		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
1p gain	0 (0%)	402	NA	NA	NA	NA	0.57626	1	0.90907	1	0.2752	1	0.38396	1	0.42521	1	0.68335	1	0.46021	1	1	1
1q gain	0 (0%)	366	0.053097	1	0.73195	1	0.078786	1	0.30743	1	0.3804	1	0.048087	1	0.11959	1	0.29923	1	0.4366	1	0.83658	1
2p gain	0 (0%)	373	0.156	1	0.037771	1	0.0040928	1	0.046011	1	0.049217	1	0.39257	1	0.00038556	0.25	0.019921	1	0.50846	1	0.35508	1
2q gain	0 (0%)	374	0.098461	1	0.035248	1	0.00017278	0.113	0.0023481	1	0.031071	1	0.39257	1	0.0010917	0.69	0.038358	1	0.52888	1	0.40458	1
3p gain	0 (0%)	393	0.39682	1	0.38241	1	0.071044	1	0.36719	1	0.6228	1	0.72105	1	0.97363	1	0.67551	1	0.62591	1	0.18436	1
3q gain	0 (0%)	383	0.48206	1	0.045848	1	0.00096864	0.614	0.22011	1	0.83316	1	0.75209	1	0.41476	1	0.63539	1	0.35718	1	0.82412	1
4p gain	0 (0%)	410	NA	NA	NA	NA	0.74635	1	0.47306	1	0.24772	1	0.078815	1	NA	NA	NA	NA	0.20776	1	0.033383	1
4q gain	0 (0%)	408	NA	NA	NA	NA	0.84236	1	1	1	0.19909	1	0.49319	1	NA	NA	NA	NA	0.5788	1	0.33452	1
5p gain	0 (0%)	374	0.28969	1	0.041804	1	0.002235	1	0.023566	1	0.63078	1	0.88089	1	0.61763	1	1	1	0.68528	1	0.53047	1
5q gain	0 (0%)	392	0.65716	1	0.56376	1	0.039106	1	0.18815	1	0.42893	1	0.29256	1	0.74855	1	0.57791	1	1	1	0.94763	1
6p gain	0 (0%)	363	0.17049	1	0.011561	1	0.026735	1	0.67498	1	0.71061	1	0.44268	1	0.036737	1	0.26847	1	0.51347	1	0.24624	1
6q gain	0 (0%)	368	0.31237	1	0.024817	1	0.031676	1	0.35198	1	0.554	1	0.43338	1	0.15625	1	0.62058	1	0.44104	1	0.30861	1
7p gain	0 (0%)	213	0.0012376	0.78	0.0037522	1	1.9164e-15	1.37e-12	9.1419e-05	0.0602	0.37362	1	0.039715	1	1.0881e-07	7.52e-05	2.8504e-05	0.0191	0.42473	1	0.95791	1
7q gain	0 (0%)	238	0.0047588	1	0.023568	1	7.0474e-11	4.93e-08	0.0027808	1	0.64991	1	0.071977	1	3.0119e-06	0.00204	0.00018602	0.122	0.47424	1	0.75189	1
8p gain	0 (0%)	333	0.92471	1	0.78522	1	9.2183e-06	0.00621	0.056224	1	0.11726	1	0.38308	1	0.17509	1	0.032702	1	0.615	1	0.57107	1
8q gain	0 (0%)	251	0.75056	1	0.6124	1	9.3911e-12	6.62e-09	0.00066584	0.427	0.75062	1	0.020961	1	0.0071979	1	0.12747	1	0.098557	1	0.1543	1
9p gain	0 (0%)	367	0.033453	1	0.21301	1	0.28043	1	0.43276	1	0.066363	1	0.17919	1	0.87901	1	0.76037	1	0.76674	1	0.76256	1
9q gain	0 (0%)	374	0.091518	1	0.07755	1	0.064111	1	0.11304	1	0.017362	1	0.033971	1	0.36187	1	0.65886	1	0.058924	1	0.63487	1
10p gain	0 (0%)	395	0.64997	1	0.62538	1	0.10421	1	0.047659	1	0.42818	1	0.91721	1	0.90416	1	0.46649	1	0.76067	1	0.94138	1
10q gain	0 (0%)	406	NA	NA	NA	NA	0.11363	1	0.042029	1	0.8367	1	0.86126	1	0.93301	1	0.21941	1	0.20178	1	0.15076	1
11p gain	0 (0%)	395	0.15112	1	0.001355	0.852	0.00031424	0.205	0.00057549	0.371	0.57499	1	0.80443	1	0.87143	1	0.88902	1	0.63382	1	0.88213	1
11q gain	0 (0%)	391	0.030148	1	0.0022731	1	3.7234e-06	0.00252	0.0014127	0.886	0.2646	1	0.80795	1	0.1506	1	0.22004	1	0.38613	1	0.69294	1
12p gain	0 (0%)	347	0.24785	1	0.71014	1	0.0044169	1	0.014562	1	0.88769	1	0.8128	1	0.36103	1	0.68168	1	0.068987	1	0.21035	1
12q gain	0 (0%)	353	0.24785	1	0.54186	1	0.0018101	1	0.0029065	1	0.7908	1	0.66875	1	0.26963	1	0.69054	1	0.012051	1	0.26775	1
13q gain	0 (0%)	202	2.9524e-06	0.002	3.3163e-05	0.0221	2.9518e-33	2.13e-30	0.00026706	0.174	0.018773	1	0.0051019	1	1.7083e-06	0.00117	7.158e-05	0.0474	0.044991	1	0.46564	1
14q gain	0 (0%)	398	0.48458	1	0.4434	1	0.056649	1	0.27636	1	0.22121	1	0.30896	1	0.14473	1	0.12695	1	1	1	0.80535	1
15q gain	0 (0%)	408	NA	NA	NA	NA	0.073166	1	0.68257	1	0.069965	1	0.033319	1	0.78261	1	0.48055	1	0.47307	1	0.42668	1
16p gain	0 (0%)	346	0.012989	1	0.0037979	1	1.0833e-14	7.71e-12	0.13846	1	0.64029	1	0.032865	1	0.050958	1	0.17966	1	0.12636	1	0.047449	1
16q gain	0 (0%)	347	0.013862	1	0.0064365	1	1.4436e-16	1.03e-13	0.13607	1	0.64957	1	0.019909	1	0.050958	1	0.17966	1	0.31435	1	0.23221	1
17p gain	0 (0%)	404	NA	NA	NA	NA	0.61782	1	0.89252	1	0.45381	1	0.23012	1	0.031649	1	0.22465	1	0.73695	1	0.89132	1
17q gain	0 (0%)	365	0.092916	1	0.020216	1	0.00091327	0.581	0.0073931	1	0.86593	1	0.19716	1	1.1618e-05	0.0078	0.014993	1	0.058064	1	0.75324	1
18p gain	0 (0%)	398	0.11798	1	0.63749	1	0.0054775	1	0.013908	1	0.74961	1	0.96788	1	0.17065	1	0.058059	1	0.14412	1	0.3884	1
18q gain	0 (0%)	404	NA	NA	NA	NA	0.023231	1	0.030293	1	0.52043	1	0.15769	1	0.14202	1	0.26749	1	0.27437	1	0.32669	1
19p gain	0 (0%)	379	0.14153	1	0.23992	1	0.0055403	1	0.051177	1	0.29431	1	0.078152	1	0.32105	1	0.48103	1	0.58806	1	0.57289	1
19q gain	0 (0%)	372	0.071786	1	0.10441	1	0.43743	1	0.066588	1	0.12382	1	0.018291	1	0.14546	1	0.29663	1	0.92434	1	0.94219	1
20p gain	0 (0%)	225	0.001417	0.887	1.4709e-06	0.00101	4.2881e-20	3.08e-17	0.012719	1	0.034359	1	0.037085	1	3.3451e-05	0.0223	0.00019663	0.129	0.17412	1	0.075786	1
20q gain	0 (0%)	146	1.2389e-11	8.7e-09	1.886e-13	1.34e-10	9.4158e-47	6.83e-44	1.0617e-09	7.39e-07	0.00036176	0.235	1.5779e-06	0.00108	2.6055e-13	1.85e-10	3.5822e-11	2.51e-08	0.10269	1	0.42883	1
21q gain	0 (0%)	402	0.19372	1	0.19462	1	0.085831	1	0.33915	1	0.35839	1	0.27487	1	0.28201	1	0.73007	1	0.70412	1	0.68448	1
Xq gain	0 (0%)	401	0.48687	1	0.77692	1	0.033071	1	0.63094	1	0.17141	1	0.34424	1	0.44618	1	0.76497	1	0.35201	1	0.40967	1
1p loss	0 (0%)	362	0.0048918	1	0.0007651	0.489	7.0876e-08	4.91e-05	0.0032853	1	0.57577	1	0.69838	1	0.098391	1	0.28609	1	0.18025	1	0.27379	1
1q loss	0 (0%)	395	0.45164	1	0.13542	1	0.01032	1	0.26876	1	0.66027	1	0.79115	1	0.1506	1	0.19603	1	0.94083	1	0.44046	1
2p loss	0 (0%)	409	0.57247	1	0.1105	1	0.43319	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0.66171	1	0.13188	1
2q loss	0 (0%)	407	1	1	0.15638	1	0.60146	1	NA	NA	0.29787	1	0.24525	1	NA	NA	NA	NA	0.17503	1	0.0588	1
3p loss	0 (0%)	386	0.25348	1	0.10441	1	0.0025064	1	0.25233	1	0.20578	1	1	1	0.45836	1	0.55629	1	0.21162	1	0.14292	1
3q loss	0 (0%)	401	0.41487	1	0.56376	1	0.22379	1	1	1	0.015835	1	0.26143	1	0.2672	1	0.68335	1	0.42323	1	0.82207	1
4p loss	0 (0%)	329	0.0046945	1	0.052076	1	1.0515e-11	7.4e-09	0.0029908	1	0.24117	1	0.70846	1	0.00075446	0.483	0.00059947	0.385	0.08301	1	0.29045	1
4q loss	0 (0%)	345	0.007356	1	0.038081	1	2.2559e-10	1.58e-07	0.0022265	1	0.17463	1	0.42703	1	0.0034832	1	0.015793	1	0.0026607	1	0.035856	1
5p loss	0 (0%)	388	0.87467	1	0.17177	1	0.0017575	1	0.10207	1	0.47844	1	0.70393	1	0.12574	1	0.41591	1	0.84064	1	0.90748	1
5q loss	0 (0%)	375	0.12578	1	0.056322	1	1.1142e-05	0.00749	0.29312	1	0.19149	1	0.23421	1	0.0076323	1	0.10496	1	0.55089	1	0.47951	1
6p loss	0 (0%)	401	0.54027	1	0.25087	1	0.0028528	1	1	1	0.72246	1	0.94247	1	0.66626	1	0.44955	1	0.64237	1	0.62386	1
6q loss	0 (0%)	392	0.94313	1	0.73195	1	0.074255	1	0.69654	1	0.33235	1	0.87128	1	1	1	0.84505	1	0.86383	1	1	1
8p loss	0 (0%)	320	0.0003169	0.206	0.0015632	0.977	7.7588e-17	5.56e-14	0.0010382	0.657	0.2821	1	0.041244	1	0.14082	1	0.066457	1	0.19995	1	0.35649	1
8q loss	0 (0%)	405	0.40267	1	0.77692	1	0.0096561	1	0.85153	1	0.1412	1	0.66793	1	1	1	1	1	0.19663	1	0.43569	1
9p loss	0 (0%)	386	0.87467	1	0.10976	1	4.3967e-05	0.0292	0.074568	1	0.1331	1	0.33017	1	0.042381	1	0.10496	1	0.5304	1	0.74427	1
9q loss	0 (0%)	387	0.34792	1	0.12399	1	2.5495e-06	0.00174	0.00061883	0.397	0.1331	1	0.33017	1	0.0008984	0.572	0.03599	1	0.11437	1	0.6754	1
10p loss	0 (0%)	391	0.66975	1	0.67198	1	0.00082829	0.528	0.28523	1	0.20059	1	0.96162	1	0.51767	1	0.35247	1	0.23963	1	0.68136	1
10q loss	0 (0%)	389	0.60573	1	0.70978	1	0.00052594	0.339	0.15234	1	0.19656	1	1	1	0.29513	1	0.039998	1	0.69659	1	0.39298	1
11p loss	0 (0%)	391	0.47001	1	0.067421	1	8.336e-05	0.055	0.00028101	0.183	0.4393	1	0.2484	1	0.048906	1	0.018363	1	0.040081	1	0.16178	1
11q loss	0 (0%)	386	0.37169	1	0.038707	1	7.9223e-06	0.00536	9.6071e-06	0.00647	0.38374	1	0.59998	1	0.2072	1	0.12893	1	0.35754	1	0.20161	1
12p loss	0 (0%)	392	0.090887	1	0.10976	1	7.1022e-05	0.0471	0.20684	1	0.46277	1	0.92193	1	0.080236	1	0.081727	1	0.71974	1	0.20758	1
12q loss	0 (0%)	393	0.16986	1	0.12399	1	0.00010141	0.0666	0.15257	1	0.80482	1	0.87951	1	0.016133	1	0.039998	1	0.41103	1	0.36188	1
13q loss	0 (0%)	407	NA	NA	NA	NA	0.020925	1	0.23224	1	0.02379	1	0.093067	1	0.42521	1	0.46356	1	0.86925	1	0.7227	1
14q loss	0 (0%)	319	2.0915e-07	0.000144	1.1836e-06	0.000814	1.5793e-22	1.14e-19	1.1969e-06	0.000822	0.0083823	1	0.026613	1	1.4971e-06	0.00103	8.7803e-05	0.0579	0.53245	1	0.19414	1
15q loss	0 (0%)	314	0.01932	1	0.012231	1	9.291e-22	6.68e-19	0.0045786	1	0.080324	1	0.3927	1	4.0684e-05	0.0271	7.3474e-05	0.0486	0.48797	1	0.043531	1
16p loss	0 (0%)	404	0.2512	1	0.55383	1	0.30453	1	0.029781	1	0.61004	1	0.90449	1	1	1	1	1	0.71093	1	1	1
16q loss	0 (0%)	406	0.46416	1	1	1	0.22757	1	NA	NA	0.19909	1	0.49319	1	NA	NA	NA	NA	0.17503	1	0.16959	1
17p loss	0 (0%)	249	1.7497e-05	0.0117	3.0491e-05	0.0204	4.4431e-23	3.2e-20	2.3112e-07	0.000159	0.061475	1	0.039315	1	2.6536e-06	0.0018	8.2008e-06	0.00554	0.14682	1	0.04636	1
17q loss	0 (0%)	381	0.11329	1	0.2246	1	0.0021573	1	0.21993	1	0.41234	1	0.15954	1	0.081268	1	0.10925	1	0.32156	1	0.29072	1
18p loss	0 (0%)	204	2.8122e-13	1.99e-10	2.9191e-10	2.04e-07	2.4423e-46	1.77e-43	5.149e-13	3.64e-10	0.0016942	1	0.0004954	0.32	6.9843e-15	4.98e-12	5.8662e-09	4.08e-06	0.25052	1	0.49723	1
18q loss	0 (0%)	188	1.9205e-12	1.36e-09	3.831e-10	2.67e-07	8.8765e-46	6.42e-43	3.6165e-15	2.58e-12	0.016169	1	0.0013775	0.865	4.465e-14	3.17e-11	1.3634e-08	9.46e-06	0.061165	1	0.49873	1
19p loss	0 (0%)	399	1	1	0.31875	1	0.0027471	1	0.095687	1	0.78288	1	0.36098	1	0.0070759	1	0.078889	1	0.69276	1	0.087585	1
19q loss	0 (0%)	400	0.92159	1	0.38044	1	0.011541	1	0.095687	1	0.90627	1	0.36307	1	0.0070759	1	0.078889	1	0.56958	1	0.061113	1
20p loss	0 (0%)	380	0.013178	1	0.0071318	1	8.8788e-08	6.14e-05	0.051364	1	0.61445	1	0.47217	1	0.35278	1	0.30826	1	0.90557	1	0.52983	1
21q loss	0 (0%)	342	0.0026617	1	0.0048603	1	2.5982e-06	0.00177	0.25825	1	0.52413	1	0.57198	1	0.12188	1	0.34163	1	0.073098	1	0.60765	1
22q loss	0 (0%)	332	0.00091619	0.582	0.00045496	0.294	1.0613e-11	7.46e-09	0.089431	1	0.34081	1	0.13829	1	0.0097172	1	0.0011021	0.695	0.62418	1	0.12297	1
Xq loss	0 (0%)	408	NA	NA	NA	NA	0.84236	1	1	1	0.15165	1	0.82096	1	NA	NA	NA	NA	0.85062	1	0.14029	1
