		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)	63 (16%)	334	0.027997	1	0.48064	1	0.00089229	0.637	0.64436	1	0.36254	1	0.61878	1	0.04845	1	0.24108	1	0.22181	1	0.65363	1
Amp Peak  2(1q21.2)	205 (52%)	192	0.041886	1	0.0061823	1	1.9829e-07	0.000163	0.0011299	0.798	0.16014	1	0.049238	1	0.00068518	0.495	0.00048787	0.357	0.1783	1	0.037678	1
Amp Peak  3(2p16.1)	216 (54%)	181	0.00030485	0.227	0.0016452	1	3.1822e-13	2.66e-10	5.8257e-05	0.045	0.95017	1	0.6427	1	0.00033312	0.247	0.0011329	0.799	0.79026	1	0.042984	1
Amp Peak  4(2q31.2)	132 (33%)	265	0.020695	1	0.00094798	0.675	6.5211e-06	0.00523	1.985e-07	0.000163	0.72406	1	0.88737	1	0.00080111	0.575	0.00093222	0.665	0.42612	1	0.3698	1
Amp Peak  5(3p11.1)	80 (20%)	317	0.074773	1	0.84409	1	0.74389	1	0.95744	1	0.21385	1	0.0012981	0.913	0.05549	1	0.44422	1	0.38239	1	0.7724	1
Amp Peak  6(3q26.33)	364 (92%)	33	0.00042663	0.314	1.7146e-05	0.0135	7.0488e-12	5.88e-09	6.6908e-07	0.000545	0.19288	1	0.077644	1	3.8139e-05	0.0297	0.00016431	0.125	0.23795	1	1.3728e-05	0.0109
Amp Peak  7(4q12)	93 (23%)	304	0.67906	1	0.75873	1	0.00035284	0.261	0.12421	1	0.3558	1	0.13102	1	0.55476	1	0.74982	1	0.16314	1	0.43871	1
Amp Peak  8(5p15.33)	314 (79%)	83	0.85286	1	0.86716	1	1.0671e-05	0.00852	0.012895	1	0.40531	1	0.50196	1	0.38708	1	0.32784	1	0.71029	1	0.17979	1
Amp Peak  9(5p12)	261 (66%)	136	0.91917	1	0.51401	1	7.5793e-10	6.29e-07	0.0087387	1	0.5626	1	1	1	0.063491	1	0.58557	1	0.039702	1	0.11559	1
Amp Peak 10(6p12.1)	130 (33%)	267	0.55703	1	0.38314	1	0.0018014	1	0.16779	1	0.96213	1	0.30014	1	0.17806	1	0.84067	1	0.93254	1	0.46405	1
Amp Peak 11(6q12)	117 (29%)	280	1	1	0.87303	1	0.0011385	0.802	0.045379	1	0.34826	1	0.40804	1	0.39467	1	0.23611	1	0.59468	1	0.21395	1
Amp Peak 12(7p11.2)	193 (49%)	204	0.18606	1	0.09391	1	0.00097005	0.687	0.0036616	1	0.68745	1	0.80108	1	0.075977	1	0.014833	1	0.46043	1	0.15736	1
Amp Peak 13(7q21.2)	209 (53%)	188	0.10132	1	0.24997	1	5.3382e-10	4.44e-07	1.2724e-05	0.0101	0.057338	1	0.3893	1	0.016544	1	0.022055	1	0.12223	1	0.089184	1
Amp Peak 14(8p11.23)	184 (46%)	213	0.0081177	1	0.16822	1	0.02545	1	0.035179	1	0.1916	1	0.098781	1	0.0063053	1	0.71976	1	0.13093	1	0.77125	1
Amp Peak 15(8q24.21)	280 (71%)	117	0.8715	1	0.64417	1	0.55402	1	0.96883	1	0.91657	1	0.70842	1	0.7345	1	0.42772	1	0.39241	1	0.93542	1
Amp Peak 16(9p24.1)	73 (18%)	324	0.37518	1	0.029533	1	0.00035369	0.261	0.17742	1	0.0016979	1	0.0050133	1	0.041333	1	0.0029351	1	0.46117	1	0.236	1
Amp Peak 17(9p13.3)	109 (27%)	288	0.16996	1	0.37287	1	0.043013	1	0.038723	1	0.070796	1	0.0089805	1	0.021999	1	0.18844	1	0.41054	1	0.97251	1
Amp Peak 18(11q13.3)	143 (36%)	254	0.06969	1	0.030551	1	0.0048628	1	0.00051779	0.377	0.19004	1	0.035798	1	0.012508	1	0.13883	1	0.14236	1	0.21367	1
Amp Peak 19(12p13.33)	198 (50%)	199	0.010156	1	0.057062	1	1.2263e-05	0.00977	0.00049216	0.359	0.31262	1	0.72944	1	0.00057533	0.418	0.0051835	1	0.58289	1	0.53899	1
Amp Peak 20(12q15)	144 (36%)	253	0.31238	1	0.5273	1	0.0053063	1	0.0013616	0.956	0.76381	1	0.52436	1	0.10546	1	0.049145	1	0.50901	1	0.9298	1
Amp Peak 21(13q34)	71 (18%)	326	0.96435	1	0.048907	1	0.038423	1	0.18194	1	0.87024	1	0.083384	1	0.80276	1	0.40688	1	0.066393	1	0.21594	1
Amp Peak 22(14q13.3)	121 (30%)	276	0.34486	1	0.24581	1	0.12677	1	0.096921	1	0.57003	1	0.0082634	1	0.61652	1	0.084716	1	0.027483	1	0.097221	1
Amp Peak 23(15q26.3)	139 (35%)	258	0.15118	1	0.02098	1	1.5595e-05	0.0123	9.3889e-06	0.0075	0.35379	1	0.01826	1	0.00062217	0.45	0.0042628	1	0.024131	1	0.00043706	0.321
Amp Peak 24(17q25.1)	191 (48%)	206	0.017661	1	0.060794	1	6.01e-07	0.00049	2.169e-05	0.017	0.26742	1	0.29175	1	0.027422	1	0.0080673	1	0.61101	1	0.89337	1
Amp Peak 25(18p11.32)	137 (35%)	260	0.095767	1	0.0098077	1	2.4815e-05	0.0195	0.00012602	0.096	0.23136	1	0.4508	1	0.40971	1	0.12147	1	0.65972	1	0.13509	1
Amp Peak 26(18q11.2)	126 (32%)	271	0.00045553	0.334	0.0022679	1	1.3658e-05	0.0108	0.00034191	0.253	0.27235	1	0.74038	1	0.0043758	1	0.00057779	0.419	0.31963	1	0.012015	1
Amp Peak 27(19q12)	167 (42%)	230	0.45483	1	0.24902	1	4.0708e-06	0.00328	0.1821	1	0.23063	1	0.028698	1	0.19265	1	0.081975	1	0.95091	1	0.60924	1
Amp Peak 28(19q13.2)	170 (43%)	227	0.71537	1	1	1	0.00019499	0.147	0.070833	1	0.35617	1	0.11719	1	0.62577	1	0.052994	1	0.87157	1	0.45393	1
Amp Peak 29(20p12.2)	211 (53%)	186	0.00098685	0.698	0.0042983	1	8.924e-08	7.34e-05	0.00016098	0.123	0.96651	1	0.22098	1	0.1497	1	0.013404	1	0.61101	1	0.27941	1
Amp Peak 30(20q11.21)	229 (58%)	168	0.99122	1	0.84394	1	0.00051999	0.379	0.013224	1	0.66891	1	0.5881	1	0.59324	1	0.54885	1	0.90444	1	0.51928	1
Amp Peak 31(22q11.21)	199 (50%)	198	0.11066	1	0.12309	1	0.00029562	0.22	0.00047739	0.349	0.88793	1	0.34914	1	0.067121	1	0.067683	1	0.72724	1	0.10342	1
Amp Peak 32(Xq28)	106 (27%)	291	0.63266	1	0.63565	1	0.038982	1	0.081483	1	0.070072	1	0.069028	1	0.13574	1	0.16498	1	0.50179	1	0.73437	1
Del Peak  1(1p36.22)	172 (43%)	225	1.4274e-06	0.00116	1.7833e-08	1.47e-05	1.6133e-28	1.36e-25	2.1042e-14	1.76e-11	0.41213	1	0.026199	1	1.0915e-09	9.05e-07	1.35e-08	1.12e-05	0.022659	1	0.0038708	1
Del Peak  2(1p13.2)	172 (43%)	225	0.00023715	0.178	0.0005497	0.4	1.2332e-15	1.03e-12	5.745e-09	4.75e-06	0.11875	1	0.071159	1	2.352e-05	0.0185	7.0749e-05	0.0545	0.16539	1	0.024633	1
Del Peak  3(2p25.3)	37 (9%)	360	0.046105	1	0.17884	1	0.077265	1	0.37008	1	0.10991	1	0.83838	1	0.31965	1	0.22609	1	0.096013	1	0.067636	1
Del Peak  4(2q22.1)	105 (26%)	292	0.25483	1	0.31825	1	0.00027109	0.203	0.019796	1	0.66724	1	0.077676	1	0.18815	1	0.23144	1	0.64846	1	0.55075	1
Del Peak  5(2q36.2)	132 (33%)	265	0.00023576	0.178	4.7565e-05	0.037	1.6951e-12	1.42e-09	2.1435e-06	0.00174	0.1769	1	0.1255	1	8.4879e-05	0.0653	6.1471e-06	0.00494	0.98626	1	0.58724	1
Del Peak  6(3p25.3)	313 (79%)	84	0.54042	1	0.17616	1	0.027817	1	0.0022082	1	0.63742	1	0.18016	1	0.32711	1	0.008757	1	0.7587	1	0.0074259	1
Del Peak  7(3p13)	340 (86%)	57	0.41881	1	0.54863	1	2.6689e-06	0.00216	0.0008576	0.613	0.88237	1	0.037948	1	0.36874	1	0.013408	1	0.92625	1	0.0046008	1
Del Peak  8(3p12.3)	332 (84%)	65	0.25764	1	0.34172	1	3.0279e-05	0.0236	0.0025909	1	1	1	0.091957	1	0.24013	1	0.016209	1	0.89392	1	0.0089897	1
Del Peak  9(3q11.1)	59 (15%)	338	0.75853	1	0.47773	1	0.11709	1	0.053816	1	0.76467	1	0.28212	1	0.92486	1	0.67444	1	0.73999	1	0.89098	1
Del Peak 10(4p15.2)	239 (60%)	158	0.00080707	0.579	0.001708	1	6.5154e-06	0.00523	0.0003406	0.252	0.66155	1	0.034313	1	0.088333	1	0.0514	1	0.32508	1	0.9208	1
Del Peak 11(4q22.1)	217 (55%)	180	0.0068481	1	0.057857	1	0.00010209	0.0782	0.008289	1	0.12263	1	0.38079	1	0.025247	1	0.0063574	1	0.21932	1	0.24156	1
Del Peak 12(4q32.3)	248 (62%)	149	0.0096682	1	0.025274	1	3.4983e-07	0.000286	0.0005961	0.432	0.10077	1	0.52301	1	0.005697	1	0.036026	1	0.34393	1	0.097415	1
Del Peak 13(4q35.2)	253 (64%)	144	0.10047	1	0.20573	1	2.8407e-06	0.0023	0.00012369	0.0944	0.45478	1	0.46976	1	0.0053154	1	0.10683	1	0.62975	1	0.30856	1
Del Peak 14(5q11.2)	290 (73%)	107	0.84151	1	0.30269	1	2.0341e-12	1.7e-09	0.00019205	0.145	0.95874	1	0.24402	1	0.24758	1	0.56007	1	0.95278	1	8.0587e-05	0.0621
Del Peak 15(5q31.1)	308 (78%)	89	0.33159	1	0.2283	1	5.7045e-09	4.72e-06	2.9999e-05	0.0235	0.27154	1	0.16591	1	0.2938	1	0.44504	1	0.70938	1	0.00046199	0.339
Del Peak 16(6p25.3)	100 (25%)	297	0.21975	1	0.10989	1	0.0087794	1	0.0014284	1	0.39303	1	0.013046	1	0.010038	1	0.020398	1	0.15878	1	0.18065	1
Del Peak 17(6q22.31)	95 (24%)	302	0.019183	1	0.0022397	1	0.0051316	1	0.00081841	0.586	0.62886	1	0.35397	1	0.021655	1	0.013314	1	0.19409	1	0.2426	1
Del Peak 18(6q26)	103 (26%)	294	0.065853	1	0.0029759	1	0.0023386	1	0.00072654	0.523	0.92144	1	0.68997	1	0.068692	1	0.14099	1	0.14935	1	0.088905	1
Del Peak 19(7q11.22)	37 (9%)	360	0.90823	1	0.40489	1	4.3951e-05	0.0342	0.82862	1	0.95833	1	0.74972	1	0.046282	1	0.064437	1	0.8366	1	0.52389	1
Del Peak 20(7q36.3)	81 (20%)	316	0.18723	1	0.11156	1	0.00094976	0.675	0.27435	1	1	1	0.31493	1	0.092794	1	0.069784	1	0.13787	1	0.16313	1
Del Peak 21(8p23.2)	267 (67%)	130	0.86415	1	0.45866	1	0.00096128	0.682	0.17289	1	0.34475	1	0.1409	1	0.15724	1	0.071999	1	0.34475	1	0.28515	1
Del Peak 22(9p23)	258 (65%)	139	0.005614	1	0.0029131	1	1.9708e-10	1.64e-07	0.10353	1	0.14638	1	0.20769	1	0.026141	1	0.087611	1	0.98626	1	0.065199	1
Del Peak 23(9p21.3)	302 (76%)	95	0.37246	1	0.17169	1	4.9922e-07	0.000408	0.40906	1	0.69525	1	0.38805	1	0.16414	1	0.84599	1	0.85165	1	0.29571	1
Del Peak 24(9q21.11)	191 (48%)	206	0.00017721	0.134	4.9247e-05	0.0382	5.9694e-11	4.97e-08	1.1436e-06	0.000931	0.65275	1	0.23857	1	4.4373e-06	0.00357	2.3951e-07	0.000196	0.064287	1	0.000283	0.211
Del Peak 25(10p15.3)	178 (45%)	219	0.37287	1	0.44184	1	4.8041e-05	0.0373	9.6005e-05	0.0736	0.3293	1	0.44338	1	0.0038329	1	0.016525	1	0.12237	1	0.0027272	1
Del Peak 26(10p15.1)	168 (42%)	229	0.072155	1	0.48421	1	0.00016166	0.123	4.0282e-06	0.00325	0.46906	1	0.35291	1	0.00025878	0.194	0.013136	1	0.044243	1	0.0051579	1
Del Peak 27(10q23.31)	203 (51%)	194	0.039232	1	0.0038632	1	2.1656e-05	0.017	2.0796e-06	0.00169	0.36004	1	0.38997	1	0.0001037	0.0793	2.6262e-05	0.0206	0.54122	1	0.017286	1
Del Peak 28(11p15.5)	183 (46%)	214	0.00068877	0.497	0.052775	1	1.284e-06	0.00104	0.035158	1	0.00076369	0.549	2.0219e-05	0.0159	0.019994	1	0.036223	1	0.043562	1	0.075408	1
Del Peak 29(11q22.1)	118 (30%)	279	0.49319	1	0.28778	1	0.005299	1	0.031392	1	0.10316	1	0.99545	1	0.25936	1	0.42647	1	0.21887	1	0.058387	1
Del Peak 30(11q25)	143 (36%)	254	0.7979	1	0.42926	1	0.074578	1	0.33284	1	0.1133	1	0.90777	1	0.44743	1	0.40585	1	0.14034	1	0.18885	1
Del Peak 31(12q24.31)	63 (16%)	334	0.96498	1	0.33211	1	0.42567	1	0.43534	1	0.32272	1	0.20712	1	0.90035	1	0.68912	1	0.28183	1	0.32164	1
Del Peak 32(13q12.11)	260 (65%)	137	0.054743	1	0.61102	1	0.034361	1	0.16435	1	0.90658	1	0.26832	1	0.69982	1	0.21445	1	0.97265	1	1	1
Del Peak 33(13q14.2)	271 (68%)	126	0.051249	1	0.096235	1	0.00096039	0.682	0.05298	1	0.70704	1	0.68237	1	0.028092	1	0.14722	1	0.90457	1	0.56076	1
Del Peak 34(14q11.2)	140 (35%)	257	0.054625	1	0.29339	1	0.16302	1	0.43658	1	0.20597	1	0.15948	1	0.0026496	1	0.0021291	1	0.25249	1	0.2737	1
Del Peak 35(15q12)	131 (33%)	266	0.72495	1	0.22782	1	0.4498	1	0.34728	1	0.071706	1	0.007983	1	0.13225	1	0.35649	1	0.072334	1	0.63616	1
Del Peak 36(15q21.1)	124 (31%)	273	0.64316	1	0.24163	1	0.29796	1	0.9693	1	0.13822	1	0.0076257	1	0.15583	1	0.35383	1	0.22845	1	0.31835	1
Del Peak 37(16p13.3)	148 (37%)	249	0.23929	1	0.24492	1	0.0052502	1	0.19657	1	0.14901	1	0.60559	1	0.53052	1	0.24668	1	0.61821	1	0.067668	1
Del Peak 38(16q23.1)	166 (42%)	231	0.94193	1	0.65907	1	0.08633	1	0.27078	1	0.35392	1	0.7607	1	0.20485	1	0.026365	1	0.53514	1	0.3373	1
Del Peak 39(17p11.2)	202 (51%)	195	0.19384	1	0.4015	1	0.0018499	1	0.16122	1	0.15048	1	0.018225	1	0.36815	1	0.86032	1	0.066574	1	0.031312	1
Del Peak 40(17q11.2)	96 (24%)	301	1.2614e-05	0.01	6.4433e-05	0.0497	3.0448e-08	2.51e-05	0.01773	1	0.49523	1	0.37803	1	0.00012202	0.0932	7.1613e-06	0.00574	0.42567	1	0.068256	1
Del Peak 41(17q25.3)	76 (19%)	321	0.0051505	1	0.042126	1	0.00040515	0.299	0.044583	1	0.62249	1	0.99436	1	0.12966	1	0.0021039	1	0.94595	1	0.11064	1
Del Peak 42(18q23)	179 (45%)	218	0.50803	1	0.78802	1	0.50245	1	0.89829	1	0.8006	1	0.39738	1	0.2296	1	0.11539	1	0.7725	1	0.50154	1
Del Peak 43(19p13.3)	173 (44%)	224	0.33425	1	0.023076	1	1.3758e-05	0.0109	0.1453	1	0.058795	1	0.25112	1	0.16017	1	0.012363	1	0.022888	1	0.069159	1
Del Peak 44(19q13.33)	106 (27%)	291	0.61681	1	0.06944	1	0.00016682	0.126	0.00018682	0.141	0.24377	1	0.71878	1	0.43647	1	0.2122	1	0.43783	1	0.12558	1
Del Peak 45(21q21.1)	189 (48%)	208	0.48146	1	0.13538	1	0.011714	1	0.02929	1	0.58502	1	0.88981	1	0.99588	1	0.8148	1	0.056199	1	0.068671	1
Del Peak 46(21q22.3)	224 (56%)	173	0.95746	1	0.1932	1	2.1292e-08	1.75e-05	0.0020622	1	0.39563	1	0.099114	1	0.5636	1	0.30219	1	0.0039492	1	0.34734	1
Del Peak 47(22q11.21)	68 (17%)	329	0.09039	1	0.0093024	1	0.067222	1	0.084138	1	0.1449	1	0.12939	1	0.59809	1	0.7479	1	0.17152	1	0.12563	1
Del Peak 48(22q13.32)	95 (24%)	302	0.00028103	0.21	8.6845e-05	0.0667	0.017238	1	0.35054	1	0.5426	1	0.075877	1	0.057468	1	0.16188	1	0.096088	1	0.016171	1
Del Peak 49(Xp22.2)	126 (32%)	271	0.59895	1	0.3507	1	0.00024911	0.187	0.010114	1	0.2774	1	0.78348	1	0.13988	1	0.12171	1	0.12182	1	0.24377	1
Del Peak 50(Xp21.1)	127 (32%)	270	0.35378	1	0.14801	1	5.3937e-05	0.0417	0.00024021	0.18	0.34428	1	0.6807	1	0.077879	1	0.0071601	1	0.32136	1	0.097394	1
Del Peak 51(Xp11.3)	125 (31%)	272	0.06204	1	0.17505	1	9.1854e-06	0.00735	4.0939e-05	0.0319	0.09227	1	0.12432	1	0.014157	1	0.017529	1	0.063544	1	0.19271	1
Del Peak 52(Xq22.3)	95 (24%)	302	0.0085301	1	0.10522	1	1.906e-05	0.015	0.00024914	0.187	0.66297	1	0.9198	1	0.051315	1	0.48519	1	0.53495	1	0.94201	1
