Clinical Features	MRNA_CNMF		MRNA_CHIERARCHICAL		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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
amp_1q21.3	48 (29%)	117	1	1	0.8515	0.964	0.00313	0.0515	0.92671	0.998	0.20594	0.558	0.40282	0.704	0.42258	0.726	0.39456	0.702	0.057679	0.305	0.14649	0.482	0.92822	0.998	0.39426	0.702
amp_1q32.2	48 (29%)	117	0.82752	0.95	0.93813	0.998	0.03819	0.237	0.51756	0.79	0.02915	0.215	0.074789	0.353	0.61949	0.856	0.82069	0.946	0.080919	0.37	0.65104	0.868	0.29848	0.633	0.11719	0.433
amp_5q22.3	20 (12%)	145	0.0218	0.175	0.17576	0.523	0.0090399	0.103	0.22374	0.576	0.04087	0.249	0.3215	0.656	0.67902	0.887	0.24907	0.595	0.45292	0.749	0.66126	0.873	1	1	0.28699	0.626
amp_6p21.1	54 (33%)	111	0.059539	0.305	0.10707	0.419	0.00087999	0.0231	0.059499	0.305	0.1837	0.539	0.03255	0.224	0.65853	0.871	0.1439	0.478	0.1912	0.539	0.38713	0.702	0.36625	0.692	0.78111	0.928
amp_8p11.23	53 (32%)	112	0.0031	0.0515	0.20629	0.558	9.9999e-06	0.000787	0.26448	0.605	0.47606	0.77	0.14795	0.483	0.1318	0.455	0.072479	0.344	0.0478	0.277	0.02727	0.208	0.97936	1	0.11856	0.435
amp_8p11.21	70 (42%)	95	0.01233	0.127	0.21124	0.562	9.9999e-06	0.000787	0.23266	0.586	0.39641	0.702	0.70503	0.895	0.62889	0.856	0.12701	0.446	0.18382	0.539	0.27463	0.615	0.22623	0.579	0.31952	0.656
amp_8q24.21	109 (66%)	56	0.01656	0.15	0.24292	0.591	9.9999e-06	0.000787	0.12636	0.446	0.93584	0.998	0.69407	0.895	0.22337	0.576	0.04691	0.276	0.54045	0.804	0.2634	0.605	0.076519	0.359	0.44737	0.747
amp_10q22.2	11 (7%)	154	0.50338	0.778	0.93107	0.998	0.53566	0.802	1	1	0.78243	0.928	0.93573	0.998	0.26451	0.605	0.089979	0.388	0.37816	0.697	0.18815	0.539	NA	NA	NA	NA
amp_11p15.5	45 (27%)	120	0.38201	0.701	0.094829	0.401	0.078639	0.362	0.61977	0.856	0.71211	0.897	0.78911	0.928	0.28594	0.626	0.0038	0.0585	0.097489	0.401	0.53764	0.803	0.45487	0.751	0.089209	0.388
amp_11q13.3	28 (17%)	137	0.32724	0.666	0.33067	0.668	0.03583	0.234	0.00434	0.0615	0.92887	0.998	0.28823	0.626	0.00218	0.0417	0.01201	0.126	0.01301	0.132	0.33959	0.677	0.077889	0.36	0.13437	0.46
amp_12p13.33	41 (25%)	124	0.68781	0.894	0.4836	0.773	0.0334	0.225	0.72366	0.907	0.053689	0.29	0.62373	0.856	0.80474	0.94	0.48779	0.773	0.57756	0.834	0.81704	0.945	0.43462	0.739	0.22912	0.584
amp_12p12.1	40 (24%)	125	0.70161	0.895	0.46654	0.765	0.02985	0.218	0.36963	0.692	0.01752	0.157	0.5204	0.791	0.18889	0.539	0.3667	0.692	0.69147	0.895	0.75801	0.921	0.43224	0.739	0.14615	0.482
amp_13q12.13	126 (76%)	39	0.41479	0.721	0.17482	0.523	9.9999e-06	0.000787	0.17457	0.523	0.40052	0.703	0.11752	0.433	0.00095999	0.0243	9.9999e-06	0.000787	0.00312	0.0515	0.00395	0.0595	0.93846	0.998	0.783	0.928
amp_13q12.2	125 (76%)	40	0.3665	0.692	0.2373	0.587	9.9999e-06	0.000787	0.11695	0.433	0.45279	0.749	0.087789	0.388	0.00053999	0.018	7.9999e-05	0.00436	0.02131	0.173	0.02129	0.173	0.82597	0.949	0.6366	0.858
amp_13q22.1	120 (73%)	45	0.26385	0.605	0.066299	0.328	9.9999e-06	0.000787	0.03447	0.23	0.48267	0.773	0.27558	0.615	0.00018	0.00796	5e-05	0.00295	0.00406	0.0599	0.01026	0.11	1	1	0.39905	0.703
amp_15q26.1	13 (8%)	152	0.10939	0.421	0.213	0.565	1	1	0.42397	0.727	0.2456	0.591	0.2202	0.576	0.56023	0.818	0.15898	0.498	0.90692	0.991	1	1	0.74418	0.918	0.63768	0.858
amp_16p11.2	47 (28%)	118	0.12165	0.442	0.5797	0.834	0.00055999	0.018	0.12627	0.446	0.47501	0.77	0.26902	0.61	0.03844	0.237	0.16117	0.5	0.097129	0.401	0.85234	0.964	0.64488	0.863	0.9872	1
amp_17q12	46 (28%)	119	0.0063499	0.0848	0.12642	0.446	0.00136	0.0292	0.37657	0.697	0.31099	0.647	0.053539	0.29	0.34806	0.685	0.068029	0.33	0.14841	0.483	0.59566	0.84	0.12029	0.439	0.63621	0.858
amp_17q24.1	39 (24%)	126	0.28963	0.626	0.70773	0.895	0.00114	0.0271	0.14925	0.483	0.67209	0.884	0.24369	0.591	0.2265	0.579	0.10184	0.407	0.60983	0.853	0.20998	0.562	0.49137	0.775	0.93919	0.998
amp_19p13.2	36 (22%)	129	0.01989	0.172	0.24974	0.595	0.00115	0.0271	0.53118	0.8	0.35521	0.687	0.11453	0.429	0.03135	0.221	0.03564	0.234	0.58596	0.835	0.69506	0.895	0.86916	0.965	0.8685	0.965
amp_20q11.21	146 (88%)	19	0.0079599	0.0939	0.16055	0.5	0.00084999	0.0231	0.01951	0.171	0.03847	0.237	0.242	0.591	0.098709	0.404	0.00027	0.0106	0.0076399	0.0933	0.39624	0.702	0.49657	0.776	0.59258	0.84
amp_20q11.23	147 (89%)	18	0.0078799	0.0939	0.16158	0.5	0.00139	0.0292	0.04668	0.276	0.03838	0.237	0.24329	0.591	0.16341	0.503	0.00025	0.0104	0.01439	0.137	0.27912	0.619	0.35996	0.691	1	1
amp_20q13.31	148 (90%)	17	0.00467	0.0648	0.10693	0.419	0.0026	0.0484	0.04723	0.276	0.03778	0.237	0.24489	0.591	0.17691	0.524	4e-05	0.00257	0.02268	0.18	0.38162	0.701	0.36152	0.691	1	1
amp_xp22.2	32 (19%)	133	0.051529	0.287	0.22242	0.576	0.59553	0.84	0.27032	0.611	0.40094	0.703	0.37755	0.697	0.54804	0.808	0.62853	0.856	0.81226	0.942	0.87018	0.965	0.18445	0.539	0.94948	1
del_1p36.11	75 (45%)	90	0.11373	0.428	0.065119	0.328	0.19717	0.547	0.14284	0.478	0.58342	0.835	0.79501	0.933	0.20751	0.559	0.01428	0.137	0.49569	0.776	0.063659	0.324	0.35221	0.686	0.79999	0.938
del_1p33	53 (32%)	112	0.36433	0.692	0.00418	0.0604	0.01649	0.15	0.13867	0.471	0.3038	0.638	0.26511	0.605	0.30883	0.645	0.1852	0.539	0.44428	0.747	0.26857	0.61	0.55737	0.816	0.56842	0.825
del_1p13.2	54 (33%)	111	0.47228	0.77	0.02314	0.182	0.00287	0.0508	0.57573	0.834	0.54345	0.806	0.58069	0.834	0.47714	0.77	0.01872	0.166	0.50568	0.778	0.21114	0.562	0.64729	0.865	0.6158	0.856
del_2p12	13 (8%)	152	0.39339	0.702	0.83748	0.956	9.9999e-06	0.000787	1	1	0.27843	0.619	0.37762	0.697	0.82521	0.949	0.14021	0.473	0.15093	0.486	0.14333	0.478	NA	NA	NA	NA
del_3p14.2	31 (19%)	134	0.80258	0.939	0.69873	0.895	0.7779	0.928	1	1	0.16907	0.514	0.29322	0.627	0.50705	0.779	0.86305	0.965	0.81089	0.942	0.96157	1	0.25541	0.599	0.24919	0.595
del_3q26.31	18 (11%)	147	1	1	0.86746	0.965	0.15262	0.487	0.47537	0.77	0.15583	0.493	0.36788	0.692	0.31314	0.647	0.41779	0.723	0.26241	0.605	0.057579	0.305	0.78546	0.928	0.36832	0.692
del_4p13	60 (36%)	105	0.78047	0.928	0.03752	0.237	0.00058999	0.0182	0.069049	0.33	0.31293	0.647	0.22114	0.576	0.67297	0.884	0.34322	0.677	0.97831	1	0.2176	0.575	0.16521	0.506	0.49927	0.778
del_4q22.1	73 (44%)	92	0.61743	0.856	0.02387	0.186	0.00043	0.0152	0.23242	0.586	0.10989	0.421	0.081899	0.372	0.39337	0.702	0.3161	0.651	0.98753	1	0.25557	0.599	0.61533	0.856	0.70675	0.895
del_4q35.1	72 (44%)	93	0.60853	0.853	0.065439	0.328	0.00155	0.0314	0.10607	0.419	0.28051	0.619	0.0133	0.133	0.54517	0.806	0.050609	0.284	0.48836	0.773	0.04868	0.279	0.5535	0.815	0.85023	0.964
del_5q12.1	53 (32%)	112	0.065769	0.328	0.00165	0.0324	0.20639	0.558	0.0038	0.0585	0.4482	0.747	0.71559	0.898	0.68722	0.894	0.095269	0.401	0.5345	0.802	0.29017	0.626	0.02733	0.208	0.2347	0.587
del_5q22.2	59 (36%)	106	0.1879	0.539	0.00068999	0.0204	0.17553	0.523	0.18736	0.539	0.38961	0.702	0.8941	0.983	0.62158	0.856	0.18682	0.539	0.73943	0.918	0.23854	0.587	0.02033	0.172	0.19704	0.547
del_6p25.3	24 (15%)	141	1	1	0.93906	0.998	0.80711	0.941	0.02062	0.172	0.57953	0.834	0.44134	0.744	0.92506	0.998	0.69739	0.895	0.75121	0.921	0.78655	0.928	0.56687	0.824	0.75416	0.921
del_6q26	30 (18%)	135	0.15828	0.498	0.74604	0.918	0.01432	0.137	0.63423	0.858	0.052399	0.288	0.14929	0.483	0.39631	0.702	0.32112	0.656	0.054669	0.293	0.33202	0.668	0.077649	0.36	0.9504	1
del_7q31.1	4 (2%)	161	NA	NA	NA	NA	0.1065	0.419	NA	NA	0.85109	0.964	0.64218	0.861	0.16629	0.507	0.76812	0.928	1	1	1	1	NA	NA	NA	NA
del_8p23.2	100 (61%)	65	0.10788	0.42	0.090119	0.388	0.00017	0.00796	0.45814	0.754	0.91673	0.995	0.77318	0.928	0.0070799	0.0895	0.0093499	0.103	0.7807	0.928	0.33162	0.668	0.55537	0.816	0.50467	0.778
del_8p11.21	45 (27%)	120	0.7427	0.918	0.47266	0.77	0.0092999	0.103	0.23519	0.587	0.096449	0.401	0.81021	0.942	0.01026	0.11	0.04881	0.279	0.058929	0.305	0.0073199	0.0909	0.34082	0.677	0.73975	0.918
del_10q21.1	41 (25%)	124	0.27992	0.619	0.71346	0.897	0.25633	0.599	0.48781	0.773	0.23877	0.587	0.20237	0.555	0.30832	0.645	0.53879	0.803	0.85885	0.965	0.19014	0.539	0.96292	1	0.39081	0.702
del_10q25.2	48 (29%)	117	0.75989	0.921	0.77016	0.928	0.73763	0.918	0.48935	0.773	0.60016	0.843	0.74712	0.918	0.13898	0.471	0.03187	0.221	0.61894	0.856	0.27557	0.615	0.44683	0.747	0.2998	0.634
del_11q22.3	38 (23%)	127	0.0316	0.221	0.03064	0.221	0.00282	0.0508	0.03596	0.234	0.85395	0.964	0.38768	0.702	0.0070399	0.0895	0.0080999	0.094	0.45053	0.749	0.96594	1	0.41554	0.721	0.66441	0.876
del_12p13.1	33 (20%)	132	1	1	0.2627	0.605	0.5981	0.842	0.19853	0.547	0.95225	1	0.69006	0.895	0.62123	0.856	0.12893	0.45	0.293	0.627	0.52765	0.8	0.81784	0.945	0.83063	0.95
del_12q22	26 (16%)	139	0.35334	0.686	0.47705	0.77	0.03287	0.224	0.77053	0.928	0.29382	0.627	0.55796	0.816	0.6542	0.868	0.75436	0.921	0.51404	0.788	0.70611	0.895	0.49545	0.776	0.38594	0.702
del_14q11.2	70 (42%)	95	0.48402	0.773	0.12725	0.446	0.00033	0.0123	0.93267	0.998	0.91657	0.995	0.54479	0.806	0.43313	0.739	0.1004	0.405	0.10888	0.421	0.34305	0.677	0.74718	0.918	0.78058	0.928
del_14q31.1	72 (44%)	93	0.48577	0.773	0.23713	0.587	0.052269	0.288	0.96602	1	0.9706	1	0.58609	0.835	0.2318	0.586	0.096999	0.401	0.19618	0.547	0.23739	0.587	0.39079	0.702	0.65461	0.868
del_15q21.1	79 (48%)	86	0.56708	0.824	0.11168	0.425	0.00084999	0.0231	0.78842	0.928	0.094649	0.401	0.75985	0.921	0.67973	0.887	0.41397	0.721	0.81254	0.942	0.43612	0.739	0.42252	0.726	0.58714	0.835
del_15q22.33	77 (47%)	88	0.62519	0.856	0.15402	0.489	0.00016	0.00796	0.59493	0.84	0.13252	0.455	0.25092	0.595	0.37494	0.697	0.10026	0.405	0.41949	0.724	0.74411	0.918	0.85956	0.965	0.52073	0.791
del_16p13.3	13 (8%)	152	0.88662	0.978	0.68025	0.887	0.20491	0.558	0.02039	0.172	0.50447	0.778	0.69278	0.895	0.19274	0.542	0.96223	1	0.35962	0.691	0.63128	0.856	0.25139	0.595	0.48747	0.773
del_16q23.1	23 (14%)	142	0.15271	0.487	0.3502	0.686	0.00341	0.0549	0.12571	0.446	0.44838	0.747	0.50551	0.778	0.36198	0.691	0.73773	0.918	0.75999	0.921	0.84427	0.963	0.88852	0.978	0.86681	0.965
del_17p11.2	113 (68%)	52	0.083549	0.377	0.756	0.921	0.069029	0.33	0.29113	0.626	0.70584	0.895	0.28865	0.626	0.6257	0.856	0.21954	0.576	0.93534	0.998	0.35083	0.686	0.63141	0.856	0.7093	0.895
del_18q21.2	145 (88%)	20	0.13002	0.451	0.33509	0.67	2e-05	0.00142	0.04543	0.273	1	1	0.086989	0.387	0.03112	0.221	0.02832	0.211	0.4012	0.703	0.12545	0.446	0.90187	0.989	0.86725	0.965
del_18q22.1	141 (85%)	24	0.067519	0.33	0.089749	0.388	9.9999e-06	0.000787	0.02824	0.211	0.90814	0.991	0.17081	0.517	0.090319	0.388	0.01208	0.126	0.83036	0.95	0.30167	0.636	0.78518	0.928	1	1
del_19p13.3	37 (22%)	128	0.19843	0.547	0.88494	0.977	0.67619	0.887	0.0416	0.252	0.64127	0.861	0.65189	0.868	0.77484	0.928	0.93067	0.998	0.35384	0.686	0.00135	0.0292	0.53236	0.8	0.32853	0.666
del_20p12.1	49 (30%)	116	0.9402	0.998	0.33519	0.67	0.01484	0.138	0.49257	0.775	0.90271	0.989	0.86278	0.965	0.53237	0.8	0.37758	0.697	0.3586	0.691	0.25628	0.599	0.43564	0.739	0.43916	0.742
del_21q11.2	73 (44%)	92	0.31348	0.647	0.059499	0.305	0.084509	0.379	0.87125	0.965	0.3412	0.677	0.50304	0.778	0.51614	0.789	0.70934	0.895	0.066859	0.329	0.72498	0.907	0.22068	0.576	0.19053	0.539
del_22q13.31	68 (41%)	97	0.9085	0.991	0.29054	0.626	0.0069699	0.0895	0.87044	0.965	0.29489	0.627	0.39359	0.702	0.46111	0.757	0.27246	0.614	0.0062799	0.0848	0.11338	0.428	0.10072	0.405	0.01447	0.137
del_xp22.33	34 (21%)	131	0.77749	0.928	0.91643	0.995	0.04973	0.282	0.0014	0.0292	0.84971	0.964	0.87601	0.969	0.97244	1	0.5301	0.8	0.69752	0.895	1	1	0.62597	0.856	0.58629	0.835