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	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q
amp_1q21.3	22 (7%)	309	2.8702e-06	0.00141	0.004819	1	0.003689	1	0.15977	1	0.0028953	1	0.0010765	0.461	0.054754	1	0.083811	1	0.18557	1	0.65547	1
amp_3q22.1	40 (12%)	291	4.3394e-11	2.3e-08	0.0044729	1	0.17405	1	0.40632	1	0.0064176	1	0.01535	1	0.38846	1	0.86219	1	0.319	1	0.61893	1
amp_3q26.2	47 (14%)	284	3.4555e-09	1.79e-06	0.15615	1	0.14241	1	0.50621	1	0.045435	1	0.13546	1	0.33478	1	0.58844	1	0.24561	1	0.50871	1
amp_4p16.3	13 (4%)	318	0.00024436	0.11	0.0099975	1	0.50529	1	0.18833	1	0.01512	1	0.11937	1	0.78583	1	0.52792	1	0.44845	1	0.67095	1
amp_4q13.3	6 (2%)	325	0.035143	1	0.21991	1	0.47143	1	0.63505	1	0.030046	1	0.39046	1	0.34731	1	0.21222	1	0.48795	1	0.35491	1
amp_5q35.3	16 (5%)	315	6.0326e-07	3e-04	0.045323	1	0.11216	1	0.15763	1	0.088106	1	0.081924	1	0.10168	1	0.085749	1	0.78979	1	0.69446	1
amp_7p15.3	61 (18%)	270	2.4763e-10	1.3e-07	8.7399e-08	4.41e-05	0.30921	1	0.4624	1	7.0796e-05	0.033	0.00489	1	0.15352	1	0.28291	1	0.19529	1	0.85288	1
amp_8p11.23	32 (10%)	299	4.9953e-08	2.54e-05	7.4422e-05	0.0346	0.084367	1	0.3101	1	0.047583	1	0.099494	1	0.14164	1	0.23348	1	0.10058	1	0.27353	1
amp_8q24.21	84 (25%)	247	1.4767e-16	8e-14	1.9645e-05	0.00949	0.006423	1	0.024741	1	0.00031146	0.139	0.00078632	0.34	0.0015641	0.663	0.022853	1	0.0012394	0.529	0.47739	1
amp_9q34.3	35 (11%)	296	4.9316e-14	2.63e-11	0.036182	1	0.054143	1	0.041058	1	0.0021665	0.906	0.0051752	1	0.085345	1	0.026425	1	0.22462	1	0.54645	1
amp_11q13.3	20 (6%)	311	1.7019e-06	0.000841	0.058102	1	0.52084	1	0.3895	1	0.022574	1	0.15953	1	0.78867	1	0.19796	1	0.16345	1	0.59952	1
amp_12q24.32	12 (4%)	319	9.1453e-05	0.0422	0.31676	1	0.22754	1	0.26439	1	0.87171	1	0.061352	1	0.25565	1	0.62109	1	0.2003	1	0.39627	1
amp_14q21.1	17 (5%)	314	2.9026e-05	0.0138	0.010797	1	0.16604	1	0.13881	1	0.18198	1	0.27875	1	0.41679	1	0.14351	1	0.43866	1	0.98353	1
amp_15q11.2	9 (3%)	322	0.79379	1	0.63511	1	1	1	1	1	0.83685	1	0.63724	1	0.35666	1	1	1	0.75179	1	0.91714	1
amp_19q13.43	8 (2%)	323	0.00023045	0.104	0.10116	1	0.4517	1	0.31352	1	0.10074	1	0.011828	1	0.47139	1	0.09927	1	0.46191	1	0.36607	1
amp_20q13.31	21 (6%)	310	0.00030913	0.138	0.0010364	0.446	0.30318	1	0.30445	1	0.083661	1	0.12585	1	0.55999	1	0.45796	1	0.28361	1	0.32432	1
amp_xp22.11	12 (4%)	319	0.0007586	0.331	0.87224	1	NA	NA	NA	NA	0.37172	1	0.61832	1	0.046759	1	0.12517	1	0.046311	1	0.090467	1
amp_xp22.11	12 (4%)	319	0.0007586	0.331	0.9338	1	0.093331	1	0.27468	1	0.15507	1	0.75823	1	0.28648	1	0.15584	1	0.18177	1	0.43857	1
amp_xp21.1	11 (3%)	320	0.0027747	1	0.23163	1	0.84816	1	0.73459	1	0.26844	1	0.80509	1	0.073618	1	0.078873	1	0.094011	1	0.3836	1
amp_xq21.1	9 (3%)	322	0.058162	1	0.36231	1	0.48418	1	0.49508	1	0.10419	1	0.35761	1	0.074221	1	0.37355	1	0.24848	1	0.39507	1
amp_xq21.1	7 (2%)	324	0.003792	1	0.0016606	0.699	0.4517	1	1	1	0.50907	1	0.15881	1	0.85345	1	0.91001	1	0.7537	1	0.65294	1
amp_xq21.31	7 (2%)	324	0.013446	1	0.30787	1	0.84816	1	0.73459	1	0.12447	1	0.18455	1	0.75647	1	0.87155	1	0.69927	1	0.94878	1
amp_xq25	6 (2%)	325	0.22427	1	0.036657	1	0.62395	1	1	1	0.14111	1	0.097057	1	0.17939	1	0.5753	1	0.20046	1	0.19199	1
amp_xq25	9 (3%)	322	0.090196	1	0.19513	1	1	1	0.77082	1	0.20203	1	0.022447	1	0.83527	1	0.37355	1	0.6296	1	0.39507	1
amp_xq27.1	11 (3%)	320	0.014268	1	0.12108	1	0.41799	1	0.3075	1	0.92729	1	0.69209	1	0.0086795	1	0.033765	1	0.012892	1	0.0092728	1
del_1p31.3	38 (11%)	293	0.00037522	0.167	2.3218e-05	0.0112	0.312	1	0.71419	1	3.1844e-05	0.0151	2.4094e-06	0.00119	0.039372	1	0.037504	1	0.019943	1	0.10268	1
del_1q23.1	15 (5%)	316	0.11078	1	0.0039945	1	0.29692	1	0.17559	1	0.035997	1	0.0021968	0.916	0.16941	1	0.14698	1	0.040563	1	0.45932	1
del_1q42.2	27 (8%)	304	0.00076986	0.334	0.0004711	0.209	0.93339	1	0.39141	1	0.4637	1	0.26619	1	0.38007	1	0.81902	1	0.3951	1	0.80458	1
del_2p22.1	24 (7%)	307	0.01042	1	0.074903	1	0.024663	1	0.78558	1	0.0052808	1	0.029151	1	0.23029	1	0.54332	1	0.082873	1	0.51821	1
del_2q22.1	50 (15%)	281	4.5578e-15	2.45e-12	6.6198e-11	3.5e-08	0.014971	1	0.089736	1	9.1356e-05	0.0422	2.3392e-05	0.0112	0.085894	1	0.060785	1	0.0001295	0.0594	0.00065704	0.287
del_2q22.3	44 (13%)	287	1.1779e-15	6.36e-13	3.5825e-08	1.83e-05	0.12852	1	0.041152	1	0.00027208	0.122	2.7129e-05	0.013	0.39543	1	0.047362	1	0.05657	1	0.062067	1
del_3p13	54 (16%)	277	0.065991	1	1.3744e-07	6.91e-05	0.80325	1	0.85498	1	0.00013655	0.0625	1.3593e-07	6.85e-05	0.049113	1	0.057277	1	0.0099209	1	0.017511	1
del_3q29	19 (6%)	312	0.39942	1	0.036135	1	0.72964	1	0.41531	1	0.0076253	1	0.17148	1	0.30219	1	0.91406	1	0.41652	1	0.90978	1
del_4q28.2	25 (8%)	306	8.453e-05	0.0391	2.7836e-05	0.0133	0.13751	1	0.35853	1	0.06079	1	0.019957	1	0.19281	1	0.33525	1	0.17649	1	0.16683	1
del_5q11.2	52 (16%)	279	1.0887e-10	5.75e-08	2.5621e-06	0.00126	0.0045698	1	0.023961	1	0.011539	1	0.0020618	0.864	0.035267	1	0.0068734	1	0.020019	1	0.063864	1
del_5q21.1	57 (17%)	274	1.4532e-15	7.83e-13	2.282e-10	1.2e-07	0.11818	1	0.22815	1	0.00045898	0.204	6.5997e-05	0.0308	0.045701	1	0.12547	1	0.032469	1	0.076834	1
del_6q14.3	105 (32%)	226	5.2532e-17	2.86e-14	5.2462e-23	2.87e-20	0.0071616	1	0.037465	1	6.6454e-08	3.36e-05	1.1891e-09	6.18e-07	0.00054281	0.239	0.031799	1	2.5169e-05	0.0121	0.46238	1
del_8p21.3	182 (55%)	149	4.191e-09	2.17e-06	5.5067e-09	2.84e-06	0.030378	1	0.083379	1	3.0767e-07	0.000154	8.4091e-06	0.00409	4.4786e-10	2.34e-07	0.030088	1	3.789e-07	0.000189	0.09713	1
del_8p11.21	105 (32%)	226	9.8427e-07	0.000488	8.5468e-10	4.45e-07	0.84596	1	0.59044	1	1.1841e-05	0.00573	0.00026032	0.117	0.0014152	0.603	0.0039776	1	0.003157	1	0.20352	1
del_9p23	26 (8%)	305	3.4084e-05	0.0161	0.21929	1	0.0035762	1	0.070952	1	0.020383	1	0.0228	1	0.40772	1	0.75604	1	0.14577	1	0.73968	1
del_10q23.31	101 (31%)	230	2.3073e-10	1.21e-07	5.2331e-11	2.77e-08	0.068712	1	0.30635	1	1.3187e-14	7.08e-12	5.6675e-12	3.02e-09	0.00022641	0.103	0.015653	1	4.0512e-05	0.019	0.0025277	1
del_11q23.2	31 (9%)	300	0.010558	1	0.047202	1	0.15544	1	0.1091	1	0.80348	1	0.96225	1	0.17997	1	0.53503	1	0.48262	1	0.44979	1
del_12p13.1	71 (21%)	260	3.6844e-05	0.0174	0.00015857	0.0723	0.12516	1	0.42941	1	0.0014787	0.628	0.0058439	1	0.016312	1	0.010298	1	0.046791	1	0.24731	1
del_12q24.31	28 (8%)	303	3.8004e-06	0.00186	0.088692	1	1	1	1	1	0.052142	1	0.11569	1	0.13002	1	0.24774	1	0.30408	1	0.82963	1
del_13q14.12	139 (42%)	192	4.8799e-12	2.6e-09	4.9613e-08	2.53e-05	0.074671	1	0.20712	1	8.2995e-06	0.00404	7.1178e-06	0.00347	0.0010679	0.458	0.024406	1	0.0025699	1	0.08651	1
del_13q22.1	107 (32%)	224	4.6865e-14	2.51e-11	3.8212e-05	0.018	0.0088615	1	0.060916	1	0.00091914	0.397	0.0024124	1	0.0016426	0.693	0.0483	1	0.0063331	1	0.32946	1
del_15q21.3	38 (11%)	293	1.0422e-08	5.35e-06	0.00014825	0.0678	0.0016201	0.685	0.079295	1	0.0005171	0.229	0.00015887	0.0723	0.020829	1	8.4343e-05	0.0391	0.0041912	1	0.12699	1
del_16q22.3	119 (36%)	212	1.3794e-16	7.49e-14	1.8722e-07	9.38e-05	0.40482	1	0.20707	1	2.2712e-05	0.0109	1.4642e-06	0.000725	1.1765e-05	0.00571	4.5133e-08	2.31e-05	4.2929e-05	0.0201	0.0022873	0.952
del_16q23.3	130 (39%)	201	3.7813e-18	2.06e-15	5.7571e-08	2.92e-05	0.78354	1	0.70345	1	0.00018119	0.0823	4.5168e-05	0.0211	0.00059538	0.261	4.4582e-06	0.00218	0.0070434	1	0.047081	1
del_17p13.1	90 (27%)	241	3.3684e-14	1.81e-11	5.8517e-08	2.97e-05	0.029035	1	0.038467	1	4.6509e-10	2.43e-07	3.3084e-10	1.73e-07	0.0047466	1	8.6807e-07	0.000431	0.00028182	0.126	0.01202	1
del_17q21.31	65 (20%)	266	0.039668	1	9.1406e-09	4.7e-06	0.52867	1	0.84566	1	3.2984e-09	1.71e-06	2.8742e-05	0.0137	0.034111	1	0.0054374	1	0.093849	1	0.14421	1
del_18q22.1	83 (25%)	248	1.7054e-07	8.56e-05	0.10921	1	0.31907	1	0.064449	1	0.0084533	1	0.014141	1	0.37018	1	0.079352	1	0.20061	1	0.050613	1
del_19q13.2	29 (9%)	302	0.020621	1	0.11328	1	0.35171	1	0.50153	1	0.044429	1	0.36699	1	0.54404	1	0.010823	1	0.12802	1	0.16678	1
del_21q22.2	34 (10%)	297	0.072927	1	0.01009	1	0.39416	1	0.7629	1	0.0009497	0.409	0.00058633	0.257	0.86088	1	0.57414	1	0.98333	1	0.58493	1
del_21q22.3	99 (30%)	232	5.0805e-09	2.62e-06	9.1765e-22	5.02e-19	0.12283	1	0.23495	1	4.0811e-20	2.23e-17	5.8342e-16	3.16e-13	0.0076325	1	0.00012387	0.057	0.0018375	0.772	0.00055431	0.244