Molecular subtypes	CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL	
	nCNV (%)	nWild-Type	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
Amp Peak  1(1p36.22)	0 (0%)	270	1.1915e-07	4.53e-05	0.0039642	0.848	0.021053	1	0.0056724	1	0.71777	1	0.08942	1
Amp Peak  2(1q21.3)	0 (0%)	198	4.5492e-20	2.02e-17	5.0363e-11	2.08e-08	3.2774e-08	1.26e-05	3.6008e-05	0.0114	1.3137e-05	0.0044	1.7765e-05	0.00588
Amp Peak  3(1q42.3)	0 (0%)	201	5.5225e-14	2.38e-11	1.1055e-07	4.21e-05	4.4874e-07	0.000166	0.00046219	0.13	1.5794e-06	0.000569	1.7747e-06	0.000637
Amp Peak  4(3q27.1)	0 (0%)	203	1.2062e-05	0.00405	0.0074151	1	0.21476	1	0.86519	1	0.60745	1	0.045712	1
Amp Peak  5(5p13.1)	0 (0%)	219	1.645e-14	7.14e-12	5.6849e-07	0.000209	2.7225e-05	0.00879	0.017478	1	0.022591	1	0.0040732	0.864
Amp Peak  6(6p21.1)	0 (0%)	226	3.0956e-17	1.37e-14	5.9902e-10	2.41e-07	0.0008072	0.216	0.003411	0.747	0.0099823	1	2.4515e-05	0.00799
Amp Peak  7(6q12)	0 (0%)	246	2.9755e-09	1.18e-06	1.6867e-08	6.53e-06	0.00024453	0.0726	0.011234	1	0.045998	1	0.00026315	0.0776
Amp Peak  8(6q21)	0 (0%)	250	4.3813e-09	1.73e-06	2.7411e-05	0.00883	0.0068012	1	0.021988	1	0.24656	1	0.0042689	0.901
Amp Peak  9(7p22.3)	0 (0%)	149	8.2502e-14	3.55e-11	3.1992e-05	0.0102	0.021678	1	0.1184	1	0.08296	1	0.0057019	1
Amp Peak 10(7p11.2)	0 (0%)	163	4.2298e-12	1.77e-09	0.014477	1	0.080712	1	0.47313	1	0.26724	1	0.027392	1
Amp Peak 11(7q21.2)	0 (0%)	169	2.3593e-11	9.81e-09	0.024931	1	0.38446	1	0.26697	1	0.46629	1	0.30845	1
Amp Peak 12(8p23.1)	0 (0%)	185	3.3948e-13	1.45e-10	0.0017362	0.417	0.45578	1	0.012403	1	0.75308	1	0.19633	1
Amp Peak 13(8q24.21)	0 (0%)	101	2.6319e-06	0.000932	0.00010088	0.0313	0.1547	1	0.21056	1	0.27306	1	0.0015849	0.384
Amp Peak 14(9p24.1)	0 (0%)	257	0.36393	1	0.1017	1	0.64984	1	0.26877	1	0.79151	1	0.27258	1
Amp Peak 15(9q34.3)	0 (0%)	232	2.8621e-07	0.000107	0.0077531	1	0.0097488	1	0.01404	1	0.13889	1	0.21444	1
Amp Peak 16(10q22.2)	0 (0%)	250	9.4116e-08	3.6e-05	0.074764	1	0.00079566	0.213	0.0025222	0.57	0.17437	1	0.028321	1
Amp Peak 17(10q26.13)	0 (0%)	245	1.1825e-05	0.004	0.00075388	0.204	0.00092879	0.244	0.057276	1	0.62404	1	0.018278	1
Amp Peak 18(11p13)	0 (0%)	252	0.0065816	1	0.10934	1	0.0051604	1	0.0053698	1	0.18671	1	0.00065454	0.178
Amp Peak 19(11q13.3)	0 (0%)	238	3.2708e-05	0.0104	0.18845	1	0.21013	1	0.66293	1	0.001985	0.464	0.021629	1
Amp Peak 20(12p12.1)	0 (0%)	220	0.00030362	0.0877	0.018439	1	0.3428	1	0.9765	1	0.75873	1	0.39721	1
Amp Peak 21(12q15)	0 (0%)	229	0.0080306	1	0.00027814	0.0812	0.17144	1	0.42918	1	0.59632	1	0.28178	1
Amp Peak 22(13q12.3)	0 (0%)	190	7.0689e-10	2.83e-07	1.4533e-05	0.00485	0.1485	1	0.17992	1	0.28131	1	0.0022713	0.522
Amp Peak 23(13q22.1)	0 (0%)	185	1.5441e-08	5.99e-06	3.7434e-05	0.0118	0.013263	1	0.13028	1	0.53216	1	1.9975e-06	0.000715
Amp Peak 24(15q26.1)	0 (0%)	237	1.0316e-13	4.43e-11	0.00041025	0.116	0.0001364	0.0416	7.5324e-06	0.00258	0.20968	1	0.19607	1
Amp Peak 25(17q12)	0 (0%)	214	9.5399e-13	4.04e-10	8.0711e-06	0.00276	6.8536e-06	0.00236	0.0017925	0.428	0.02333	1	0.0009961	0.258
Amp Peak 26(18q11.2)	0 (0%)	216	3.3105e-06	0.00117	0.00022986	0.0687	0.041332	1	0.073331	1	0.29098	1	0.097378	1
Amp Peak 27(19q12)	0 (0%)	216	1.6674e-15	7.32e-13	4.6635e-10	1.88e-07	8.371e-11	3.43e-08	4.5943e-06	0.00161	0.00030541	0.088	1.7095e-10	6.94e-08
Amp Peak 28(20q13.2)	0 (0%)	105	5.6288e-21	2.51e-18	2.0562e-11	8.57e-09	6.8739e-07	0.000252	0.0082821	1	0.014119	1	8.8943e-09	3.5e-06
Amp Peak 29(Xq27.3)	0 (0%)	246	0.00015507	0.047	0.22341	1	0.051906	1	0.34612	1	0.25881	1	0.80311	1
Del Peak  1(1p36.11)	0 (0%)	223	4.2015e-15	1.84e-12	0.00036578	0.104	0.001487	0.367	0.0024081	0.549	0.0019508	0.458	0.0057589	1
Del Peak  2(1p13.2)	0 (0%)	247	5.3952e-12	2.26e-09	0.0010648	0.274	0.012739	1	0.021988	1	0.025451	1	0.015924	1
Del Peak  3(1q44)	0 (0%)	283	0.018536	1	0.010034	1	0.55034	1	0.73184	1	0.42005	1	0.31748	1
Del Peak  4(2q32.1)	0 (0%)	264	0.0089459	1	0.12042	1	0.3653	1	0.92935	1	0.084946	1	0.22743	1
Del Peak  5(2q37.2)	0 (0%)	259	0.0001908	0.0572	0.003934	0.846	0.061206	1	0.16274	1	0.0028526	0.633	0.00099133	0.258
Del Peak  6(3p26.1)	0 (0%)	222	2.6431e-10	1.07e-07	0.0002996	0.0869	0.10663	1	0.16642	1	0.23864	1	0.00051675	0.143
Del Peak  7(3p14.2)	0 (0%)	204	9.3271e-13	3.95e-10	1.3783e-06	0.000498	0.0036726	0.797	0.0018685	0.441	0.09814	1	3.6522e-05	0.0115
Del Peak  8(3q26.31)	0 (0%)	272	4.23e-06	0.00148	8.437e-05	0.0262	0.00095604	0.25	0.0067486	1	0.016298	1	0.0018299	0.434
Del Peak  9(4p16.3)	0 (0%)	194	2.8949e-10	1.17e-07	0.00037683	0.107	0.00026626	0.078	0.006998	1	0.00084783	0.225	3.0718e-05	0.00983
Del Peak 10(4q22.1)	0 (0%)	171	6.7225e-19	2.98e-16	1.2304e-07	4.66e-05	0.021301	1	0.031947	1	0.0032542	0.716	0.00010155	0.0314
Del Peak 11(4q34.3)	0 (0%)	179	1.0706e-14	4.66e-12	7.5677e-07	0.000276	0.00074579	0.202	0.017668	1	0.0116	1	9.156e-06	0.00312
Del Peak 12(5q11.2)	0 (0%)	203	6.544e-28	2.94e-25	1.2707e-13	5.44e-11	9.4789e-07	0.000343	3.0589e-07	0.000114	2.917e-07	0.000109	2.5316e-09	1.01e-06
Del Peak 13(5q23.2)	0 (0%)	213	2.4759e-23	1.11e-20	2.4963e-12	1.05e-09	2.0165e-07	7.62e-05	2.0671e-06	0.000738	2.6505e-07	9.94e-05	1.1125e-08	4.35e-06
Del Peak 14(6p25.3)	0 (0%)	237	5.0068e-07	0.000185	0.00093203	0.244	0.017376	1	0.0023034	0.527	0.097621	1	0.00091492	0.242
Del Peak 15(6q26)	0 (0%)	244	0.00012761	0.039	0.059143	1	1.5086e-05	0.00502	0.0089533	1	0.38852	1	0.077228	1
Del Peak 16(7q31.1)	0 (0%)	262	3.1075e-07	0.000115	0.0014149	0.351	0.14092	1	0.51982	1	0.0063411	1	0.15199	1
Del Peak 17(7q36.3)	0 (0%)	248	1.8187e-14	7.88e-12	1.934e-05	0.00636	0.00079147	0.213	0.0055357	1	0.12257	1	0.00011334	0.0349
Del Peak 18(8p23.2)	0 (0%)	229	4.3014e-14	1.86e-11	5.7835e-06	0.00201	0.00054297	0.149	0.0015595	0.381	0.13379	1	0.00015979	0.0483
Del Peak 19(9p23)	0 (0%)	186	2.6605e-15	1.17e-12	2.8767e-05	0.00923	0.00031974	0.0918	0.034672	1	0.080125	1	0.0020873	0.482
Del Peak 20(9p21.3)	0 (0%)	188	6.2942e-16	2.77e-13	5.3489e-11	2.2e-08	3.0003e-06	0.00106	0.0020523	0.478	0.026253	1	0.00025989	0.0769
Del Peak 21(9q21.11)	0 (0%)	233	2.9745e-08	1.15e-05	0.00016283	0.049	0.083975	1	0.24343	1	0.042731	1	0.0036729	0.797
Del Peak 22(10p15.1)	0 (0%)	268	0.00012398	0.0381	0.18	1	0.34927	1	0.49694	1	0.2648	1	0.10288	1
Del Peak 23(10q22.3)	0 (0%)	257	2.4321e-09	9.68e-07	0.0011313	0.285	0.082876	1	0.066936	1	0.052493	1	0.00064101	0.176
Del Peak 24(10q23.31)	0 (0%)	233	2.7184e-12	1.14e-09	1.1974e-05	0.00404	0.14379	1	0.13853	1	0.0028734	0.635	2.5138e-05	0.00817
Del Peak 25(11p15.4)	0 (0%)	247	2.9626e-08	1.14e-05	1.5512e-05	0.00515	0.077231	1	0.026159	1	0.70692	1	0.030343	1
Del Peak 26(11q23.2)	0 (0%)	244	0.0002643	0.0777	0.0024828	0.564	0.0015444	0.38	0.70116	1	0.4878	1	0.77933	1
Del Peak 27(12p13.31)	0 (0%)	256	1.4888e-10	6.06e-08	1.1259e-05	0.00382	2.6617e-05	0.00862	0.00028078	0.0817	0.067877	1	0.02868	1
Del Peak 28(13q12.11)	0 (0%)	262	2.323e-06	0.000827	0.071532	1	0.069513	1	0.1181	1	0.74605	1	0.13985	1
Del Peak 29(14q21.1)	0 (0%)	235	7.6857e-07	0.00028	0.0045647	0.949	0.0043278	0.909	0.0020566	0.478	0.019779	1	0.0015785	0.384
Del Peak 30(14q32.33)	0 (0%)	217	9.2439e-09	3.62e-06	0.014963	1	0.036209	1	0.0013218	0.33	0.023024	1	0.11733	1
Del Peak 31(15q15.1)	0 (0%)	227	6.4387e-13	2.74e-10	5.7148e-07	0.00021	1.7947e-05	0.00592	7.3772e-06	0.00254	0.0013222	0.33	8.7334e-07	0.000317
Del Peak 32(16p13.3)	0 (0%)	248	7.4186e-11	3.05e-08	7.0327e-05	0.0219	2.0339e-05	0.00665	0.0003825	0.108	0.0048887	1	0.018532	1
Del Peak 33(16q23.1)	0 (0%)	188	2.2174e-07	8.34e-05	0.0047063	0.974	0.02264	1	0.0043333	0.909	0.66686	1	0.13214	1
Del Peak 34(17p12)	0 (0%)	191	1.8098e-23	8.11e-21	4.4433e-11	1.84e-08	9.9546e-06	0.00338	1.9628e-05	0.00644	0.0028391	0.633	6.3568e-06	0.00221
Del Peak 35(17q24.3)	0 (0%)	251	1.3158e-10	5.38e-08	0.00023714	0.0707	0.00046333	0.13	0.0018222	0.434	0.024564	1	0.014377	1
Del Peak 36(18q21.2)	0 (0%)	173	4.4882e-13	1.91e-10	0.00084642	0.225	0.01414	1	0.15166	1	0.13442	1	0.0063203	1
Del Peak 37(19p13.3)	0 (0%)	207	2.3542e-27	1.06e-24	2.383e-16	1.05e-13	3.6224e-11	1.5e-08	1.3364e-12	5.64e-10	2.2058e-07	8.32e-05	1.0584e-19	4.7e-17
Del Peak 38(19q13.11)	0 (0%)	263	2.6898e-09	1.07e-06	6.1627e-05	0.0193	0.0142	1	0.0015486	0.38	0.016533	1	2.4397e-06	0.000866
Del Peak 39(20p12.1)	0 (0%)	254	1.2075e-08	4.71e-06	0.0011192	0.284	0.0010675	0.274	0.018236	1	0.19742	1	0.0026923	0.606
Del Peak 40(20p12.1)	0 (0%)	254	1.2075e-08	4.71e-06	0.0011192	0.284	0.0010675	0.274	0.018236	1	0.19742	1	0.0026923	0.606
Del Peak 41(21q11.2)	0 (0%)	198	1.3864e-10	5.66e-08	5.4096e-05	0.017	0.0053767	1	0.00034112	0.0976	0.019675	1	0.001156	0.29
Del Peak 42(21q22.13)	0 (0%)	191	1.5619e-09	6.23e-07	0.0005092	0.142	0.0050736	1	0.0010383	0.268	0.34034	1	0.0016973	0.409
Del Peak 43(22q13.31)	0 (0%)	205	9.6794e-15	4.22e-12	0.00014182	0.0431	0.0005285	0.146	0.00047071	0.131	0.006549	1	6.5625e-06	0.00227
Del Peak 44(Xp22.2)	0 (0%)	245	1.4414e-09	5.77e-07	0.00064166	0.176	0.003964	0.848	0.012752	1	0.17319	1	0.030626	1
Del Peak 45(Xp21.1)	0 (0%)	254	6.2238e-08	2.38e-05	0.0047065	0.974	0.24346	1	0.09401	1	0.53765	1	0.80697	1
Del Peak 46(Xq21.33)	0 (0%)	264	5.7705e-06	0.00201	0.04207	1	0.1617	1	0.17435	1	0.0036536	0.796	0.037709	1