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	7 (4%)	155	0.12164	1	0.7831	1	0.67648	1	0.82182	1	0.89513	1	0.52401	1	0.83375	1	0.65241	1
1q gain	19 (12%)	143	0.00072999	0.368	0.3528	1	0.48802	1	0.59152	1	0.90621	1	0.66507	1	0.48681	1	0.84636	1
2p gain	6 (4%)	156	0.50554	1	0.0066299	1	0.24039	1	0.34216	1	0.135	1	0.33635	1	0.19264	1	0.45941	1
4p gain	4 (2%)	158	0.67974	1	0.36674	1	0.82208	1	0.55412	1	0.45262	1	0.78806	1	0.77186	1	1	1
4q gain	3 (2%)	159	0.061859	1	0.80584	1	0.47318	1	0.73846	1	0.61446	1	0.83326	1	0.81449	1	0.46328	1
5p gain	11 (7%)	151	0.62279	1	0.43492	1	0.91513	1	0.65676	1	0.85513	1	0.61197	1	0.82943	1	0.21702	1
5q gain	7 (4%)	155	0.89644	1	0.0056699	1	0.072539	1	0.29659	1	0.48181	1	0.38206	1	0.94353	1	0.28635	1
6p gain	15 (9%)	147	0.88879	1	0.25447	1	0.30667	1	0.37311	1	0.24143	1	0.30265	1	0.55948	1	0.50799	1
6q gain	8 (5%)	154	0.14883	1	0.00165	0.818	0.03631	1	0.11099	1	0.12899	1	0.18598	1	0.080559	1	0.26615	1
7p gain	27 (17%)	135	0.02159	1	0.072959	1	0.13938	1	0.37938	1	0.24195	1	0.073059	1	0.31565	1	0.087519	1
7q gain	22 (14%)	140	0.0070899	1	0.0064499	1	0.1711	1	0.28494	1	0.14172	1	0.11476	1	0.52038	1	0.4591	1
8p gain	10 (6%)	152	0.01854	1	0.3721	1	0.084219	1	0.091669	1	0.071699	1	0.15529	1	0.45258	1	0.10173	1
8q gain	13 (8%)	149	0.24314	1	0.7525	1	0.084269	1	0.076279	1	0.11312	1	0.20183	1	0.80366	1	0.087689	1
9p gain	4 (2%)	158	0.23052	1	0.071399	1	0.15222	1	0.22455	1	0.28709	1	0.25641	1	0.30082	1	0.51145	1
9q gain	3 (2%)	159	0.45736	1	0.1387	1	0.23738	1	0.23797	1	0.4613	1	0.34429	1	0.29498	1	0.55821	1
10p gain	12 (7%)	150	0.51243	1	0.072209	1	0.51332	1	0.52035	1	1	1	0.84218	1	0.48803	1	0.17775	1
10q gain	10 (6%)	152	0.10513	1	0.69509	1	0.494	1	0.59388	1	0.70725	1	0.51054	1	0.42549	1	0.15273	1
11p gain	5 (3%)	157	0.087219	1	0.5183	1	0.41221	1	0.30348	1	0.53912	1	0.49221	1	0.34493	1	0.68767	1
12p gain	11 (7%)	151	0.01047	1	0.0074199	1	0.33682	1	0.32404	1	0.01849	1	0.21446	1	0.13106	1	0.42928	1
12q gain	14 (9%)	148	0.068529	1	0.22456	1	0.60331	1	0.6531	1	0.061109	1	0.29279	1	0.22393	1	0.43234	1
13q gain	9 (6%)	153	0.01808	1	0.02156	1	0.01019	1	0.0087399	1	0.02298	1	0.053129	1	0.0097899	1	0.35932	1
14q gain	4 (2%)	158	0.061619	1	0.36986	1	0.54834	1	0.55422	1	0.29119	1	0.78707	1	0.77186	1	0.87466	1
15q gain	14 (9%)	148	0.25215	1	0.03267	1	0.31627	1	0.76736	1	0.42526	1	0.79379	1	0.5579	1	0.92593	1
16p gain	6 (4%)	156	0.23958	1	0.55233	1	0.74214	1	0.74298	1	0.38098	1	0.81543	1	0.29197	1	0.50089	1
16q gain	6 (4%)	156	0.01487	1	1	1	0.27238	1	0.69952	1	1	1	0.76527	1	0.3992	1	0.42911	1
17q gain	5 (3%)	157	0.5447	1	0.31163	1	0.30021	1	0.30351	1	0.53906	1	0.77064	1	0.54063	1	0.2113	1
18p gain	8 (5%)	154	0.14674	1	0.22999	1	0.38331	1	0.64933	1	0.46464	1	0.56023	1	0.1294	1	0.85804	1
18q gain	10 (6%)	152	0.3498	1	0.58123	1	0.36667	1	0.53776	1	0.84437	1	0.43954	1	0.19632	1	0.53047	1
19p gain	20 (12%)	142	0.01554	1	0.075579	1	0.74684	1	0.64349	1	0.27615	1	0.92549	1	0.2065	1	0.72816	1
19q gain	14 (9%)	148	0.15102	1	0.0088499	1	0.37335	1	0.2271	1	0.46101	1	0.66444	1	0.52664	1	0.49014	1
20p gain	12 (7%)	150	0.64419	1	0.36563	1	0.18112	1	0.34097	1	0.16835	1	0.38109	1	0.59514	1	0.59148	1
20q gain	10 (6%)	152	0.54217	1	0.16583	1	0.02934	1	0.063609	1	0.03762	1	0.075919	1	0.03951	1	0.5127	1
21q gain	3 (2%)	159	0.24908	1	0.13718	1	0.23732	1	0.068209	1	0.1818	1	0.40857	1	0.29149	1	0.8072	1
22q gain	3 (2%)	159	0.24881	1	0.082799	1	0.23751	1	0.1491	1	0.18285	1	0.40749	1	0.055609	1	0.80744	1
xq gain	5 (3%)	157	0.17653	1	0.04411	1	0.054699	1	0.054779	1	0.13981	1	0.067559	1	0.03063	1	0.097649	1
1p loss	98 (60%)	64	9.9999e-06	0.00536	0.01593	1	0.00248	1	0.00189	0.936	0.00012	0.0625	0.01337	1	0.00061999	0.314	0.13485	1
1q loss	27 (17%)	135	0.89488	1	0.30772	1	0.12326	1	0.51591	1	0.66514	1	0.26443	1	0.03099	1	0.23748	1
2p loss	10 (6%)	152	0.38502	1	0.076059	1	0.00446	1	0.17768	1	0.1952	1	0.00084999	0.427	0.14788	1	0.0077899	1
2q loss	13 (8%)	149	0.82199	1	0.45044	1	0.41641	1	0.13965	1	0.53508	1	0.098999	1	0.32624	1	0.34026	1
3p loss	62 (38%)	100	0.00065999	0.333	0.095539	1	0.00051999	0.265	4e-05	0.0211	0.00081999	0.412	0.00122	0.609	0.00015	0.078	0.00021	0.109
3q loss	88 (54%)	74	0.00011	0.0575	0.52105	1	0.04274	1	9.9999e-06	0.00536	0.00307	1	0.03066	1	0.01236	1	0.01586	1
4p loss	11 (7%)	151	0.00334	1	0.1414	1	0.0071199	1	0.18372	1	0.29199	1	0.39088	1	0.057749	1	0.1432	1
4q loss	10 (6%)	152	0.071709	1	0.24021	1	0.01826	1	0.33931	1	0.41915	1	0.52831	1	0.32846	1	0.32325	1
5p loss	5 (3%)	157	0.066129	1	0.37748	1	0.03663	1	0.03599	1	0.14082	1	0.16665	1	0.16946	1	0.055529	1
5q loss	7 (4%)	155	0.38163	1	0.78374	1	0.64647	1	0.52365	1	0.89484	1	0.35912	1	0.22874	1	0.30628	1
6q loss	19 (12%)	143	0.00086999	0.436	0.00043	0.22	0.00060999	0.309	0.00011	0.0575	3e-04	0.154	5.9999e-05	0.0315	0.01198	1	0.00215	1
7q loss	6 (4%)	156	0.0327	1	0.48534	1	0.03997	1	0.17593	1	0.02953	1	0.0247	1	0.24762	1	0.12833	1
8p loss	20 (12%)	142	0.02186	1	0.38989	1	0.12489	1	0.10867	1	0.7167	1	0.95367	1	0.27959	1	0.48741	1
8q loss	12 (7%)	150	0.04476	1	0.74119	1	0.33021	1	0.61934	1	0.11366	1	0.43808	1	0.92825	1	0.42871	1
9p loss	11 (7%)	151	0.04799	1	0.71914	1	0.18362	1	0.17981	1	0.67091	1	0.067639	1	0.5501	1	0.31393	1
9q loss	11 (7%)	151	0.0072899	1	0.60907	1	0.50976	1	0.62904	1	0.7231	1	0.4011	1	0.82818	1	0.44199	1
11p loss	54 (33%)	108	9.9999e-06	0.00536	0.00052999	0.27	0.00024	0.124	9.9999e-06	0.00536	6.9999e-05	0.0367	9.9999e-06	0.00536	4e-05	0.0211	0.00251	1
11q loss	40 (25%)	122	2e-05	0.0106	0.068629	1	0.00023	0.119	0.00086999	0.436	0.00024	0.124	0.00035	0.18	0.00027	0.139	0.02728	1
13q loss	8 (5%)	154	0.03535	1	0.44694	1	0.31011	1	0.11584	1	0.52839	1	0.22508	1	0.54577	1	0.45925	1
14q loss	20 (12%)	142	0.23951	1	0.052529	1	0.30868	1	0.79446	1	0.15541	1	0.00193	0.953	0.02941	1	0.00144	0.716
15q loss	3 (2%)	159	0.35205	1	0.33003	1	1	1	0.86622	1	0.61756	1	0.83252	1	0.89842	1	1	1
16p loss	9 (6%)	153	0.33548	1	0.04319	1	0.55358	1	0.36398	1	0.24819	1	0.40398	1	0.67524	1	0.77236	1
16q loss	5 (3%)	157	0.73943	1	0.44171	1	0.44575	1	0.02627	1	0.21027	1	0.59341	1	0.091839	1	0.82949	1
17p loss	61 (38%)	101	0.00044	0.225	0.0023	1	0.071279	1	0.03388	1	0.02334	1	0.02291	1	0.21334	1	0.01378	1
17q loss	19 (12%)	143	3e-05	0.0158	0.90359	1	0.29716	1	0.23136	1	0.36863	1	0.089499	1	0.8815	1	0.26172	1
18p loss	16 (10%)	146	0.50238	1	0.74236	1	0.85578	1	0.75608	1	0.89168	1	0.3123	1	0.60717	1	0.45658	1
18q loss	6 (4%)	156	0.28854	1	0.87509	1	0.58641	1	0.65991	1	0.57498	1	0.58145	1	0.43345	1	0.86595	1
19q loss	6 (4%)	156	0.24065	1	1	1	0.9421	1	0.943	1	0.33179	1	0.62703	1	0.92634	1	0.93229	1
20q loss	3 (2%)	159	1	1	1	1	1	1	0.64278	1	0.7885	1	1	1	0.73124	1	0.80823	1
21q loss	36 (22%)	126	0.20508	1	0.050139	1	0.04191	1	0.93818	1	0.56383	1	0.59981	1	0.90832	1	0.7174	1
22q loss	58 (36%)	104	2e-05	0.0106	0.01273	1	0.0325	1	0.00237	1	0.04827	1	0.051499	1	0.02744	1	0.02422	1
xq loss	49 (30%)	113	2e-05	0.0106	0.00123	0.613	0.0079899	1	0.00059999	0.305	0.00371	1	0.0107	1	0.21509	1	0.01279	1