		Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		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	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	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(1p34.3)	125 (26%)	347	0.55259	1	0.38427	1	5.4121e-07	0.000372	0.0081638	1	0.16949	1	0.24291	1	0.023728	1	0.05909	1	0.2415	1	0.70826	1
Amp Peak  2(1p22.3)	124 (26%)	348	0.87647	1	1	1	4.7979e-07	0.000332	0.0025252	1	0.18268	1	0.39935	1	0.052725	1	0.007032	1	0.43425	1	0.10754	1
Amp Peak  3(1q21.3)	336 (71%)	136	0.36172	1	0.46484	1	5.6363e-06	0.00356	8.3208e-07	0.000565	0.45774	1	0.35692	1	0.20291	1	0.86582	1	0.020179	1	0.00011638	0.0658
Amp Peak  4(3q26.2)	157 (33%)	315	0.00026431	0.142	0.0033217	1	5.0092e-10	3.89e-07	5.5192e-08	4.06e-05	0.00063119	0.329	0.0030724	1	1.1146e-08	8.4e-06	3.4696e-07	0.000243	8.6573e-08	6.31e-05	9.7968e-08	7.12e-05
Amp Peak  5(4q12)	88 (19%)	384	0.70327	1	0.20593	1	6.061e-09	4.6e-06	0.031374	1	0.022089	1	0.026495	1	0.072455	1	0.0072767	1	0.022848	1	0.0048931	1
Amp Peak  6(5p15.33)	304 (64%)	168	0.87754	1	0.90125	1	2.7489e-21	2.24e-18	0.039672	1	0.056507	1	0.00079802	0.405	1.2915e-07	9.29e-05	0.0032374	1	0.0035662	1	0.0021311	1
Amp Peak  7(5p13.1)	280 (59%)	192	0.26327	1	0.8973	1	5.6698e-18	4.58e-15	0.013505	1	0.44264	1	0.018662	1	6.7585e-07	0.000461	0.074023	1	0.0016004	0.773	0.0054963	1
Amp Peak  8(5q35.1)	110 (23%)	362	0.086231	1	0.45314	1	0.0039139	1	8.7965e-07	0.000595	0.090912	1	0.2003	1	0.0013973	0.683	0.00015343	0.0858	0.0010829	0.543	0.023312	1
Amp Peak  9(6p21.1)	173 (37%)	299	0.67463	1	0.20593	1	0.00016824	0.0934	1.0457e-07	7.55e-05	0.080965	1	0.60902	1	0.029843	1	0.94007	1	0.14982	1	0.024231	1
Amp Peak 10(7p21.1)	261 (55%)	211	0.74305	1	1	1	6.9487e-20	5.65e-17	4.9289e-06	0.00313	0.0018446	0.884	0.0010365	0.523	7.9789e-08	5.83e-05	2.31e-08	1.73e-05	0.00020964	0.115	0.00023808	0.129
Amp Peak 11(7p11.2)	252 (53%)	220	1	1	1	1	1.2656e-18	1.02e-15	1.9966e-05	0.0118	0.0011393	0.568	0.00026343	0.142	2.092e-11	1.64e-08	1.3572e-09	1.05e-06	1.7154e-06	0.00113	4.7527e-07	0.000329
Amp Peak 12(7q31.2)	200 (42%)	272	0.48233	1	0.4288	1	2.8556e-09	2.19e-06	5.4754e-05	0.0315	0.2063	1	0.052026	1	1.0272e-09	7.94e-07	1.0315e-07	7.46e-05	0.0065887	1	0.00076006	0.388
Amp Peak 13(8p11.23)	126 (27%)	346	0.29434	1	0.10708	1	2.1702e-16	1.75e-13	8.2511e-06	0.00512	0.08441	1	0.026704	1	0.00033358	0.178	1.9349e-05	0.0116	0.0064601	1	0.012037	1
Amp Peak 14(8p11.21)	162 (34%)	310	0.25289	1	0.12373	1	3.4203e-21	2.78e-18	0.00012766	0.0719	0.014879	1	0.0053405	1	4.592e-07	0.000319	2.536e-07	0.00018	3.7377e-05	0.0218	0.00048699	0.258
Amp Peak 15(8q11.1)	214 (45%)	258	0.0047198	1	0.013376	1	3.0403e-22	2.49e-19	1.1385e-07	8.2e-05	0.034394	1	0.0046706	1	4.2118e-06	0.0027	2.9343e-05	0.0173	3.2585e-07	0.000228	4.9055e-06	0.00312
Amp Peak 16(8q24.21)	298 (63%)	174	0.034332	1	0.034084	1	8.4035e-20	6.82e-17	3.7208e-08	2.76e-05	0.15673	1	0.0016243	0.781	3.0624e-07	0.000215	1.3668e-05	0.00824	1.154e-05	0.00703	1.733e-05	0.0104
Amp Peak 17(10p15.1)	124 (26%)	348	0.023032	1	0.026244	1	4.1719e-06	0.00267	2.5854e-07	0.000183	0.0043432	1	0.034625	1	0.0002203	0.12	2.2556e-06	0.00148	0.00072403	0.372	0.00017533	0.097
Amp Peak 18(11q13.3)	157 (33%)	315	0.0011838	0.588	0.00073647	0.377	5.9442e-14	4.76e-11	1.9354e-05	0.0116	0.012667	1	0.0068904	1	3.1767e-05	0.0186	3.55e-07	0.000248	4.7723e-08	3.52e-05	8.564e-08	6.25e-05
Amp Peak 19(12p12.1)	163 (35%)	309	0.19753	1	0.032954	1	5.4536e-22	4.46e-19	4.137e-06	0.00266	0.034536	1	0.083445	1	9.6903e-07	0.000652	3.9606e-06	0.00255	1.0367e-05	0.00637	7.4593e-06	0.00465
Amp Peak 20(12q14.1)	148 (31%)	324	0.40563	1	0.30226	1	2.6454e-24	2.17e-21	1.4549e-07	0.000104	0.021505	1	0.0072217	1	2.6805e-07	0.000189	2.2578e-09	1.73e-06	2.6316e-08	1.96e-05	9.7928e-09	7.41e-06
Amp Peak 21(12q15)	151 (32%)	321	0.2214	1	0.10317	1	1.495e-21	1.22e-18	2.3526e-08	1.76e-05	0.014601	1	0.0047126	1	4.8578e-07	0.000336	2.1824e-07	0.000155	1.9228e-07	0.000137	3.9781e-09	3.04e-06
Amp Peak 22(13q33.3)	72 (15%)	400	0.17198	1	0.1048	1	0.43267	1	0.0028503	1	0.66321	1	0.29824	1	0.91695	1	0.2675	1	0.26954	1	0.098199	1
Amp Peak 23(14q13.3)	211 (45%)	261	0.56244	1	0.25359	1	2.034e-11	1.6e-08	4.728e-06	0.00302	0.0021261	1	0.012225	1	2.5468e-10	1.98e-07	5.2475e-05	0.0303	2.373e-06	0.00155	3.6048e-09	2.76e-06
Amp Peak 24(17q12)	208 (44%)	264	0.17898	1	0.048967	1	6.0833e-14	4.86e-11	8.2659e-07	0.000562	0.063813	1	0.00015951	0.0888	1.0515e-06	0.000706	6.7054e-08	4.93e-05	3.1893e-06	0.00207	1.0062e-07	7.3e-05
Amp Peak 25(17q23.1)	230 (49%)	242	0.081011	1	0.2078	1	2.2542e-14	1.81e-11	2.1073e-08	1.58e-05	0.001563	0.758	4.1217e-07	0.000287	1.842e-07	0.000132	2.9005e-10	2.26e-07	1.7066e-05	0.0102	5.3939e-06	0.00341
Amp Peak 26(18q11.2)	94 (20%)	378	0.195	1	0.015087	1	0.00091766	0.464	1.0692e-08	8.08e-06	0.043061	1	0.0008163	0.414	0.012129	1	0.0031493	1	0.002652	1	1.445e-06	0.000961
Amp Peak 27(19q12)	126 (27%)	346	0.05139	1	0.021931	1	1.2875e-08	9.68e-06	0.00030411	0.163	0.068451	1	0.079108	1	0.001046	0.526	4.5676e-05	0.0265	1.3577e-06	0.000904	5.1809e-07	0.000357
Amp Peak 28(20p11.21)	179 (38%)	293	0.061134	1	0.095316	1	1.1008e-05	0.00673	0.0070836	1	0.33779	1	0.037876	1	0.0029444	1	0.0047502	1	0.00023383	0.127	3.4447e-05	0.0201
Amp Peak 29(20q13.33)	225 (48%)	247	0.005592	1	0.030109	1	1.0299e-07	7.46e-05	0.0029575	1	0.0042556	1	0.0033453	1	1.149e-05	0.00701	0.0046718	1	1.0198e-05	0.00627	1.3381e-05	0.00808
Amp Peak 30(22q11.22)	81 (17%)	391	0.26763	1	0.16206	1	0.0014007	0.684	0.60075	1	0.023163	1	0.11945	1	0.4743	1	0.22163	1	0.060539	1	0.098212	1
Amp Peak 31(Xq28)	151 (32%)	321	0.30129	1	0.12324	1	3.0132e-10	2.34e-07	5.9382e-05	0.0341	0.024391	1	0.030781	1	0.00027201	0.146	0.0028744	1	0.026424	1	0.03379	1
Del Peak  1(1p36.13)	108 (23%)	364	0.79481	1	0.44137	1	1.5935e-06	0.00105	2.1754e-05	0.0129	0.43706	1	0.3635	1	5.3298e-05	0.0308	0.0001795	0.0991	0.00021545	0.118	0.0072377	1
Del Peak  2(1p13.3)	139 (29%)	333	0.84359	1	0.89631	1	9.9668e-07	0.00067	9.8087e-05	0.0557	0.62591	1	0.7171	1	0.00058094	0.305	0.0055676	1	0.035253	1	0.030442	1
Del Peak  3(1p13.1)	137 (29%)	335	0.70327	1	0.70728	1	1.9336e-06	0.00127	2.1957e-05	0.013	0.12392	1	0.5348	1	0.0012149	0.601	0.0066046	1	0.018689	1	0.028819	1
Del Peak  4(2q22.1)	47 (10%)	425	0.86935	1	0.77984	1	0.0023837	1	0.037851	1	0.030649	1	0.47148	1	0.05421	1	0.0024194	1	0.047638	1	0.12079	1
Del Peak  5(2q37.3)	63 (13%)	409	0.70327	1	0.20593	1	0.00033016	0.177	0.0016045	0.773	0.22002	1	0.15128	1	0.012546	1	0.0026718	1	0.0044777	1	0.0012957	0.639
Del Peak  6(3p21.31)	227 (48%)	245	0.13236	1	0.47785	1	7.5324e-06	0.00469	3.2149e-06	0.00208	0.041069	1	0.0073749	1	0.018864	1	3.352e-09	2.57e-06	8.432e-06	0.00522	3.0019e-06	0.00195
Del Peak  7(3q11.1)	133 (28%)	339	0.60921	1	0.60234	1	0.04139	1	0.02737	1	0.36648	1	0.29817	1	0.16817	1	0.027682	1	0.85621	1	0.72792	1
Del Peak  8(3q29)	129 (27%)	343	0.71049	1	0.60234	1	0.14505	1	8.1101e-05	0.0465	0.0051543	1	0.016843	1	8.8297e-05	0.0503	0.073158	1	0.63672	1	0.024893	1
Del Peak  9(4p16.3)	116 (25%)	356	0.59513	1	0.45337	1	1.5601e-05	0.00939	2.3123e-05	0.0136	0.023211	1	0.049931	1	9.4505e-07	0.000637	3.3381e-07	0.000234	6.1457e-07	0.000421	4.725e-08	3.49e-05
Del Peak 10(4q22.1)	142 (30%)	330	0.00021406	0.117	9.8935e-05	0.0561	3.6672e-07	0.000256	9.8921e-08	7.18e-05	0.15053	1	0.028597	1	5.4135e-07	0.000372	3.5238e-12	2.78e-09	5.1761e-07	0.000357	1.1411e-08	8.59e-06
Del Peak 11(4q35.1)	172 (36%)	300	0.0020383	0.964	0.0011805	0.588	7.479e-10	5.8e-07	1.3625e-11	1.07e-08	0.038078	1	0.00019589	0.108	2.0744e-11	1.63e-08	7.7097e-17	6.21e-14	1.0694e-08	8.08e-06	1.6695e-14	1.34e-11
Del Peak 12(5q11.2)	166 (35%)	306	0.25999	1	0.25359	1	1.9005e-12	1.51e-09	2.0243e-07	0.000144	0.0042592	1	0.011309	1	1.0073e-05	0.0062	7.7742e-08	5.69e-05	4.5433e-07	0.000316	7.4405e-08	5.46e-05
Del Peak 13(5q22.1)	189 (40%)	283	0.044656	1	0.05154	1	1.0824e-12	8.59e-10	2.5624e-08	1.91e-05	0.0017014	0.817	0.0037686	1	6.1821e-07	0.000423	2.4893e-08	1.86e-05	1.197e-09	9.24e-07	1.4533e-09	1.12e-06
Del Peak 14(6q12)	158 (33%)	314	0.5324	1	1	1	0.059835	1	0.024441	1	0.24274	1	0.15879	1	0.88178	1	0.92845	1	0.17176	1	0.0050001	1
Del Peak 15(6q22.31)	234 (50%)	238	0.54019	1	0.18678	1	0.022002	1	1.2902e-06	0.000861	0.30802	1	0.054436	1	0.054969	1	0.98092	1	0.37353	1	0.52676	1
Del Peak 16(6q26)	238 (50%)	234	0.36839	1	0.27624	1	0.011891	1	8.6432e-05	0.0494	0.16788	1	0.0094429	1	0.22644	1	0.63505	1	0.17973	1	0.10647	1
Del Peak 17(8p23.2)	229 (49%)	243	0.0052612	1	0.0038227	1	7.67e-17	6.19e-14	9.1653e-05	0.0522	0.017998	1	0.00035354	0.188	1.0516e-05	0.00644	1.829e-07	0.000131	0.0042512	1	1.6683e-06	0.0011
Del Peak 18(8p12)	205 (43%)	267	0.10598	1	0.12046	1	1.826e-15	1.47e-12	1.9517e-05	0.0116	0.042395	1	0.022233	1	0.00026165	0.141	7.8563e-06	0.00488	0.004237	1	7.8027e-06	0.00485
Del Peak 19(8p11.21)	107 (23%)	365	0.79481	1	0.50418	1	2.7927e-11	2.19e-08	0.017983	1	0.72109	1	0.31842	1	0.23409	1	0.1012	1	0.34046	1	0.041259	1
Del Peak 20(8q11.21)	59 (12%)	413	1	1	1	1	0.79583	1	0.062832	1	0.53688	1	0.67602	1	0.86067	1	0.48826	1	0.25953	1	0.18323	1
Del Peak 21(9p23)	258 (55%)	214	0.52069	1	0.90125	1	3.2175e-07	0.000226	0.58236	1	0.61967	1	0.59796	1	0.057228	1	0.022177	1	0.469	1	0.15328	1
Del Peak 22(9p21.3)	264 (56%)	208	0.52069	1	0.90125	1	1.7863e-06	0.00118	0.52113	1	0.328	1	0.28761	1	0.0045675	1	0.012981	1	0.8263	1	0.20431	1
Del Peak 23(9q21.11)	231 (49%)	241	0.033497	1	0.5971	1	1.491e-07	0.000107	5.0827e-05	0.0294	0.072606	1	0.011237	1	0.0056694	1	9.4131e-06	0.00581	0.0049495	1	1.2013e-05	0.00728
Del Peak 24(10p15.3)	113 (24%)	359	1	1	1	1	0.00073507	0.377	0.00061385	0.321	0.5041	1	0.56009	1	0.0043767	1	0.47558	1	0.0020016	0.949	0.022738	1
Del Peak 25(10q26.3)	130 (28%)	342	0.7482	1	0.28297	1	4.781e-06	0.00305	0.00025572	0.138	0.002678	1	0.023698	1	0.00065289	0.338	0.017081	1	0.019629	1	0.0060133	1
Del Peak 26(11p15.5)	126 (27%)	346	0.26763	1	0.057583	1	4.0351e-06	0.00259	0.012035	1	0.0076669	1	0.0020423	0.964	0.0046339	1	5.2987e-06	0.00335	0.0077271	1	0.0021509	1
Del Peak 27(11q23.2)	109 (23%)	363	0.43314	1	0.45337	1	0.00012159	0.0686	0.018434	1	0.0090008	1	0.0026588	1	0.00051771	0.273	0.0019755	0.938	0.016493	1	0.12979	1
Del Peak 28(11q25)	105 (22%)	367	0.1081	1	0.07995	1	0.0014903	0.724	0.045403	1	0.0012028	0.597	0.0064444	1	0.00046366	0.246	0.0059601	1	0.11371	1	0.4325	1
Del Peak 29(12p13.2)	126 (27%)	346	0.25541	1	0.71867	1	0.00017186	0.0952	7.2125e-07	0.000491	0.077418	1	0.020954	1	0.024097	1	0.092832	1	0.98742	1	0.96805	1
Del Peak 30(12q12)	90 (19%)	382	0.59734	1	0.64431	1	1.1922e-05	0.00724	0.020959	1	0.1068	1	0.015755	1	0.039886	1	0.18367	1	0.1993	1	0.022216	1
Del Peak 31(12q24.33)	115 (24%)	357	0.06298	1	0.039644	1	6.5364e-06	0.00409	0.0019493	0.928	0.022299	1	0.0032834	1	0.0099537	1	0.0010362	0.523	0.0040486	1	5.8387e-06	0.00367
Del Peak 32(13q12.11)	265 (56%)	207	0.0011346	0.567	0.013376	1	1.378e-19	1.12e-16	0.00060839	0.319	0.0018816	0.898	1.4854e-06	0.000985	2.3601e-06	0.00154	3.9936e-09	3.05e-06	7.3532e-06	0.0046	8.6581e-07	0.000586
Del Peak 33(13q12.13)	266 (56%)	206	0.0086219	1	0.021834	1	1.0462e-19	8.48e-17	0.00010727	0.0607	0.00052444	0.276	6.6845e-07	0.000457	4.8006e-06	0.00306	8.61e-09	6.53e-06	3.207e-05	0.0188	3.5199e-06	0.00227
Del Peak 34(13q14.2)	256 (54%)	216	0.0086219	1	0.021834	1	7.6139e-22	6.22e-19	0.00078257	0.399	0.0006466	0.336	1.0418e-05	0.00639	8.8148e-07	0.000595	4.0669e-08	3.01e-05	3.2438e-05	0.0189	1.2615e-06	0.000844
Del Peak 35(13q34)	217 (46%)	255	0.03556	1	0.044535	1	2.2047e-15	1.77e-12	0.050765	1	0.0035915	1	0.0007897	0.402	3.8832e-05	0.0226	5.097e-06	0.00323	0.0014484	0.705	0.00024772	0.134
Del Peak 36(14q32.33)	140 (30%)	332	0.70327	1	0.30226	1	0.00013486	0.0757	0.52145	1	0.16025	1	0.062692	1	0.38885	1	0.075059	1	0.019721	1	0.18572	1
Del Peak 37(15q11.2)	239 (51%)	233	0.1678	1	0.15747	1	1.8115e-10	1.41e-07	0.00019302	0.106	0.09283	1	0.00016097	0.0895	1.8331e-09	1.41e-06	1.0545e-07	7.6e-05	0.0018751	0.896	0.00015628	0.0872
Del Peak 38(16q23.1)	160 (34%)	312	0.058714	1	0.31155	1	2.5866e-07	0.000183	0.00045989	0.244	0.00069818	0.36	0.017432	1	2.7384e-07	0.000193	3.6572e-08	2.72e-05	0.0064378	1	0.0039631	1
Del Peak 39(16q24.3)	178 (38%)	294	0.16033	1	0.63133	1	1.6596e-06	0.0011	0.0028187	1	0.018589	1	0.079995	1	2.1246e-06	0.00139	3.2339e-06	0.00209	0.018422	1	0.0050916	1
Del Peak 40(17p13.3)	252 (53%)	220	0.38561	1	0.6094	1	2.7784e-13	2.22e-10	7.5644e-08	5.54e-05	0.033388	1	0.0015801	0.765	6.8306e-05	0.0392	6.3834e-06	0.004	0.0054147	1	0.0035187	1
Del Peak 41(18q21.32)	233 (49%)	239	0.11499	1	0.22677	1	8.5809e-10	6.64e-07	0.050772	1	0.001327	0.652	0.0022974	1	0.0045521	1	0.010898	1	0.040914	1	0.021725	1
Del Peak 42(18q23)	228 (48%)	244	0.029007	1	0.096811	1	9.3067e-13	7.41e-10	0.020478	1	0.0039452	1	0.0013536	0.663	0.00037994	0.202	0.00062836	0.328	0.013313	1	0.0027374	1
Del Peak 43(19p13.3)	252 (53%)	220	0.57194	1	0.66451	1	2.5955e-12	2.05e-09	2.3524e-07	0.000167	0.56376	1	0.30589	1	2.1504e-06	0.00141	1.9036e-08	1.43e-05	2.4011e-06	0.00156	9.3618e-06	0.00579
Del Peak 44(19p13.2)	246 (52%)	226	0.69366	1	1	1	1.2528e-11	9.88e-09	2.2226e-08	1.66e-05	0.37799	1	0.18657	1	1.0646e-06	0.000713	1.2784e-06	0.000854	1.4718e-06	0.000977	4.9886e-07	0.000344
Del Peak 45(19p12)	199 (42%)	273	0.51884	1	0.65766	1	9.722e-13	7.73e-10	1.7072e-05	0.0102	0.60272	1	0.26611	1	8.2377e-05	0.0471	5.8837e-06	0.00369	2.3419e-05	0.0138	0.00020036	0.11
Del Peak 46(19q13.33)	174 (37%)	298	0.27231	1	0.38339	1	2.0218e-07	0.000144	0.0029212	1	0.08193	1	0.20781	1	0.078211	1	0.0094452	1	0.00013692	0.0767	1.1716e-05	0.00712
Del Peak 47(20p13)	121 (26%)	351	0.10512	1	0.26812	1	2.3992e-06	0.00156	0.0006553	0.339	0.0055231	1	0.0010629	0.534	0.014565	1	0.013482	1	0.72164	1	0.6889	1
Del Peak 48(21q11.2)	157 (33%)	315	0.060411	1	0.050147	1	3.1031e-11	2.43e-08	0.00013079	0.0735	0.0062417	1	0.0046886	1	8.8345e-08	6.43e-05	4.6166e-09	3.52e-06	1.9833e-05	0.0118	5.827e-06	0.00367
Del Peak 49(21q21.3)	153 (32%)	319	0.028769	1	0.032954	1	9.4524e-11	7.39e-08	1.2844e-05	0.00777	0.00052511	0.276	0.00065044	0.338	1.1882e-10	9.28e-08	2.081e-12	1.65e-09	2.9756e-05	0.0175	8.3751e-07	0.000568
Del Peak 50(22q13.32)	224 (47%)	248	0.069155	1	0.087079	1	6.175e-13	4.92e-10	4.5678e-08	3.38e-05	0.0086263	1	0.017135	1	5.0837e-09	3.86e-06	4.8806e-09	3.71e-06	1.6651e-05	0.01	3.7647e-08	2.79e-05
Del Peak 51(Xp22.2)	137 (29%)	335	0.69055	1	0.89631	1	1.9902e-07	0.000142	0.0013094	0.644	0.08854	1	0.028366	1	0.00066756	0.344	0.0012383	0.612	0.54377	1	0.51373	1
