		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%)	435	1	1	1	1	1.6258e-07	0.00014	0.011496	1	0.18203	1	0.021692	1	0.20332	1	0.33915	1	0.68742	1	0.84031	1	0.9031	1	0.71819	1
1q gain	0 (0%)	302	0.46488	1	0.88479	1	0.033696	1	3.2442e-08	2.84e-05	0.010016	1	0.12684	1	0.40877	1	0.70295	1	0.85562	1	0.83394	1	0.10237	1	0.3147	1
2p gain	0 (0%)	443	0.03123	1	0.015087	1	2.2832e-08	2e-05	1.1501e-07	9.97e-05	0.020988	1	0.013746	1	0.0023663	1	0.00047767	0.375	0.009325	1	0.007452	1	0.034507	1	0.0051771	1
2q gain	0 (0%)	448	0.0302	1	0.025306	1	2.0907e-06	0.00177	9.6416e-08	8.38e-05	0.1168	1	0.17754	1	0.00029643	0.237	0.0070588	1	0.0022148	1	0.0063552	1	0.0015535	1	0.0051548	1
3p gain	0 (0%)	480	NA	NA	NA	NA	0.016698	1	0.03463	1	0.49432	1	0.58816	1	0.0050295	1	0.0029156	1	0.59939	1	0.84203	1	1	1	0.48614	1
3q gain	0 (0%)	463	NA	NA	NA	NA	0.0023546	1	0.041342	1	0.085098	1	0.42875	1	0.018685	1	0.18749	1	0.040745	1	0.10673	1	0.045961	1	0.18668	1
4p gain	0 (0%)	463	0.55363	1	0.41815	1	0.00011374	0.0929	0.0077391	1	0.35002	1	0.021997	1	0.51762	1	0.11504	1	0.46301	1	0.33173	1	0.83203	1	0.22406	1
4q gain	0 (0%)	483	NA	NA	NA	NA	0.022534	1	0.82329	1	0.045077	1	0.06892	1	0.16115	1	0.15184	1	0.013409	1	0.091797	1	0.32964	1	0.018594	1
5p gain	0 (0%)	309	0.48692	1	0.4185	1	5.0329e-12	4.48e-09	0.16256	1	0.83559	1	0.94052	1	0.51226	1	0.060889	1	0.23194	1	0.2115	1	0.59287	1	0.43698	1
5q gain	0 (0%)	433	0.017738	1	0.64431	1	0.077382	1	0.55805	1	0.47755	1	0.39136	1	0.015549	1	0.0038077	1	0.2974	1	0.04487	1	0.039975	1	0.28125	1
6p gain	0 (0%)	420	0.29183	1	0.05069	1	0.0091672	1	3.0243e-06	0.00256	0.0037181	1	0.24964	1	0.054955	1	0.21283	1	0.20696	1	0.43658	1	0.20341	1	0.40461	1
6q gain	0 (0%)	474	NA	NA	NA	NA	0.083495	1	0.0055496	1	0.15465	1	0.033535	1	0.30939	1	0.75859	1	0.013386	1	0.018587	1	0.33189	1	0.12331	1
7p gain	0 (0%)	334	0.75419	1	0.5228	1	3.5094e-21	3.14e-18	0.0090559	1	0.00087088	0.671	0.0054609	1	2.4759e-06	0.00209	6.2586e-09	5.51e-06	2.9199e-05	0.0243	0.001663	1	0.0045598	1	0.0011774	0.897
7q gain	0 (0%)	381	0.38828	1	0.70175	1	3.1278e-10	2.77e-07	0.01722	1	0.031772	1	0.16565	1	5.4251e-05	0.0448	1.0246e-06	0.000875	0.031649	1	0.091463	1	0.036915	1	0.035174	1
8p gain	0 (0%)	432	1	1	0.41815	1	7.738e-11	6.88e-08	0.0011653	0.889	0.67961	1	0.10712	1	0.0078553	1	0.027627	1	0.33888	1	0.07595	1	0.40569	1	0.85452	1
8q gain	0 (0%)	344	0.064056	1	0.19076	1	1.8352e-23	1.65e-20	7.3306e-09	6.44e-06	0.23561	1	0.012252	1	0.00072139	0.562	2.9378e-05	0.0244	8.127e-08	7.07e-05	1.4539e-07	0.000126	0.00078753	0.61	0.00042953	0.34
9p gain	0 (0%)	477	NA	NA	NA	NA	0.1041	1	0.09541	1	0.86349	1	1	1	0.89765	1	0.27457	1	0.27552	1	0.40472	1	0.063765	1	0.045738	1
9q gain	0 (0%)	485	NA	NA	NA	NA	0.024189	1	0.82329	1	0.23724	1	0.47495	1	0.82406	1	0.90199	1	0.27112	1	0.13048	1	0.32964	1	0.018594	1
10p gain	0 (0%)	442	NA	NA	NA	NA	0.002426	1	0.00014663	0.119	0.29888	1	0.22625	1	0.0011462	0.876	0.009207	1	0.032589	1	0.20777	1	0.01232	1	0.29767	1
10q gain	0 (0%)	463	NA	NA	NA	NA	0.25067	1	0.00072967	0.568	0.18807	1	0.064945	1	0.0082446	1	0.073384	1	0.16393	1	0.81281	1	0.35631	1	0.79966	1
11p gain	0 (0%)	457	NA	NA	NA	NA	0.015212	1	0.0047818	1	0.62806	1	0.85467	1	0.28802	1	0.097084	1	0.070994	1	0.073729	1	0.12517	1	0.14996	1
11q gain	0 (0%)	442	0.11976	1	0.15726	1	0.00018712	0.151	0.0014451	1	0.012819	1	0.077119	1	0.0039292	1	0.00013464	0.109	0.0032762	1	0.011826	1	0.024656	1	0.059989	1
12p gain	0 (0%)	434	0.56496	1	0.13192	1	4.7366e-08	4.14e-05	0.011228	1	0.12122	1	0.0090957	1	0.00012603	0.103	4.985e-06	0.0042	0.0009367	0.719	0.01136	1	0.00022899	0.184	0.0020578	1
12q gain	0 (0%)	445	0.56496	1	0.13192	1	8.6192e-06	0.00722	0.023383	1	0.10334	1	0.0086338	1	0.00070568	0.55	0.00016069	0.13	0.039196	1	0.062852	1	0.0051719	1	0.033775	1
13q gain	0 (0%)	477	0.19234	1	0.15726	1	0.56488	1	4.5269e-05	0.0374	0.070832	1	0.071204	1	0.070285	1	0.34927	1	0.56115	1	0.40596	1	0.92794	1	0.49173	1
14q gain	0 (0%)	434	NA	NA	NA	NA	5.1039e-07	0.000438	0.00020554	0.165	0.28061	1	0.33879	1	0.15068	1	0.031053	1	0.0030029	1	0.00089274	0.687	0.0079628	1	0.0050045	1
15q gain	0 (0%)	479	NA	NA	NA	NA	0.72326	1	0.19117	1	0.90714	1	1	1	0.053375	1	0.2185	1	0.32677	1	0.55505	1	0.58237	1	0.3261	1
16p gain	0 (0%)	422	0.35825	1	0.32152	1	0.0033257	1	0.36021	1	0.32842	1	0.20138	1	0.0033234	1	0.064371	1	0.0467	1	0.029817	1	0.027098	1	0.45596	1
16q gain	0 (0%)	450	0.19234	1	0.051411	1	0.017513	1	0.78696	1	0.052703	1	0.051526	1	0.023921	1	0.49263	1	0.022473	1	0.15154	1	0.11943	1	0.69027	1
17p gain	0 (0%)	464	NA	NA	NA	NA	4.7633e-06	0.00402	0.00013518	0.11	0.39869	1	0.55059	1	0.58352	1	0.20431	1	0.048239	1	0.41577	1	0.65831	1	0.13311	1
17q gain	0 (0%)	413	0.044722	1	0.70175	1	4.6186e-10	4.09e-07	4.356e-07	0.000375	0.82792	1	0.55384	1	0.14824	1	0.056195	1	0.029618	1	0.033178	1	0.3373	1	0.010944	1
18p gain	0 (0%)	449	NA	NA	NA	NA	3.5725e-07	0.000308	0.0012072	0.919	0.029952	1	0.12919	1	0.051949	1	0.016074	1	0.026822	1	0.0032278	1	0.034507	1	0.00024088	0.193
18q gain	0 (0%)	466	NA	NA	NA	NA	2.2439e-06	0.0019	0.00088495	0.681	0.086645	1	0.036944	1	0.009491	1	0.00036863	0.293	0.2145	1	0.012769	1	0.062184	1	0.013631	1
19p gain	0 (0%)	487	NA	NA	NA	NA	1	1	0.22162	1	0.78149	1	1	1	1	1	0.87675	1	1	1	0.15652	1	1	1	1	1
19q gain	0 (0%)	469	NA	NA	NA	NA	0.0008179	0.632	0.0021285	1	0.50611	1	0.14792	1	0.11789	1	0.027295	1	0.35323	1	0.06776	1	0.25718	1	0.23109	1
20p gain	0 (0%)	430	0.023526	1	0.012653	1	1.8783e-06	0.00159	4.4253e-05	0.0366	0.1534	1	0.91578	1	0.0019955	1	4.0641e-05	0.0337	0.01196	1	0.0050682	1	0.013228	1	0.034502	1
20q gain	0 (0%)	415	0.0023737	1	0.0021899	1	3.1081e-07	0.000268	7.3521e-08	6.4e-05	0.0082708	1	0.26035	1	0.00046195	0.364	0.00018319	0.148	0.0019461	1	0.0013518	1	0.024337	1	0.0079492	1
21q gain	0 (0%)	450	0.19234	1	0.15726	1	0.00022425	0.18	0.029027	1	0.20459	1	0.12851	1	0.17089	1	0.12161	1	0.021902	1	0.069997	1	0.76677	1	0.41847	1
22q gain	0 (0%)	473	NA	NA	NA	NA	0.002945	1	0.85538	1	0.28143	1	0.84275	1	1	1	0.76849	1	0.20243	1	0.048558	1	0.11514	1	0.1045	1
Xq gain	0 (0%)	476	0.7496	1	0.59113	1	8.3654e-05	0.0685	0.6458	1	0.39572	1	0.10748	1	0.11896	1	0.66182	1	0.24543	1	0.42239	1	0.36527	1	0.09079	1
1p loss	0 (0%)	464	NA	NA	NA	NA	2.163e-05	0.018	6.2572e-06	0.00526	0.78305	1	0.22053	1	0.00054044	0.424	0.26687	1	0.96542	1	0.19793	1	0.69408	1	0.083374	1
1q loss	0 (0%)	483	NA	NA	NA	NA	0.00069286	0.542	0.018996	1	0.54731	1	0.056061	1	0.010806	1	0.42385	1	0.28856	1	0.13655	1	0.23607	1	0.089303	1
2p loss	0 (0%)	487	NA	NA	NA	NA	0.86677	1	1	1	1	1	0.2486	1	1	1	0.87675	1	0.45962	1	0.69658	1	1	1	1	1
2q loss	0 (0%)	489	NA	NA	NA	NA	0.042148	1	0.39862	1	NA	NA	NA	NA	1	1	0.47884	1	0.65978	1	0.76747	1	1	1	0.76946	1
3p loss	0 (0%)	397	0.2081	1	0.17643	1	1.8567e-06	0.00158	1.0513e-09	9.29e-07	0.22969	1	0.15553	1	0.0021269	1	0.021075	1	0.018756	1	0.041292	1	0.024314	1	0.089292	1
3q loss	0 (0%)	437	0.55363	1	0.41815	1	0.00036809	0.293	2.0159e-09	1.78e-06	0.55228	1	1	1	0.024608	1	0.24391	1	0.18507	1	0.39489	1	0.032574	1	0.18264	1
4p loss	0 (0%)	453	NA	NA	NA	NA	1.2191e-05	0.0102	0.007937	1	0.3541	1	0.6568	1	0.00044963	0.354	0.00048537	0.381	0.0017687	1	0.0079744	1	0.011782	1	0.0067726	1
4q loss	0 (0%)	446	0.0060484	1	0.0070565	1	1.2269e-10	1.09e-07	1.5838e-06	0.00135	0.81921	1	0.50046	1	4.2455e-05	0.0352	3.1911e-06	0.00269	0.0018302	1	0.00034567	0.275	0.0039944	1	0.025211	1
5p loss	0 (0%)	482	NA	NA	NA	NA	0.026227	1	0.058373	1	0.68919	1	1	1	0.013395	1	0.0011237	0.86	0.023918	1	0.091797	1	0.026672	1	0.024429	1
5q loss	0 (0%)	433	0.023526	1	0.012653	1	1.8374e-06	0.00156	4.4044e-07	0.000378	0.12928	1	0.25729	1	0.00011741	0.0958	0.001014	0.777	0.0091931	1	0.016484	1	0.0036288	1	0.0077856	1
6p loss	0 (0%)	450	0.33468	1	0.30806	1	0.0014906	1	0.00043981	0.347	0.2273	1	0.618	1	0.31557	1	0.38556	1	0.66377	1	0.56864	1	0.47245	1	0.69027	1
6q loss	0 (0%)	381	0.80335	1	0.72164	1	0.037648	1	7.6668e-07	0.000656	0.28871	1	0.11721	1	0.55281	1	0.57445	1	0.74197	1	0.31285	1	0.21928	1	0.21168	1
7p loss	0 (0%)	479	0.55363	1	0.41815	1	0.011896	1	0.11298	1	1	1	1	1	0.19507	1	0.2185	1	0.21432	1	0.92441	1	0.84077	1	1	1
7q loss	0 (0%)	476	0.52998	1	0.18587	1	0.61431	1	0.50832	1	0.8807	1	0.66451	1	0.30331	1	0.43762	1	0.94694	1	0.51382	1	0.39659	1	0.1758	1
8p loss	0 (0%)	371	0.10434	1	0.17288	1	1.7198e-20	1.54e-17	0.00013362	0.109	0.14864	1	0.083303	1	0.063205	1	0.00079287	0.614	0.026938	1	0.029059	1	0.028021	1	0.00085046	0.657
8q loss	0 (0%)	472	NA	NA	NA	NA	0.00028483	0.228	0.37325	1	0.0099639	1	0.20092	1	0.047388	1	0.0030126	1	0.25199	1	1	1	0.32181	1	0.3927	1
9p loss	0 (0%)	351	0.05116	1	0.07018	1	5.5485e-05	0.0457	7.6091e-07	0.000652	0.12769	1	0.061613	1	0.18501	1	0.031049	1	0.91768	1	0.30436	1	0.72322	1	0.44437	1
9q loss	0 (0%)	373	0.20319	1	0.22214	1	1.0428e-06	0.000889	5.1459e-08	4.49e-05	0.62627	1	0.183	1	0.03506	1	0.010566	1	0.15954	1	0.15398	1	0.19472	1	0.026214	1
10p loss	0 (0%)	455	0.90089	1	0.8178	1	2.067e-05	0.0172	0.0015072	1	0.10906	1	0.12884	1	0.23117	1	0.15039	1	0.014525	1	0.0025849	1	0.0012301	0.934	0.00013228	0.108
10q loss	0 (0%)	444	0.7496	1	0.59113	1	0.00044747	0.353	0.0012073	0.919	0.056396	1	0.15447	1	0.73078	1	0.47422	1	0.17078	1	0.0048689	1	0.0033358	1	0.0005895	0.462
11p loss	0 (0%)	457	0.33468	1	0.10222	1	0.00030569	0.244	0.41517	1	0.036813	1	0.0047256	1	0.0028174	1	0.0042839	1	0.03445	1	0.19818	1	0.0029575	1	0.0072275	1
11q loss	0 (0%)	462	0.47379	1	0.15726	1	0.00075446	0.585	0.50073	1	0.0056441	1	0.20824	1	0.3942	1	0.28045	1	0.72301	1	0.63304	1	0.50734	1	0.29422	1
12p loss	0 (0%)	453	0.7282	1	0.8178	1	0.7281	1	0.024046	1	0.12626	1	0.80973	1	0.061029	1	0.62162	1	0.81082	1	0.65029	1	0.11667	1	0.59414	1
12q loss	0 (0%)	469	NA	NA	NA	NA	0.09558	1	0.054936	1	0.73676	1	0.19291	1	0.28934	1	0.92617	1	0.95931	1	0.54578	1	0.20013	1	0.56797	1
13q loss	0 (0%)	378	0.14244	1	0.14514	1	6.3744e-27	5.72e-24	7.4111e-06	0.00622	0.4042	1	0.024855	1	0.061331	1	0.030575	1	0.026373	1	0.084798	1	0.24802	1	0.10171	1
14q loss	0 (0%)	446	0.40121	1	0.41815	1	0.026006	1	0.040267	1	0.020225	1	0.060115	1	0.22738	1	0.56598	1	0.068322	1	0.15397	1	0.00069962	0.546	0.093399	1
15q loss	0 (0%)	395	0.40454	1	0.21903	1	7.7536e-14	6.93e-11	1.1017e-07	9.56e-05	0.45976	1	0.23625	1	0.015289	1	0.00037789	0.299	0.00031487	0.251	0.00034246	0.273	0.012431	1	0.00017717	0.143
16p loss	0 (0%)	454	NA	NA	NA	NA	7.15e-05	0.0587	1.7457e-05	0.0146	0.33882	1	0.72119	1	0.0090495	1	0.039032	1	0.045269	1	0.094005	1	0.040998	1	0.062242	1
16q loss	0 (0%)	436	0.015881	1	1	1	6.7991e-09	5.98e-06	8.2382e-05	0.0676	0.021596	1	0.32574	1	0.019593	1	0.090269	1	0.023281	1	0.25368	1	0.00098561	0.756	0.0058091	1
17p loss	0 (0%)	375	0.3992	1	0.63133	1	3.3486e-08	2.93e-05	0.001245	0.944	0.050844	1	0.0065827	1	0.13432	1	0.28917	1	0.64011	1	0.30134	1	0.50101	1	0.52248	1
17q loss	0 (0%)	474	NA	NA	NA	NA	0.10319	1	0.41003	1	0.10614	1	0.53067	1	0.10338	1	0.12892	1	0.5401	1	0.0071386	1	0.41211	1	0.73968	1
18p loss	0 (0%)	413	0.41986	1	0.41218	1	5.9191e-09	5.21e-06	0.0093844	1	0.45322	1	0.19257	1	0.03175	1	0.19837	1	0.67386	1	0.64293	1	0.072461	1	0.20703	1
18q loss	0 (0%)	381	0.41986	1	0.41218	1	9.9824e-13	8.9e-10	0.0020324	1	0.18248	1	0.12244	1	0.0074851	1	0.064328	1	0.092183	1	0.79128	1	0.20929	1	0.16737	1
19p loss	0 (0%)	374	0.64867	1	0.68791	1	5.566e-05	0.0458	1.6841e-13	1.5e-10	0.61413	1	0.65146	1	2.4087e-05	0.02	0.0013218	1	0.0026278	1	0.013069	1	0.0075348	1	0.05208	1
19q loss	0 (0%)	421	0.71049	1	0.72164	1	0.00073188	0.569	8.2401e-07	0.000705	0.31471	1	0.3547	1	0.023897	1	0.048026	1	0.0055407	1	0.056891	1	0.00037248	0.295	0.025993	1
20p loss	0 (0%)	427	0.19188	1	0.41218	1	7.0237e-05	0.0577	0.0098046	1	0.0027051	1	0.0026042	1	0.085917	1	0.15799	1	0.74953	1	0.14578	1	0.47058	1	0.93818	1
20q loss	0 (0%)	468	NA	NA	NA	NA	0.087656	1	0.036228	1	0.51685	1	0.82094	1	0.52534	1	0.53065	1	0.22785	1	0.060724	1	0.61139	1	0.38201	1
21q loss	0 (0%)	425	NA	NA	NA	NA	1.3625e-09	1.2e-06	2.9007e-07	0.00025	0.30049	1	0.040901	1	9.0579e-10	8.02e-07	2.1608e-08	1.9e-05	1.6403e-05	0.0137	1.5303e-07	0.000132	0.010144	1	0.0013775	1
22q loss	0 (0%)	396	0.30751	1	0.32108	1	4.2283e-11	3.76e-08	7.2908e-06	0.00612	0.02184	1	0.0061368	1	0.0050419	1	0.0026734	1	0.0070721	1	0.0018649	1	0.0099577	1	0.00011079	0.0906
Xq loss	0 (0%)	482	NA	NA	NA	NA	0.47681	1	0.18356	1	0.62018	1	1	1	0.11363	1	0.36073	1	0.64803	1	0.35052	1	0.32964	1	0.7821	1
