		Clinical Features	CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
3p gain	8 (12%)	58	0.25953	0.501	0.50733	0.745	0.46014	0.694	0.04473	0.157	0.83873	0.929	0.64626	0.826	0.20417	0.441	0.69047	0.855	0.03853	0.139	0.62499	0.81
3q gain	8 (12%)	58	0.26017	0.501	0.50636	0.745	0.45759	0.691	0.04371	0.155	0.84073	0.929	0.64817	0.826	0.20525	0.441	0.68949	0.855	0.03903	0.14	0.6263	0.81
4p gain	23 (35%)	43	0.90314	0.971	0.64252	0.826	0.50722	0.745	0.17389	0.397	0.00103	0.00865	0.00037	0.00359	1	1	0.01372	0.0697	0.01034	0.0557	0.00366	0.0245
4q gain	24 (36%)	42	0.81046	0.918	0.80532	0.917	0.34443	0.585	0.1503	0.357	9.9999e-05	0.00137	8.9999e-05	0.00129	0.95078	0.997	0.0090799	0.0502	0.01147	0.0607	0.01523	0.0737
5p gain	8 (12%)	58	0.77206	0.898	0.79705	0.915	0.71013	0.863	0.19941	0.439	0.3865	0.628	0.44571	0.679	0.42642	0.661	0.059919	0.195	0.31118	0.552	0.12902	0.329
5q gain	8 (12%)	58	0.77293	0.898	0.79996	0.915	0.70908	0.863	0.19749	0.439	0.38553	0.628	0.44644	0.679	0.42715	0.661	0.060179	0.195	0.31126	0.552	0.12883	0.329
7p gain	24 (36%)	42	0.57144	0.788	0.89773	0.968	0.099619	0.276	0.13501	0.338	0.076789	0.228	0.061029	0.197	0.844	0.931	0.11729	0.316	0.03419	0.127	0.14027	0.344
7q gain	24 (36%)	42	0.57481	0.791	0.89608	0.968	0.095889	0.267	0.13623	0.338	0.075299	0.228	0.061539	0.198	0.84019	0.929	0.1171	0.316	0.03485	0.128	0.14157	0.344
8p gain	16 (24%)	50	0.32938	0.575	0.13124	0.329	0.38155	0.628	0.1494	0.357	0.091469	0.256	0.077159	0.228	0.30491	0.552	0.14415	0.349	0.02073	0.0888	0.0467	0.163
8q gain	17 (26%)	49	0.23958	0.482	0.14538	0.35	0.39012	0.63	0.13036	0.329	0.03367	0.126	0.03071	0.118	0.4436	0.678	0.12097	0.322	0.0096099	0.0526	0.055269	0.183
9p gain	10 (15%)	56	0.64862	0.826	0.5633	0.785	0.25737	0.499	0.23391	0.475	0.41709	0.655	0.81334	0.918	0.75463	0.89	0.60163	0.805	0.30062	0.552	0.30394	0.552
9q gain	10 (15%)	56	0.6491	0.826	0.56211	0.785	0.25577	0.499	0.23529	0.477	0.4178	0.655	0.81276	0.918	0.75789	0.891	0.59723	0.805	0.30066	0.552	0.3051	0.552
10p gain	4 (6%)	62	1	1	0.28528	0.538	1	1	0.55031	0.776	0.47799	0.716	0.20511	0.441	1	1	0.16667	0.385	0.25491	0.499	0.77726	0.899
11p gain	15 (23%)	51	1	1	0.87039	0.95	0.56061	0.785	0.088859	0.251	0.00051999	0.00475	3e-04	0.00315	0.83036	0.924	0.02749	0.106	0.33695	0.583	0.052849	0.176
11q gain	15 (23%)	51	1	1	0.86789	0.949	0.21473	0.452	0.087869	0.251	2e-05	0.000371	2e-05	0.000371	0.7475	0.889	0.01997	0.0862	0.090369	0.254	0.02566	0.101
12p gain	19 (29%)	47	0.89229	0.968	0.73748	0.88	0.83719	0.929	0.46265	0.696	0.12799	0.329	0.15918	0.377	0.66959	0.837	0.066419	0.208	0.00036	0.00359	0.19791	0.439
12q gain	20 (30%)	46	1	1	0.51913	0.754	0.7871	0.905	0.41285	0.651	0.03312	0.124	0.083709	0.241	0.94347	0.992	0.03166	0.12	0.00081999	0.00726	0.17688	0.401
14q gain	21 (32%)	45	1	1	0.94352	0.992	0.20022	0.439	0.29317	0.55	0.01673	0.0787	0.00483	0.0317	0.76668	0.898	0.058589	0.193	0.02143	0.0899	0.066079	0.208
15q gain	21 (32%)	45	0.30134	0.552	0.94309	0.992	0.19989	0.439	0.2967	0.551	0.13618	0.338	0.061859	0.198	0.94537	0.993	0.21256	0.451	0.28836	0.542	0.41022	0.649
16p gain	22 (33%)	44	1	1	0.79905	0.915	0.49248	0.732	0.29457	0.55	0.00161	0.0121	0.00053999	0.00486	0.65575	0.826	0.0058299	0.036	0.0056699	0.0354	0.0090599	0.0502
16q gain	21 (32%)	45	1	1	0.94328	0.992	0.26435	0.506	0.36445	0.608	0.00037	0.00359	0.00014	0.00184	0.40078	0.642	0.0051499	0.0331	0.0019	0.0138	0.0054699	0.0345
18p gain	17 (26%)	49	1	1	0.72107	0.863	0.76091	0.893	0.65156	0.826	0.02169	0.0899	0.01289	0.066	1	1	0.04798	0.167	0.00247	0.0171	0.01283	0.066
18q gain	16 (24%)	50	0.87377	0.952	0.93531	0.992	0.92886	0.992	0.55529	0.78	0.04979	0.17	0.01984	0.0862	1	1	0.050609	0.171	0.00188	0.0138	0.01619	0.0767
19p gain	20 (30%)	46	0.71132	0.863	0.22475	0.465	0.069929	0.216	0.02638	0.103	0.01918	0.0845	0.0227	0.0929	0.88127	0.957	0.13003	0.329	0.35578	0.598	0.6073	0.805
19q gain	18 (27%)	48	1	1	0.26131	0.502	0.10931	0.297	0.073409	0.225	0.00357	0.0242	0.0062999	0.0385	0.69604	0.856	0.14613	0.35	0.32615	0.572	0.50601	0.745
20p gain	22 (33%)	44	0.72082	0.863	0.71144	0.863	0.16598	0.385	0.065669	0.208	0.01749	0.081	0.02377	0.0957	0.42903	0.661	0.02239	0.0922	0.01524	0.0737	0.2032	0.441
20q gain	22 (33%)	44	0.72179	0.863	0.71445	0.863	0.16738	0.385	0.066499	0.208	0.01819	0.0836	0.02346	0.0954	0.42709	0.661	0.02165	0.0899	0.01532	0.0737	0.20109	0.439
21q gain	4 (6%)	62	1	1	0.28179	0.533	0.5559	0.78	0.8104	0.918	0.33935	0.584	0.1067	0.292	0.67532	0.842	0.16556	0.385	0.75843	0.891	0.71878	0.863
22q gain	19 (29%)	47	1	1	0.54134	0.773	0.25398	0.499	0.2426	0.487	0.33545	0.583	0.36232	0.607	0.48051	0.716	0.02385	0.0957	0.0099299	0.0539	0.00227	0.0159
xp gain	8 (12%)	58	0.7725	0.898	0.30625	0.552	0.40348	0.644	0.38379	0.628	0.0076099	0.0443	0.01965	0.086	0.075219	0.228	0.083759	0.241	0.0073399	0.0436	0.03083	0.118
xq gain	8 (12%)	58	0.77232	0.898	0.30587	0.552	0.40554	0.645	0.3855	0.628	0.0078199	0.0448	0.01854	0.0845	0.075659	0.228	0.083879	0.241	0.0079499	0.0451	0.0321	0.121
1p loss	53 (80%)	13	0.41352	0.651	9.9999e-06	0.000233	0.71892	0.863	0.5964	0.805	0.00027	0.00298	0.00028	0.00304	0.39569	0.638	0.00123	0.00993	0.00048	0.00451	0.00204	0.0144
1q loss	51 (77%)	15	0.54207	0.773	9.9999e-06	0.000233	0.21736	0.453	0.33624	0.583	2e-05	0.000371	5.9999e-05	0.000969	0.26903	0.512	0.00031	0.0032	0.0048	0.0317	0.01189	0.0619
2p loss	46 (70%)	20	0.71238	0.863	9.9999e-06	0.000233	0.12608	0.328	0.51195	0.745	9.9999e-06	0.000233	9.9999e-06	0.000233	0.45009	0.683	2e-05	0.000371	9.9999e-06	0.000233	0.00041	0.00391
2q loss	46 (70%)	20	0.71007	0.863	9.9999e-06	0.000233	0.12668	0.328	0.51086	0.745	9.9999e-06	0.000233	9.9999e-06	0.000233	0.45267	0.686	9.9999e-06	0.000233	9.9999e-06	0.000233	0.00050999	0.00472
3p loss	9 (14%)	57	0.60463	0.805	0.43576	0.668	0.81661	0.92	0.16688	0.385	0.12662	0.328	0.0027	0.0185	0.42833	0.661	0.20139	0.439	0.66779	0.836	0.85331	0.938
3q loss	8 (12%)	58	0.42451	0.661	0.16696	0.385	0.89646	0.968	0.38492	0.628	0.088479	0.251	0.00196	0.014	0.30585	0.552	0.18013	0.407	0.30861	0.552	0.65579	0.826
5p loss	10 (15%)	56	0.0080699	0.0454	0.20951	0.448	1	1	0.82219	0.922	0.01438	0.0719	0.01897	0.0845	0.22656	0.465	0.0148	0.0728	0.3836	0.628	0.64867	0.826
5q loss	10 (15%)	56	0.0067999	0.0412	0.20972	0.448	1	1	0.82213	0.922	0.01473	0.0728	0.01915	0.0845	0.22963	0.47	0.01435	0.0719	0.3811	0.628	0.65178	0.826
6p loss	51 (77%)	15	0.6239	0.81	9.9999e-06	0.000233	0.16091	0.378	0.10478	0.29	9.9999e-06	0.000233	9.9999e-06	0.000233	0.60906	0.805	0.00133	0.0105	0.00026	0.00298	6.9999e-05	0.00108
6q loss	51 (77%)	15	0.6242	0.81	9.9999e-06	0.000233	0.15982	0.377	0.10528	0.29	9.9999e-06	0.000233	9.9999e-06	0.000233	0.609	0.805	0.00129	0.0103	0.00015	0.00193	0.00012	0.00161
8p loss	10 (15%)	56	2e-05	0.000371	0.02159	0.0899	0.02438	0.0972	0.02689	0.105	0.3446	0.585	0.076469	0.228	0.14581	0.35	0.54703	0.774	0.21452	0.452	0.01912	0.0845
8q loss	9 (14%)	57	0.00019	0.00235	0.01699	0.0793	0.070409	0.216	0.082039	0.24	0.58599	0.802	0.12028	0.322	0.24872	0.494	0.58704	0.802	0.21626	0.453	0.0187	0.0845
9p loss	9 (14%)	57	1	1	0.90583	0.972	0.66355	0.833	0.81054	0.918	0.01166	0.0612	0.0050399	0.0327	0.25703	0.499	0.54663	0.774	0.22543	0.465	0.9976	1
9q loss	10 (15%)	56	0.80358	0.917	0.82873	0.924	0.50964	0.745	0.55008	0.776	0.02089	0.0889	0.01563	0.0746	0.076619	0.228	0.60044	0.805	0.70818	0.863	0.92473	0.991
10p loss	48 (73%)	18	0.5945	0.805	3e-05	0.000525	0.088269	0.251	0.10749	0.293	9.9999e-06	0.000233	9.9999e-06	0.000233	0.59478	0.805	0.00022	0.00267	0.00159	0.0121	0.0072599	0.0436
10q loss	49 (74%)	17	0.42342	0.661	2e-05	0.000371	0.17524	0.399	0.23758	0.48	9.9999e-06	0.000233	9.9999e-06	0.000233	0.569	0.786	0.00036	0.00359	0.0054299	0.0345	0.00178	0.0132
11p loss	7 (11%)	59	0.75273	0.89	0.69445	0.856	0.53337	0.767	0.25268	0.499	0.34422	0.585	0.31769	0.559	0.34469	0.585	0.93821	0.992	0.93664	0.992	0.60438	0.805
11q loss	7 (11%)	59	0.75273	0.89	0.69528	0.856	0.53004	0.766	0.2545	0.499	0.34133	0.585	0.31596	0.558	0.34692	0.586	0.93725	0.992	0.9386	0.992	0.60314	0.805
13q loss	43 (65%)	23	0.37462	0.623	0.00027	0.00298	0.29489	0.55	0.052079	0.175	0.00016	0.00202	4e-05	0.000681	0.082299	0.24	0.19801	0.439	0.00088999	0.00758	0.0076599	0.0443
16p loss	3 (5%)	63	0.60182	0.805	0.61347	0.805	0.3505	0.59	0.59146	0.805	0.24797	0.494	0.12366	0.326	0.75237	0.89	0.48068	0.716	0.78097	0.901	0.62399	0.81
16q loss	5 (8%)	61	0.47988	0.716	0.43381	0.667	0.8528	0.938	0.22619	0.465	0.0347	0.128	0.0074899	0.0441	0.27555	0.523	0.04969	0.17	0.53936	0.773	0.65663	0.826
17p loss	50 (76%)	16	0.56762	0.786	9.9999e-06	0.000233	0.13952	0.343	0.068829	0.214	9.9999e-06	0.000233	9.9999e-06	0.000233	0.31014	0.552	5e-05	0.000829	6.9999e-05	0.00108	0.0011	0.00912
17q loss	50 (76%)	16	0.56926	0.786	9.9999e-06	0.000233	0.14071	0.344	0.068789	0.214	9.9999e-06	0.000233	9.9999e-06	0.000233	0.30945	0.552	7.9999e-05	0.00117	9.9999e-05	0.00137	0.00121	0.0099
18p loss	7 (11%)	59	0.38077	0.628	0.051389	0.173	0.53357	0.767	0.51179	0.745	0.39896	0.641	0.13952	0.343	0.77421	0.898	0.93808	0.992	0.3008	0.552	0.82511	0.923
18q loss	9 (14%)	57	0.12982	0.329	0.04064	0.145	0.39003	0.63	0.40689	0.646	0.0364	0.132	0.16836	0.386	0.58267	0.8	0.78324	0.902	0.12195	0.323	0.49619	0.736
19q loss	3 (5%)	63	1	1	1	1	0.6131	0.805	0.30842	0.552	0.05	0.17	0.82128	0.922	1	1	0.86522	0.948	0.77754	0.899	0.62411	0.81
20p loss	4 (6%)	62	1	1	0.56731	0.786	0.36488	0.608	0.33837	0.584	0.54375	0.773	0.21547	0.452	0.74389	0.886	0.65659	0.826	0.34609	0.586	0.54144	0.773
20q loss	3 (5%)	63	1	1	0.24881	0.494	0.61182	0.805	0.58951	0.804	0.24957	0.494	0.058929	0.193	0.64488	0.826	0.82743	0.924	0.079639	0.234	0.62409	0.81
21q loss	35 (53%)	31	0.40238	0.643	0.03555	0.129	0.12546	0.328	0.1885	0.424	0.26485	0.506	0.19476	0.437	0.98413	1	0.127	0.328	0.12089	0.322	0.22546	0.465
22q loss	8 (12%)	58	1	1	0.02468	0.0978	0.87917	0.957	1	1	0.5284	0.765	0.233	0.475	0.61073	0.805	0.21252	0.451	0.85951	0.943	0.31603	0.558
xp loss	38 (58%)	28	0.90084	0.97	0.00026	0.00298	0.68988	0.855	0.72212	0.863	3e-04	0.00315	0.00027	0.00298	0.32954	0.575	3e-05	0.000525	2e-05	0.000371	0.01099	0.0587
xq loss	38 (58%)	28	1	1	0.00158	0.0121	0.69075	0.855	0.71949	0.863	0.00086999	0.00751	0.00144	0.0112	0.65252	0.826	0.00082999	0.00726	7.9999e-05	0.00117	0.04984	0.17
