		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
1p gain	3 (1%)	491	0.25274	1	0.74542	1	NA	NA	NA	NA	0.48916	1	1	1	0.41269	1	0.62074	1	0.21567	1	0.48491	1
1q gain	24 (5%)	470	9.8111e-06	0.0045	0.028902	1	0.0011227	0.401	0.031927	1	0.001108	0.4	0.0025865	0.869	0.14644	1	0.052447	1	0.094115	1	0.02191	1
3p gain	3 (1%)	491	0.00029964	0.117	0.58225	1	NA	NA	NA	NA	0.56038	1	0.36242	1	0.20674	1	0.35468	1	0.32276	1	0.26956	1
4p gain	5 (1%)	489	1.1583e-06	0.000576	0.0058116	1	NA	NA	NA	NA	0.017634	1	0.0027543	0.914	0.026783	1	0.02148	1	0.068735	1	0.021643	1
4q gain	5 (1%)	489	1.1583e-06	0.000576	0.0058116	1	NA	NA	NA	NA	0.017634	1	0.0027543	0.914	0.026783	1	0.02148	1	0.068735	1	0.021643	1
5p gain	21 (4%)	473	4.1767e-23	2.22e-20	0.0009301	0.342	0.53006	1	0.096938	1	0.0065629	1	0.00040894	0.154	0.0041091	1	0.00052321	0.195	0.0011	0.398	0.00031043	0.12
5q gain	17 (3%)	477	1.7646e-22	9.35e-20	3.3891e-05	0.0147	0.84992	1	0.0074483	1	0.00033759	0.13	9.2182e-06	0.00427	0.00034409	0.132	4.1144e-05	0.0178	9.5987e-05	0.0395	3.178e-05	0.0139
7p gain	18 (4%)	476	6.2891e-24	3.35e-21	7.1865e-05	0.0299	0.66044	1	0.0021938	0.748	0.00033759	0.13	9.2182e-06	0.00427	0.0010462	0.38	0.00012147	0.0498	0.00025857	0.101	7.6101e-05	0.0315
7q gain	20 (4%)	474	6.9205e-25	3.69e-22	9.8206e-06	0.0045	0.57088	1	0.0006759	0.251	6.0144e-05	0.0253	1.1338e-06	0.000566	0.00014406	0.0585	1.1525e-05	0.00526	4.3818e-05	0.0188	9.0622e-06	0.0042
8p gain	6 (1%)	488	0.00036422	0.139	0.5511	1	0.45688	1	0.65505	1	0.62337	1	0.47627	1	0.52551	1	0.29381	1	0.33416	1	0.34146	1
8q gain	7 (1%)	487	4.6185e-05	0.0198	0.37788	1	0.45688	1	0.65505	1	0.9083	1	0.63924	1	0.79943	1	0.56094	1	0.31819	1	0.62917	1
9p gain	3 (1%)	491	0.0024627	0.832	0.58225	1	NA	NA	NA	NA	0.56038	1	0.36242	1	1	1	1	1	1	1	1	1
9q gain	4 (1%)	490	0.010127	1	0.64949	1	NA	NA	NA	NA	0.30351	1	0.77005	1	1	1	0.8216	1	1	1	0.82784	1
11p gain	6 (1%)	488	0.00019094	0.0768	0.026273	1	0.78004	1	0.28386	1	0.052378	1	0.012774	1	0.01458	1	0.0035052	1	0.0023653	0.804	0.0039224	1
11q gain	5 (1%)	489	1.6023e-05	0.00726	0.075718	1	0.78004	1	0.28386	1	0.11572	1	0.04347	1	0.041522	1	0.011545	1	0.0073505	1	0.012716	1
12p gain	14 (3%)	480	1.4838e-16	7.82e-14	3.7096e-06	0.00178	0.84992	1	0.0074483	1	1.6531e-05	0.00746	1.6916e-06	0.000822	6.0506e-05	0.0254	8.8631e-06	0.00412	9.6452e-06	0.00444	8.5246e-06	0.00397
12q gain	15 (3%)	479	2.1371e-16	1.12e-13	1.3215e-06	0.000646	0.84992	1	0.0074483	1	9.2946e-06	0.00428	3.6132e-07	0.000183	2.2412e-05	0.00988	2.8717e-06	0.00139	3.6316e-06	0.00175	2.6582e-06	0.00129
13q gain	5 (1%)	489	1.1583e-06	0.000576	0.017333	1	0.38382	1	0.052318	1	0.042314	1	0.013528	1	0.16894	1	0.13916	1	0.20984	1	0.14752	1
14q gain	11 (2%)	483	3.2261e-10	1.66e-07	0.00016135	0.0652	1	1	0.079008	1	0.00057357	0.213	7.2241e-05	0.03	0.00046118	0.173	0.00015085	0.0611	0.0012288	0.435	0.00011394	0.0468
16p gain	15 (3%)	479	6.9406e-18	3.67e-15	1.8523e-05	0.0083	0.63317	1	0.010623	1	0.00019498	0.078	6.609e-06	0.00311	0.00019179	0.0769	4.2488e-05	0.0183	3.0668e-05	0.0134	3.9555e-05	0.0172
16q gain	13 (3%)	481	6.4942e-17	3.43e-14	0.00012148	0.0498	0.79533	1	0.036322	1	0.0010343	0.376	9.2629e-05	0.0383	0.0017099	0.604	0.00038726	0.146	0.00018161	0.0732	0.00033592	0.13
17p gain	16 (3%)	478	4.2311e-13	2.2e-10	5.6386e-07	0.000285	0.53812	1	0.0032652	1	4.0175e-06	0.00192	7.229e-08	3.69e-05	8.06e-06	0.00379	8.9682e-07	0.000452	1.3337e-06	0.000651	8.0374e-07	0.000406
17q gain	18 (4%)	476	5.0269e-14	2.62e-11	1.1334e-06	0.000566	0.63317	1	0.0027126	0.906	1.4457e-05	0.00656	2.5359e-07	0.000129	1.1689e-05	0.00532	1.46e-06	0.000711	3.6892e-06	0.00177	1.093e-06	0.000546
18p gain	6 (1%)	488	1.163e-06	0.000576	0.097294	1	NA	NA	NA	NA	0.11572	1	0.04347	1	0.25473	1	0.084071	1	0.025931	1	0.10653	1
18q gain	6 (1%)	488	1.163e-06	0.000576	0.097294	1	NA	NA	NA	NA	0.11572	1	0.04347	1	0.25473	1	0.084071	1	0.025931	1	0.10653	1
19p gain	8 (2%)	486	2.1851e-10	1.13e-07	0.00013927	0.0568	NA	NA	NA	NA	0.00072283	0.267	4.1433e-05	0.0179	6.4312e-05	0.0269	1.9869e-05	0.0088	0.00024177	0.0953	1.749e-05	0.00787
19q gain	10 (2%)	484	1.9162e-11	9.93e-09	8.4402e-06	0.00396	0.63581	1	0.052318	1	5.9744e-05	0.0253	5.4898e-06	0.00262	5.4855e-06	0.00262	1.2495e-06	0.000615	2.4285e-05	0.0107	1.064e-06	0.000535
20p gain	12 (2%)	482	1.4228e-15	7.47e-13	0.00037642	0.143	0.79533	1	0.01926	1	0.003195	1	0.00020214	0.0807	0.0046578	1	0.0011071	0.4	0.00050754	0.19	0.00098134	0.359
20q gain	12 (2%)	482	1.4228e-15	7.47e-13	0.00037642	0.143	0.79533	1	0.01926	1	0.003195	1	0.00020214	0.0807	0.0046578	1	0.0011071	0.4	0.00050754	0.19	0.00098134	0.359
21q gain	5 (1%)	489	1.6023e-05	0.00726	0.24862	1	NA	NA	NA	NA	0.23775	1	0.15164	1	0.45083	1	0.22908	1	0.068735	1	0.31753	1
xq gain	9 (2%)	485	2.7025e-07	0.000137	0.021712	1	0.83857	1	0.25012	1	0.091048	1	0.050311	1	0.33715	1	0.20748	1	0.48314	1	0.19584	1
1p loss	4 (1%)	490	1.8918e-05	0.00846	0.22031	1	NA	NA	NA	NA	0.23775	1	0.15164	1	0.075512	1	0.067594	1	0.12891	1	0.094249	1
1q loss	3 (1%)	491	0.00029964	0.117	0.058497	1	NA	NA	NA	NA	0.09607	1	0.03702	1	0.027774	1	0.018024	1	0.070089	1	0.017199	1
2p loss	10 (2%)	484	1.9162e-11	9.93e-09	8.4402e-06	0.00396	0.77299	1	0.012195	1	5.9744e-05	0.0253	5.4898e-06	0.00262	5.4855e-06	0.00262	1.2495e-06	0.000615	2.4285e-05	0.0107	1.064e-06	0.000535
2q loss	10 (2%)	484	6.0257e-13	3.13e-10	8.4402e-06	0.00396	0.77299	1	0.012195	1	5.9744e-05	0.0253	5.4898e-06	0.00262	5.4855e-06	0.00262	1.2495e-06	0.000615	2.4285e-05	0.0107	1.064e-06	0.000535
3p loss	3 (1%)	491	0.00029964	0.117	0.058497	1	NA	NA	NA	NA	0.09607	1	0.03702	1	0.027774	1	0.018024	1	0.070089	1	0.017199	1
3q loss	4 (1%)	490	1.8918e-05	0.00846	0.014899	1	0.49518	1	0.36437	1	0.042314	1	0.013528	1	0.0083323	1	0.0046715	1	0.022746	1	0.0043874	1
6p loss	4 (1%)	490	0.0023635	0.804	0.05941	1	NA	NA	NA	NA	0.45633	1	0.15164	1	0.075512	1	0.067594	1	0.12891	1	0.094249	1
6q loss	7 (1%)	487	4.6185e-05	0.0198	0.0037975	1	0.01289	1	0.36417	1	0.03391	1	0.0053057	1	0.0031635	1	0.0019635	0.685	0.0095409	1	0.001992	0.685
8p loss	4 (1%)	490	1.8918e-05	0.00846	0.014899	1	NA	NA	NA	NA	0.042314	1	0.013528	1	0.0083323	1	0.0046715	1	0.022746	1	0.0043874	1
8q loss	4 (1%)	490	1.8918e-05	0.00846	0.014899	1	NA	NA	NA	NA	0.042314	1	0.013528	1	0.0083323	1	0.0046715	1	0.022746	1	0.0043874	1
9p loss	19 (4%)	475	2.9444e-12	1.53e-09	0.025786	1	0.24313	1	0.36757	1	0.030428	1	0.0086236	1	0.006588	1	0.0030288	0.996	0.0096602	1	0.0018085	0.637
9q loss	24 (5%)	470	9.2259e-15	4.83e-12	0.048058	1	0.17314	1	0.0332	1	0.097373	1	0.013842	1	0.0091745	1	0.0067504	1	0.011718	1	0.0043674	1
10p loss	7 (1%)	487	3.9413e-09	2.03e-06	0.0095599	1	0.49518	1	0.36437	1	0.01952	1	0.0053057	1	0.0031635	1	0.0019635	0.685	0.0095409	1	0.001992	0.685
10q loss	6 (1%)	488	6.8691e-08	3.52e-05	0.026273	1	NA	NA	NA	NA	0.052378	1	0.012774	1	0.009288	1	0.0065835	1	0.025931	1	0.0066445	1
11p loss	7 (1%)	487	7.9811e-08	4.07e-05	0.0095599	1	0.49518	1	1	1	0.0064808	1	0.0053057	1	0.0031635	1	0.0019635	0.685	0.0095409	1	0.001992	0.685
11q loss	9 (2%)	485	3.2751e-06	0.00158	0.01058	1	0.32096	1	0.79392	1	0.01732	1	0.0079677	1	0.0003518	0.134	0.0033576	1	0.00122	0.433	0.0027455	0.914
13q loss	14 (3%)	480	0.0084353	1	0.020025	1	0.061401	1	0.89312	1	0.0060615	1	0.0051516	1	0.0019868	0.685	0.0019654	0.685	0.0018664	0.653	0.0026083	0.874
15q loss	8 (2%)	486	5.6338e-05	0.024	0.00013927	0.0568	0.1933	1	0.12606	1	0.00072283	0.267	4.1433e-05	0.0179	6.4312e-05	0.0269	1.9869e-05	0.0088	0.00024177	0.0953	1.749e-05	0.00787
17p loss	8 (2%)	486	0.0018185	0.638	0.33489	1	1	1	0.28386	1	0.64888	1	0.32804	1	0.3301	1	0.3067	1	0.67242	1	0.28245	1
17q loss	4 (1%)	490	0.05384	1	0.64949	1	NA	NA	NA	NA	0.89686	1	0.77005	1	0.39922	1	0.68887	1	0.84679	1	0.57342	1
18p loss	4 (1%)	490	0.00020688	0.0819	0.22031	1	1	1	0.28386	1	0.23775	1	0.15164	1	0.11474	1	0.03699	1	0.022746	1	0.04024	1
18q loss	4 (1%)	490	0.00020688	0.0819	0.22031	1	1	1	0.28386	1	0.23775	1	0.15164	1	0.11474	1	0.03699	1	0.022746	1	0.04024	1
19p loss	5 (1%)	489	0.025058	1	0.0058116	1	0.32096	1	0.11797	1	0.017634	1	0.0027543	0.914	0.0024878	0.838	0.0012037	0.429	0.0073505	1	0.0011125	0.4
21q loss	8 (2%)	486	5.6338e-05	0.024	0.22097	1	0.38382	1	0.052318	1	0.21942	1	0.27856	1	0.074415	1	0.3067	1	0.097418	1	0.064228	1
22q loss	86 (17%)	408	7.4847e-90	4e-87	1.0961e-05	0.00501	0.12299	1	0.15013	1	1.1208e-08	5.75e-06	6.741e-05	0.0281	0.00095557	0.351	0.00034244	0.131	3.1163e-06	0.00151	0.00020634	0.0819
xq loss	3 (1%)	491	0.021866	1	0.058497	1	0.27791	1	0.36437	1	0.09607	1	0.03702	1	0.027774	1	0.018024	1	0.070089	1	0.017199	1
