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	38 (22%)	131	0.00282	1	0.00023	0.14	0.02948	1	0.077589	1	0.12144	1	0.332	1	0.22774	1	0.20267	1
1q gain	37 (22%)	132	0.0069599	1	0.03842	1	0.091809	1	0.15735	1	0.90168	1	0.77635	1	0.64481	1	0.64002	1
2p gain	16 (9%)	153	0.00112	0.655	0.01704	1	0.00021	0.128	0.01439	1	0.0070499	1	0.02068	1	0.00426	1	0.0173	1
2q gain	12 (7%)	157	0.00142	0.822	0.27284	1	0.01728	1	0.2313	1	0.074889	1	0.13481	1	0.04693	1	0.10294	1
3p gain	20 (12%)	149	0.03197	1	0.00471	1	0.00065999	0.391	0.00273	1	0.89865	1	0.81979	1	0.77273	1	0.707	1
3q gain	19 (11%)	150	0.04861	1	0.02575	1	0.00171	0.98	0.02618	1	0.94626	1	0.74617	1	0.76201	1	0.73384	1
4p gain	43 (25%)	126	0.00134	0.777	0.00027	0.163	0.00152	0.877	0.00064999	0.385	0.00426	1	0.0086099	1	0.02479	1	0.03272	1
4q gain	32 (19%)	137	0.14228	1	0.01208	1	0.03612	1	0.01276	1	0.094049	1	0.078419	1	0.1004	1	0.33765	1
5p gain	55 (33%)	114	0.00215	1	0.0083799	1	0.065919	1	0.00012	0.0738	0.48964	1	0.03141	1	0.3927	1	0.39996	1
5q gain	44 (26%)	125	0.056929	1	0.11319	1	0.62824	1	0.061879	1	0.19005	1	0.11619	1	0.17218	1	0.66193	1
6p gain	37 (22%)	132	3e-05	0.0188	2e-05	0.0126	3e-05	0.0188	9.9999e-06	0.0064	0.0077799	1	3e-05	0.0188	0.00159	0.914	0.01036	1
6q gain	35 (21%)	134	0.00041	0.246	0.00025	0.151	0.00011	0.0678	0.00042	0.251	0.0072399	1	0.00124	0.722	0.00155	0.893	0.0090299	1
7p gain	53 (31%)	116	0.00072999	0.431	0.060479	1	0.21591	1	0.5589	1	0.39908	1	0.3804	1	0.084029	1	0.35959	1
7q gain	42 (25%)	127	0.00424	1	0.03382	1	0.27507	1	0.24531	1	0.22757	1	0.23174	1	0.10595	1	0.092359	1
8p gain	38 (22%)	131	0.053059	1	0.75847	1	0.76843	1	0.32053	1	0.626	1	0.13736	1	0.37488	1	0.61714	1
8q gain	46 (27%)	123	0.02448	1	0.02044	1	0.03486	1	0.34119	1	0.60575	1	0.064989	1	0.39297	1	0.47274	1
9p gain	33 (20%)	136	0.00129	0.749	0.01099	1	0.02344	1	0.071179	1	0.04306	1	0.086589	1	0.055309	1	0.11914	1
9q gain	42 (25%)	127	0.00013	0.0798	0.0086599	1	0.01081	1	0.01714	1	0.057409	1	0.01909	1	0.0051799	1	0.068319	1
10p gain	14 (8%)	155	0.02427	1	0.02348	1	0.15205	1	0.29017	1	1	1	0.18087	1	0.49961	1	0.80748	1
10q gain	5 (3%)	164	0.32016	1	0.51973	1	0.10082	1	0.62066	1	1	1	0.0187	1	0.48245	1	0.61136	1
11p gain	14 (8%)	155	0.084049	1	0.04991	1	0.13566	1	0.091879	1	1	1	0.23345	1	0.33373	1	1	1
11q gain	12 (7%)	157	0.38677	1	0.14461	1	0.34299	1	0.10128	1	0.45925	1	0.5888	1	0.34004	1	0.68621	1
12p gain	25 (15%)	144	0.1094	1	0.1247	1	0.01877	1	0.10314	1	0.61774	1	0.0061099	1	0.35306	1	0.083539	1
12q gain	18 (11%)	151	0.15096	1	0.22357	1	0.24667	1	0.60752	1	0.78005	1	0.02637	1	0.40448	1	0.56179	1
13q gain	8 (5%)	161	0.15389	1	0.18734	1	0.18491	1	0.12058	1	0.67279	1	0.47239	1	0.37888	1	0.31855	1
14q gain	37 (22%)	132	0.42348	1	0.1469	1	0.22667	1	0.28507	1	0.38239	1	0.62669	1	0.40098	1	0.25372	1
15q gain	42 (25%)	127	0.02582	1	0.10174	1	0.50258	1	0.31559	1	0.26296	1	0.42465	1	0.3616	1	0.34989	1
16p gain	25 (15%)	144	0.03322	1	0.03704	1	0.65751	1	0.26411	1	0.69738	1	0.28057	1	0.57183	1	0.608	1
16q gain	11 (7%)	158	0.16305	1	0.10639	1	0.14919	1	0.41862	1	0.03752	1	0.074149	1	0.04545	1	0.55132	1
17p gain	39 (23%)	130	0.00018	0.11	0.0059999	1	0.0068699	1	0.02356	1	0.054199	1	0.0060499	1	0.093689	1	0.02465	1
17q gain	33 (20%)	136	0.0066999	1	0.04128	1	0.04031	1	0.00368	1	0.10099	1	0.058119	1	0.19641	1	0.04815	1
18p gain	26 (15%)	143	0.00027	0.163	0.050479	1	0.65741	1	0.48579	1	0.49126	1	0.19697	1	1	1	0.5514	1
18q gain	21 (12%)	148	0.095849	1	0.066229	1	0.29659	1	0.915	1	0.61919	1	0.95895	1	0.86271	1	0.74978	1
19p gain	54 (32%)	115	9.9999e-06	0.0064	0.01643	1	0.062379	1	0.04148	1	0.74714	1	0.32525	1	0.46393	1	0.31914	1
19q gain	39 (23%)	130	2e-05	0.0126	0.00019	0.116	0.00031	0.186	0.00059999	0.356	0.14719	1	0.00058999	0.351	0.03019	1	0.13553	1
20p gain	45 (27%)	124	0.01059	1	0.24373	1	0.67855	1	0.65973	1	0.61988	1	0.38354	1	0.19157	1	0.82663	1
20q gain	58 (34%)	111	0.00025	0.151	0.052979	1	0.0072399	1	0.02833	1	0.25668	1	0.0067099	1	0.17953	1	0.083379	1
21q gain	42 (25%)	127	0.00075999	0.448	0.0103	1	0.18437	1	0.21043	1	0.5637	1	0.03324	1	0.63782	1	0.55103	1
22q gain	44 (26%)	125	0.01844	1	0.1577	1	0.062229	1	0.15556	1	0.75856	1	0.38681	1	0.88719	1	0.38414	1
xq gain	22 (13%)	147	0.073459	1	0.13152	1	0.20778	1	0.56382	1	0.21892	1	0.41092	1	0.31566	1	0.19124	1
1p loss	23 (14%)	146	0.74821	1	0.17044	1	0.71213	1	0.24174	1	0.90574	1	0.44151	1	0.86879	1	0.95693	1
1q loss	23 (14%)	146	0.051329	1	0.066959	1	0.97627	1	0.90527	1	0.64377	1	0.44902	1	0.5459	1	0.64791	1
2p loss	50 (30%)	119	9.9999e-05	0.0617	6.9999e-05	0.0434	0.0015	0.867	5e-05	0.0311	0.0097599	1	0.00468	1	0.00289	1	0.00232	1
2q loss	45 (27%)	124	0.00029	0.175	0.04423	1	0.48594	1	0.34575	1	0.97071	1	0.94367	1	0.79763	1	0.72406	1
3p loss	34 (20%)	135	0.02128	1	9.9999e-06	0.0064	0.00268	1	0.02162	1	0.00401	1	0.0076999	1	0.00077999	0.459	0.0088399	1
3q loss	38 (22%)	131	0.0051499	1	0.00037	0.222	0.01505	1	0.11246	1	0.0325	1	0.02301	1	0.0092099	1	0.02469	1
4p loss	25 (15%)	144	0.15941	1	0.13272	1	0.089629	1	0.51223	1	0.30009	1	0.64655	1	0.17977	1	0.5396	1
4q loss	29 (17%)	140	0.01898	1	0.00425	1	0.077819	1	0.36312	1	0.88417	1	0.767	1	0.79002	1	0.66253	1
5p loss	19 (11%)	150	0.82195	1	0.00262	1	0.02227	1	0.01889	1	0.12934	1	0.068909	1	0.04216	1	0.1362	1
5q loss	27 (16%)	142	0.12229	1	0.089219	1	0.042	1	0.091739	1	0.40684	1	0.13772	1	0.18842	1	0.30047	1
6p loss	43 (25%)	126	0.75311	1	0.20242	1	0.069309	1	0.071889	1	0.33724	1	0.29752	1	0.33554	1	0.34469	1
6q loss	31 (18%)	138	0.04239	1	0.02132	1	0.090889	1	0.086799	1	0.1578	1	0.92184	1	0.28508	1	0.78689	1
7p loss	23 (14%)	146	0.072709	1	0.0063199	1	0.13802	1	0.054309	1	0.90685	1	0.29965	1	0.51849	1	0.91809	1
7q loss	22 (13%)	147	0.43963	1	0.43268	1	0.53526	1	0.29165	1	0.77946	1	0.94818	1	1	1	0.7974	1
8p loss	38 (22%)	131	0.23447	1	0.00095999	0.564	0.10771	1	0.084989	1	0.04631	1	0.18049	1	0.12187	1	0.04085	1
8q loss	24 (14%)	145	0.0294	1	0.01811	1	0.072679	1	0.17267	1	0.03001	1	0.059979	1	0.0324	1	0.086719	1
9p loss	55 (33%)	114	0.02692	1	0.10819	1	0.065559	1	0.051699	1	0.76423	1	0.16863	1	0.3494	1	0.3271	1
9q loss	36 (21%)	133	0.23939	1	0.0489	1	0.03364	1	0.16752	1	0.78293	1	0.070179	1	0.87482	1	0.70355	1
10p loss	80 (47%)	89	0.0070799	1	0.0080799	1	0.01063	1	0.00119	0.694	0.04142	1	0.1042	1	0.03488	1	0.04131	1
10q loss	91 (54%)	78	9.9999e-06	0.0064	9.9999e-06	0.0064	9.9999e-06	0.0064	9.9999e-06	0.0064	3e-05	0.0188	2e-05	0.0126	9.9999e-06	0.0064	6.9999e-05	0.0434
11p loss	62 (37%)	107	5.9999e-05	0.0373	8.9999e-05	0.0556	0.50005	1	0.69888	1	0.463	1	0.58427	1	0.60015	1	0.30445	1
11q loss	56 (33%)	113	9.9999e-06	0.0064	0.00248	1	0.33467	1	0.39466	1	0.25415	1	0.23829	1	0.25581	1	0.30456	1
12p loss	45 (27%)	124	0.0022	1	0.0054199	1	0.54814	1	0.086309	1	0.72172	1	0.55665	1	0.50682	1	0.33951	1
12q loss	38 (22%)	131	0.00174	0.995	0.099379	1	0.91018	1	0.43549	1	0.71565	1	0.89096	1	0.68266	1	0.72006	1
13q loss	88 (52%)	81	0.00278	1	0.00013	0.0798	0.01053	1	0.01047	1	0.61278	1	0.30775	1	0.41424	1	0.29932	1
14q loss	47 (28%)	122	0.66172	1	0.01615	1	0.78141	1	0.00464	1	0.41888	1	0.17918	1	0.14598	1	0.21139	1
15q loss	27 (16%)	142	0.060269	1	0.10342	1	0.04299	1	0.02162	1	0.13177	1	0.17602	1	0.14372	1	0.10908	1
16p loss	48 (28%)	121	0.00014	0.0857	0.02663	1	0.31561	1	0.33459	1	0.70565	1	0.74091	1	1	1	0.50522	1
16q loss	86 (51%)	83	9.9999e-06	0.0064	0.00054999	0.328	0.00294	1	0.00336	1	0.0074099	1	0.01156	1	0.00099999	0.586	0.02152	1
17p loss	34 (20%)	135	0.65247	1	0.18978	1	0.03659	1	0.27998	1	0.59681	1	0.25602	1	0.49458	1	0.12384	1
17q loss	33 (20%)	136	0.14531	1	0.054679	1	0.12384	1	0.10475	1	0.71195	1	0.88575	1	0.83915	1	0.44156	1
18p loss	42 (25%)	127	0.11812	1	0.33341	1	0.41518	1	0.93395	1	0.91036	1	0.97645	1	1	1	0.84162	1
18q loss	44 (26%)	125	0.0178	1	0.1015	1	0.11523	1	0.31585	1	0.88871	1	0.66593	1	0.81902	1	0.92261	1
19p loss	13 (8%)	156	0.050449	1	0.00187	1	0.00056999	0.34	0.03481	1	1	1	0.49319	1	0.78959	1	0.53665	1
19q loss	28 (17%)	141	0.0351	1	0.10874	1	0.02183	1	0.21995	1	0.26974	1	0.9209	1	0.43886	1	0.51402	1
20p loss	29 (17%)	140	0.32079	1	0.064029	1	0.16804	1	0.46091	1	0.95961	1	0.4484	1	0.9263	1	0.36978	1
20q loss	10 (6%)	159	0.15058	1	0.32353	1	0.33923	1	1	1	0.32134	1	0.49215	1	0.6773	1	0.63989	1
21q loss	31 (18%)	138	0.01693	1	0.16273	1	0.18798	1	0.14827	1	0.075259	1	0.51112	1	0.30967	1	0.39148	1
22q loss	45 (27%)	124	0.00429	1	0.14994	1	0.93204	1	0.1953	1	0.71823	1	0.59969	1	0.71176	1	0.1063	1
xq loss	62 (37%)	107	0.0079699	1	5e-05	0.0311	0.00114	0.666	0.0023	1	0.0017	0.976	0.00181	1	0.00018	0.11	0.00065999	0.391