Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		MIR_CNMF		MIR_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		MRNASEQ_CNMF		MRNASEQ_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
Amp Peak  1(1p36.21)	0 (0%)	474	0.39873	1	0.83892	1	0.17861	1	0.007401	1	1.6333e-08	1.09e-05	0.47272	1	0.048018	1	0.053126	1	0.096667	1	0.080751	1
Amp Peak  2(1q32.1)	0 (0%)	410	0.91002	1	0.54488	1	0.23933	1	0.097026	1	1.7641e-08	1.17e-05	0.62309	1	0.84023	1	0.33494	1	0.47533	1	0.094976	1
Amp Peak  3(1q44)	0 (0%)	467	0.15562	1	0.73888	1	0.40262	1	0.44141	1	8.3221e-09	5.55e-06	0.93138	1	0.42576	1	0.17666	1	0.77495	1	0.43905	1
Amp Peak  4(2p24.3)	0 (0%)	517	0.026018	1	0.037202	1	0.74778	1	0.38452	1	0.00023794	0.139	0.057402	1	0.20875	1	0.11216	1	0.92959	1	1	1
Amp Peak  5(3q26.33)	0 (0%)	455	0.015683	1	0.13954	1	0.90035	1	0.7237	1	3.5604e-06	0.00225	0.0045181	1	0.068497	1	0.35834	1	0.54612	1	0.32124	1
Amp Peak  6(4p16.3)	0 (0%)	517	0.34786	1	0.85174	1	0.82766	1	0.4027	1	0.46549	1	0.52885	1	0.63621	1	0.52964	1	0.94113	1	0.75905	1
Amp Peak  7(4q12)	0 (0%)	459	0.0018461	1	0.00011539	0.0696	0.47905	1	0.052749	1	4.309e-07	0.000279	0.38388	1	0.27239	1	0.6641	1	0.048662	1	0.40346	1
Amp Peak  8(7p11.2)	0 (0%)	69	3.6167e-11	2.46e-08	3.1832e-11	2.17e-08	3.4793e-07	0.000226	2.3446e-13	1.6e-10	1.23e-20	8.56e-18	1.3224e-06	0.000844	8.6159e-06	0.00538	5.8467e-05	0.0356	1.1062e-05	0.00686	0.00035718	0.208
Amp Peak  9(7q11.21)	0 (0%)	111	9.8513e-06	0.00614	4.8845e-07	0.000315	4.6898e-06	0.00295	7.422e-09	4.96e-06	1.7172e-09	1.15e-06	0.0058471	1	0.0041699	1	0.33614	1	0.0039995	1	0.0014258	0.801
Amp Peak 10(7q21.2)	0 (0%)	95	1.0226e-05	0.00635	4.5358e-05	0.0278	0.010678	1	1.9215e-06	0.00122	1.06e-10	7.19e-08	0.0036328	1	0.017878	1	0.096351	1	0.061751	1	0.0047445	1
Amp Peak 11(7q31.2)	0 (0%)	103	0.00097776	0.559	0.0001304	0.0782	0.0020723	1	0.00014384	0.0859	2.2065e-07	0.000144	0.010708	1	0.10315	1	0.18275	1	0.25603	1	0.0035488	1
Amp Peak 12(7q36.1)	0 (0%)	98	4.6368e-05	0.0283	0.00067062	0.388	0.058961	1	4.5897e-05	0.0281	1.4149e-05	0.00873	0.0036328	1	0.22665	1	0.24851	1	0.029153	1	0.0046732	1
Amp Peak 13(8q24.21)	0 (0%)	499	1.6918e-07	0.000111	0.00018312	0.108	0.039655	1	8.3446e-05	0.0506	3.5071e-06	0.00222	0.069904	1	0.10389	1	0.00574	1	0.1314	1	0.34499	1
Amp Peak 14(11p13)	0 (0%)	537	0.71774	1	0.5875	1	0.32356	1	0.76882	1	0.45166	1	0.18073	1	0.26474	1	0.1124	1	0.60213	1	1	1
Amp Peak 15(12p13.32)	0 (0%)	482	0.46827	1	0.87514	1	0.71588	1	0.8116	1	1.9604e-05	0.0121	0.27795	1	0.4105	1	0.5525	1	0.44232	1	0.15115	1
Amp Peak 16(12q14.1)	0 (0%)	432	0.065067	1	0.39653	1	0.30885	1	0.12133	1	1.7047e-09	1.14e-06	0.52461	1	0.045199	1	0.33818	1	0.033479	1	0.054286	1
Amp Peak 17(12q15)	0 (0%)	471	0.46177	1	0.624	1	0.75118	1	0.51534	1	2.8312e-07	0.000184	0.563	1	0.27272	1	0.64947	1	0.33302	1	0.34949	1
Amp Peak 18(13q34)	0 (0%)	533	0.16943	1	0.69103	1	0.17	1	0.11474	1	0.013951	1	NA	NA	0.067705	1	0.18637	1	0.36772	1	1	1
Amp Peak 19(14q32.33)	0 (0%)	529	0.36839	1	0.4342	1	0.021052	1	0.94256	1	0.7935	1	0.9029	1	0.039435	1	0.27529	1	0.04293	1	0.88374	1
Amp Peak 20(17p13.2)	0 (0%)	518	0.0031187	1	0.0045837	1	0.075141	1	0.22116	1	0.0069571	1	0.86457	1	0.054502	1	0.63009	1	0.6154	1	0.28089	1
Amp Peak 21(17q25.1)	0 (0%)	485	0.014096	1	0.23155	1	0.40211	1	0.70871	1	5.9807e-05	0.0364	0.93662	1	0.12965	1	0.29225	1	1	1	0.41718	1
Amp Peak 22(19p13.2)	0 (0%)	323	2.3321e-12	1.59e-09	2.5588e-07	0.000167	0.24827	1	0.0082518	1	1.8589e-20	1.29e-17	0.016985	1	0.011603	1	1.3206e-05	0.00816	0.16383	1	0.019921	1
Amp Peak 23(19q12)	0 (0%)	360	1.2901e-10	8.73e-08	3.9671e-08	2.63e-05	0.21792	1	0.0044907	1	1.5008e-15	1.03e-12	0.055298	1	0.017437	1	0.00021327	0.125	0.082258	1	0.043799	1
Amp Peak 24(21q21.1)	0 (0%)	496	0.0042888	1	0.071581	1	0.10796	1	0.079617	1	0.00077057	0.445	0.87875	1	0.66864	1	0.82963	1	0.096667	1	0.066317	1
Del Peak  1(1p36.32)	0 (0%)	464	0.79736	1	0.041779	1	0.5031	1	0.23348	1	0.61356	1	0.33887	1	0.54481	1	0.56127	1	0.25154	1	0.043727	1
Del Peak  2(1p36.23)	0 (0%)	428	0.13337	1	0.10738	1	0.36941	1	0.33027	1	0.0011817	0.671	0.30609	1	0.27905	1	0.7246	1	0.063239	1	0.10256	1
Del Peak  3(1p32.3)	0 (0%)	503	0.24772	1	0.29904	1	0.96958	1	0.87072	1	0.097256	1	0.8219	1	0.70568	1	0.63009	1	0.80326	1	0.15851	1
Del Peak  4(1p22.1)	0 (0%)	516	0.83309	1	0.97876	1	0.76148	1	0.22798	1	0.17561	1	0.5794	1	0.88804	1	0.37191	1	1	1	0.014951	1
Del Peak  5(1q42.11)	0 (0%)	516	0.30917	1	0.40872	1	0.40243	1	0.67875	1	0.6191	1	0.41201	1	0.16138	1	0.0028605	1	0.68571	1	0.64674	1
Del Peak  6(1q44)	0 (0%)	531	0.72861	1	0.55471	1	0.68467	1	0.31498	1	0.61181	1	0.18719	1	0.79891	1	0.33523	1	0.53861	1	0.90362	1
Del Peak  7(2q22.1)	0 (0%)	519	0.0017602	0.984	0.21345	1	0.43667	1	0.065113	1	1.6039e-06	0.00102	0.0033757	1	0.47773	1	0.85985	1	0.18131	1	0.21027	1
Del Peak  8(2q37.1)	0 (0%)	507	0.060135	1	0.022959	1	0.23888	1	0.00096981	0.556	0.0068428	1	0.026489	1	0.64712	1	0.72024	1	0.18131	1	0.68736	1
Del Peak  9(3p21.1)	0 (0%)	511	0.2308	1	0.60303	1	0.91116	1	0.1043	1	0.00018654	0.11	0.25162	1	0.13407	1	0.85502	1	0.46101	1	0.095907	1
Del Peak 10(3q13.31)	0 (0%)	508	0.56638	1	0.86538	1	0.98007	1	0.70784	1	5.6848e-06	0.00357	0.40522	1	0.86951	1	0.7973	1	1	1	0.054664	1
Del Peak 11(3q22.1)	0 (0%)	508	0.82901	1	0.25226	1	0.61682	1	0.3777	1	0.00023454	0.138	0.19764	1	0.85867	1	0.89192	1	1	1	0.103	1
Del Peak 12(3q29)	0 (0%)	499	0.067362	1	0.19133	1	0.61162	1	0.98373	1	0.0068314	1	0.25863	1	0.37875	1	0.68426	1	0.95369	1	0.73057	1
Del Peak 13(4p16.3)	0 (0%)	485	0.017583	1	0.0695	1	0.34963	1	0.17784	1	0.058245	1	1	1	0.83198	1	0.70968	1	0.87243	1	0.818	1
Del Peak 14(4q34.3)	0 (0%)	473	0.0030935	1	0.01586	1	0.088006	1	0.051942	1	0.00015259	0.0909	0.15224	1	0.096666	1	0.28297	1	0.12473	1	0.96047	1
Del Peak 15(5q35.3)	0 (0%)	509	4.8892e-06	0.00308	0.0021579	1	0.0015578	0.872	2.2734e-05	0.014	5.6874e-05	0.0347	0.0073184	1	0.84022	1	0.40714	1	0.20834	1	0.84127	1
Del Peak 16(6q22.31)	0 (0%)	410	0.79704	1	0.95977	1	0.55412	1	0.029047	1	9.8261e-11	6.67e-08	0.31118	1	0.20413	1	0.19242	1	0.79618	1	0.42568	1
Del Peak 17(6q26)	0 (0%)	390	0.76777	1	0.23642	1	0.86611	1	0.12458	1	1.0804e-06	0.000693	0.61676	1	0.016621	1	0.011075	1	0.76149	1	0.29159	1
Del Peak 18(8p23.2)	0 (0%)	496	0.51749	1	0.13029	1	0.25599	1	0.35505	1	0.038237	1	0.89155	1	0.95058	1	0.94578	1	0.6198	1	0.15857	1
Del Peak 19(9p21.3)	0 (0%)	155	6.3551e-06	0.00398	0.00011441	0.0691	0.55421	1	0.0015261	0.856	3.77e-10	2.54e-07	0.041717	1	0.087829	1	0.018195	1	0.027386	1	0.0031866	1
Del Peak 20(9q34.2)	0 (0%)	492	0.19011	1	0.116	1	0.83957	1	0.40063	1	0.29163	1	0.65183	1	0.11278	1	0.24121	1	0.44232	1	0.056927	1
Del Peak 21(10p15.3)	0 (0%)	106	1.643e-06	0.00104	0.00016645	0.0989	0.013341	1	1.8478e-07	0.000121	1.4534e-14	9.97e-12	0.034978	1	0.0052254	1	0.027846	1	0.01469	1	0.40989	1
Del Peak 22(10p13)	0 (0%)	104	3.1693e-07	0.000206	9.9414e-06	0.00618	0.0028195	1	1.28e-07	8.44e-05	1.1124e-15	7.68e-13	0.034978	1	0.00013218	0.0792	0.0045757	1	0.088463	1	0.40989	1
Del Peak 23(10p11.23)	0 (0%)	100	2.9375e-10	1.98e-07	9.5415e-07	0.000613	0.0005396	0.314	1.2577e-08	8.38e-06	9.8539e-17	6.84e-14	0.026965	1	0.00078609	0.453	0.017517	1	0.044323	1	0.083993	1
Del Peak 24(10q23.31)	0 (0%)	64	4.7721e-07	0.000308	0.00012386	0.0745	0.007814	1	7.2286e-05	0.0439	1.1895e-16	8.24e-14	0.1956	1	0.010462	1	0.13133	1	0.3692	1	0.15968	1
Del Peak 25(10q26.3)	0 (0%)	63	1.1568e-07	7.63e-05	0.00014239	0.0852	0.077666	1	0.00043043	0.251	1.8918e-13	1.3e-10	0.014516	1	0.11739	1	0.07612	1	0.25023	1	0.37806	1
Del Peak 26(11p15.5)	0 (0%)	436	3.8983e-10	2.62e-07	1.1514e-06	0.000737	0.22993	1	1.5029e-06	0.000956	2.0981e-15	1.44e-12	0.00030874	0.181	0.26789	1	0.093788	1	0.0011946	0.677	0.26273	1
Del Peak 27(11p11.2)	0 (0%)	462	5.4667e-08	3.62e-05	0.00019208	0.113	0.92055	1	2.4387e-05	0.015	2.1813e-13	1.49e-10	0.00070101	0.405	0.82528	1	0.5761	1	0.051011	1	0.70645	1
Del Peak 28(11q14.1)	0 (0%)	468	2.6469e-07	0.000173	0.047981	1	0.93635	1	0.0078286	1	1.3012e-16	9e-14	0.25863	1	0.55152	1	0.49965	1	0.090808	1	0.79283	1
Del Peak 29(12p13.1)	0 (0%)	488	0.011179	1	0.013032	1	0.12914	1	0.055956	1	0.077048	1	0.66946	1	0.87506	1	0.52221	1	0.94444	1	0.5664	1
Del Peak 30(12q12)	0 (0%)	487	0.0083104	1	0.0029625	1	0.18792	1	0.0064012	1	0.00017466	0.103	0.29929	1	0.13734	1	0.48909	1	0.94113	1	0.8683	1
Del Peak 31(12q15)	0 (0%)	486	0.0001237	0.0745	0.00056334	0.327	0.24664	1	0.046702	1	5.3978e-07	0.000347	0.51389	1	0.52705	1	0.72395	1	0.58542	1	0.9431	1
Del Peak 32(13q14.2)	0 (0%)	327	1.6207e-07	0.000106	0.00016357	0.0973	0.10858	1	0.080008	1	1.1047e-15	7.63e-13	0.032811	1	0.79446	1	0.10731	1	0.092066	1	0.19282	1
Del Peak 33(14q13.1)	0 (0%)	388	8.8402e-06	0.00552	0.012927	1	0.618	1	0.42115	1	3.3563e-30	2.34e-27	0.10807	1	0.57695	1	0.36743	1	0.29063	1	0.74226	1
Del Peak 34(14q24.2)	0 (0%)	393	1.6113e-07	0.000106	0.0051629	1	0.065571	1	0.87103	1	7.6795e-39	5.36e-36	0.050278	1	0.45717	1	0.27508	1	0.049695	1	0.1423	1
Del Peak 35(14q31.3)	0 (0%)	407	6.251e-09	4.18e-06	0.005551	1	0.42159	1	0.8353	1	8.4204e-41	5.89e-38	0.0099559	1	0.51532	1	0.10803	1	0.22195	1	0.084579	1
Del Peak 36(15q14)	0 (0%)	412	1.4644e-06	0.000933	7.3855e-08	4.88e-05	0.0097737	1	1.3143e-06	0.00084	4.0889e-07	0.000265	0.0023069	1	0.069929	1	0.024056	1	0.00035153	0.205	0.15823	1
Del Peak 37(16p12.2)	0 (0%)	474	0.38881	1	0.24813	1	0.06167	1	0.57751	1	0.094213	1	0.2431	1	0.40497	1	0.53544	1	0.44344	1	0.42161	1
Del Peak 38(16q23.3)	0 (0%)	468	0.036414	1	0.6102	1	0.75171	1	1	1	0.0044967	1	0.75202	1	0.038497	1	0.0802	1	0.52795	1	0.46835	1
Del Peak 39(17p13.2)	0 (0%)	478	0.0012127	0.684	0.86852	1	0.9262	1	0.79959	1	2e-10	1.35e-07	0.37599	1	0.63243	1	0.48732	1	0.5875	1	0.26054	1
Del Peak 40(17p13.1)	0 (0%)	468	0.0001671	0.0991	0.4533	1	0.87993	1	0.60542	1	1.4187e-15	9.77e-13	0.13317	1	0.7093	1	0.44734	1	0.6447	1	0.2946	1
Del Peak 41(17q11.2)	0 (0%)	492	7.4349e-06	0.00465	0.00086219	0.495	0.0019169	1	0.0095928	1	5.3222e-07	0.000343	0.49617	1	0.0059434	1	0.0051207	1	0.53901	1	0.10378	1
Del Peak 42(18q22.3)	0 (0%)	484	0.19236	1	0.20453	1	0.49848	1	0.4205	1	0.0020303	1	0.09281	1	0.031513	1	0.0013371	0.753	0.15879	1	0.69744	1
Del Peak 43(19q13.41)	0 (0%)	464	0.0010278	0.587	1.2285e-05	0.0076	0.0017986	1	0.0010812	0.616	0.0012043	0.68	0.77833	1	0.040129	1	0.57385	1	0.019988	1	0.094064	1
Del Peak 44(21q22.3)	0 (0%)	504	0.0011757	0.669	0.016819	1	0.00010776	0.0652	0.0023862	1	0.14038	1	0.068455	1	0.38965	1	0.1207	1	1	1	0.11926	1
Del Peak 45(22q13.32)	0 (0%)	355	0.74893	1	0.30504	1	0.019396	1	0.087987	1	0.00080426	0.462	0.7739	1	0.91464	1	0.94099	1	0.072121	1	0.92299	1
Del Peak 46(Xp22.2)	0 (0%)	440	0.004309	1	0.0011944	0.677	0.15546	1	0.20925	1	6.6031e-10	4.44e-07	0.0095061	1	0.60521	1	0.25339	1	0.33673	1	0.64363	1