		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	6 (7%)	75	0.86894	1	0.8672	1	0.91307	1	0.78246	1	1	1	0.8399	1	0.83436	1	0.83828	1
1q gain	19 (23%)	62	0.24644	1	0.072213	1	0.060248	1	0.11697	1	0.2028	1	0.86107	1	0.673	1	0.6865	1
2p gain	6 (7%)	75	0.023596	1	0.043345	1	0.044891	1	0.01559	1	0.10671	1	0.40659	1	0.13765	1	0.27103	1
2q gain	7 (9%)	74	0.0080282	1	0.017716	1	0.019137	1	0.0092025	1	0.037508	1	0.2261	1	0.05638	1	0.16625	1
3p gain	4 (5%)	77	0.25629	1	0.15333	1	0.25992	1	0.12217	1	0.28853	1	1	1	0.38505	1	1	1
3q gain	9 (11%)	72	0.11571	1	0.0037488	1	0.058744	1	0.056163	1	0.10834	1	0.25469	1	0.15129	1	0.19482	1
4p gain	3 (4%)	78	0.60643	1	0.60335	1	0.88473	1	0.68302	1	1	1	0.77249	1	0.5714	1	0.78934	1
4q gain	3 (4%)	78	0.60643	1	0.60335	1	0.88473	1	0.68302	1	1	1	0.77249	1	0.5714	1	0.78934	1
5p gain	9 (11%)	72	0.075528	1	0.1019	1	0.31426	1	0.19458	1	0.30461	1	0.74022	1	0.46088	1	0.64301	1
5q gain	5 (6%)	76	0.70843	1	0.43668	1	0.57736	1	0.53266	1	0.81053	1	0.38992	1	0.50939	1	0.32743	1
7p gain	19 (23%)	62	0.063876	1	0.0052958	1	0.070278	1	0.061853	1	0.033955	1	0.11737	1	0.037013	1	0.092094	1
7q gain	17 (21%)	64	0.15923	1	0.011356	1	0.070278	1	0.061853	1	0.033955	1	0.11737	1	0.037013	1	0.092094	1
8p gain	10 (12%)	71	0.11514	1	0.046698	1	0.024388	1	0.018512	1	0.10834	1	0.25469	1	0.15129	1	0.19482	1
8q gain	21 (26%)	60	0.0067785	1	0.00099287	0.462	4.4231e-05	0.0222	8.8313e-05	0.044	0.0013	0.602	0.0027544	1	0.0014589	0.673	0.0014272	0.659
9p gain	3 (4%)	78	0.60643	1	0.32836	1	0.25992	1	0.12217	1	0.28853	1	0.2886	1	0.20583	1	0.30062	1
9q gain	4 (5%)	77	0.25629	1	0.11538	1	0.25992	1	0.12217	1	0.28853	1	0.2886	1	0.20583	1	0.30062	1
10q gain	4 (5%)	77	0.01689	1	0.03009	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
11p gain	7 (9%)	74	0.1063	1	0.027415	1	0.24405	1	0.4319	1	0.64184	1	0.12204	1	0.53995	1	0.10689	1
11q gain	7 (9%)	74	0.1063	1	0.24023	1	0.1329	1	0.11879	1	0.30461	1	0.098196	1	0.16063	1	0.082513	1
12p gain	8 (10%)	73	0.00041069	0.199	0.014513	1	0.044891	1	0.035521	1	0.022523	1	0.13836	1	0.03834	1	0.092034	1
12q gain	6 (7%)	75	0.0076077	1	0.053332	1	0.12256	1	0.081424	1	0.037508	1	0.2261	1	0.05638	1	0.16625	1
13q gain	6 (7%)	75	1	1	0.28982	1	1	1	0.74398	1	0.50909	1	0.055106	1	0.16515	1	0.065996	1
14q gain	9 (11%)	72	0.075528	1	0.47599	1	0.2338	1	0.24521	1	0.70596	1	0.71377	1	0.80014	1	0.65017	1
15q gain	6 (7%)	75	0.29968	1	0.19517	1	0.48377	1	1	1	0.15057	1	0.57818	1	1	1	0.50067	1
16p gain	8 (10%)	73	0.0027884	1	0.014513	1	0.1329	1	0.11879	1	0.16099	1	0.13836	1	0.03834	1	0.092034	1
16q gain	9 (11%)	72	0.0024961	1	0.0049857	1	0.024388	1	0.049006	1	0.10834	1	0.061447	1	0.01384	1	0.041297	1
17q gain	4 (5%)	77	0.25629	1	0.11538	1	0.12256	1	0.058847	1	0.23165	1	0.12603	1	0.091593	1	0.13348	1
18p gain	10 (12%)	71	2.7764e-05	0.014	0.00042055	0.204	0.019137	1	0.0092025	1	0.022523	1	0.01311	1	0.0046303	1	0.0087395	1
18q gain	3 (4%)	78	0.10711	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
19p gain	4 (5%)	77	0.073899	1	0.44801	1	0.57736	1	0.53266	1	0.39405	1	0.66081	1	0.50939	1	0.53089	1
19q gain	9 (11%)	72	0.25915	1	0.47599	1	0.2338	1	0.24521	1	0.39555	1	0.31634	1	0.55304	1	0.89437	1
20p gain	13 (16%)	68	0.00034899	0.17	0.0036456	1	0.058744	1	0.056163	1	0.043589	1	0.14905	1	0.06073	1	0.12207	1
20q gain	17 (21%)	64	0.0010125	0.47	0.046067	1	0.036015	1	0.020884	1	0.042065	1	0.11769	1	0.017943	1	0.092613	1
22q gain	4 (5%)	77	0.049437	1	0.047395	1	0.25992	1	0.12217	1	0.28853	1	1	1	0.38505	1	1	1
xq gain	3 (4%)	78	1	1	1	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
1p loss	11 (14%)	70	0.00047843	0.231	0.00031306	0.153	0.57736	1	0.53266	1	0.31765	1	0.69946	1	0.59141	1	0.7021	1
1q loss	3 (4%)	78	0.011357	1	0.10359	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
2p loss	6 (7%)	75	0.098636	1	0.22395	1	1	1	0.78246	1	0.84806	1	0.74022	1	0.46088	1	0.64301	1
3p loss	12 (15%)	69	0.00091251	0.427	0.12032	1	0.2338	1	0.40566	1	0.30599	1	0.33875	1	0.19634	1	0.34259	1
3q loss	6 (7%)	75	0.023596	1	0.26243	1	0.57736	1	0.53266	1	0.39405	1	0.66081	1	0.50939	1	0.53089	1
4p loss	9 (11%)	72	0.012097	1	0.1019	1	0.49455	1	0.11879	1	0.2518	1	0.2261	1	0.05638	1	0.16625	1
4q loss	8 (10%)	73	0.030984	1	0.0094143	1	0.66678	1	0.19458	1	0.57097	1	0.19452	1	0.31157	1	0.20578	1
5p loss	3 (4%)	78	0.011357	1	0.32836	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
5q loss	7 (9%)	74	0.00073235	0.349	0.027415	1	0.25992	1	0.12217	1	0.10671	1	0.40659	1	0.13765	1	0.27103	1
6p loss	28 (35%)	53	8.4781e-05	0.0423	9.0024e-06	0.00456	0.00076275	0.362	0.007082	1	0.017813	1	0.00078284	0.37	0.00087031	0.408	0.0031113	1
6q loss	34 (42%)	47	0.00021895	0.108	2.6814e-07	0.000136	0.00031391	0.154	4.6199e-07	0.000235	0.00020948	0.104	3.456e-05	0.0174	5.3129e-05	0.0267	0.00017002	0.0845
8p loss	11 (14%)	70	0.03082	1	0.035292	1	0.058744	1	0.056163	1	0.043589	1	0.0098869	1	0.018102	1	0.0073896	1
9p loss	34 (42%)	47	7.8804e-05	0.0394	0.037702	1	0.27673	1	0.045534	1	0.17777	1	0.43086	1	0.2441	1	0.36685	1
9q loss	20 (25%)	61	0.2098	1	0.54965	1	0.67845	1	0.69378	1	0.35546	1	0.52744	1	0.75407	1	0.6986	1
10p loss	13 (16%)	68	0.00815	1	0.12032	1	0.019015	1	0.00078621	0.371	0.0019229	0.885	0.00086189	0.406	0.00021188	0.105	0.00055387	0.267
10q loss	12 (15%)	69	0.00058133	0.279	0.18003	1	0.069615	1	0.0066641	1	0.0084422	1	0.0040823	1	0.00061072	0.293	0.0026872	1
11p loss	6 (7%)	75	0.033879	1	0.8672	1	0.025726	1	0.61513	1	0.0053556	1	0.11728	1	0.24808	1	0.12918	1
11q loss	6 (7%)	75	0.29968	1	0.75514	1	0.1732	1	0.43648	1	0.29932	1	0.52292	1	0.65847	1	0.67061	1
12p loss	8 (10%)	73	0.030984	1	0.15206	1	0.044891	1	0.01559	1	0.10671	1	0.069284	1	0.035676	1	0.044692	1
12q loss	10 (12%)	71	0.00073804	0.351	0.063558	1	0.058744	1	0.056163	1	0.11083	1	0.13836	1	0.03834	1	0.092034	1
13q loss	10 (12%)	71	0.00073804	0.351	0.28149	1	0.25204	1	0.074331	1	0.04781	1	0.061447	1	0.01384	1	0.041297	1
14q loss	4 (5%)	77	1	1	0.03009	1	NA	NA	NA	NA	1	1	0.41373	1	1	1	0.42702	1
15q loss	11 (14%)	70	0.0030209	1	0.00022866	0.112	0.0023309	1	0.00031505	0.154	0.0019229	0.885	0.00086189	0.406	0.00021188	0.105	0.00055387	0.267
17p loss	33 (41%)	48	4.5895e-09	2.34e-06	2.1254e-11	1.09e-08	0.002645	1	0.00018447	0.0915	0.00065952	0.315	0.00092123	0.43	6.1912e-05	0.031	0.00037221	0.181
17q loss	11 (14%)	70	0.00096666	0.45	0.02528	1	0.3199	1	0.37381	1	0.41863	1	0.69383	1	0.20335	1	0.61458	1
18p loss	29 (36%)	52	0.50295	1	0.072698	1	0.57522	1	0.84918	1	0.80928	1	1	1	0.40655	1	0.86342	1
18q loss	44 (54%)	37	0.0034965	1	0.0021333	0.977	0.22527	1	0.19317	1	0.20499	1	0.080176	1	0.061992	1	0.14434	1
19p loss	7 (9%)	74	0.071105	1	0.24023	1	0.10171	1	0.0092025	1	0.022523	1	0.13836	1	0.03834	1	0.092034	1
19q loss	5 (6%)	76	0.26137	1	0.52156	1	0.32121	1	0.058847	1	0.10671	1	0.069284	1	0.035676	1	0.044692	1
20p loss	7 (9%)	74	0.43799	1	0.12855	1	0.66678	1	0.25655	1	0.31765	1	0.40659	1	0.31157	1	0.27103	1
21q loss	28 (35%)	53	1.7856e-06	0.000905	0.0053303	1	0.13454	1	0.016153	1	0.026853	1	0.22408	1	0.074119	1	0.15973	1
22q loss	16 (20%)	65	0.0035312	1	0.068525	1	0.2338	1	0.40566	1	0.39555	1	0.56135	1	0.21545	1	0.45279	1
xq loss	5 (6%)	76	0.0040845	1	0.43668	1	0.36558	1	1	1	0.11557	1	0.57998	1	0.073892	1	0.58711	1
