		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	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(1p34.2)	0 (0%)	334	0.027997	1	0.48064	1	0.00089229	0.621	0.64436	1	0.36254	1	0.61878	1	0.024164	1	0.057238	1	0.087982	1	0.66932	1
Amp Peak  2(1q21.2)	0 (0%)	192	0.041886	1	0.0061823	1	1.9829e-07	0.000162	0.0011299	0.777	0.16014	1	0.049238	1	1.8709e-05	0.0146	4.1074e-05	0.0316	0.039291	1	0.0018052	1
Amp Peak  3(2p16.1)	0 (0%)	181	0.00030485	0.222	0.0016452	1	3.1822e-13	2.66e-10	5.8257e-05	0.0443	0.95017	1	0.6427	1	1.8804e-05	0.0146	7.5521e-05	0.0573	0.88705	1	0.017101	1
Amp Peak  4(2q31.2)	0 (0%)	265	0.020695	1	0.00094798	0.659	6.5211e-06	0.00517	1.985e-07	0.000162	0.72406	1	0.88737	1	0.00019414	0.144	0.00024752	0.182	0.3702	1	0.51141	1
Amp Peak  5(3p11.1)	0 (0%)	317	0.074773	1	0.84409	1	0.74389	1	0.95744	1	0.21385	1	0.0012981	0.887	0.23901	1	0.54119	1	0.8452	1	0.60157	1
Amp Peak  6(3q26.33)	0 (0%)	33	0.00042663	0.306	1.7146e-05	0.0134	7.0488e-12	5.86e-09	6.6908e-07	0.000541	0.19288	1	0.077644	1	1.255e-06	0.00101	5.0381e-05	0.0384	0.14828	1	3.0658e-06	0.00245
Amp Peak  7(4q12)	0 (0%)	304	0.67906	1	0.75873	1	0.00035284	0.255	0.12421	1	0.3558	1	0.13102	1	0.22096	1	0.10577	1	0.17772	1	0.39261	1
Amp Peak  8(5p15.33)	0 (0%)	83	0.85286	1	0.86716	1	1.0671e-05	0.00841	0.012895	1	0.40531	1	0.50196	1	0.26226	1	0.48743	1	0.45018	1	0.73544	1
Amp Peak  9(5p12)	0 (0%)	136	0.91917	1	0.51401	1	7.5793e-10	6.28e-07	0.0087387	1	0.5626	1	1	1	0.22451	1	0.20982	1	0.79153	1	0.23553	1
Amp Peak 10(6p12.1)	0 (0%)	267	0.55703	1	0.38314	1	0.0018014	1	0.16779	1	0.96213	1	0.30014	1	0.10601	1	0.52176	1	0.27034	1	0.26703	1
Amp Peak 11(6q12)	0 (0%)	280	1	1	0.87303	1	0.0011385	0.781	0.045379	1	0.34826	1	0.40804	1	0.19028	1	0.42016	1	0.19795	1	0.078417	1
Amp Peak 12(7p11.2)	0 (0%)	204	0.18606	1	0.09391	1	0.00097005	0.669	0.0036616	1	0.68745	1	0.80108	1	0.027313	1	0.0005424	0.386	0.63408	1	0.064445	1
Amp Peak 13(7q21.2)	0 (0%)	188	0.10132	1	0.24997	1	5.3382e-10	4.43e-07	1.2724e-05	0.00999	0.057338	1	0.3893	1	0.0006615	0.468	0.00018506	0.138	0.035824	1	0.052721	1
Amp Peak 14(8p11.23)	0 (0%)	213	0.0081177	1	0.16822	1	0.02545	1	0.035179	1	0.1916	1	0.098781	1	0.36341	1	0.5366	1	0.13548	1	0.37147	1
Amp Peak 15(8q24.21)	0 (0%)	117	0.8715	1	0.64417	1	0.55402	1	0.96883	1	0.91657	1	0.70842	1	0.99485	1	0.50901	1	0.86567	1	0.49675	1
Amp Peak 16(9p24.1)	0 (0%)	324	0.37518	1	0.029533	1	0.00035369	0.255	0.17742	1	0.0016979	1	0.0050133	1	0.006989	1	0.00076736	0.539	0.11675	1	0.016656	1
Amp Peak 17(9p13.3)	0 (0%)	288	0.16996	1	0.37287	1	0.043013	1	0.038723	1	0.070796	1	0.0089805	1	0.011366	1	0.0014888	1	0.82279	1	0.55455	1
Amp Peak 18(11q13.3)	0 (0%)	254	0.06969	1	0.030551	1	0.0048628	1	0.00051779	0.37	0.19004	1	0.035798	1	0.012289	1	0.12379	1	0.045422	1	0.006693	1
Amp Peak 19(12p13.33)	0 (0%)	199	0.010156	1	0.057062	1	1.2263e-05	0.00965	0.00049216	0.352	0.31262	1	0.72944	1	0.00041818	0.301	0.01028	1	0.83672	1	0.21832	1
Amp Peak 20(12q15)	0 (0%)	253	0.31238	1	0.5273	1	0.0053063	1	0.0013616	0.927	0.76381	1	0.52436	1	0.058838	1	0.080687	1	1	1	0.43736	1
Amp Peak 21(13q34)	0 (0%)	326	0.96435	1	0.048907	1	0.038423	1	0.18194	1	0.87024	1	0.083384	1	0.57829	1	0.80869	1	0.15522	1	0.38131	1
Amp Peak 22(14q13.3)	0 (0%)	276	0.34486	1	0.24581	1	0.12677	1	0.096921	1	0.57003	1	0.0082634	1	0.067544	1	0.016404	1	0.0031957	1	0.53228	1
Amp Peak 23(15q26.3)	0 (0%)	258	0.15118	1	0.02098	1	1.5595e-05	0.0122	9.3889e-06	0.00741	0.35379	1	0.01826	1	0.00033367	0.242	0.0025266	1	0.015863	1	0.0012251	0.838
Amp Peak 24(17q25.1)	0 (0%)	206	0.017661	1	0.060794	1	6.01e-07	0.000487	2.169e-05	0.0168	0.26742	1	0.29175	1	0.0038965	1	0.00016477	0.123	0.79633	1	0.078334	1
Amp Peak 25(18p11.32)	0 (0%)	260	0.095767	1	0.0098077	1	2.4815e-05	0.0192	0.00012602	0.0949	0.23136	1	0.4508	1	0.13123	1	0.040221	1	0.89834	1	0.020937	1
Amp Peak 26(18q11.2)	0 (0%)	271	0.00045553	0.327	0.0022679	1	1.3658e-05	0.0107	0.00034191	0.248	0.27235	1	0.74038	1	0.00084074	0.587	5.0385e-06	0.00401	0.40198	1	0.0053858	1
Amp Peak 27(19q12)	0 (0%)	230	0.45483	1	0.24902	1	4.0708e-06	0.00324	0.1821	1	0.23063	1	0.028698	1	0.0082289	1	0.12997	1	0.91317	1	0.37004	1
Amp Peak 28(19q13.2)	0 (0%)	227	0.71537	1	1	1	0.00019499	0.144	0.070833	1	0.35617	1	0.11719	1	0.10567	1	0.084976	1	0.77013	1	0.24639	1
Amp Peak 29(20p12.2)	0 (0%)	186	0.00098685	0.68	0.0042983	1	8.924e-08	7.3e-05	0.00016098	0.121	0.96651	1	0.22098	1	0.040833	1	0.0027288	1	0.25882	1	0.094536	1
Amp Peak 30(20q11.21)	0 (0%)	168	0.99122	1	0.84394	1	0.00051999	0.371	0.013224	1	0.66891	1	0.5881	1	0.58481	1	0.75667	1	0.94128	1	0.37333	1
Amp Peak 31(22q11.21)	0 (0%)	198	0.11066	1	0.12309	1	0.00029562	0.216	0.00047739	0.342	0.88793	1	0.34914	1	0.012165	1	0.046272	1	0.75068	1	0.026984	1
Amp Peak 32(Xq28)	0 (0%)	291	0.63266	1	0.63565	1	0.038982	1	0.081483	1	0.070072	1	0.069028	1	0.10944	1	0.078102	1	0.51833	1	0.30324	1
Del Peak  1(1p36.22)	0 (0%)	225	1.4274e-06	0.00115	1.7833e-08	1.47e-05	1.6133e-28	1.36e-25	2.1042e-14	1.76e-11	0.41213	1	0.026199	1	8.6687e-14	7.25e-11	9.4466e-15	7.92e-12	0.00083797	0.586	1.834e-05	0.0143
Del Peak  2(1p13.2)	0 (0%)	225	0.00023715	0.175	0.0005497	0.391	1.2332e-15	1.03e-12	5.745e-09	4.73e-06	0.11875	1	0.071159	1	5.5563e-07	0.000451	1.9622e-07	0.00016	0.1274	1	0.00078822	0.553
Del Peak  3(2p25.3)	0 (0%)	360	0.046105	1	0.17884	1	0.077265	1	0.37008	1	0.10991	1	0.83838	1	0.3191	1	0.12836	1	0.053345	1	0.024688	1
Del Peak  4(2q22.1)	0 (0%)	292	0.25483	1	0.31825	1	0.00027109	0.198	0.019796	1	0.66724	1	0.077676	1	0.021861	1	0.016461	1	0.51176	1	0.2262	1
Del Peak  5(2q36.2)	0 (0%)	265	0.00023576	0.174	4.7565e-05	0.0364	1.6951e-12	1.41e-09	2.1435e-06	0.00172	0.1769	1	0.1255	1	6.61e-07	0.000535	2.9848e-08	2.45e-05	0.88486	1	0.16258	1
Del Peak  6(3p25.3)	0 (0%)	84	0.54042	1	0.17616	1	0.027817	1	0.0022082	1	0.63742	1	0.18016	1	0.078017	1	0.043262	1	0.60195	1	0.059733	1
Del Peak  7(3p13)	0 (0%)	57	0.41881	1	0.54863	1	2.6689e-06	0.00214	0.0008576	0.598	0.88237	1	0.037948	1	0.075627	1	0.017081	1	0.432	1	0.0013423	0.915
Del Peak  8(3p12.3)	0 (0%)	65	0.25764	1	0.34172	1	3.0279e-05	0.0233	0.0025909	1	1	1	0.091957	1	0.1197	1	0.023469	1	0.70112	1	0.005772	1
Del Peak  9(3q11.1)	0 (0%)	338	0.75853	1	0.47773	1	0.11709	1	0.053816	1	0.76467	1	0.28212	1	0.88529	1	0.80254	1	0.28903	1	0.88743	1
Del Peak 10(4p15.2)	0 (0%)	158	0.00080707	0.566	0.001708	1	6.5154e-06	0.00517	0.0003406	0.247	0.66155	1	0.034313	1	0.013814	1	0.0068919	1	0.30222	1	0.86424	1
Del Peak 11(4q22.1)	0 (0%)	180	0.0068481	1	0.057857	1	0.00010209	0.0771	0.008289	1	0.12263	1	0.38079	1	0.0047314	1	0.007224	1	0.3498	1	0.16768	1
Del Peak 12(4q32.3)	0 (0%)	149	0.0096682	1	0.025274	1	3.4983e-07	0.000285	0.0005961	0.422	0.10077	1	0.52301	1	0.0011954	0.819	0.0045534	1	0.66272	1	0.24153	1
Del Peak 13(4q35.2)	0 (0%)	144	0.10047	1	0.20573	1	2.8407e-06	0.00227	0.00012369	0.0933	0.45478	1	0.46976	1	0.00014338	0.108	0.010451	1	0.43991	1	0.095738	1
Del Peak 14(5q11.2)	0 (0%)	107	0.84151	1	0.30269	1	2.0341e-12	1.69e-09	0.00019205	0.143	0.95874	1	0.24402	1	0.010429	1	0.085756	1	0.98713	1	0.0011302	0.777
Del Peak 15(5q31.1)	0 (0%)	89	0.33159	1	0.2283	1	5.7045e-09	4.71e-06	2.9999e-05	0.0232	0.27154	1	0.16591	1	0.058186	1	0.063853	1	0.68421	1	0.0071276	1
Del Peak 16(6p25.3)	0 (0%)	297	0.21975	1	0.10989	1	0.0087794	1	0.0014284	0.971	0.39303	1	0.013046	1	0.0021907	1	0.00030485	0.222	0.17904	1	0.079683	1
Del Peak 17(6q22.31)	0 (0%)	302	0.019183	1	0.0022397	1	0.0051316	1	0.00081841	0.573	0.62886	1	0.35397	1	0.00024921	0.183	0.00058659	0.416	0.3736	1	0.21756	1
Del Peak 18(6q26)	0 (0%)	294	0.065853	1	0.0029759	1	0.0023386	1	0.00072654	0.512	0.92144	1	0.68997	1	0.0020357	1	0.0022341	1	0.18393	1	0.085039	1
Del Peak 19(7q11.22)	0 (0%)	360	0.90823	1	0.40489	1	4.3951e-05	0.0338	0.82862	1	0.95833	1	0.74972	1	0.046461	1	0.049252	1	0.61021	1	0.35776	1
Del Peak 20(7q36.3)	0 (0%)	316	0.18723	1	0.11156	1	0.00094976	0.659	0.27435	1	1	1	0.31493	1	0.0025355	1	0.0054011	1	0.028012	1	0.16607	1
Del Peak 21(8p23.2)	0 (0%)	130	0.86415	1	0.45866	1	0.00096128	0.665	0.17289	1	0.34475	1	0.1409	1	0.49392	1	0.042143	1	0.68008	1	0.070472	1
Del Peak 22(9p23)	0 (0%)	139	0.005614	1	0.0029131	1	1.9708e-10	1.64e-07	0.10353	1	0.14638	1	0.20769	1	0.0028103	1	0.074621	1	0.099105	1	0.032817	1
Del Peak 23(9p21.3)	0 (0%)	95	0.37246	1	0.17169	1	4.9922e-07	0.000406	0.40906	1	0.69525	1	0.38805	1	0.053538	1	0.47212	1	0.35138	1	0.42073	1
Del Peak 24(9q21.11)	0 (0%)	206	0.00017721	0.132	4.9247e-05	0.0376	5.9694e-11	4.96e-08	1.1436e-06	0.000923	0.65275	1	0.23857	1	4.4013e-09	3.64e-06	1.6275e-09	1.35e-06	0.00095785	0.664	0.00018395	0.137
Del Peak 25(10p15.3)	0 (0%)	219	0.37287	1	0.44184	1	4.8041e-05	0.0368	9.6005e-05	0.0727	0.3293	1	0.44338	1	0.0015552	1	0.00055382	0.393	0.054898	1	4.4536e-05	0.0342
Del Peak 26(10p15.1)	0 (0%)	229	0.072155	1	0.48421	1	0.00016166	0.121	4.0282e-06	0.00321	0.46906	1	0.35291	1	0.00016074	0.121	0.0014346	0.974	0.010667	1	9.0944e-06	0.00719
Del Peak 27(10q23.31)	0 (0%)	194	0.039232	1	0.0038632	1	2.1656e-05	0.0168	2.0796e-06	0.00167	0.36004	1	0.38997	1	8.5437e-06	0.00677	7.2301e-07	0.000584	0.2191	1	0.064403	1
Del Peak 28(11p15.5)	0 (0%)	214	0.00068877	0.486	0.052775	1	1.284e-06	0.00103	0.035158	1	0.00076369	0.538	2.0219e-05	0.0157	0.0029325	1	0.031004	1	0.0019272	1	0.045872	1
Del Peak 29(11q22.1)	0 (0%)	279	0.49319	1	0.28778	1	0.005299	1	0.031392	1	0.10316	1	0.99545	1	0.12974	1	0.263	1	0.38229	1	0.84867	1
Del Peak 30(11q25)	0 (0%)	254	0.7979	1	0.42926	1	0.074578	1	0.33284	1	0.1133	1	0.90777	1	0.13449	1	0.10375	1	0.49004	1	1	1
Del Peak 31(12q24.31)	0 (0%)	334	0.96498	1	0.33211	1	0.42567	1	0.43534	1	0.32272	1	0.20712	1	0.84936	1	0.80796	1	0.076635	1	0.36232	1
Del Peak 32(13q12.11)	0 (0%)	137	0.054743	1	0.61102	1	0.034361	1	0.16435	1	0.90658	1	0.26832	1	0.72995	1	0.28633	1	0.81209	1	0.68069	1
Del Peak 33(13q14.2)	0 (0%)	126	0.051249	1	0.096235	1	0.00096039	0.665	0.05298	1	0.70704	1	0.68237	1	0.10773	1	0.12054	1	0.89278	1	0.6716	1
Del Peak 34(14q11.2)	0 (0%)	257	0.054625	1	0.29339	1	0.16302	1	0.43658	1	0.20597	1	0.15948	1	0.00038568	0.278	9.7963e-05	0.0741	0.18304	1	0.49259	1
Del Peak 35(15q12)	0 (0%)	266	0.72495	1	0.22782	1	0.4498	1	0.34728	1	0.071706	1	0.007983	1	0.21486	1	0.14887	1	0.02395	1	0.18897	1
Del Peak 36(15q21.1)	0 (0%)	273	0.64316	1	0.24163	1	0.29796	1	0.9693	1	0.13822	1	0.0076257	1	0.29852	1	0.10409	1	0.026451	1	0.19897	1
Del Peak 37(16p13.3)	0 (0%)	249	0.23929	1	0.24492	1	0.0052502	1	0.19657	1	0.14901	1	0.60559	1	0.37062	1	0.26762	1	0.42741	1	0.40069	1
Del Peak 38(16q23.1)	0 (0%)	231	0.94193	1	0.65907	1	0.08633	1	0.27078	1	0.35392	1	0.7607	1	0.19812	1	0.20294	1	0.9315	1	0.55971	1
Del Peak 39(17p11.2)	0 (0%)	195	0.19384	1	0.4015	1	0.0018499	1	0.16122	1	0.15048	1	0.018225	1	0.044608	1	0.079787	1	0.18295	1	0.16485	1
Del Peak 40(17q11.2)	0 (0%)	301	1.2614e-05	0.00991	6.4433e-05	0.049	3.0448e-08	2.5e-05	0.01773	1	0.49523	1	0.37803	1	1.48e-06	0.00119	4.8283e-08	3.95e-05	0.14296	1	0.037298	1
Del Peak 41(17q25.3)	0 (0%)	321	0.0051505	1	0.042126	1	0.00040515	0.292	0.044583	1	0.62249	1	0.99436	1	0.14552	1	0.0018676	1	0.52929	1	0.2228	1
Del Peak 42(18q23)	0 (0%)	218	0.50803	1	0.78802	1	0.50245	1	0.89829	1	0.8006	1	0.39738	1	0.52364	1	0.022807	1	0.94214	1	0.44444	1
Del Peak 43(19p13.3)	0 (0%)	224	0.33425	1	0.023076	1	1.3758e-05	0.0108	0.1453	1	0.058795	1	0.25112	1	0.28379	1	0.02829	1	0.00022396	0.166	0.0029663	1
Del Peak 44(19q13.33)	0 (0%)	291	0.61681	1	0.06944	1	0.00016682	0.125	0.00018682	0.139	0.24377	1	0.71878	1	0.081938	1	0.039847	1	0.034123	1	0.33407	1
Del Peak 45(21q21.1)	0 (0%)	208	0.48146	1	0.13538	1	0.011714	1	0.02929	1	0.58502	1	0.88981	1	0.37264	1	0.53307	1	0.03785	1	0.027501	1
Del Peak 46(21q22.3)	0 (0%)	173	0.95746	1	0.1932	1	2.1292e-08	1.75e-05	0.0020622	1	0.39563	1	0.099114	1	0.1301	1	0.013114	1	0.058911	1	0.16125	1
Del Peak 47(22q11.21)	0 (0%)	329	0.09039	1	0.0093024	1	0.067222	1	0.084138	1	0.1449	1	0.12939	1	0.64508	1	0.32916	1	0.058283	1	0.097367	1
Del Peak 48(22q13.32)	0 (0%)	302	0.00028103	0.205	8.6845e-05	0.0658	0.017238	1	0.35054	1	0.5426	1	0.075877	1	0.11863	1	0.1003	1	0.018478	1	0.014418	1
Del Peak 49(Xp22.2)	0 (0%)	271	0.59895	1	0.3507	1	0.00024911	0.183	0.010114	1	0.2774	1	0.78348	1	0.2358	1	0.10271	1	0.17882	1	0.23508	1
Del Peak 50(Xp21.1)	0 (0%)	270	0.35378	1	0.14801	1	5.3937e-05	0.0411	0.00024021	0.177	0.34428	1	0.6807	1	0.1365	1	0.0070572	1	0.53774	1	0.16268	1
Del Peak 51(Xp11.3)	0 (0%)	272	0.06204	1	0.17505	1	9.1854e-06	0.00726	4.0939e-05	0.0315	0.09227	1	0.12432	1	0.063143	1	0.0039054	1	0.13065	1	0.13826	1
Del Peak 52(Xq22.3)	0 (0%)	302	0.0085301	1	0.10522	1	1.906e-05	0.0148	0.00024914	0.183	0.66297	1	0.9198	1	0.0422	1	0.43778	1	0.27631	1	0.79692	1
