		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	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
1p gain	56 (33%)	115	0.73825	1	0.020318	1	0.027814	1	0.073894	1	0.7476	1	0.38872	1	0.85291	1	0.67682	1
1q gain	82 (48%)	89	0.095488	1	0.012002	1	0.11638	1	0.2896	1	0.88287	1	0.37095	1	0.5276	1	1	1
2p gain	34 (20%)	137	0.0001294	0.082	0.0097257	1	0.16595	1	0.10592	1	0.01356	1	0.025283	1	0.23277	1	0.12333	1
2q gain	19 (11%)	152	0.0013272	0.824	0.0067353	1	0.03932	1	0.012525	1	0.030776	1	0.019588	1	0.14668	1	0.12838	1
3p gain	37 (22%)	134	0.77106	1	0.0647	1	0.01356	1	0.20596	1	0.032213	1	0.041717	1	0.077394	1	0.00080965	0.508
3q gain	102 (60%)	69	0.0086318	1	0.0063379	1	0.0029542	1	0.0020046	1	0.34385	1	0.0006036	0.38	0.21604	1	0.00078476	0.493
4p gain	5 (3%)	166	0.84841	1	0.94149	1	0.57297	1	0.61178	1	0.83605	1	0.25803	1	0.8346	1	0.55215	1
4q gain	6 (4%)	165	0.4208	1	0.64442	1	0.23818	1	0.1862	1	0.22578	1	0.096038	1	0.19358	1	0.27642	1
5p gain	60 (35%)	111	7.5145e-07	0.000479	0.047205	1	0.84464	1	0.094559	1	0.27182	1	0.28006	1	0.47276	1	0.12522	1
5q gain	27 (16%)	144	0.0065696	1	0.34032	1	0.51396	1	0.93686	1	0.32473	1	0.069051	1	0.34342	1	0.56237	1
6p gain	30 (18%)	141	0.15099	1	0.21722	1	0.094461	1	0.08187	1	0.6217	1	0.22824	1	0.11568	1	0.21778	1
6q gain	18 (11%)	153	0.095133	1	0.59794	1	0.097529	1	0.3441	1	0.55567	1	0.68186	1	0.35963	1	0.67674	1
7p gain	18 (11%)	153	0.15381	1	0.14446	1	0.044625	1	0.53453	1	0.035684	1	0.61016	1	0.024671	1	0.15179	1
7q gain	18 (11%)	153	0.084999	1	0.43316	1	0.362	1	0.1342	1	0.022209	1	0.18767	1	0.016633	1	0.31036	1
8p gain	25 (15%)	146	0.84106	1	0.72752	1	0.039054	1	0.45737	1	0.62129	1	0.56809	1	0.88325	1	0.73521	1
8q gain	44 (26%)	127	0.43369	1	0.44914	1	0.40705	1	0.18964	1	0.55676	1	0.25158	1	0.38219	1	0.31741	1
9p gain	27 (16%)	144	0.80163	1	0.08725	1	0.22295	1	0.012979	1	1	1	0.30596	1	0.92764	1	0.61468	1
9q gain	27 (16%)	144	0.57107	1	0.010024	1	0.045197	1	0.0020956	1	0.50842	1	0.1106	1	0.71012	1	0.18352	1
10p gain	12 (7%)	159	0.6824	1	0.75225	1	0.42881	1	1	1	0.93239	1	0.82326	1	1	1	1	1
10q gain	7 (4%)	164	0.60638	1	0.65552	1	0.44919	1	0.39403	1	0.79269	1	0.49349	1	0.17498	1	0.066329	1
11p gain	6 (4%)	165	0.57594	1	0.86149	1	0.24957	1	0.015464	1	0.87628	1	0.18768	1	1	1	0.24946	1
11q gain	7 (4%)	164	0.030709	1	0.55086	1	0.040078	1	0.00046093	0.291	0.17754	1	0.10625	1	0.3899	1	0.17469	1
12p gain	27 (16%)	144	0.59731	1	0.12953	1	0.1082	1	0.49852	1	0.04818	1	0.49803	1	0.096224	1	0.36485	1
12q gain	28 (16%)	143	0.26812	1	0.49642	1	0.049955	1	0.28718	1	0.10414	1	0.66227	1	0.14079	1	0.46274	1
13q gain	14 (8%)	157	0.53592	1	0.64705	1	0.744	1	0.31562	1	0.22939	1	0.10819	1	0.41989	1	0.031342	1
14q gain	25 (15%)	146	0.58218	1	0.88658	1	0.14032	1	0.45811	1	0.19949	1	0.16257	1	0.19797	1	0.42402	1
15q gain	31 (18%)	140	0.88829	1	0.58868	1	0.73454	1	0.42832	1	0.37013	1	0.52246	1	0.46548	1	0.9677	1
16p gain	22 (13%)	149	0.14629	1	0.2579	1	0.24459	1	0.16566	1	0.016091	1	0.21206	1	0.067546	1	0.32333	1
16q gain	18 (11%)	153	0.41412	1	0.060492	1	0.58155	1	0.27272	1	0.0069037	1	0.091201	1	0.044527	1	0.31995	1
17p gain	11 (6%)	160	0.10769	1	0.17749	1	0.21539	1	0.2515	1	0.02547	1	0.31923	1	0.060814	1	0.26054	1
17q gain	27 (16%)	144	0.31016	1	0.081518	1	0.083797	1	0.082847	1	0.023947	1	0.32094	1	0.027186	1	0.11831	1
18p gain	21 (12%)	150	0.22797	1	0.05829	1	0.011376	1	0.16583	1	0.79986	1	0.42687	1	0.74843	1	0.37454	1
18q gain	13 (8%)	158	0.49643	1	0.26244	1	0.00090885	0.568	0.68533	1	0.31106	1	0.74946	1	0.60561	1	0.52271	1
19p gain	23 (13%)	148	0.21991	1	0.0042783	1	0.84341	1	0.92014	1	0.15714	1	0.94146	1	0.019682	1	0.28848	1
19q gain	40 (23%)	131	9.1989e-08	5.89e-05	0.078347	1	0.69413	1	0.18543	1	0.022085	1	0.68022	1	0.033513	1	0.42131	1
20p gain	55 (32%)	116	0.0057789	1	0.15118	1	0.070422	1	0.098137	1	0.71247	1	0.13392	1	0.50878	1	0.26902	1
20q gain	62 (36%)	109	0.050711	1	0.024018	1	0.50621	1	0.15361	1	0.73225	1	0.17396	1	0.6412	1	0.43899	1
21q gain	26 (15%)	145	0.60614	1	0.79376	1	0.02093	1	0.41962	1	0.77343	1	0.70906	1	0.75334	1	0.52684	1
22q gain	22 (13%)	149	0.36261	1	0.56125	1	0.0074738	1	0.2872	1	0.16788	1	0.68668	1	0.35873	1	0.87774	1
xq gain	24 (14%)	147	0.41512	1	0.64856	1	0.38515	1	0.34897	1	0.13234	1	0.50906	1	0.098227	1	0.15885	1
1p loss	5 (3%)	166	0.11489	1	0.40047	1	0.30081	1	0.52341	1	0.85614	1	0.075053	1	0.86308	1	0.37828	1
1q loss	5 (3%)	166	0.0072515	1	0.1331	1	0.1247	1	0.24296	1	0.62896	1	0.92681	1	0.62465	1	0.6259	1
2p loss	11 (6%)	160	0.91991	1	0.33786	1	0.88702	1	0.58172	1	0.35392	1	0.42707	1	0.35822	1	0.46158	1
2q loss	21 (12%)	150	0.89171	1	0.34228	1	0.075621	1	0.056697	1	0.58264	1	0.17287	1	0.47638	1	0.52741	1
3p loss	44 (26%)	127	0.43369	1	0.0096581	1	0.041427	1	0.0010289	0.641	0.00094402	0.589	0.017143	1	3.4722e-06	0.00221	0.0024893	1
3q loss	6 (4%)	165	0.039287	1	0.23322	1	0.22667	1	0.13165	1	0.62896	1	0.30457	1	0.62465	1	0.10242	1
4p loss	68 (40%)	103	5.38e-06	0.00342	0.1324	1	0.46162	1	0.00042278	0.267	0.28608	1	0.19789	1	0.28936	1	0.13019	1
4q loss	46 (27%)	125	4.5855e-07	0.000293	0.53653	1	0.40511	1	0.068157	1	0.60279	1	0.029745	1	0.54594	1	0.88674	1
5p loss	9 (5%)	162	0.17122	1	0.87844	1	0.38199	1	0.36289	1	0.8319	1	0.61364	1	0.76016	1	0.10807	1
5q loss	30 (18%)	141	0.00023198	0.147	0.24379	1	0.94846	1	1	1	0.67072	1	0.78671	1	0.58773	1	0.33125	1
6p loss	25 (15%)	146	0.94969	1	0.82911	1	0.16778	1	0.2271	1	0.78076	1	0.75267	1	0.29147	1	0.4347	1
6q loss	41 (24%)	130	0.84452	1	0.47849	1	0.046079	1	0.9053	1	0.59388	1	0.63431	1	0.068604	1	0.68072	1
7p loss	16 (9%)	155	0.41503	1	0.28623	1	0.046846	1	0.10067	1	0.087864	1	0.52899	1	0.059603	1	0.15284	1
7q loss	25 (15%)	146	0.041813	1	0.54491	1	0.095125	1	0.1837	1	0.045571	1	0.01892	1	0.018179	1	0.84105	1
8p loss	46 (27%)	125	0.0018667	1	0.011753	1	0.23495	1	0.94621	1	0.62527	1	0.63023	1	0.96398	1	0.75387	1
8q loss	15 (9%)	156	0.059213	1	0.31787	1	0.037546	1	0.019117	1	0.22939	1	0.049348	1	0.15031	1	0.047031	1
9p loss	31 (18%)	140	0.0011707	0.728	0.25895	1	0.90226	1	0.15006	1	0.79814	1	0.9147	1	0.45227	1	0.82953	1
9q loss	26 (15%)	145	0.018252	1	0.058963	1	0.041549	1	0.0083938	1	0.19072	1	0.08421	1	0.16069	1	0.044578	1
10p loss	38 (22%)	133	0.031795	1	0.41526	1	0.18432	1	0.26375	1	0.36277	1	0.059816	1	0.61197	1	0.42399	1
10q loss	44 (26%)	127	0.031691	1	0.35002	1	0.019914	1	0.40987	1	0.59152	1	0.15988	1	0.78173	1	0.61129	1
11p loss	52 (30%)	119	0.039714	1	0.22299	1	0.37301	1	0.14021	1	0.7956	1	0.58212	1	0.31784	1	0.54628	1
11q loss	64 (37%)	107	0.00062778	0.395	0.36566	1	0.34833	1	0.63144	1	0.91171	1	0.96656	1	0.90683	1	0.67445	1
12p loss	24 (14%)	147	0.0019943	1	0.044943	1	0.40336	1	0.43369	1	0.28187	1	0.33217	1	0.49476	1	0.75276	1
12q loss	6 (4%)	165	0.039287	1	0.20872	1	0.97865	1	0.72043	1	0.87628	1	0.24266	1	0.77363	1	0.87465	1
13q loss	44 (26%)	127	0.26914	1	0.11997	1	0.17775	1	0.0090456	1	0.1187	1	0.21548	1	0.022604	1	0.36917	1
14q loss	19 (11%)	152	0.0035319	1	0.59256	1	0.34517	1	0.061804	1	0.20025	1	0.21771	1	0.23391	1	0.12777	1
15q loss	21 (12%)	150	0.025859	1	0.62303	1	0.33221	1	0.46595	1	0.69165	1	0.49243	1	0.73399	1	0.70989	1
16p loss	20 (12%)	151	0.28215	1	0.28049	1	0.4906	1	0.369	1	0.2457	1	0.092765	1	0.14668	1	0.34486	1
16q loss	26 (15%)	145	0.71447	1	0.057384	1	0.09572	1	0.10918	1	0.14789	1	0.0056736	1	0.064025	1	0.052746	1
17p loss	49 (29%)	122	2.9785e-05	0.0189	0.52822	1	0.048943	1	0.19727	1	0.027195	1	0.24427	1	0.0079795	1	0.019135	1
17q loss	15 (9%)	156	0.0075743	1	0.23178	1	0.11452	1	0.2847	1	0.26938	1	0.73775	1	0.094188	1	0.20418	1
18p loss	32 (19%)	139	0.12067	1	0.21787	1	0.15005	1	0.26436	1	0.61003	1	0.12271	1	0.4677	1	0.39681	1
18q loss	42 (25%)	129	0.028346	1	0.019863	1	0.017407	1	0.028052	1	0.40924	1	0.0051331	1	0.46783	1	0.2243	1
19p loss	33 (19%)	138	0.00084545	0.529	0.011918	1	0.025514	1	0.15115	1	0.20467	1	0.0677	1	0.59732	1	0.5463	1
19q loss	15 (9%)	156	0.54612	1	0.36359	1	0.4	1	0.22512	1	0.22939	1	0.49117	1	0.65432	1	0.30093	1
20p loss	12 (7%)	159	0.28444	1	0.9207	1	0.6229	1	0.35399	1	0.70046	1	0.70537	1	0.52138	1	0.60519	1
20q loss	5 (3%)	166	0.36401	1	0.24075	1	0.87419	1	1	1	0.73942	1	0.92681	1	0.73712	1	0.86375	1
21q loss	25 (15%)	146	0.0013658	0.847	0.23429	1	0.80508	1	0.026392	1	0.88075	1	0.77778	1	1	1	0.88579	1
22q loss	37 (22%)	134	0.015317	1	0.014666	1	0.10338	1	0.082022	1	0.21724	1	0.10864	1	0.23315	1	0.12682	1
xq loss	35 (20%)	136	0.64109	1	0.024084	1	0.19853	1	0.1648	1	0.070198	1	0.35245	1	0.066784	1	0.16454	1
