Molecular subtypes	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	Chi-square test_P	Chi-square test_Q
Amp Peak  1(2q33.1)	0 (0%)	334	0.1662	1	0.03648	1	3.054e-05	0.0205	0.12832	1	0.24507	1	0.065226	1	0.0005156	0.315	0.013678	1	0.27725	1	0.25803	1	0.33879	1	0.11023	1
Amp Peak  2(5p13.2)	0 (0%)	332	0.37964	1	0.26756	1	0.00020181	0.129	0.39173	1	0.009987	1	0.72358	1	0.086386	1	0.069637	1	0.9268	1	0.58108	1	0.29882	1	0.047466	1
Amp Peak  3(5q22.3)	0 (0%)	373	0.91546	1	0.67706	1	0.029319	1	0.87604	1	0.39448	1	0.49402	1	0.16547	1	0.11152	1	0.69302	1	0.83892	1	0.29992	1	0.28046	1
Amp Peak  4(6p21.1)	0 (0%)	324	0.19559	1	0.00019134	0.123	3.3666e-09	2.46e-06	0.056913	1	0.8303	1	0.17797	1	0.0064373	1	0.033042	1	0.77582	1	0.25832	1	0.01988	1	0.0018606	1
Amp Peak  5(8p11.23)	0 (0%)	269	0.30155	1	0.12557	1	2.9884e-13	2.34e-10	0.91858	1	0.86406	1	0.73292	1	0.21112	1	0.78274	1	0.17898	1	0.18914	1	0.24853	1	0.44406	1
Amp Peak  6(8p11.21)	0 (0%)	240	0.44438	1	0.071551	1	4.5091e-10	3.35e-07	0.65782	1	0.26977	1	0.0067242	1	0.42103	1	0.60595	1	0.50206	1	0.21775	1	0.32664	1	0.32677	1
Amp Peak  7(8q12.1)	0 (0%)	198	0.48918	1	0.03894	1	9.3098e-12	7.13e-09	0.015989	1	0.022833	1	0.00068034	0.41	0.014129	1	0.22829	1	0.12567	1	0.29537	1	0.0025493	1	0.0054	1
Amp Peak  8(8q24.21)	0 (0%)	174	0.56255	1	0.068545	1	7.8615e-14	6.17e-11	0.0036839	1	0.10294	1	0.010384	1	0.0063634	1	0.44468	1	0.4037	1	0.21493	1	0.016315	1	0.0048788	1
Amp Peak  9(11p15.5)	0 (0%)	327	6.0906e-06	0.00421	0.00034266	0.215	1.539e-09	1.13e-06	4.006e-05	0.0267	0.0015569	0.9	0.0035797	1	0.001929	1	0.0084545	1	0.11742	1	0.20078	1	0.0020671	1	7.4268e-07	0.000522
Amp Peak 10(12p13.33)	0 (0%)	309	0.5373	1	0.80075	1	0.06118	1	0.35124	1	0.42946	1	0.95827	1	0.33441	1	0.97693	1	0.30362	1	0.17308	1	0.90751	1	0.49822	1
Amp Peak 11(13q12.13)	0 (0%)	163	1.577e-06	0.0011	2.0686e-06	0.00144	5.0359e-36	4.07e-33	0.00031765	0.2	0.070934	1	0.012395	1	1.2693e-06	0.000888	0.00019564	0.125	0.45926	1	0.79848	1	2.4643e-05	0.0166	1.2003e-08	8.69e-06
Amp Peak 12(13q22.1)	0 (0%)	159	0.00058589	0.356	4.414e-05	0.0294	7.1998e-33	5.81e-30	0.00020023	0.128	0.15242	1	0.044448	1	1.1465e-06	0.000804	7.6662e-05	0.0505	0.2718	1	0.97749	1	3.6103e-05	0.0241	6.2899e-07	0.000444
Amp Peak 13(16p11.2)	0 (0%)	297	0.0011376	0.669	0.00012925	0.0838	8.5536e-19	6.83e-16	0.0070523	1	0.37341	1	0.033031	1	0.00042856	0.266	0.0083752	1	0.77077	1	0.80885	1	0.0010479	0.619	2.1452e-06	0.00149
Amp Peak 14(16q12.1)	0 (0%)	311	0.00012622	0.082	2.5321e-05	0.0171	1.6709e-20	1.34e-17	0.015597	1	0.61851	1	0.081003	1	0.000642	0.389	0.0025448	1	0.90192	1	0.93019	1	0.00023663	0.15	5.2314e-07	0.000371
Amp Peak 15(17q12)	0 (0%)	312	0.053798	1	0.074958	1	7.529e-07	0.000529	0.005271	1	0.58232	1	0.002762	1	4.5905e-05	0.0305	0.014164	1	0.012101	1	0.98573	1	0.030976	1	0.018524	1
Amp Peak 16(17q24.1)	0 (0%)	321	0.050372	1	0.026313	1	1.6072e-08	1.16e-05	0.0036754	1	0.3038	1	0.0052735	1	6.0366e-06	0.00418	0.0031161	1	0.0025416	1	0.78116	1	0.023419	1	0.00074733	0.449
Amp Peak 17(19p13.2)	0 (0%)	348	0.067369	1	0.026322	1	4.8203e-05	0.032	0.19778	1	0.73433	1	0.34131	1	0.50145	1	0.53917	1	0.20371	1	0.38494	1	0.006994	1	0.013351	1
Amp Peak 18(19q13.11)	0 (0%)	330	0.18149	1	0.023215	1	0.0019963	1	0.43308	1	0.17273	1	0.68839	1	0.073608	1	0.16703	1	0.41715	1	0.49068	1	0.025321	1	0.0041187	1
Amp Peak 19(20p12.3)	0 (0%)	229	0.00898	1	0.00035638	0.223	1.8596e-12	1.44e-09	0.46541	1	0.01133	1	0.47839	1	0.030504	1	0.0097172	1	0.59687	1	0.19482	1	0.0043807	1	0.0014133	0.82
Amp Peak 20(20p11.23)	0 (0%)	208	0.077291	1	0.00050706	0.311	1.2622e-16	9.98e-14	0.10918	1	0.047863	1	0.18343	1	0.00051306	0.314	0.0010395	0.616	0.45496	1	0.2118	1	0.00011026	0.072	0.00024887	0.157
Amp Peak 21(20p11.21)	0 (0%)	183	0.0030448	1	1.6049e-05	0.011	4.0003e-23	3.22e-20	0.00047942	0.295	0.062386	1	0.039356	1	2.4063e-07	0.000172	1.3852e-06	0.000968	0.17441	1	0.50927	1	6.0898e-07	0.000431	1.5602e-08	1.13e-05
Amp Peak 22(20q11.21)	0 (0%)	117	3.8669e-10	2.87e-07	7.2759e-12	5.59e-09	1.5358e-43	1.25e-40	6.2179e-10	4.61e-07	0.020093	1	0.0001082	0.0708	1.4664e-14	1.16e-11	3.8499e-12	2.97e-09	0.44287	1	1	1	1.4477e-10	1.08e-07	7.328e-19	5.86e-16
Amp Peak 23(20q12)	0 (0%)	116	4.2898e-11	3.24e-08	4.9875e-12	3.84e-09	6.2847e-43	5.1e-40	4.3694e-09	3.19e-06	0.0077064	1	2.1772e-05	0.0147	5.477e-14	4.31e-11	1.3447e-11	1.03e-08	0.40581	1	0.94846	1	1.8799e-11	1.43e-08	1.0279e-18	8.19e-16
Amp Peak 24(20q13.32)	0 (0%)	113	7.9103e-10	5.83e-07	2.3402e-12	1.81e-09	3.1794e-43	2.58e-40	4.3694e-09	3.19e-06	0.0083156	1	1.2964e-05	0.00891	5.477e-14	4.31e-11	1.3447e-11	1.03e-08	0.414	1	0.96035	1	6.8032e-11	5.12e-08	6.029e-18	4.8e-15
Del Peak  1(1p36.11)	0 (0%)	263	0.0001499	0.0967	0.0024656	1	6.3163e-17	5.01e-14	0.00032842	0.207	0.015502	1	0.023791	1	0.0003474	0.217	0.0012029	0.703	0.4086	1	0.06244	1	0.0062054	1	1.2532e-05	0.00862
Del Peak  2(1p33)	0 (0%)	306	0.022296	1	0.37616	1	1.0878e-11	8.32e-09	0.0016659	0.96	0.55581	1	0.39484	1	0.0050982	1	0.014081	1	0.8934	1	0.051913	1	0.040557	1	3.2454e-05	0.0217
Del Peak  3(1p13.1)	0 (0%)	310	0.087221	1	0.26194	1	6.8461e-10	5.07e-07	0.082092	1	0.55997	1	0.88961	1	0.083567	1	0.00481	1	0.86754	1	0.37862	1	0.43118	1	0.0011435	0.671
Del Peak  4(1q43)	0 (0%)	369	0.061639	1	0.46056	1	6.9784e-06	0.00482	0.014214	1	0.39343	1	0.6636	1	0.031175	1	0.011378	1	0.33504	1	0.30091	1	0.0077682	1	0.0029117	1
Del Peak  5(2q37.2)	0 (0%)	392	0.80481	1	0.06518	1	0.97728	1	0.6504	1	0.22995	1	0.20827	1	1	1	0.18364	1	0.44659	1	0.44658	1	0.5798	1	0.64217	1
Del Peak  6(3p26.1)	0 (0%)	353	0.39928	1	0.28114	1	0.00043027	0.267	0.073705	1	0.94192	1	0.86062	1	0.53918	1	0.088268	1	0.5406	1	0.9578	1	0.010287	1	0.38564	1
Del Peak  7(3p14.2)	0 (0%)	338	0.55416	1	0.5557	1	0.2053	1	0.62304	1	0.5659	1	0.28971	1	0.63238	1	0.48277	1	0.20335	1	0.53643	1	0.025652	1	0.42467	1
Del Peak  8(3q26.31)	0 (0%)	374	0.55869	1	0.6459	1	0.0081756	1	0.41036	1	0.28793	1	0.36887	1	0.45817	1	0.022264	1	0.14968	1	0.93943	1	0.0026253	1	0.0415	1
Del Peak  9(4p16.2)	0 (0%)	292	0.00073261	0.441	0.0039661	1	1.1565e-12	8.97e-10	0.0037447	1	0.44227	1	0.086565	1	0.0002371	0.15	0.00010675	0.0699	0.37622	1	0.20636	1	0.015858	1	0.00075232	0.451
Del Peak 10(4q22.1)	0 (0%)	287	0.00038307	0.239	0.0021429	1	8.4971e-12	6.52e-09	0.00054638	0.332	0.51615	1	0.3912	1	9.2324e-05	0.0607	2.8143e-05	0.0189	0.20975	1	0.51791	1	0.0044772	1	0.0033407	1
Del Peak 11(4q35.1)	0 (0%)	276	0.00098011	0.582	0.0036347	1	1.0461e-13	8.2e-11	1.6344e-05	0.0112	0.17298	1	0.14569	1	0.00023919	0.151	0.00052743	0.321	0.41578	1	0.23487	1	0.00045162	0.28	0.017728	1
Del Peak 12(5q11.2)	0 (0%)	322	0.0011455	0.671	0.0012669	0.736	4.9424e-09	3.59e-06	0.057155	1	0.048017	1	0.011758	1	0.0014217	0.823	0.0078063	1	0.83478	1	0.21521	1	0.0026313	1	0.0040584	1
Del Peak 13(5q21.3)	0 (0%)	296	0.066081	1	0.010456	1	1.1415e-09	8.38e-07	0.029491	1	0.065093	1	0.097134	1	0.0043777	1	0.01043	1	0.65358	1	0.36044	1	0.048135	1	0.0068173	1
Del Peak 14(5q23.1)	0 (0%)	306	0.049729	1	0.024219	1	1.5714e-08	1.13e-05	0.06919	1	0.043956	1	0.15032	1	0.021902	1	0.012593	1	0.62161	1	0.24578	1	0.0073772	1	0.010781	1
Del Peak 15(6p25.3)	0 (0%)	359	0.85206	1	0.75574	1	0.00010249	0.0672	0.070848	1	0.3365	1	0.82828	1	0.35329	1	0.788	1	0.40629	1	0.45348	1	0.060115	1	0.089491	1
Del Peak 16(6q26)	0 (0%)	353	0.52444	1	0.25765	1	0.15693	1	0.42296	1	0.18926	1	0.35544	1	0.87302	1	0.69718	1	0.79664	1	0.52977	1	0.21314	1	0.23459	1
Del Peak 17(7q31.1)	0 (0%)	402	1	1	0.50446	1	0.81645	1	0.79689	1	0.3542	1	0.21886	1	0.49001	1	1	1	1	1	0.56392	1	0.87591	1	0.046964	1
Del Peak 18(8p23.3)	0 (0%)	242	0.0114	1	6.7612e-05	0.0448	6.8386e-26	5.51e-23	7.2511e-07	0.00051	0.051429	1	0.00096002	0.571	0.00067246	0.406	0.0023104	1	0.1544	1	0.84763	1	1.4942e-05	0.0103	0.00011235	0.0733
Del Peak 19(8p22)	0 (0%)	228	0.0026359	1	0.00017392	0.112	2.4052e-30	1.94e-27	7.1363e-08	5.11e-05	0.064921	1	0.00013004	0.0841	2.1632e-05	0.0147	0.00065641	0.397	0.11474	1	0.83207	1	1.9942e-05	0.0136	1.7297e-05	0.0118
Del Peak 20(8p11.22)	0 (0%)	333	0.40242	1	0.13666	1	8.8799e-09	6.45e-06	0.039705	1	0.049026	1	0.0053364	1	0.099284	1	0.080437	1	0.35945	1	0.8314	1	0.12888	1	0.052069	1
Del Peak 21(8p11.21)	0 (0%)	370	0.025124	1	0.35468	1	5.8112e-07	0.000411	0.44144	1	0.1559	1	0.023976	1	0.48334	1	0.30826	1	0.099704	1	0.54888	1	0.093386	1	0.41161	1
Del Peak 22(9p21.3)	0 (0%)	357	0.56319	1	0.092338	1	4.5111e-05	0.03	0.26623	1	0.7676	1	0.21374	1	0.063689	1	0.12685	1	0.90376	1	0.66315	1	0.11266	1	0.3855	1
Del Peak 23(10p15.3)	0 (0%)	345	0.11537	1	0.10212	1	2.2472e-08	1.62e-05	0.0086947	1	0.067285	1	0.10361	1	0.12642	1	0.033979	1	0.67983	1	0.56551	1	0.0070711	1	0.0033874	1
Del Peak 24(10q21.1)	0 (0%)	331	0.0033499	1	0.0088778	1	2.2397e-11	1.7e-08	0.13557	1	0.27737	1	0.1442	1	0.19132	1	0.043135	1	0.8868	1	0.8314	1	0.0086434	1	0.061839	1
Del Peak 25(10q23.31)	0 (0%)	319	0.14631	1	0.030629	1	3.4604e-07	0.000246	0.05204	1	0.12346	1	0.37531	1	0.034832	1	0.16507	1	0.8849	1	0.98489	1	0.0011053	0.651	0.024907	1
Del Peak 26(10q25.2)	0 (0%)	320	0.12516	1	0.0018686	1	1.9136e-11	1.45e-08	0.0076475	1	0.030023	1	0.31933	1	0.0031176	1	0.0025038	1	0.92109	1	0.5932	1	1.8051e-05	0.0123	0.0093424	1
Del Peak 27(12p13.2)	0 (0%)	369	0.035615	1	0.0083145	1	9.8715e-08	7.06e-05	0.11513	1	0.38309	1	0.86984	1	0.026163	1	0.0036908	1	0.69486	1	0.97344	1	0.0027722	1	0.11249	1
Del Peak 28(13q14.13)	0 (0%)	395	0.27462	1	0.87599	1	0.00012763	0.0828	0.16716	1	0.21219	1	0.33969	1	0.22843	1	0.45153	1	0.61393	1	0.83372	1	0.26963	1	0.98061	1
Del Peak 29(14q32.11)	0 (0%)	280	1.5759e-06	0.0011	3.2345e-05	0.0217	1.6095e-20	1.29e-17	0.00045676	0.282	0.0034689	1	0.023608	1	7.3029e-05	0.0483	0.00084042	0.503	0.31936	1	0.061222	1	2.4612e-05	0.0166	3.3901e-05	0.0227
Del Peak 30(15q11.2)	0 (0%)	253	0.00046819	0.288	0.0015862	0.915	1.1969e-21	9.61e-19	0.010077	1	0.074635	1	0.070002	1	2.0921e-06	0.00145	0.00011707	0.0762	0.87692	1	0.8927	1	0.00052442	0.32	8.4969e-06	0.00585
Del Peak 31(15q21.1)	0 (0%)	262	0.026089	1	0.014205	1	8.1471e-18	6.48e-15	0.006243	1	0.044126	1	0.065717	1	2.0274e-07	0.000145	2.0517e-05	0.0139	0.9795	1	0.62069	1	0.0011632	0.68	0.0001645	0.106
Del Peak 32(15q22.33)	0 (0%)	268	0.00027283	0.172	0.00083457	0.5	2.4843e-21	1.99e-18	0.00033557	0.211	0.14138	1	0.051164	1	3.0692e-08	2.2e-05	7.5506e-06	0.00521	0.94865	1	0.3645	1	0.00046063	0.284	1.7662e-05	0.012
Del Peak 33(16p13.3)	0 (0%)	368	0.30298	1	0.33778	1	0.20817	1	0.46298	1	0.41777	1	0.91317	1	0.61959	1	0.57186	1	0.84166	1	0.73884	1	0.19751	1	0.54278	1
Del Peak 34(16q23.1)	0 (0%)	364	0.2692	1	0.0060782	1	0.13094	1	0.40586	1	0.48927	1	0.8211	1	0.042079	1	0.070054	1	0.97682	1	0.50466	1	0.53833	1	0.56804	1
Del Peak 35(17p12)	0 (0%)	184	2.4712e-08	1.78e-05	4.9672e-07	0.000353	2.8124e-35	2.27e-32	2.576e-10	1.92e-07	0.046486	1	7.4152e-05	0.0489	1.0566e-10	7.92e-08	3.2016e-08	2.3e-05	0.36262	1	0.7291	1	1.3954e-09	1.02e-06	2.4265e-10	1.81e-07
Del Peak 36(17q24.3)	0 (0%)	354	0.095566	1	0.70732	1	0.0034819	1	0.0056907	1	0.87429	1	0.33768	1	0.0032861	1	0.032904	1	0.68104	1	0.97867	1	0.1352	1	0.1374	1
Del Peak 37(18p11.31)	0 (0%)	193	6.8701e-12	5.28e-09	7.4913e-10	5.53e-07	1.9303e-42	1.56e-39	1.5657e-14	1.23e-11	0.0022986	1	0.0010422	0.617	3.1119e-17	2.47e-14	8.1919e-10	6.03e-07	0.48029	1	0.84148	1	1.4427e-11	1.1e-08	3.4413e-12	2.66e-09
Del Peak 38(18q12.2)	0 (0%)	166	1.0946e-11	8.36e-09	2.6611e-10	1.98e-07	1.8686e-45	1.52e-42	9.4013e-17	7.45e-14	0.021355	1	0.00042101	0.262	7.6643e-16	6.05e-13	1.0742e-08	7.79e-06	0.44898	1	0.86493	1	8.4988e-11	6.39e-08	4.4274e-13	3.45e-10
Del Peak 39(18q21.2)	0 (0%)	153	3.369e-11	2.55e-08	1.4584e-10	1.09e-07	1.5149e-45	1.23e-42	5.8315e-13	4.54e-10	0.010909	1	0.00022543	0.144	8.7386e-13	6.8e-10	7.1392e-07	0.000503	0.051698	1	0.90124	1	6.9461e-10	5.13e-07	6.6182e-11	5e-08
Del Peak 40(18q22.1)	0 (0%)	153	8.7582e-11	6.58e-08	8.3418e-10	6.13e-07	1.5789e-47	1.29e-44	3.4156e-13	2.67e-10	0.017788	1	0.00022425	0.143	4.0541e-12	3.13e-09	2.7626e-07	0.000197	0.074601	1	0.91179	1	2.3994e-10	1.79e-07	6.7197e-11	5.07e-08
Del Peak 41(19p13.3)	0 (0%)	356	0.13094	1	0.038528	1	0.0036238	1	0.18691	1	0.87966	1	0.067586	1	0.051162	1	0.024394	1	0.5818	1	0.016593	1	0.36743	1	0.19924	1
Del Peak 42(20p12.1)	0 (0%)	334	0.04837	1	0.2029	1	1.3778e-13	1.08e-10	0.00042817	0.266	0.32309	1	0.27812	1	0.00014971	0.0967	0.0067416	1	0.093065	1	0.10088	1	0.0058414	1	0.0012334	0.719
Del Peak 43(21q11.2)	0 (0%)	288	0.02638	1	0.038738	1	3.3671e-09	2.46e-06	0.01241	1	0.23579	1	0.45498	1	0.00089656	0.534	0.018699	1	0.92346	1	0.4701	1	0.0025616	1	0.039169	1
Del Peak 44(22q13.32)	0 (0%)	275	0.00089249	0.533	0.00023215	0.148	9.7641e-13	7.59e-10	0.0012329	0.719	0.30587	1	0.21849	1	0.0022174	1	0.0010638	0.628	0.39369	1	0.069036	1	8.8035e-05	0.0579	0.00048984	0.301