		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	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	0 (0%)	261	NA	NA	NA	NA	0.013259	1	0.0076514	1	0.074799	1	0.74032	1	0.00022014	0.12	0.031686	1	0.27774	1	0.016954	1	0.006396	1	0.0032324	1
1q gain	0 (0%)	259	NA	NA	NA	NA	0.00034861	0.187	0.012343	1	0.46396	1	1	1	0.099882	1	0.27922	1	0.38985	1	0.25204	1	0.033126	1	0.12501	1
3p gain	0 (0%)	266	NA	NA	NA	NA	1	1	0.83932	1	NA	NA	NA	NA	0.39652	1	0.24486	1	0.23886	1	0.37225	1	0.00082987	0.434	0.55144	1
3q gain	0 (0%)	266	NA	NA	NA	NA	0.17098	1	0.21131	1	NA	NA	NA	NA	0.065497	1	0.38741	1	0.23886	1	0.37225	1	0.00032229	0.173	0.032117	1
4p gain	0 (0%)	265	NA	NA	NA	NA	0.022147	1	0.30897	1	0.53118	1	1	1	0.26919	1	1	1	0.48268	1	0.14482	1	0.018295	1	0.51517	1
6p gain	0 (0%)	266	NA	NA	NA	NA	0.014621	1	0.62553	1	NA	NA	NA	NA	0.065497	1	0.38741	1	0.20277	1	0.07945	1	1.812e-16	1.13e-13	0.19634	1
7p gain	0 (0%)	219	0.17504	1	0.65299	1	4.0388e-26	2.53e-23	8.9317e-13	5.48e-10	5.4582e-05	0.0306	0.0077467	1	1.0413e-06	0.000606	6.2107e-05	0.0348	0.0042677	1	1.0227e-06	0.000597	1.4955e-05	0.00851	3.7076e-11	2.25e-08
7q gain	0 (0%)	201	0.28205	1	0.38205	1	2.569e-23	1.6e-20	2.5409e-11	1.54e-08	0.0023038	1	0.053423	1	1.6539e-05	0.00939	0.00022286	0.121	0.010015	1	0.00093876	0.489	0.00026618	0.145	1.7923e-08	1.08e-05
8p gain	0 (0%)	252	NA	NA	NA	NA	0.00030831	0.166	0.07606	1	0.11736	1	0.78344	1	0.20103	1	0.40541	1	0.28131	1	0.84316	1	0.31456	1	0.1551	1
8q gain	0 (0%)	247	NA	NA	NA	NA	3.0487e-05	0.0172	0.015834	1	0.025133	1	0.41431	1	0.10975	1	0.062371	1	0.097502	1	0.70213	1	0.29005	1	0.0086456	1
9p gain	0 (0%)	263	NA	NA	NA	NA	0.047086	1	0.29845	1	0.32226	1	0.53058	1	0.3333	1	0.86148	1	0.61426	1	0.34039	1	0.072795	1	0.32183	1
9q gain	0 (0%)	260	NA	NA	NA	NA	0.0084793	1	0.090212	1	0.17332	1	1	1	0.039258	1	0.3545	1	0.21451	1	0.57597	1	0.03438	1	0.34132	1
10p gain	0 (0%)	245	NA	NA	NA	NA	7.4204e-05	0.0414	2.0247e-06	0.00117	0.13617	1	0.41431	1	0.96358	1	0.052314	1	0.73094	1	0.55357	1	0.093896	1	0.22868	1
11p gain	0 (0%)	258	NA	NA	NA	NA	0.85948	1	0.29016	1	0.10964	1	0.68023	1	0.20685	1	0.011308	1	0.33616	1	0.86971	1	0.068686	1	0.19235	1
11q gain	0 (0%)	254	NA	NA	NA	NA	0.30272	1	0.24112	1	0.026694	1	0.19578	1	0.31847	1	0.049811	1	0.51906	1	0.6656	1	0.15498	1	0.049133	1
12p gain	0 (0%)	256	NA	NA	NA	NA	0.00076284	0.4	0.30017	1	0.56537	1	1	1	0.034127	1	0.048648	1	0.24686	1	0.083903	1	0.0025703	1	0.044149	1
12q gain	0 (0%)	264	NA	NA	NA	NA	0.09788	1	1	1	0.28625	1	0.72145	1	0.16583	1	0.22023	1	0.40454	1	0.14635	1	0.018079	1	0.051906	1
18p gain	0 (0%)	262	NA	NA	NA	NA	0.2337	1	0.66874	1	0.092496	1	0.77096	1	0.15934	1	0.24787	1	0.51645	1	0.79629	1	0.91881	1	0.68097	1
18q gain	0 (0%)	265	NA	NA	NA	NA	0.14969	1	0.22953	1	0.053026	1	1	1	0.02098	1	0.19613	1	0.66715	1	0.30468	1	0.7669	1	0.51517	1
19p gain	0 (0%)	252	NA	NA	NA	NA	1.3307e-07	7.89e-05	1.8193e-08	1.09e-05	0.024833	1	0.047244	1	0.00012186	0.0673	8.4094e-05	0.0466	0.0094415	1	0.0015678	0.803	5.0052e-05	0.0281	3.9224e-08	2.35e-05
19q gain	0 (0%)	257	NA	NA	NA	NA	1.3238e-05	0.00755	2.3781e-06	0.00138	0.022636	1	0.38286	1	0.00144	0.743	0.0029558	1	0.016932	1	0.0056717	1	1.683e-05	0.00954	2.4412e-06	0.00141
20p gain	0 (0%)	249	NA	NA	NA	NA	6.768e-07	0.000397	5.3072e-08	3.17e-05	0.0042699	1	0.38371	1	0.00055323	0.295	0.04185	1	0.087327	1	0.0014444	0.744	7.4182e-06	0.00426	1.2103e-07	7.19e-05
20q gain	0 (0%)	249	NA	NA	NA	NA	6.768e-07	0.000397	6.3824e-08	3.8e-05	0.00012303	0.0678	0.23676	1	6.6572e-06	0.00383	0.0013281	0.687	0.0042563	1	0.00017362	0.095	6.2549e-07	0.000368	1.8607e-09	1.12e-06
21q gain	0 (0%)	263	NA	NA	NA	NA	0.08082	1	0.078862	1	0.11375	1	0.46484	1	0.11862	1	0.095391	1	0.29823	1	0.45203	1	0.18761	1	0.076118	1
1p loss	0 (0%)	192	0.0036069	1	8.7479e-06	0.00501	1.8245e-25	1.14e-22	4.624e-58	2.92e-55	7.6202e-05	0.0424	0.031607	1	1.9865e-14	1.23e-11	1.2446e-35	7.84e-33	3.3407e-11	2.03e-08	8.7477e-08	5.2e-05	1.8912e-13	1.16e-10	3.1033e-10	1.88e-07
1q loss	0 (0%)	259	0.088889	1	0.020171	1	0.050156	1	0.00017211	0.0943	0.017608	1	1	1	0.03526	1	0.00010704	0.0592	0.00058428	0.309	0.85448	1	0.0024942	1	0.086887	1
2p loss	0 (0%)	263	NA	NA	NA	NA	0.0051798	1	1	1	0.20232	1	1	1	0.02085	1	0.1776	1	0.6201	1	0.45203	1	0.56287	1	0.86423	1
2q loss	0 (0%)	265	NA	NA	NA	NA	0.052207	1	0.79808	1	0.37792	1	1	1	0.33072	1	0.2733	1	0.50342	1	0.70761	1	0.84936	1	0.38315	1
3p loss	0 (0%)	259	NA	NA	NA	NA	0.0022615	1	0.1784	1	0.0022516	1	0.070515	1	0.00030477	0.165	0.0086564	1	0.061327	1	0.30477	1	0.023318	1	0.037147	1
3q loss	0 (0%)	256	0.17504	1	0.56068	1	5.8695e-06	0.00338	0.050426	1	0.079803	1	0.047244	1	0.040515	1	0.073961	1	0.21356	1	0.47151	1	0.42035	1	0.049435	1
4p loss	0 (0%)	251	0.41538	1	0.090655	1	0.00056406	0.3	1.0326e-06	0.000602	0.72476	1	0.62829	1	0.00040785	0.219	2.9603e-06	0.00171	0.00045234	0.242	0.84966	1	0.0091184	1	0.1498	1
4q loss	0 (0%)	241	0.83946	1	0.40412	1	0.00057246	0.304	9.7797e-06	0.00558	0.61242	1	0.63398	1	0.00028329	0.154	6.2599e-05	0.035	0.00073424	0.386	0.88738	1	0.00055854	0.298	0.056291	1
5p loss	0 (0%)	256	1	1	0.042005	1	0.0042866	1	0.2034	1	0.61053	1	1	1	0.88058	1	0.44542	1	0.34963	1	0.70197	1	0.052091	1	0.80554	1
5q loss	0 (0%)	258	0.41538	1	0.0022792	1	0.0018059	0.923	0.16459	1	0.02032	1	1	1	0.17687	1	0.17859	1	0.28011	1	0.4045	1	0.0012768	0.661	0.34973	1
6p loss	0 (0%)	259	NA	NA	NA	NA	0.12172	1	0.0074655	1	0.096006	1	0.80639	1	0.23291	1	1	1	0.45227	1	0.08772	1	0.66208	1	0.0080649	1
6q loss	0 (0%)	237	NA	NA	NA	NA	0.00015816	0.087	0.019984	1	0.22263	1	0.87936	1	0.49671	1	0.19949	1	0.0015035	0.771	0.56128	1	0.70256	1	0.10495	1
8p loss	0 (0%)	263	NA	NA	NA	NA	0.017563	1	0.0588	1	0.2318	1	0.46484	1	0.3333	1	0.41857	1	0.61426	1	0.193	1	0.30734	1	0.045487	1
8q loss	0 (0%)	265	NA	NA	NA	NA	0.14969	1	0.0040437	1	0.79242	1	1	1	0.26919	1	1	1	0.48268	1	0.087962	1	0.71968	1	0.035246	1
9p loss	0 (0%)	220	0.051852	1	0.65299	1	9.1235e-06	0.00522	0.024253	1	0.04893	1	0.051927	1	0.86597	1	0.42202	1	0.82737	1	0.23568	1	0.60417	1	0.44787	1
9q loss	0 (0%)	262	NA	NA	NA	NA	0.099723	1	0.032015	1	0.95403	1	0.29872	1	0.50845	1	0.0088336	1	0.034319	1	0.79629	1	0.0090096	1	0.38657	1
10p loss	0 (0%)	233	0.27077	1	0.56068	1	1.4156e-15	8.78e-13	4.7411e-27	2.98e-24	3.897e-07	0.00023	0.00060856	0.321	2.3772e-11	1.45e-08	4.5323e-05	0.0255	0.0088803	1	5.8137e-07	0.000342	2.1861e-13	1.34e-10	1.4392e-13	8.87e-11
10q loss	0 (0%)	231	0.27077	1	0.56068	1	1.2027e-14	7.44e-12	7.6212e-25	4.76e-22	1.7599e-06	0.00102	0.0009405	0.489	2.442e-11	1.49e-08	7.5391e-05	0.042	0.0063103	1	2.1305e-07	0.000126	2.106e-12	1.29e-09	7.1189e-14	4.39e-11
11p loss	0 (0%)	244	0.81538	1	0.10604	1	2.1394e-08	1.28e-05	0.0002158	0.118	0.029808	1	0.61217	1	0.0071796	1	0.0090434	1	0.0034132	1	0.64668	1	0.00016837	0.0924	0.12343	1
11q loss	0 (0%)	262	NA	NA	NA	NA	0.018206	1	0.32767	1	0.02604	1	1	1	0.015747	1	0.24787	1	0.34415	1	0.79629	1	0.012155	1	0.68097	1
12p loss	0 (0%)	265	NA	NA	NA	NA	0.33845	1	0.71435	1	0.34312	1	1	1	0.55662	1	0.80279	1	0.97341	1	0.22062	1	0.014376	1	0.81139	1
12q loss	0 (0%)	258	NA	NA	NA	NA	0.0095958	1	0.1213	1	0.36444	1	0.32262	1	0.12738	1	0.35401	1	0.36802	1	0.15096	1	0.23274	1	0.54008	1
13q loss	0 (0%)	238	1	1	0.013836	1	6.3399e-19	3.94e-16	0.064183	1	0.09679	1	0.93915	1	0.39524	1	0.15895	1	0.63209	1	0.61263	1	0.66474	1	0.18709	1
14q loss	0 (0%)	241	NA	NA	NA	NA	0.019477	1	0.00057183	0.304	0.071871	1	0.28232	1	0.013443	1	0.11039	1	0.0034994	1	0.0052185	1	0.04919	1	0.16097	1
15q loss	0 (0%)	253	NA	NA	NA	NA	0.31684	1	0.00097389	0.505	0.51255	1	0.037085	1	0.76542	1	0.0048281	1	0.49449	1	0.91576	1	0.24047	1	0.69256	1
16p loss	0 (0%)	266	NA	NA	NA	NA	0.069256	1	0.62553	1	0.28614	1	0.31675	1	1	1	1	1	0.57323	1	0.14563	1	0.91114	1	0.12405	1
16q loss	0 (0%)	262	NA	NA	NA	NA	0.040566	1	0.027709	1	0.069447	1	0.35269	1	0.15934	1	0.24787	1	0.76396	1	0.14159	1	0.28019	1	0.1981	1
17p loss	0 (0%)	265	NA	NA	NA	NA	0.1707	1	0.12542	1	0.19674	1	1	1	0.02098	1	0.19613	1	0.49568	1	0.30468	1	0.20928	1	0.21767	1
18p loss	0 (0%)	248	0.34359	1	0.21231	1	0.023974	1	0.010105	1	0.66413	1	0.13129	1	0.74699	1	0.36659	1	0.074392	1	0.20829	1	0.3201	1	0.11597	1
18q loss	0 (0%)	249	0.088889	1	0.046838	1	0.018771	1	0.00085384	0.446	0.28186	1	0.23406	1	0.51785	1	0.087899	1	0.077778	1	0.52899	1	0.25475	1	0.17935	1
19p loss	0 (0%)	262	0.61538	1	0.11658	1	0.52498	1	0.13513	1	1	1	0.068282	1	0.29927	1	0.09696	1	0.10067	1	0.40281	1	0.18445	1	0.68097	1
19q loss	0 (0%)	184	0.2997	1	0.040422	1	2.6962e-23	1.68e-20	1.1151e-43	7.04e-41	0.00031244	0.168	0.081467	1	1.0983e-12	6.72e-10	1.3665e-29	8.6e-27	1.5397e-07	9.11e-05	6.3638e-07	0.000374	6.2831e-10	3.79e-07	3.4649e-08	2.08e-05
20p loss	0 (0%)	266	NA	NA	NA	NA	0.31196	1	0.62553	1	0.79242	1	1	1	1	1	1	1	0.30848	1	0.64128	1	0.76049	1	0.7597	1
21q loss	0 (0%)	258	NA	NA	NA	NA	0.098898	1	0.67352	1	0.3985	1	0.68023	1	0.43658	1	0.17859	1	0.10516	1	0.0078282	1	0.34736	1	0.45431	1
22q loss	0 (0%)	249	1	1	0.087863	1	1.9665e-05	0.0111	2.3756e-05	0.0134	7.6197e-05	0.0424	0.071145	1	0.00059521	0.314	0.0014584	0.75	0.0099591	1	0.25386	1	0.00076223	0.4	0.0077609	1
Xq loss	0 (0%)	263	NA	NA	NA	NA	0.047086	1	0.29845	1	0.6368	1	0.35269	1	0.3333	1	0.41857	1	0.18198	1	0.002087	1	0.58893	1	0.076118	1
