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
amp_1p34.2	13 (7%)	171	0.11259	1	1	1	0.11863	1	0.090219	1	0.86325	1	0.26558	1	0.93149	1	0.91715	1	0.47267	1	0.42596	1
amp_1p12	27 (15%)	157	0.54638	1	0.9528	1	0.12083	1	0.26292	1	0.26386	1	0.4436	1	0.47321	1	0.26375	1	0.45422	1	0.098649	1
amp_1q21.3	62 (34%)	122	0.00254	1	0.00042	0.228	0.13286	1	0.20493	1	0.0012	0.623	0.01104	1	0.00147	0.753	0.01609	1	0.00036	0.197	0.0027	1
amp_2q36.2	26 (14%)	158	9.9999e-05	0.0557	0.00378	1	0.10647	1	0.39423	1	0.058119	1	0.02057	1	0.60615	1	0.00402	1	0.1654	1	0.00321	1
amp_3p12.2	12 (7%)	172	0.0077699	1	0.69039	1	0.83267	1	0.79385	1	1	1	0.9217	1	0.83417	1	1	1	1	1	0.71742	1
amp_3q26.2	32 (17%)	152	4e-05	0.0229	0.00069999	0.37	0.11305	1	0.15564	1	0.04045	1	0.052739	1	0.21774	1	0.01641	1	0.0072399	1	0.086399	1
amp_4p16.3	15 (8%)	169	0.04581	1	1	1	0.59216	1	0.60565	1	0.03257	1	0.01925	1	0.13148	1	0.02572	1	0.64442	1	0.13716	1
amp_6p21.31	12 (7%)	172	0.00232	1	0.23967	1	0.84142	1	0.9292	1	0.294	1	0.85492	1	0.48018	1	0.71543	1	0.0088899	1	0.14555	1
amp_7q22.1	56 (30%)	128	9.9999e-06	0.00628	0.19851	1	0.25122	1	0.73045	1	0.14364	1	0.31196	1	0.04439	1	0.03686	1	0.0057799	1	0.066009	1
amp_8p11.22	34 (18%)	150	0.01753	1	0.17845	1	0.10199	1	0.079709	1	1	1	0.69565	1	0.81208	1	0.68782	1	0.04965	1	0.50628	1
amp_8p11.21	34 (18%)	150	0.0064699	1	0.17738	1	0.17214	1	0.088779	1	0.59285	1	0.69812	1	0.85855	1	0.21334	1	0.02132	1	0.16924	1
amp_8q24.21	74 (40%)	110	9.9999e-06	0.00628	2e-05	0.0116	0.068939	1	0.04174	1	0.1294	1	0.061109	1	0.11319	1	0.058229	1	0.00297	1	0.0069799	1
amp_9p13.3	24 (13%)	160	0.00243	1	0.68581	1	0.39327	1	0.04055	1	0.14463	1	0.39164	1	0.62477	1	0.080719	1	0.74012	1	0.58737	1
amp_12p13.33	39 (21%)	145	9.9999e-06	0.00628	0.00032	0.175	0.60497	1	0.43351	1	0.77337	1	0.55289	1	0.12169	1	0.19698	1	0.00068999	0.365	0.88452	1
amp_12p11.21	43 (23%)	141	9.9999e-06	0.00628	0.00043	0.232	0.36423	1	0.89065	1	0.24402	1	0.31095	1	0.01868	1	0.0074799	1	0.00362	1	0.51362	1
amp_12q15	29 (16%)	155	9.9999e-06	0.00628	0.0023	1	0.33791	1	0.28644	1	0.80447	1	0.32725	1	0.095939	1	0.076889	1	0.01358	1	0.40564	1
amp_15q26.1	22 (12%)	162	0.01089	1	0.03725	1	0.03544	1	0.121	1	0.20989	1	0.11028	1	0.4501	1	0.53565	1	0.36308	1	0.30067	1
amp_17p11.2	15 (8%)	169	0.00213	1	0.11859	1	0.51126	1	0.54993	1	0.18228	1	0.050499	1	0.04727	1	0.1102	1	0.88596	1	0.31194	1
amp_17q12	31 (17%)	153	5e-05	0.0284	0.21187	1	0.50688	1	0.44287	1	0.13048	1	0.21198	1	0.079939	1	0.060499	1	0.25672	1	0.12581	1
amp_18q11.2	56 (30%)	128	9.9999e-06	0.00628	5.9999e-05	0.0338	0.01155	1	0.00248	1	0.02455	1	0.076089	1	0.00265	1	0.00060999	0.325	0.00362	1	0.00026	0.143
amp_19p13.2	18 (10%)	166	0.00174	0.886	0.11673	1	0.71161	1	0.7438	1	0.90087	1	0.71013	1	0.00438	1	0.11053	1	0.10707	1	0.26718	1
amp_19q13.2	47 (26%)	137	9.9999e-06	0.00628	0.0076499	1	0.56611	1	0.64719	1	0.95069	1	0.87384	1	0.57281	1	0.22833	1	0.38795	1	0.57611	1
amp_20p11.23	38 (21%)	146	9.9999e-06	0.00628	0.04856	1	0.12331	1	0.44241	1	0.72334	1	0.39628	1	0.38919	1	0.02484	1	0.00093999	0.493	0.16041	1
amp_xp22.11	11 (6%)	173	0.01506	1	0.26386	1	0.49769	1	0.0084699	1	0.11012	1	0.076909	1	0.03668	1	0.090949	1	0.84215	1	0.0084699	1
amp_xq27.1	21 (11%)	163	2e-05	0.0116	0.66436	1	0.87861	1	0.30915	1	0.75875	1	0.19352	1	0.21137	1	0.45423	1	0.87062	1	0.65089	1
del_1p36.32	52 (28%)	132	9.9999e-06	0.00628	0.00134	0.689	0.39698	1	0.25101	1	0.01006	1	0.15523	1	0.17647	1	0.064879	1	0.01504	1	0.01772	1
del_1p36.11	68 (37%)	116	9.9999e-06	0.00628	9.9999e-06	0.00628	0.081049	1	0.23146	1	0.00171	0.872	0.01789	1	0.10725	1	0.085189	1	0.0081499	1	0.0054699	1
del_2q14.3	9 (5%)	175	4e-05	0.0229	0.35773	1	NA	NA	NA	NA	1	1	0.47825	1	0.48649	1	0.72144	1	0.095549	1	0.60461	1
del_3p21.31	51 (28%)	133	5.9999e-05	0.0338	0.11431	1	0.33268	1	0.5799	1	0.21136	1	0.78883	1	0.096329	1	0.04291	1	0.04954	1	0.21435	1
del_4p15.31	30 (16%)	154	0.01155	1	0.02853	1	0.21773	1	0.48666	1	0.03444	1	0.02658	1	0.45918	1	0.0098699	1	0.5136	1	0.01072	1
del_4q22.1	27 (15%)	157	0.13	1	0.03314	1	0.30662	1	0.43358	1	0.0054199	1	0.089409	1	0.13307	1	0.00175	0.889	0.22122	1	0.0054599	1
del_4q34.3	35 (19%)	149	0.00434	1	0.15014	1	0.14557	1	0.25823	1	0.18722	1	0.62134	1	0.7128	1	0.1724	1	0.61537	1	0.2319	1
del_5q14.2	35 (19%)	149	9.9999e-06	0.00628	0.14173	1	0.084589	1	0.21834	1	0.19203	1	0.21928	1	0.10437	1	0.17784	1	0.078569	1	0.088299	1
del_6p25.2	74 (40%)	110	9.9999e-06	0.00628	9.9999e-06	0.00628	0.00229	1	0.12151	1	0.0311	1	0.01229	1	0.087879	1	0.00036	0.197	0.00133	0.685	0.00015	0.0832
del_6p22.2	70 (38%)	114	9.9999e-06	0.00628	9.9999e-06	0.00628	0.0174	1	0.30972	1	0.079109	1	0.02251	1	0.22924	1	0.00076999	0.405	0.00261	1	0.00023	0.127
del_6q25.3	91 (49%)	93	9.9999e-06	0.00628	9.9999e-06	0.00628	0.0095399	1	0.03561	1	0.00060999	0.325	0.00486	1	0.00463	1	0.00028	0.154	2e-05	0.0116	7.9999e-05	0.0448
del_7q36.1	15 (8%)	169	0.00186	0.939	0.25622	1	0.19927	1	0.050139	1	0.21347	1	0.60455	1	0.90568	1	0.34392	1	0.056689	1	0.25016	1
del_8p23.2	58 (32%)	126	0.00022	0.122	0.02186	1	0.11143	1	0.091009	1	0.35654	1	0.31545	1	0.17262	1	0.15058	1	0.02156	1	0.065219	1
del_9p21.3	116 (63%)	68	9.9999e-06	0.00628	9.9999e-06	0.00628	0.01562	1	0.067759	1	9.9999e-06	0.00628	5e-05	0.0284	9.9999e-06	0.00628	9.9999e-06	0.00628	9.9999e-06	0.00628	9.9999e-06	0.00628
del_9q22.33	47 (26%)	137	0.065119	1	0.90941	1	0.25784	1	0.30165	1	0.13536	1	0.42992	1	0.081169	1	0.10037	1	0.15438	1	0.11572	1
del_10p15.3	41 (22%)	143	0.00112	0.584	0.0478	1	0.45379	1	0.58615	1	0.02821	1	0.01305	1	0.1073	1	0.02505	1	0.059059	1	0.0069699	1
del_10q23.33	35 (19%)	149	0.00041	0.223	0.32077	1	0.33014	1	0.48496	1	0.44978	1	0.1789	1	0.75664	1	0.53969	1	0.63182	1	0.089119	1
del_11p15.4	29 (16%)	155	0.00064999	0.344	0.83738	1	0.00349	1	0.04499	1	0.92726	1	0.78462	1	0.46422	1	0.54961	1	0.1712	1	1	1
del_12p13.1	29 (16%)	155	3e-05	0.0172	2e-05	0.0116	0.01736	1	0.27091	1	0.01029	1	0.0012	0.623	0.00465	1	5.9999e-05	0.0338	0.02096	1	0.00058999	0.314
del_12q12	25 (14%)	159	9.9999e-06	0.00628	0.00071999	0.379	0.0073899	1	0.02308	1	0.00412	1	0.00092999	0.488	0.00189	0.953	0.02037	1	0.0018	0.913	0.00311	1
del_12q21.33	44 (24%)	140	9.9999e-06	0.00628	0.00057999	0.31	0.0053199	1	0.0057599	1	0.0073699	1	0.00183	0.926	0.0061499	1	0.0061499	1	0.00364	1	0.0013	0.671
del_12q24.33	43 (23%)	141	2e-05	0.0116	0.00124	0.641	0.0061299	1	0.0082099	1	0.00116	0.603	0.00322	1	0.00362	1	0.00049	0.263	0.0059999	1	8.9999e-05	0.0503
del_13q14.2	20 (11%)	164	0.003	1	0.078039	1	0.86654	1	0.93851	1	0.062999	1	0.26617	1	0.12211	1	0.062129	1	0.00228	1	0.090019	1
del_14q11.2	20 (11%)	164	0.00346	1	0.12576	1	0.92532	1	0.65304	1	0.10085	1	0.13168	1	0.24794	1	0.24906	1	0.26388	1	0.53505	1
del_15q15.1	36 (20%)	148	9.9999e-06	0.00628	0.00109	0.57	0.46918	1	0.77926	1	0.04591	1	0.00311	1	0.18334	1	0.03242	1	0.12493	1	0.0057899	1
del_16q23.1	19 (10%)	165	0.0152	1	0.35483	1	0.40819	1	0.02057	1	0.55973	1	0.04777	1	0.29939	1	0.33371	1	0.1496	1	0.27738	1
del_17p12	89 (48%)	95	9.9999e-06	0.00628	9.9999e-06	0.00628	0.01045	1	0.01078	1	9.9999e-06	0.00628	4e-05	0.0229	9.9999e-06	0.00628	5e-05	0.0284	2e-05	0.0116	2e-05	0.0116
del_17q22	49 (27%)	135	9.9999e-06	0.00628	9.9999e-06	0.00628	0.00046	0.247	0.00044	0.237	0.0092199	1	0.01406	1	0.0087799	1	0.02647	1	9.9999e-06	0.00628	0.053709	1
del_18p11.31	54 (29%)	130	0.34893	1	0.24436	1	0.64404	1	0.14604	1	0.6118	1	0.97475	1	0.19016	1	0.85508	1	0.59206	1	0.11303	1
del_18q21.2	126 (68%)	58	9.9999e-06	0.00628	9.9999e-06	0.00628	0.00329	1	0.02144	1	5.9999e-05	0.0338	4e-05	0.0229	0.00017	0.0942	9.9999e-05	0.0557	0.01033	1	9.9999e-06	0.00628
del_19p13.3	36 (20%)	148	9.9999e-06	0.00628	9.9999e-06	0.00628	0.3907	1	0.43991	1	0.083679	1	0.00166	0.848	0.16711	1	0.0083999	1	5e-05	0.0284	0.00416	1
del_19p13.2	28 (15%)	156	2e-05	0.0116	9.9999e-06	0.00628	0.12526	1	0.52365	1	0.0065999	1	0.00347	1	0.052649	1	0.00031	0.17	9.9999e-06	0.00628	0.00055999	0.3
del_19q13.33	22 (12%)	162	0.00229	1	0.10756	1	0.74908	1	0.93925	1	0.19498	1	0.22681	1	0.18604	1	0.084819	1	0.25522	1	0.071889	1
del_21q11.2	62 (34%)	122	9.9999e-06	0.00628	0.00042	0.228	0.072969	1	0.25149	1	0.0091099	1	0.058739	1	0.37376	1	0.02135	1	0.00037	0.201	0.01914	1
del_22q13.31	60 (33%)	124	9.9999e-06	0.00628	0.00036	0.197	0.39411	1	0.86623	1	0.0131	1	0.079909	1	0.04133	1	0.01686	1	8.9999e-05	0.0503	0.0011	0.574
del_22q13.32	62 (34%)	122	9.9999e-06	0.00628	0.00144	0.739	0.65748	1	0.86131	1	0.15311	1	0.17724	1	0.15475	1	0.28208	1	0.00049	0.263	0.04339	1
del_xp21.1	29 (16%)	155	4e-05	0.0229	0.071419	1	0.49659	1	0.70173	1	0.29101	1	0.45386	1	0.055149	1	0.78168	1	0.0144	1	0.47897	1
del_xq11.2	23 (12%)	161	9.9999e-06	0.00628	0.0024	1	0.30012	1	0.32627	1	0.0092699	1	0.02127	1	0.00426	1	0.02294	1	0.00468	1	0.01534	1