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	90 (31%)	205	0.0093999	1	0.01481	1	0.00125	0.737	0.04293	1	0.41763	1	5.9999e-05	0.0377	0.33263	1	0.01243	1
1q gain	140 (47%)	155	0.00016	0.0998	0.01637	1	0.0076199	1	0.079699	1	0.48845	1	0.00372	1	0.15498	1	0.01006	1
2p gain	64 (22%)	231	9.9999e-06	0.0064	0.15258	1	0.02504	1	0.04728	1	0.1688	1	0.00084999	0.507	0.18161	1	0.38882	1
2q gain	37 (13%)	258	0.00016	0.0998	0.39685	1	0.01806	1	0.0059199	1	0.16114	1	0.00251	1	0.15664	1	0.66064	1
3p gain	71 (24%)	224	0.51509	1	0.11113	1	0.16849	1	0.32774	1	0.42925	1	0.57946	1	0.42765	1	0.55673	1
3q gain	175 (59%)	120	9.9999e-06	0.0064	0.00168	0.983	5e-04	0.305	0.00209	1	0.35652	1	0.00028	0.173	0.00345	1	0.00023	0.143
4p gain	11 (4%)	284	0.53796	1	0.89346	1	0.65324	1	0.45442	1	0.53955	1	0.59773	1	0.92414	1	0.87522	1
4q gain	16 (5%)	279	0.32211	1	0.097299	1	0.94006	1	0.36177	1	0.89692	1	0.33619	1	0.89826	1	0.86793	1
5p gain	113 (38%)	182	9.9999e-06	0.0064	0.097509	1	0.02709	1	0.00489	1	0.03451	1	0.0078799	1	0.49649	1	0.02936	1
5q gain	44 (15%)	251	0.00189	1	0.88049	1	0.18137	1	0.77091	1	0.89336	1	0.95594	1	0.63406	1	0.8741	1
6p gain	52 (18%)	243	0.12209	1	0.0073699	1	0.00376	1	0.03505	1	0.54442	1	0.03642	1	0.30785	1	0.099529	1
6q gain	36 (12%)	259	0.12816	1	0.11396	1	0.085429	1	0.10661	1	0.3374	1	0.19238	1	0.33671	1	0.20872	1
7p gain	38 (13%)	257	0.21113	1	0.03774	1	0.01606	1	0.25921	1	0.00051999	0.317	0.095509	1	0.059659	1	0.13691	1
7q gain	37 (13%)	258	0.04908	1	0.14762	1	0.1296	1	0.37479	1	0.00097999	0.582	0.18984	1	0.01044	1	0.061519	1
8p gain	53 (18%)	242	0.77662	1	0.78651	1	0.095459	1	0.3656	1	0.72231	1	0.02663	1	0.94056	1	0.02868	1
8q gain	91 (31%)	204	0.27082	1	0.26038	1	0.078119	1	0.0094699	1	0.16603	1	0.0066999	1	0.61614	1	0.00013	0.0814
9p gain	49 (17%)	246	0.64535	1	0.23117	1	0.52835	1	0.03517	1	0.32727	1	0.01737	1	0.78655	1	0.02679	1
9q gain	47 (16%)	248	0.6649	1	0.00387	1	0.054569	1	0.00044	0.27	0.02457	1	0.00336	1	0.29081	1	0.00052999	0.322
10p gain	25 (8%)	270	0.074929	1	0.6926	1	0.15512	1	0.43535	1	0.10549	1	0.69669	1	0.86205	1	0.3189	1
10q gain	17 (6%)	278	0.62299	1	0.71973	1	0.62398	1	0.26587	1	0.35615	1	0.91532	1	0.62429	1	0.70687	1
11p gain	9 (3%)	286	0.76125	1	0.91924	1	0.52316	1	0.16777	1	0.6324	1	0.02007	1	0.83413	1	0.80503	1
11q gain	8 (3%)	287	0.01818	1	0.74427	1	0.0090999	1	0.00308	1	0.20165	1	0.02241	1	0.2661	1	0.57855	1
12p gain	53 (18%)	242	0.23807	1	0.26553	1	0.56326	1	0.41267	1	0.70784	1	0.34679	1	0.90309	1	0.90247	1
12q gain	50 (17%)	245	0.17611	1	0.15793	1	0.59367	1	0.39735	1	0.9241	1	0.26952	1	1	1	0.87985	1
13q gain	24 (8%)	271	0.9626	1	0.23338	1	0.03601	1	0.10749	1	0.0059599	1	0.068139	1	0.099539	1	0.10845	1
14q gain	47 (16%)	248	0.04705	1	0.29615	1	0.25955	1	0.44824	1	0.28394	1	0.14881	1	0.49583	1	0.98801	1
15q gain	52 (18%)	243	0.109	1	0.64382	1	0.93113	1	0.51417	1	0.73288	1	0.76353	1	0.60394	1	0.21795	1
16p gain	44 (15%)	251	0.0077399	1	0.31236	1	0.71789	1	0.13572	1	0.097259	1	0.098999	1	0.88128	1	0.58003	1
16q gain	40 (14%)	255	0.45633	1	0.077509	1	0.373	1	0.0468	1	0.091919	1	0.087059	1	0.47737	1	0.46741	1
17p gain	22 (7%)	273	0.00074999	0.451	0.00049	0.3	0.59284	1	0.39783	1	0.24737	1	0.65026	1	0.078009	1	0.50448	1
17q gain	42 (14%)	253	0.01546	1	0.096149	1	0.42585	1	0.19303	1	0.15841	1	0.80918	1	0.2663	1	0.78681	1
18p gain	49 (17%)	246	0.03417	1	0.1653	1	0.45047	1	0.23848	1	0.92008	1	0.28593	1	0.78629	1	0.68907	1
18q gain	32 (11%)	263	0.13278	1	0.2771	1	0.68322	1	0.28801	1	0.33943	1	0.33851	1	0.42527	1	0.39309	1
19p gain	44 (15%)	251	0.01664	1	0.16925	1	0.54054	1	0.8392	1	0.93609	1	0.19293	1	0.63461	1	0.59287	1
19q gain	72 (24%)	223	9.9999e-06	0.0064	0.10216	1	0.35699	1	0.056589	1	0.67978	1	0.095239	1	0.81634	1	0.80211	1
20p gain	100 (34%)	195	0.00064999	0.393	0.03125	1	0.27345	1	0.04443	1	0.050089	1	0.10152	1	0.66136	1	0.59313	1
20q gain	115 (39%)	180	0.00466	1	0.099609	1	0.26542	1	0.0294	1	0.46161	1	0.03312	1	0.80701	1	0.34528	1
21q gain	37 (13%)	258	0.35532	1	0.70438	1	0.16418	1	0.51788	1	0.75388	1	0.75594	1	0.92153	1	0.60157	1
22q gain	29 (10%)	266	0.14832	1	0.48941	1	0.75083	1	0.20938	1	0.77811	1	0.33205	1	0.14747	1	0.96075	1
xq gain	40 (14%)	255	0.01454	1	0.04387	1	0.13612	1	0.18936	1	0.22831	1	0.17033	1	0.31342	1	0.14881	1
1p loss	13 (4%)	282	0.053869	1	0.13936	1	0.01115	1	0.054469	1	0.13406	1	0.20101	1	0.44521	1	0.67548	1
1q loss	9 (3%)	286	0.02048	1	0.33008	1	0.02327	1	0.16897	1	0.091579	1	0.44112	1	0.47468	1	0.74166	1
2p loss	19 (6%)	276	0.65264	1	0.82894	1	0.19273	1	0.2566	1	0.52414	1	0.21382	1	0.51094	1	0.34671	1
2q loss	35 (12%)	260	0.8013	1	0.36007	1	0.052039	1	0.062809	1	0.14592	1	0.02163	1	0.86213	1	0.20454	1
3p loss	82 (28%)	213	0.60425	1	0.00255	1	0.0092799	1	3e-05	0.0189	0.02687	1	0.00385	1	0.00213	1	0.00081999	0.492
3q loss	14 (5%)	281	0.30029	1	0.24747	1	0.22676	1	0.56227	1	0.073139	1	0.3706	1	0.25712	1	0.15089	1
4p loss	131 (44%)	164	9.9999e-06	0.0064	0.067999	1	0.00119	0.703	0.00047	0.288	0.39427	1	0.00081999	0.492	1	1	0.00029	0.179
4q loss	93 (32%)	202	9.9999e-06	0.0064	0.39905	1	0.12114	1	0.00088999	0.53	0.96091	1	0.050629	1	0.054459	1	0.66951	1
5p loss	19 (6%)	276	0.71867	1	0.53884	1	0.90059	1	0.5725	1	0.59901	1	0.59162	1	0.68502	1	0.10761	1
5q loss	51 (17%)	244	0.00182	1	0.51339	1	0.48542	1	0.77023	1	0.02864	1	0.26675	1	0.42598	1	0.04565	1
6p loss	47 (16%)	248	0.14982	1	0.090389	1	0.04559	1	0.11738	1	0.44512	1	0.12284	1	0.89659	1	0.12312	1
6q loss	74 (25%)	221	0.00479	1	0.04722	1	0.10516	1	0.20129	1	0.207	1	0.03417	1	0.24372	1	0.16257	1
7p loss	26 (9%)	269	0.04648	1	0.34036	1	0.02697	1	0.01912	1	0.21358	1	0.82607	1	0.55638	1	0.054249	1
7q loss	37 (13%)	258	0.097209	1	0.17652	1	0.04017	1	0.19584	1	0.14481	1	0.25399	1	0.5704	1	0.57164	1
8p loss	82 (28%)	213	6.9999e-05	0.0439	0.27408	1	0.01396	1	0.61423	1	0.01886	1	0.04448	1	0.01041	1	0.069189	1
8q loss	24 (8%)	271	0.12607	1	0.01549	1	5e-05	0.0314	0.00034	0.209	0.01687	1	0.00027	0.167	0.46327	1	0.0013	0.764
9p loss	54 (18%)	241	0.00132	0.775	0.96732	1	0.411	1	0.6721	1	0.92784	1	0.9529	1	0.051209	1	0.7964	1
9q loss	51 (17%)	244	0.00015	0.0937	0.16247	1	0.02519	1	0.04363	1	0.47078	1	0.43678	1	0.00203	1	0.17539	1
10p loss	66 (22%)	229	0.00052999	0.322	0.57939	1	0.73187	1	0.23198	1	0.71088	1	0.60197	1	0.11258	1	0.73943	1
10q loss	74 (25%)	221	0.00067999	0.411	0.80012	1	0.78073	1	0.16238	1	0.75972	1	0.13662	1	0.24282	1	0.55435	1
11p loss	100 (34%)	195	0.00127	0.748	0.15238	1	0.33204	1	0.18768	1	0.63456	1	0.061299	1	0.94723	1	0.2212	1
11q loss	115 (39%)	180	2e-05	0.0126	0.32053	1	0.35726	1	0.30511	1	0.72576	1	0.0075899	1	0.80513	1	0.47043	1
12p loss	40 (14%)	255	0.02225	1	0.32023	1	0.46332	1	0.67003	1	0.26954	1	0.80268	1	0.30783	1	0.20722	1
12q loss	15 (5%)	280	0.36123	1	0.49843	1	1	1	0.45506	1	0.19573	1	0.53558	1	0.23804	1	0.90969	1
13q loss	80 (27%)	215	0.00073999	0.446	0.20176	1	0.01539	1	0.0097799	1	0.10228	1	0.00318	1	0.63632	1	0.10718	1
14q loss	35 (12%)	260	0.00103	0.611	0.3582	1	0.0335	1	0.086079	1	0.85105	1	0.099089	1	0.0154	1	0.6246	1
15q loss	47 (16%)	248	0.058389	1	0.41419	1	0.48009	1	0.33557	1	0.29421	1	0.51061	1	0.26312	1	0.69293	1
16p loss	34 (12%)	261	0.10311	1	0.081779	1	0.16211	1	0.22377	1	0.41193	1	0.01037	1	0.053889	1	0.20151	1
16q loss	44 (15%)	251	0.14205	1	0.01512	1	0.0060699	1	0.04727	1	0.0094899	1	0.00117	0.693	0.089929	1	0.0137	1
17p loss	95 (32%)	200	0.00133	0.779	0.19095	1	0.10393	1	0.04263	1	0.13691	1	0.056039	1	0.54089	1	0.29195	1
17q loss	37 (13%)	258	0.17308	1	0.45565	1	0.15174	1	0.078589	1	0.04838	1	0.33246	1	0.56761	1	0.18968	1
18p loss	55 (19%)	240	0.39195	1	0.03764	1	0.00062999	0.382	0.0109	1	0.41988	1	0.03459	1	0.30326	1	0.15094	1
18q loss	73 (25%)	222	0.61562	1	0.00082999	0.496	9.9999e-06	0.0064	4e-04	0.246	0.082309	1	0.00019	0.118	0.078029	1	0.01952	1
19p loss	60 (20%)	235	9.9999e-06	0.0064	0.0025	1	0.00051999	0.317	0.00309	1	0.02994	1	0.00016	0.0998	0.050259	1	0.01453	1
19q loss	29 (10%)	266	0.22033	1	0.053289	1	0.55885	1	0.42043	1	0.2706	1	0.10712	1	0.19974	1	0.0253	1
20p loss	23 (8%)	272	0.79061	1	0.054919	1	0.055539	1	0.22448	1	0.11638	1	0.14765	1	0.13512	1	0.36602	1
20q loss	10 (3%)	285	0.5087	1	0.01828	1	0.23512	1	0.0461	1	1	1	0.6499	1	1	1	0.5159	1
21q loss	49 (17%)	246	2e-05	0.0126	0.03867	1	0.02303	1	0.00095999	0.571	0.30322	1	0.02746	1	0.52704	1	0.77373	1
22q loss	71 (24%)	224	0.00242	1	0.19623	1	0.02303	1	0.00077999	0.469	0.91179	1	0.21054	1	0.62704	1	0.79363	1
xq loss	58 (20%)	237	0.03028	1	0.063799	1	0.14971	1	0.17856	1	0.20379	1	0.94052	1	0.04608	1	0.47055	1