		Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		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	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(1q32.1)	23 (10%)	197	NA	NA	NA	NA	7.8123e-07	0.000231	8.1539e-05	0.0225	1.9049e-05	0.00537	0.3778	1	0.63903	1	0.41559	1
Amp Peak  2(4q12)	10 (5%)	210	NA	NA	NA	NA	0.50271	1	0.52305	1	0.39284	1	0.54272	1	0.81189	1	0.39251	1
Amp Peak  3(7p11.2)	55 (25%)	165	0.86379	1	0.85953	1	1.0968e-18	3.49e-16	1.1733e-12	3.64e-10	1.168e-09	3.55e-07	0.017227	1	0.0010801	0.282	0.018151	1
Amp Peak  4(7q32.3)	77 (35%)	143	0.7639	1	0.57547	1	8.3915e-17	2.63e-14	5.4282e-07	0.000161	2.5251e-05	0.0071	0.028635	1	0.055146	1	0.20668	1
Amp Peak  5(8q24.21)	44 (20%)	176	0.36962	1	1	1	6.8684e-06	0.00198	1.7156e-06	0.000504	0.0011407	0.297	0.0018892	0.484	0.020113	1	0.1097	1
Amp Peak  6(10p15.1)	35 (16%)	185	0.46711	1	0.46778	1	2.6143e-09	7.9e-07	9.1637e-08	2.75e-05	0.0033469	0.82	0.0047341	1	0.0006128	0.162	0.86861	1
Amp Peak  7(10q11.21)	5 (2%)	215	NA	NA	NA	NA	0.19976	1	0.44322	1	0.21252	1	0.17637	1	0.0094915	1	0.55622	1
Amp Peak  8(11q23.3)	38 (17%)	182	0.070754	1	0.016215	1	0.92156	1	0.027711	1	0.21675	1	0.23021	1	0.47911	1	0.59072	1
Amp Peak  9(12p13.32)	34 (15%)	186	0.86379	1	0.85953	1	1.0003e-05	0.00285	6.3349e-05	0.0176	0.013411	1	0.00095899	0.251	0.0080171	1	0.0098645	1
Amp Peak 10(12p11.22)	21 (10%)	199	1	1	0.38766	1	0.021217	1	0.047375	1	0.14154	1	0.0032945	0.81	0.0020917	0.527	0.035456	1
Amp Peak 11(12q14.1)	14 (6%)	206	NA	NA	NA	NA	0.12167	1	0.39814	1	0.029008	1	0.32793	1	0.94026	1	0.9095	1
Amp Peak 12(19p13.3)	51 (23%)	169	0.18636	1	0.27227	1	1.6926e-09	5.13e-07	5.8419e-06	0.00169	0.0045873	1	0.0029628	0.732	0.11255	1	0.54613	1
Amp Peak 13(19q13.2)	15 (7%)	205	0.36923	1	0.32684	1	1.0184e-06	3e-04	0.00038156	0.103	0.00026654	0.0728	0.010114	1	0.034123	1	0.0080985	1
Amp Peak 14(Xp22.33)	15 (7%)	205	NA	NA	NA	NA	0.0024776	0.617	0.0072974	1	0.32277	1	0.090494	1	0.12088	1	1	1
Amp Peak 15(Xq11.2)	31 (14%)	189	0.28205	1	0.80256	1	3.6297e-06	0.00105	1.9733e-06	0.000578	0.011838	1	0.00039659	0.107	0.12375	1	0.37334	1
Del Peak  1(1p36.31)	83 (38%)	137	0.0005487	0.146	0.0020067	0.508	3.6942e-31	1.19e-28	3.0162e-37	9.77e-35	4.4437e-17	1.4e-14	7.501e-20	2.39e-17	4.5568e-11	1.4e-08	0.0093888	1
Del Peak  2(1p32.3)	77 (35%)	143	0.028572	1	0.063545	1	2.8777e-37	9.35e-35	1.247e-40	4.07e-38	2.6978e-18	8.55e-16	2.0897e-23	6.71e-21	3.5108e-13	1.09e-10	0.0008998	0.237
Del Peak  3(1q43)	13 (6%)	207	NA	NA	NA	NA	0.66566	1	0.33	1	0.20205	1	0.086077	1	0.34309	1	0.29568	1
Del Peak  4(2q37.3)	32 (15%)	188	0.18013	1	0.54738	1	0.0013379	0.347	9.1855e-06	0.00263	0.021793	1	0.021692	1	0.063002	1	0.20445	1
Del Peak  5(3p21.1)	20 (9%)	200	1	1	0.41333	1	0.35851	1	0.028755	1	0.94019	1	0.014346	1	0.056591	1	0.0081216	1
Del Peak  6(3q29)	21 (10%)	199	0.17504	1	1	1	0.0098173	1	0.0021801	0.547	0.11373	1	0.073959	1	0.54002	1	0.13553	1
Del Peak  7(4q33)	61 (28%)	159	1	1	0.7842	1	0.00050218	0.134	0.00036505	0.0989	0.031872	1	0.018551	1	0.0019364	0.492	0.36196	1
Del Peak  8(4q35.2)	62 (28%)	158	1	1	0.7842	1	8.1803e-05	0.0225	6.4625e-05	0.0179	0.019041	1	0.016553	1	0.0050465	1	0.26156	1
Del Peak  9(5q35.2)	28 (13%)	192	0.44623	1	0.60981	1	0.0026055	0.646	0.00044704	0.12	0.030098	1	0.0054043	1	0.026901	1	0.079759	1
Del Peak 10(6p24.1)	21 (10%)	199	NA	NA	NA	NA	0.13113	1	0.37095	1	0.43558	1	0.23266	1	0.25182	1	0.44953	1
Del Peak 11(6q24.3)	33 (15%)	187	0.047863	1	0.040684	1	0.015832	1	0.0014973	0.386	0.26901	1	0.051936	1	0.018933	1	0.44883	1
Del Peak 12(8p23.2)	11 (5%)	209	1	1	0.38766	1	0.0069582	1	0.012691	1	0.13584	1	0.35957	1	0.63402	1	0.23003	1
Del Peak 13(9p21.3)	78 (35%)	142	0.33256	1	0.27227	1	2.3989e-07	7.15e-05	8.3487e-06	0.0024	0.0067945	1	0.046519	1	0.25619	1	0.15021	1
Del Peak 14(10q26.2)	70 (32%)	150	0.17949	1	0.25686	1	1.0528e-17	3.33e-15	1.5271e-16	4.78e-14	1.0863e-13	3.39e-11	2.7961e-08	8.42e-06	3.4419e-06	0.001	0.00072409	0.191
Del Peak 15(11p15.5)	48 (22%)	172	0.64244	1	0.18398	1	1.9774e-07	5.91e-05	1.0325e-09	3.15e-07	0.024797	1	0.00028252	0.0768	0.2063	1	0.42845	1
Del Peak 16(11q25)	15 (7%)	205	NA	NA	NA	NA	0.0018332	0.471	0.016455	1	0.1258	1	0.090494	1	0.63314	1	0.11845	1
Del Peak 17(12q24.11)	30 (14%)	190	1	1	0.38766	1	4.9666e-05	0.0139	1.4822e-05	0.00421	0.31167	1	0.008963	1	0.015403	1	0.76604	1
Del Peak 18(13q14.2)	65 (30%)	155	0.1801	1	0.073304	1	0.053996	1	0.0090219	1	0.48244	1	0.20239	1	0.214	1	0.54764	1
Del Peak 19(13q34)	50 (23%)	170	0.50769	1	0.52615	1	0.24429	1	0.092912	1	0.24232	1	0.15597	1	0.10601	1	0.31639	1
Del Peak 20(14q24.3)	51 (23%)	169	0.30286	1	0.34058	1	0.002355	0.589	0.015135	1	0.025302	1	0.11845	1	0.008786	1	0.014104	1
Del Peak 21(15q21.3)	27 (12%)	193	0.83946	1	0.82832	1	0.059641	1	0.059199	1	0.0069902	1	0.24653	1	0.33959	1	0.84121	1
Del Peak 22(17q25.3)	15 (7%)	205	NA	NA	NA	NA	0.020586	1	0.16385	1	0.65823	1	0.36726	1	0.35388	1	0.75541	1
Del Peak 23(18p11.32)	32 (15%)	188	0.32144	1	0.38766	1	0.552	1	0.13672	1	0.48063	1	0.64846	1	0.67989	1	0.38044	1
Del Peak 24(18q23)	35 (16%)	185	0.32144	1	0.38766	1	0.91795	1	0.10792	1	0.48928	1	0.87526	1	0.75573	1	0.54023	1
Del Peak 25(19q13.42)	116 (53%)	104	0.03533	1	0.010523	1	4.3984e-29	1.42e-26	1.115e-22	3.57e-20	4.8095e-11	1.48e-08	3.347e-12	1.03e-09	6.6679e-10	2.04e-07	0.11218	1
Del Peak 26(22q13.31)	31 (14%)	189	0.25043	1	0.14359	1	2.211e-06	0.000646	1.7533e-05	0.00496	4.5024e-05	0.0126	0.0018946	0.484	0.0096134	1	0.11851	1
Del Peak 27(Xp22.31)	51 (23%)	169	0.73001	1	0.60981	1	0.51694	1	0.20117	1	0.54772	1	0.092602	1	0.078922	1	0.086525	1
Del Peak 28(Xq21.1)	30 (14%)	190	0.73001	1	0.50446	1	0.46798	1	0.058506	1	0.008376	1	0.025848	1	0.00019291	0.0529	0.36328	1
