.0092
17q loss	50 (76%)	16	0.29975	1	9.9999e-06	0.00488	9.9999e-06	0.00488	9.9999e-06	0.00488	0.051179	1	5.9999e-05	0.0269	0.02616	1	9.9999e-06	0.00488
18p loss	8 (12%)	58	0.67727	1	0.096259	1	0.31473	1	0.21115	1	0.71855	1	0.94944	1	0.88364	1	0.89245	1
18q loss	10 (15%)	56	0.62311	1	0.079139	1	0.44237	1	0.27808	1	0.57508	1	0.86382	1	0.49489	1	0.61312	1
19q loss	3 (5%)	63	0.64533	1	0.76701	1	0.76507	1	0.82582	1	0.51333	1	0.86588	1	0.80985	1	0.76675	1
20p loss	4 (6%)	62	0.3047	1	0.8069	1	0.2076	1	0.21221	1	0.45263	1	0.65893	1	0.24521	1	0.27161	1
20q loss	3 (5%)	63	1	1	0.41607	1	0.2272	1	0.057799	1	0.29461	1	0.82818	1	0.18837	1	0.53799	1
21q loss	35 (53%)	31	0.7748	1	0.01032	1	0.24999	1	0.1954	1	1	1	0.12786	1	0.7804	1	0.2887	1
22q loss	8 (12%)	58	0.82951	1	0.13335	1	0.24854	1	0.23388	1	0.8975	1	0.21705	1	0.76204	1	0.61002	1
xq loss	39 (59%)	27	0.59868	1	0.072839	1	0.0067399	1	0.00337	1	0.32829	1	0.00116	0.488	0.075079	1	0.02215	1