		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	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	57 (30%)	135	0.47697	1	0.0079894	1	0.031963	1	0.12533	1	0.91371	1	0.082158	1	0.54323	1	0.13096	1
1q gain	90 (47%)	102	0.040104	1	0.12587	1	0.18752	1	0.18101	1	0.79229	1	0.33958	1	0.97541	1	0.23596	1
2p gain	40 (21%)	152	0.012618	1	0.0061055	1	0.062892	1	0.036409	1	0.1834	1	0.0023523	1	0.37327	1	0.033451	1
2q gain	25 (13%)	167	0.0037841	1	0.055627	1	0.00063739	0.4	0.00070039	0.439	0.1581	1	0.011398	1	0.20588	1	0.064082	1
3p gain	48 (25%)	144	0.75251	1	0.014617	1	0.0084204	1	0.41554	1	0.037069	1	0.03653	1	0.10755	1	0.13423	1
3q gain	113 (59%)	79	0.0026287	1	0.001208	0.748	0.0022022	1	0.00025095	0.159	0.094569	1	0.0026653	1	0.11007	1	0.00035513	0.224
4p gain	6 (3%)	186	1	1	0.64821	1	0.76205	1	1	1	0.88018	1	0.51713	1	0.87993	1	0.67421	1
4q gain	7 (4%)	185	0.78404	1	0.44582	1	0.79629	1	0.50097	1	0.89328	1	0.79899	1	0.89456	1	0.70984	1
5p gain	64 (33%)	128	0.00012045	0.0768	0.13626	1	0.23113	1	0.012395	1	0.20192	1	0.095936	1	0.16887	1	0.20196	1
5q gain	28 (15%)	164	0.063859	1	0.563	1	0.90912	1	0.84446	1	0.43649	1	0.53481	1	0.23249	1	0.93456	1
6p gain	35 (18%)	157	0.58351	1	0.034105	1	0.21464	1	0.12553	1	0.31809	1	0.25767	1	0.62373	1	0.91832	1
6q gain	22 (11%)	170	0.72498	1	0.31482	1	0.28782	1	0.32853	1	0.55282	1	0.2948	1	0.81101	1	0.61286	1
7p gain	23 (12%)	169	0.032171	1	0.061741	1	0.1159	1	0.42597	1	0.013112	1	0.081302	1	0.011313	1	0.046746	1
7q gain	21 (11%)	171	0.044021	1	0.59284	1	0.75483	1	0.59205	1	0.017144	1	0.52832	1	0.041461	1	0.30439	1
8p gain	29 (15%)	163	0.90418	1	0.085786	1	0.013845	1	0.47221	1	0.90181	1	0.64392	1	0.73072	1	0.91848	1
8q gain	50 (26%)	142	0.38089	1	0.10032	1	0.29864	1	0.33119	1	0.068385	1	0.052705	1	0.54607	1	0.15383	1
9p gain	30 (16%)	162	0.58837	1	0.10454	1	0.57537	1	0.0045815	1	0.26697	1	0.29868	1	0.83091	1	0.18291	1
9q gain	30 (16%)	162	0.70371	1	0.014839	1	0.04775	1	0.00052245	0.329	0.01839	1	0.014657	1	0.52879	1	0.016415	1
10p gain	14 (7%)	178	0.29376	1	0.74217	1	0.77847	1	0.91358	1	0.8767	1	0.88535	1	1	1	0.88648	1
10q gain	9 (5%)	183	0.9068	1	0.84969	1	0.93352	1	0.88017	1	0.078101	1	1	1	0.12831	1	0.57989	1
11p gain	6 (3%)	186	0.66912	1	0.66622	1	0.086308	1	0.0065343	1	0.88018	1	0.079945	1	0.87993	1	0.87669	1
11q gain	7 (4%)	185	0.030474	1	0.28654	1	0.01132	1	0.00014204	0.0903	0.23488	1	0.058408	1	0.23612	1	0.50301	1
12p gain	30 (16%)	162	0.5398	1	0.35793	1	0.013701	1	0.58182	1	0.067404	1	0.49641	1	0.010436	1	0.54966	1
12q gain	30 (16%)	162	0.30001	1	0.44763	1	0.0044465	1	0.58182	1	0.34585	1	0.65222	1	0.095125	1	0.84472	1
13q gain	16 (8%)	176	0.44358	1	0.48622	1	0.34805	1	0.30041	1	0.061024	1	0.2524	1	0.066064	1	0.42332	1
14q gain	27 (14%)	165	0.27323	1	0.29993	1	0.14215	1	0.58057	1	0.11607	1	0.01396	1	0.12234	1	0.12856	1
15q gain	34 (18%)	158	0.92088	1	0.41026	1	0.65433	1	0.26132	1	0.21615	1	1	1	0.13572	1	0.96009	1
16p gain	26 (14%)	166	0.068133	1	0.20484	1	0.43748	1	0.32358	1	0.01154	1	0.23977	1	0.098124	1	0.32437	1
16q gain	23 (12%)	169	0.26987	1	0.0084227	1	0.52036	1	0.39514	1	0.0010174	0.633	0.028898	1	0.0018136	1	0.14132	1
17p gain	14 (7%)	178	0.023658	1	0.095507	1	0.55088	1	0.41569	1	0.72149	1	0.61972	1	0.77624	1	0.82162	1
17q gain	31 (16%)	161	0.0092182	1	0.1308	1	0.37599	1	0.19306	1	0.13801	1	0.069267	1	0.1284	1	0.16557	1
18p gain	25 (13%)	167	0.48513	1	0.35013	1	0.13079	1	0.50304	1	0.72564	1	0.28316	1	0.77885	1	0.60468	1
18q gain	14 (7%)	178	0.54784	1	0.025777	1	0.015399	1	1	1	0.34878	1	0.7812	1	0.7232	1	0.76018	1
19p gain	29 (15%)	163	0.086214	1	0.56718	1	0.44133	1	0.78222	1	0.073498	1	0.94582	1	0.040964	1	1	1
19q gain	45 (23%)	147	0.00026088	0.165	0.048669	1	0.35246	1	0.281	1	0.27431	1	0.40288	1	0.12616	1	1	1
20p gain	66 (34%)	126	0.0016376	1	0.053303	1	0.19088	1	0.13001	1	0.64494	1	0.1221	1	0.20294	1	0.23325	1
20q gain	74 (39%)	118	0.0057736	1	0.073836	1	0.53286	1	0.19745	1	0.38661	1	0.088685	1	0.2131	1	0.062073	1
21q gain	27 (14%)	165	0.7912	1	0.32087	1	0.15892	1	0.43493	1	1	1	0.23049	1	0.87212	1	0.064419	1
22q gain	23 (12%)	169	0.92403	1	0.099615	1	0.01013	1	0.44848	1	0.86606	1	0.76469	1	0.93615	1	0.39425	1
xq gain	26 (14%)	166	0.14579	1	0.54988	1	0.18194	1	0.1805	1	0.055171	1	0.044561	1	0.11993	1	0.11871	1
1p loss	7 (4%)	185	0.012376	1	0.3481	1	0.057652	1	0.54727	1	0.49518	1	0.03154	1	0.62887	1	0.44669	1
1q loss	7 (4%)	185	0.00070237	0.44	0.13197	1	0.040309	1	0.16939	1	0.29603	1	0.12497	1	0.26508	1	0.23198	1
2p loss	11 (6%)	181	0.92455	1	0.88584	1	0.97143	1	0.23611	1	0.92462	1	0.73431	1	0.86093	1	0.68596	1
2q loss	22 (11%)	170	0.83509	1	0.10994	1	0.14214	1	0.28595	1	0.4364	1	0.60719	1	0.76842	1	0.53348	1
3p loss	47 (24%)	145	0.079615	1	0.0038719	1	0.025861	1	0.00054422	0.342	0.0094939	1	0.00085719	0.535	0.0047087	1	0.0008863	0.552
3q loss	8 (4%)	184	0.0020644	1	0.11023	1	0.13237	1	0.32418	1	0.90001	1	0.17437	1	0.89969	1	0.43285	1
4p loss	77 (40%)	115	8.168e-07	0.000522	0.056406	1	0.073514	1	0.0010313	0.64	0.055347	1	0.041058	1	0.17342	1	0.010193	1
4q loss	54 (28%)	138	2.4431e-07	0.000156	0.11971	1	0.49577	1	0.0089218	1	0.5287	1	0.40362	1	0.61871	1	0.89056	1
5p loss	13 (7%)	179	0.1276	1	0.13925	1	0.83627	1	0.89975	1	0.87622	1	1	1	0.81967	1	0.93806	1
5q loss	35 (18%)	157	0.00026634	0.169	0.21804	1	0.39433	1	0.87502	1	0.39309	1	0.91139	1	0.50205	1	0.94393	1
6p loss	29 (15%)	163	0.65572	1	0.37984	1	0.11762	1	0.26357	1	0.53125	1	0.47843	1	0.88799	1	0.23718	1
6q loss	47 (24%)	145	0.13044	1	0.4629	1	0.17372	1	0.50061	1	0.6997	1	0.33372	1	0.51375	1	0.314	1
7p loss	18 (9%)	174	0.36412	1	0.082053	1	0.0036089	1	0.053755	1	0.35636	1	0.072091	1	0.19098	1	0.33148	1
7q loss	29 (15%)	163	0.030486	1	0.61466	1	0.10827	1	0.28131	1	0.18671	1	0.046663	1	0.21772	1	0.19874	1
8p loss	51 (27%)	141	0.010975	1	0.22392	1	0.1804	1	0.79272	1	0.53941	1	0.058936	1	0.353	1	0.087847	1
8q loss	17 (9%)	175	0.67168	1	0.34234	1	0.024837	1	0.019257	1	0.19534	1	0.0447	1	0.041811	1	0.093608	1
9p loss	35 (18%)	157	0.00047429	0.299	0.85685	1	0.57882	1	0.25814	1	1	1	0.52999	1	0.9708	1	1	1
9q loss	29 (15%)	163	0.0087762	1	0.214	1	0.0063925	1	0.03728	1	0.48715	1	0.12416	1	0.30307	1	0.21535	1
10p loss	41 (21%)	151	0.044641	1	0.16312	1	0.19148	1	0.23152	1	0.91924	1	0.50111	1	0.71305	1	0.69261	1
10q loss	45 (23%)	147	0.040629	1	0.38304	1	0.4162	1	0.20971	1	0.87271	1	0.75894	1	0.76351	1	0.68825	1
11p loss	58 (30%)	134	0.031175	1	0.0087841	1	0.047501	1	0.12533	1	0.084473	1	0.10449	1	0.0097117	1	0.10977	1
11q loss	73 (38%)	119	0.0014769	0.911	0.32371	1	0.45635	1	0.37184	1	0.76509	1	0.45139	1	0.38591	1	0.36751	1
12p loss	25 (13%)	167	0.0001381	0.088	0.16997	1	0.10686	1	0.22377	1	0.16433	1	0.02923	1	0.14072	1	0.097004	1
12q loss	8 (4%)	184	0.030699	1	0.34246	1	1	1	1	1	0.67191	1	0.28141	1	0.60354	1	0.39206	1
13q loss	49 (26%)	143	0.035674	1	0.007428	1	0.051511	1	0.0027526	1	0.0071469	1	0.11465	1	0.0051049	1	0.070776	1
14q loss	22 (11%)	170	0.0075891	1	0.52271	1	0.10887	1	0.0086614	1	0.12525	1	0.22327	1	0.0088531	1	0.076975	1
15q loss	25 (13%)	167	0.32838	1	0.15148	1	0.45597	1	0.35425	1	0.94921	1	0.31161	1	0.71614	1	0.73191	1
16p loss	24 (12%)	168	0.36198	1	0.35468	1	0.19605	1	0.16636	1	0.12167	1	0.061377	1	0.054764	1	0.25979	1
16q loss	30 (16%)	162	0.70371	1	0.0039036	1	0.026247	1	0.056111	1	0.037623	1	0.0035476	1	0.00072196	0.451	0.046662	1
17p loss	56 (29%)	136	0.0023529	1	0.2558	1	0.081771	1	0.062412	1	0.067215	1	0.1565	1	0.1909	1	0.03105	1
17q loss	19 (10%)	173	0.10134	1	0.0091062	1	0.020891	1	0.035481	1	0.078624	1	0.0084347	1	0.072905	1	0.081124	1
18p loss	35 (18%)	157	0.26283	1	0.19131	1	0.030402	1	0.1104	1	0.29522	1	0.039085	1	0.012964	1	0.082747	1
18q loss	48 (25%)	144	0.050986	1	0.010057	1	0.0011237	0.697	0.0092393	1	0.15339	1	0.0020051	1	0.005326	1	0.037792	1
19p loss	36 (19%)	156	0.037428	1	0.012464	1	0.0028473	1	0.35037	1	0.46452	1	0.0031699	1	0.28231	1	0.07001	1
19q loss	16 (8%)	176	0.51723	1	0.42303	1	0.54064	1	0.45429	1	0.28668	1	0.08739	1	0.072621	1	0.056823	1
20p loss	14 (7%)	178	0.37335	1	0.34014	1	0.56044	1	0.41569	1	0.46916	1	0.15163	1	0.22402	1	0.60046	1
20q loss	5 (3%)	187	1	1	0.39813	1	0.64667	1	1	1	0.63535	1	0.52484	1	0.74154	1	1	1
21q loss	28 (15%)	164	0.0084513	1	0.18846	1	0.36947	1	0.0014436	0.892	0.77561	1	0.33306	1	0.7843	1	0.60309	1
22q loss	42 (22%)	150	0.16679	1	0.086916	1	0.082875	1	0.039669	1	0.89165	1	0.19899	1	0.47807	1	0.23913	1
xq loss	39 (20%)	153	0.020951	1	0.25308	1	0.15824	1	0.10839	1	0.31409	1	0.20008	1	0.1495	1	0.013924	1
