		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	Fisher's exact test_P	Fisher's exact test_Q
1p gain	0 (0%)	464	0.57587	1	0.58086	1	0.026366	1	0.13789	1	0.59505	1	0.11168	1	0.17722	1	0.0077864	1	0.43808	1	0.87726	1	0.25337	1	0.17921	1
1q gain	0 (0%)	385	0.4999	1	0.45913	1	4.6903e-07	0.000421	1.1755e-05	0.0102	0.59714	1	0.59038	1	1.1989e-05	0.0104	2.7096e-06	0.00239	0.00053947	0.415	0.00018409	0.149	0.0090144	1	0.002643	1
2p gain	0 (0%)	369	0.023806	1	0.027417	1	1.1486e-15	1.08e-12	1.4703e-08	1.34e-05	0.065662	1	0.21632	1	1.2822e-09	1.18e-06	3.6403e-06	0.0032	7.6827e-05	0.064	0.0028003	1	2.6371e-05	0.0224	3.7539e-06	0.0033
2q gain	0 (0%)	441	0.30462	1	0.17761	1	2.3888e-06	0.00211	0.00079086	0.599	0.21385	1	0.32996	1	2.1172e-05	0.018	0.00045845	0.357	0.09896	1	0.068321	1	0.00054373	0.418	0.0031431	1
3p gain	0 (0%)	435	0.35284	1	0.54961	1	0.0012847	0.955	0.0087404	1	0.65032	1	0.24947	1	0.063978	1	0.029411	1	0.93851	1	0.95802	1	0.41825	1	0.5906	1
3q gain	0 (0%)	272	0.093071	1	0.72194	1	3.1298e-06	0.00276	0.01556	1	0.28538	1	0.40945	1	0.013582	1	0.0025933	1	0.0089496	1	0.60186	1	0.29066	1	1	1
4p gain	0 (0%)	473	0.10116	1	0.33866	1	0.012422	1	0.066341	1	0.13225	1	0.46423	1	0.0040881	1	0.022189	1	0.89626	1	0.61098	1	0.74227	1	0.074409	1
4q gain	0 (0%)	482	1	1	0.68337	1	0.38634	1	NA	NA	NA	NA	NA	NA	0.58866	1	0.0094941	1	0.41087	1	0.54408	1	NA	NA	0.20966	1
5p gain	0 (0%)	264	0.94773	1	0.27014	1	1.4743e-07	0.000133	0.1223	1	0.44896	1	0.46119	1	0.069909	1	0.36494	1	0.43392	1	0.239	1	0.020841	1	0.82484	1
5q gain	0 (0%)	438	0.11377	1	0.23889	1	0.0019579	1	0.20406	1	0.81956	1	0.85331	1	0.090221	1	0.51046	1	0.82727	1	0.48423	1	0.57352	1	0.85783	1
6p gain	0 (0%)	448	0.0061744	1	0.3245	1	2.6577e-05	0.0225	0.21927	1	0.81311	1	0.28139	1	0.0086526	1	0.27591	1	0.83423	1	0.76351	1	0.53324	1	1	1
6q gain	0 (0%)	459	0.046208	1	0.33866	1	4.5118e-06	0.00395	0.024742	1	0.60601	1	0.7335	1	0.024931	1	0.090646	1	0.6437	1	0.83955	1	0.059179	1	0.11951	1
7p gain	0 (0%)	350	0.42079	1	0.32317	1	5.7425e-07	0.000514	2.4854e-05	0.0211	0.73142	1	0.9882	1	0.0043003	1	0.001168	0.87	0.012658	1	0.23476	1	4.2371e-05	0.0355	0.00088705	0.669
7q gain	0 (0%)	368	0.12389	1	0.075155	1	2.1675e-13	2.03e-10	1.2128e-06	0.00108	0.67861	1	0.76792	1	1.3086e-05	0.0113	1.1761e-05	0.0102	0.00051153	0.395	0.077598	1	7.7716e-05	0.0647	0.00014141	0.116
8p gain	0 (0%)	427	0.04238	1	0.071511	1	0.0070883	1	0.1641	1	0.55099	1	0.36294	1	0.041041	1	0.00083498	0.631	0.33618	1	0.26795	1	0.87118	1	0.40359	1
8q gain	0 (0%)	346	0.012	1	0.038605	1	1.5618e-05	0.0134	0.00017512	0.142	0.90397	1	0.82586	1	0.0005006	0.387	0.00024255	0.194	0.13755	1	0.13675	1	0.091034	1	0.27001	1
9p gain	0 (0%)	463	0.53407	1	0.62447	1	0.080249	1	0.32964	1	0.17173	1	0.00021605	0.174	0.14008	1	0.0082304	1	0.029362	1	0.1589	1	0.066589	1	0.29703	1
9q gain	0 (0%)	448	0.28582	1	0.26404	1	0.00010455	0.0862	0.00010823	0.0891	0.074636	1	0.0021231	1	2.7787e-05	0.0235	1.4268e-05	0.0123	0.00087522	0.661	0.046367	1	0.19752	1	0.080646	1
10p gain	0 (0%)	462	0.63583	1	1	1	0.014871	1	0.38181	1	0.5302	1	0.3894	1	0.83574	1	0.75005	1	0.24552	1	0.14048	1	0.79009	1	0.82531	1
10q gain	0 (0%)	481	NA	NA	NA	NA	0.22678	1	0.49682	1	0.16228	1	0.68423	1	0.89073	1	0.89975	1	0.25625	1	0.79055	1	0.2486	1	1	1
11p gain	0 (0%)	463	0.92854	1	0.79042	1	0.17542	1	0.072487	1	0.23004	1	0.14861	1	0.056265	1	0.19495	1	0.0079827	1	0.28242	1	0.3311	1	0.17921	1
11q gain	0 (0%)	461	0.081184	1	0.69111	1	0.0015416	1	0.10229	1	0.55121	1	0.48584	1	0.33254	1	0.30099	1	0.21298	1	0.30649	1	0.15234	1	0.088479	1
12p gain	0 (0%)	347	0.034819	1	0.32317	1	5.117e-09	4.7e-06	0.0046564	1	0.27235	1	0.72316	1	0.00031025	0.245	0.0059507	1	0.076753	1	0.17325	1	0.15398	1	0.14231	1
12q gain	0 (0%)	428	0.021188	1	0.27803	1	1.4679e-05	0.0126	0.24686	1	0.15138	1	0.73043	1	0.16434	1	0.01969	1	0.26284	1	0.04988	1	4.3086e-05	0.0361	0.012188	1
13q gain	0 (0%)	476	0.70128	1	0.66406	1	0.48986	1	1	1	0.28874	1	0.34943	1	0.55028	1	0.5314	1	0.74381	1	0.61559	1	0.58407	1	0.18716	1
14q gain	0 (0%)	431	0.1862	1	0.49815	1	0.18988	1	0.08342	1	0.86153	1	0.65618	1	0.26386	1	0.092376	1	0.28713	1	0.0092937	1	0.058828	1	0.47948	1
15q gain	0 (0%)	444	0.39911	1	0.10684	1	0.00091518	0.688	0.019971	1	0.18418	1	0.072692	1	2.0643e-06	0.00183	0.00015093	0.123	0.00034692	0.274	0.0044502	1	0.00070274	0.535	0.010855	1
16p gain	0 (0%)	465	0.45849	1	0.85325	1	0.00021637	0.174	0.25414	1	0.72331	1	0.34116	1	0.10789	1	0.27162	1	0.10255	1	0.54143	1	0.10048	1	0.29703	1
16q gain	0 (0%)	463	0.16206	1	0.23378	1	9.444e-07	0.000841	0.25414	1	0.4554	1	0.15359	1	0.3713	1	0.14289	1	0.047889	1	0.59193	1	0.71242	1	0.60318	1
17p gain	0 (0%)	470	0.26158	1	0.24107	1	1.5243e-06	0.00135	0.00020405	0.164	0.27702	1	0.754	1	4.1429e-05	0.0348	2.693e-06	0.00238	0.069587	1	0.0004913	0.381	0.012018	1	0.11587	1
17q gain	0 (0%)	424	0.006305	1	0.00093451	0.702	5.9199e-14	5.56e-11	4.6957e-08	4.27e-05	0.32414	1	0.39354	1	6.9253e-08	6.27e-05	1.0867e-06	0.000966	0.00041114	0.321	0.0014321	1	0.00049997	0.387	0.00019372	0.157
18p gain	0 (0%)	406	0.00026609	0.212	4.7918e-06	0.00419	2.1502e-09	1.98e-06	4.4849e-05	0.0375	0.13635	1	0.14799	1	3.1244e-05	0.0263	9.0807e-05	0.0752	0.0015485	1	0.010796	1	0.00018907	0.153	1.1805e-05	0.0102
18q gain	0 (0%)	442	9.2364e-05	0.0763	0.00037298	0.293	3.7754e-06	0.00331	0.00071994	0.548	0.11281	1	0.046321	1	2.0354e-05	0.0174	1.218e-05	0.0105	0.011516	1	0.0041024	1	0.0066143	1	0.00030794	0.244
19p gain	0 (0%)	438	0.59087	1	0.84041	1	6.6726e-09	6.12e-06	0.00047349	0.368	0.00067246	0.514	0.0029868	1	0.00055161	0.423	4.2804e-05	0.0359	0.00017315	0.141	0.0041702	1	6.7654e-06	0.00589	0.00061563	0.472
19q gain	0 (0%)	417	0.5478	1	1	1	2.1965e-05	0.0187	0.026389	1	0.066834	1	0.019266	1	0.0027433	1	0.0030574	1	0.2438	1	0.27998	1	0.0013258	0.982	0.065961	1
20p gain	0 (0%)	348	0.15034	1	0.069782	1	2.1526e-11	2e-08	0.00073714	0.56	0.68384	1	0.19449	1	0.0018899	1	0.00014782	0.121	0.0075493	1	0.045816	1	0.015585	1	0.027553	1
20q gain	0 (0%)	359	0.40783	1	0.41279	1	3.4192e-11	3.18e-08	0.0064332	1	0.64823	1	0.35697	1	0.095195	1	0.0054585	1	0.023195	1	0.0058613	1	0.030732	1	0.13356	1
21q gain	0 (0%)	467	0.96899	1	0.30607	1	0.31735	1	0.0001544	0.126	0.52434	1	0.93666	1	0.67823	1	0.58078	1	0.37448	1	0.14878	1	0.8616	1	0.35674	1
22q gain	0 (0%)	370	0.0073913	1	0.0044999	1	7.5894e-10	7.03e-07	9.7742e-05	0.0806	0.22719	1	0.016673	1	0.00026032	0.207	0.0010118	0.758	3.0316e-05	0.0256	0.0065805	1	0.0044995	1	0.0018788	1
Xq gain	0 (0%)	472	0.70128	1	0.58871	1	0.14058	1	0.019726	1	0.45078	1	0.58167	1	0.87608	1	0.52254	1	0.10368	1	0.090903	1	0.4892	1	0.26997	1
1p loss	0 (0%)	412	0.001492	1	0.00035663	0.281	2.947e-19	2.78e-16	4.3658e-10	4.05e-07	0.2652	1	0.013137	1	3.7553e-13	3.52e-10	1.2301e-12	1.15e-09	1.7425e-05	0.0149	0.036866	1	0.010568	1	1.2109e-07	0.000109
1q loss	0 (0%)	471	0.88292	1	0.61962	1	0.0025966	1	0.12338	1	0.73524	1	0.17683	1	0.13091	1	0.066428	1	0.037178	1	0.94832	1	0.22092	1	0.0076515	1
2p loss	0 (0%)	483	NA	NA	NA	NA	0.026679	1	0.014176	1	NA	NA	NA	NA	0.60481	1	0.56561	1	0.14427	1	1	1	0.27086	1	0.01958	1
2q loss	0 (0%)	473	0.81279	1	0.19208	1	0.0048145	1	0.051109	1	0.73676	1	0.58167	1	0.20651	1	0.016771	1	0.035828	1	0.45376	1	0.50238	1	0.12029	1
3p loss	0 (0%)	288	0.020861	1	0.25799	1	1.4865e-05	0.0128	1.6052e-06	0.00142	0.36727	1	0.16622	1	0.060049	1	0.0064512	1	0.00096353	0.723	0.15356	1	0.028657	1	0.00066557	0.509
3q loss	0 (0%)	455	0.30167	1	0.59977	1	0.00019991	0.161	0.13381	1	0.65392	1	0.9124	1	0.45734	1	0.48536	1	0.50081	1	0.90868	1	0.0018926	1	0.0019939	1
4p loss	0 (0%)	289	0.10476	1	0.032923	1	3.0339e-14	2.85e-11	1.5792e-12	1.47e-09	0.053333	1	0.32731	1	0.00026705	0.212	8.5705e-05	0.071	1.2681e-08	1.16e-05	0.28026	1	6.2708e-06	0.00547	4.8899e-07	0.000439
4q loss	0 (0%)	315	0.02449	1	0.01029	1	6.5943e-14	6.19e-11	7.7579e-10	7.18e-07	0.0093424	1	0.081532	1	8.8844e-06	0.00772	6.5366e-07	0.000584	1.065e-07	9.62e-05	0.0050785	1	0.00016262	0.133	3.7042e-06	0.00326
5p loss	0 (0%)	453	0.16831	1	0.83716	1	0.003404	1	0.0057894	1	0.39071	1	0.22045	1	0.47101	1	0.28241	1	0.61524	1	0.88667	1	0.029432	1	0.017583	1
5q loss	0 (0%)	312	0.21398	1	0.54498	1	1.9472e-08	1.78e-05	9.1691e-08	8.29e-05	0.083988	1	0.12524	1	0.13475	1	0.037754	1	2.0439e-05	0.0174	0.080823	1	0.0010324	0.772	0.0017091	1
6p loss	0 (0%)	443	0.091555	1	0.039089	1	7.8145e-06	0.0068	0.0010342	0.773	0.07526	1	0.029667	1	0.00021294	0.171	0.00025418	0.203	0.011848	1	0.7347	1	0.015329	1	0.0014555	1
6q loss	0 (0%)	437	0.18932	1	0.077443	1	0.00040316	0.315	0.0071731	1	0.088271	1	0.15857	1	0.0086444	1	0.019111	1	0.027203	1	0.59099	1	0.012177	1	0.012188	1
7p loss	0 (0%)	459	0.34021	1	0.28929	1	0.0028131	1	0.00039374	0.309	0.75426	1	0.059447	1	0.94352	1	0.77099	1	0.54054	1	0.19436	1	0.95815	1	0.24759	1
7q loss	0 (0%)	474	0.35634	1	0.30239	1	0.078013	1	0.43348	1	1	1	0.69605	1	0.061713	1	0.12833	1	0.092508	1	0.21551	1	0.3676	1	1	1
8p loss	0 (0%)	336	0.54951	1	0.99284	1	1.1503e-07	0.000104	6.2199e-06	0.00543	0.077389	1	0.75272	1	0.022893	1	0.14808	1	7.3545e-05	0.0613	0.56373	1	0.055139	1	0.0024272	1
8q loss	0 (0%)	469	0.13609	1	0.065955	1	0.010349	1	0.031165	1	0.15683	1	0.23041	1	0.54595	1	0.53971	1	0.16113	1	0.4291	1	0.44419	1	0.32195	1
9p loss	0 (0%)	296	0.14245	1	0.2292	1	7.4184e-13	6.94e-10	5.5084e-08	5e-05	0.96575	1	0.39855	1	0.013445	1	0.15587	1	9.191e-05	0.076	0.12457	1	0.2402	1	0.73273	1
9q loss	0 (0%)	359	0.002805	1	0.0023656	1	5.0287e-18	4.74e-15	1.8458e-07	0.000166	1	1	0.3999	1	1.032e-09	9.54e-07	9.2166e-09	8.44e-06	3.8021e-05	0.032	0.00037718	0.296	0.44594	1	0.37963	1
10p loss	0 (0%)	379	0.026056	1	0.12754	1	3.8023e-10	3.53e-07	5.4168e-09	4.97e-06	1	1	0.16046	1	1.9034e-05	0.0163	9.2943e-07	0.000829	5.6383e-08	5.11e-05	0.00027922	0.222	0.00091125	0.686	0.00030425	0.241
10q loss	0 (0%)	374	0.0013	0.965	0.0004167	0.325	2.0379e-12	1.9e-09	1.3732e-08	1.26e-05	0.26581	1	0.011788	1	5.6889e-07	0.00051	2.5823e-08	2.35e-05	7.4435e-08	6.74e-05	0.0032202	1	0.00013785	0.113	1.1102e-05	0.00964
11p loss	0 (0%)	409	0.064357	1	0.071855	1	8.5813e-07	0.000766	0.00051365	0.396	0.033254	1	0.0076038	1	0.0040245	1	0.039523	1	0.0019484	1	0.33619	1	0.020177	1	0.007756	1
11q loss	0 (0%)	430	0.66227	1	1	1	4.277e-08	3.89e-05	0.00032761	0.259	0.080352	1	0.18891	1	0.0055328	1	0.047749	1	0.00024409	0.195	0.18339	1	0.045785	1	0.0034459	1
12p loss	0 (0%)	480	NA	NA	NA	NA	0.53418	1	0.077662	1	NA	NA	NA	NA	1	1	0.14305	1	0.13276	1	0.3759	1	0.44022	1	0.47729	1
12q loss	0 (0%)	475	NA	NA	NA	NA	0.27614	1	0.038489	1	0.29227	1	0.38118	1	0.6576	1	0.44879	1	0.018172	1	0.048273	1	0.9391	1	0.5826	1
13q loss	0 (0%)	307	0.12911	1	0.37643	1	2.894e-09	2.66e-06	1.0307e-06	0.000917	0.14906	1	0.43995	1	0.67409	1	0.17806	1	5.034e-05	0.042	0.071783	1	0.0012612	0.938	8.1727e-05	0.0678
14q loss	0 (0%)	403	0.0022995	1	0.025803	1	0.00047773	0.371	0.05875	1	0.04584	1	0.042167	1	1.4813e-09	1.37e-06	4.9774e-13	4.66e-10	2.8811e-05	0.0243	0.016913	1	0.11543	1	0.080818	1
15q loss	0 (0%)	428	0.80457	1	0.0098422	1	0.001142	0.852	2.9786e-05	0.0251	0.0080068	1	0.0017183	1	0.27231	1	0.010339	1	0.15429	1	0.44659	1	0.44624	1	0.72959	1
16p loss	0 (0%)	416	0.79399	1	0.15334	1	0.00011509	0.0946	0.017884	1	0.41198	1	0.32579	1	0.37504	1	0.030165	1	0.027434	1	0.044915	1	0.46213	1	0.28747	1
16q loss	0 (0%)	394	0.21654	1	0.44945	1	0.00067964	0.519	0.0088793	1	0.17168	1	0.13181	1	0.024726	1	0.00082088	0.621	0.00012725	0.104	0.0036437	1	0.00039687	0.311	0.00017345	0.141
17p loss	0 (0%)	310	0.11305	1	0.43332	1	1.5264e-05	0.0131	0.001454	1	0.010684	1	0.069425	1	0.32692	1	0.34819	1	0.043767	1	0.30493	1	0.64817	1	0.13811	1
17q loss	0 (0%)	457	0.29931	1	0.13491	1	0.17501	1	0.0017545	1	0.3043	1	0.94292	1	0.0041964	1	0.016224	1	0.73596	1	0.93852	1	0.73674	1	0.52476	1
18p loss	0 (0%)	432	0.3179	1	0.97064	1	0.0020586	1	0.62111	1	0.13805	1	0.8681	1	0.65888	1	0.40508	1	0.21596	1	0.69892	1	0.56017	1	0.86122	1
18q loss	0 (0%)	395	0.59042	1	0.7531	1	0.00051599	0.397	0.10051	1	0.20494	1	0.82866	1	0.64607	1	0.1167	1	0.31302	1	0.67222	1	0.53865	1	1	1
19p loss	0 (0%)	413	0.013991	1	0.01333	1	1.8881e-05	0.0161	0.37745	1	0.83237	1	0.8814	1	0.00017607	0.143	0.00022159	0.178	0.041052	1	7.8836e-05	0.0655	0.96293	1	0.76289	1
19q loss	0 (0%)	440	0.31631	1	0.52768	1	0.055998	1	0.12477	1	0.034579	1	0.10349	1	0.97947	1	0.93892	1	0.17867	1	0.70628	1	0.18609	1	0.13492	1
20p loss	0 (0%)	469	0.20824	1	0.10984	1	0.19144	1	0.082093	1	0.077222	1	0.64425	1	0.41717	1	0.68233	1	0.19053	1	0.57736	1	0.78224	1	0.19571	1
20q loss	0 (0%)	465	0.0069786	1	0.014371	1	0.0023376	1	0.28421	1	0.13746	1	0.48631	1	0.00044959	0.35	0.0003612	0.284	0.032354	1	0.14893	1	0.3311	1	0.17921	1
21q loss	0 (0%)	338	0.018957	1	0.064039	1	1.5791e-11	1.47e-08	5.6804e-06	0.00496	0.22723	1	0.18117	1	0.043872	1	0.019437	1	0.00025918	0.207	0.07484	1	0.10795	1	0.0066924	1
22q loss	0 (0%)	441	0.072884	1	0.068677	1	0.30676	1	0.3899	1	0.48505	1	0.20159	1	0.037255	1	0.018018	1	0.22693	1	0.17931	1	0.22288	1	0.1247	1
Xq loss	0 (0%)	463	0.52298	1	0.59764	1	0.031324	1	0.022419	1	0.57715	1	0.0007658	0.581	0.22136	1	0.093406	1	0.005797	1	0.35976	1	0.012506	1	0.34493	1
