		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	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	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	0 (0%)	482	0.46675	1	0.49146	1	0.00078799	0.494	1	1	0.40106	1	1	1	0.13048	1	0.50364	1	0.011356	1	0.072583	1	0.048344	1	0.20335	1
1q gain	0 (0%)	362	0.24994	1	0.29034	1	0.00018225	0.121	0.0060313	1	0.0012254	0.743	0.00071538	0.45	0.9014	1	0.96567	1	0.0024522	1	0.35496	1	0.15601	1	0.72134	1
2p gain	0 (0%)	451	0.42527	1	0.48132	1	2.1761e-19	1.79e-16	0.059562	1	0.17655	1	0.8017	1	0.037146	1	0.40867	1	0.46554	1	0.075428	1	0.11277	1	0.099958	1
2q gain	0 (0%)	462	0.34265	1	1	1	1.325e-20	1.1e-17	0.16483	1	0.065268	1	0.5746	1	0.0096383	1	0.40273	1	0.47695	1	0.022748	1	0.072707	1	0.062133	1
3p gain	0 (0%)	474	NA	NA	NA	NA	1.9497e-20	1.61e-17	0.13617	1	0.52525	1	0.65189	1	0.27444	1	0.2538	1	0.18724	1	0.031919	1	0.31972	1	0.26805	1
3q gain	0 (0%)	452	0.1372	1	0.27248	1	3.8924e-21	3.23e-18	4.5689e-05	0.0315	0.38821	1	0.30068	1	0.13117	1	0.21538	1	0.0011538	0.703	2.4044e-05	0.017	0.017847	1	0.036798	1
4p gain	0 (0%)	497	NA	NA	NA	NA	0.006474	1	0.46192	1	NA	NA	0.14038	1	0.11622	1	0.77665	1	0.13166	1	0.019441	1	0.20689	1	0.058119	1
4q gain	0 (0%)	501	NA	NA	NA	NA	0.23134	1	NA	NA	NA	NA	0.37629	1	NA	NA	NA	NA	0.57007	1	0.081782	1	NA	NA	NA	NA
5p gain	0 (0%)	470	0.53641	1	0.27248	1	2.3869e-10	1.88e-07	0.0001691	0.113	0.058708	1	1	1	0.0046449	1	0.014092	1	0.00025091	0.164	1.7377e-05	0.0124	0.002654	1	0.0011624	0.707
5q gain	0 (0%)	495	NA	NA	NA	NA	0.011599	1	0.42284	1	NA	NA	1	1	NA	NA	NA	NA	0.35688	1	0.088518	1	0.17074	1	0.044993	1
6p gain	0 (0%)	466	0.2533	1	0.09018	1	2.2359e-20	1.84e-17	0.05129	1	0.66066	1	1	1	0.067254	1	0.40867	1	0.013637	1	0.014353	1	0.099827	1	0.24816	1
6q gain	0 (0%)	472	0.2533	1	0.09018	1	3.3978e-17	2.79e-14	0.38472	1	0.40106	1	1	1	0.34186	1	0.30878	1	0.052738	1	0.03631	1	0.56019	1	0.64361	1
7p gain	0 (0%)	458	0.93531	1	0.86626	1	3.267e-14	2.65e-11	0.0066855	1	0.73304	1	0.21665	1	0.027205	1	0.5592	1	0.68503	1	0.64146	1	0.58035	1	0.19903	1
7q gain	0 (0%)	458	0.85548	1	1	1	2.9572e-15	2.41e-12	0.010594	1	0.88873	1	0.055165	1	0.14087	1	0.5592	1	0.54951	1	0.96609	1	0.89234	1	0.2028	1
8p gain	0 (0%)	414	0.70442	1	0.6094	1	1.5969e-19	1.32e-16	0.71802	1	0.13349	1	1	1	0.52181	1	0.44489	1	0.10287	1	0.038888	1	0.35983	1	0.27592	1
8q gain	0 (0%)	383	0.033593	1	0.033888	1	1.5032e-20	1.24e-17	0.5501	1	0.0049518	1	1	1	0.19599	1	0.90847	1	0.0013911	0.835	0.00080186	0.502	0.16548	1	0.29323	1
9p gain	0 (0%)	489	NA	NA	NA	NA	0.062576	1	0.11661	1	NA	NA	1	1	0.17513	1	0.11639	1	0.022543	1	0.023389	1	0.12107	1	0.39704	1
9q gain	0 (0%)	499	NA	NA	NA	NA	0.31869	1	0.37424	1	NA	NA	NA	NA	NA	NA	NA	NA	0.10843	1	0.053425	1	0.20689	1	1	1
10p gain	0 (0%)	416	0.0071379	1	0.047563	1	1.132e-06	0.00084	0.11904	1	0.28359	1	0.13573	1	0.553	1	0.62313	1	0.28143	1	0.0078937	1	0.062121	1	0.085877	1
10q gain	0 (0%)	423	0.0021162	1	0.026184	1	9.3339e-07	0.000695	0.28018	1	0.26814	1	0.18895	1	0.55036	1	0.34629	1	0.15799	1	0.0012469	0.754	0.072451	1	0.14107	1
11p gain	0 (0%)	496	0.1372	1	0.27248	1	0.076281	1	0.20698	1	0.10904	1	1	1	0.6233	1	0.77665	1	0.060752	1	0.30135	1	0.61174	1	0.90291	1
11q gain	0 (0%)	496	NA	NA	NA	NA	0.066784	1	0.46192	1	0.10904	1	0.29906	1	NA	NA	NA	NA	0.36777	1	0.54823	1	1	1	0.90291	1
12p gain	0 (0%)	466	0.64029	1	1	1	6.2048e-06	0.0045	0.0054931	1	0.9373	1	1	1	0.10716	1	0.072586	1	0.05189	1	0.016821	1	0.10926	1	0.040426	1
12q gain	0 (0%)	475	0.64029	1	1	1	0.00020828	0.137	0.08688	1	0.90119	1	1	1	0.27131	1	0.2704	1	0.36187	1	0.17681	1	0.42191	1	0.33369	1
13q gain	0 (0%)	483	NA	NA	NA	NA	1.594e-06	0.00118	0.0031685	1	0.73455	1	0.36663	1	0.38084	1	0.38336	1	0.0023207	1	0.00056327	0.358	0.18022	1	0.046197	1
14q gain	0 (0%)	482	1	1	0.76885	1	0.00013517	0.0904	0.35511	1	0.2387	1	0.29227	1	0.0096383	1	0.045388	1	0.0049558	1	0.031108	1	0.093689	1	0.52849	1
15q gain	0 (0%)	498	NA	NA	NA	NA	8.5426e-06	0.00616	0.84656	1	NA	NA	1	1	NA	NA	NA	NA	0.26267	1	1	1	0.31989	1	0.29241	1
16p gain	0 (0%)	493	NA	NA	NA	NA	0.00094699	0.589	0.02178	1	0.24267	1	1	1	0.78191	1	0.77665	1	0.063376	1	0.12167	1	0.45868	1	0.23556	1
16q gain	0 (0%)	501	NA	NA	NA	NA	0.0021285	1	1	1	NA	NA	1	1	NA	NA	NA	NA	0.5778	1	0.15517	1	NA	NA	NA	NA
17p gain	0 (0%)	496	NA	NA	NA	NA	0.025942	1	0.1684	1	NA	NA	1	1	0.78191	1	0.77665	1	0.055115	1	0.14804	1	0.5467	1	0.49406	1
17q gain	0 (0%)	491	NA	NA	NA	NA	0.00029789	0.195	0.013672	1	0.053132	1	1	1	0.11622	1	0.11037	1	0.0057143	1	0.053952	1	0.17753	1	0.12471	1
18p gain	0 (0%)	464	0.37937	1	0.09018	1	1.745e-13	1.41e-10	0.00013292	0.0891	0.092984	1	0.42867	1	0.00032767	0.213	0.01854	1	1.9671e-06	0.00145	2.0734e-09	1.62e-06	0.00085693	0.536	8.3512e-05	0.0566
18q gain	0 (0%)	483	0.1372	1	0.019423	1	1.2905e-05	0.00923	0.027006	1	NA	NA	1	1	0.02435	1	0.16865	1	0.00014026	0.0936	4.5563e-05	0.0314	0.010514	1	0.00309	1
19p gain	0 (0%)	469	0.15099	1	0.027226	1	3.6346e-14	2.95e-11	0.01134	1	0.25465	1	0.029025	1	0.073163	1	0.059095	1	0.00020379	0.135	0.0010896	0.665	0.21192	1	0.064667	1
19q gain	0 (0%)	471	0.6894	1	0.27248	1	3.4559e-13	2.78e-10	0.0085879	1	0.047685	1	0.36663	1	0.13048	1	0.10709	1	0.00010637	0.0715	7.7362e-05	0.0526	0.11012	1	0.025988	1
20p gain	0 (0%)	438	0.039088	1	0.0046615	1	9.2487e-25	7.7e-22	4.8292e-05	0.0331	0.29078	1	1	1	0.0068482	1	0.0025147	1	9.7898e-06	0.00704	4.0004e-07	0.000302	0.00020682	0.137	4.7232e-05	0.0325
20q gain	0 (0%)	427	0.0080894	1	0.0010465	0.645	1.3671e-29	1.14e-26	6.6563e-07	0.000499	0.19154	1	0.58017	1	0.00031537	0.206	0.00035108	0.227	2.8949e-08	2.22e-05	4.2984e-09	3.34e-06	2.3993e-05	0.017	5.9619e-07	0.000447
21q gain	0 (0%)	479	NA	NA	NA	NA	1.4021e-07	0.000106	0.21591	1	0.2367	1	0.55767	1	0.057632	1	0.045388	1	0.0057498	1	0.022638	1	0.43465	1	0.13613	1
22q gain	0 (0%)	495	NA	NA	NA	NA	0.00020174	0.134	0.00051481	0.328	NA	NA	0.37629	1	0.27131	1	0.2704	1	0.051246	1	0.0070011	1	0.037907	1	0.048384	1
Xq gain	0 (0%)	491	NA	NA	NA	NA	0.00033035	0.214	0.19784	1	NA	NA	0.37629	1	0.02435	1	0.010934	1	0.036302	1	0.1472	1	0.042961	1	0.031637	1
1p loss	0 (0%)	492	NA	NA	NA	NA	4.0762e-11	3.23e-08	0.0029264	1	NA	NA	1	1	0.4779	1	0.49746	1	0.64742	1	0.0017294	1	0.26179	1	0.19181	1
1q loss	0 (0%)	501	NA	NA	NA	NA	0.23134	1	0.063365	1	NA	NA	NA	NA	NA	NA	NA	NA	0.13542	1	0.36669	1	0.60722	1	0.08815	1
2p loss	0 (0%)	499	NA	NA	NA	NA	0.070953	1	0.46192	1	NA	NA	0.37629	1	NA	NA	NA	NA	0.67402	1	0.21059	1	1	1	0.13726	1
2q loss	0 (0%)	494	NA	NA	NA	NA	0.0009995	0.619	0.085937	1	NA	NA	0.14038	1	0.29992	1	0.036617	1	0.12395	1	0.05242	1	0.45868	1	0.022708	1
3p loss	0 (0%)	471	NA	NA	NA	NA	1.2162e-13	9.83e-11	3.0898e-05	0.0218	0.0024632	1	0.042933	1	0.014303	1	0.031238	1	0.00053689	0.341	3.2185e-05	0.0226	0.043599	1	0.0046485	1
3q loss	0 (0%)	490	NA	NA	NA	NA	3.7761e-05	0.0263	0.013142	1	0.024047	1	0.55767	1	0.11622	1	0.77665	1	0.26275	1	0.2548	1	0.51924	1	0.26147	1
4p loss	0 (0%)	437	0.051454	1	0.0075524	1	1.188e-24	9.88e-22	3.1238e-10	2.45e-07	0.033892	1	0.39315	1	0.0015799	0.943	0.0010331	0.637	6.9171e-12	5.53e-09	1.5972e-10	1.26e-07	9.8198e-05	0.0664	5.6652e-06	0.00411
4q loss	0 (0%)	439	0.6894	1	0.27248	1	6.5475e-25	5.46e-22	3.0454e-10	2.39e-07	0.13113	1	0.77642	1	0.0015373	0.919	0.0031486	1	6.7236e-07	0.000503	4.3423e-09	3.37e-06	0.00024378	0.16	3.5627e-05	0.0249
5p loss	0 (0%)	476	0.37937	1	0.09018	1	2.5221e-09	1.96e-06	0.00099525	0.617	0.1459	1	0.30068	1	0.25034	1	0.79849	1	0.0089771	1	0.0014435	0.865	0.085993	1	0.063692	1
5q loss	0 (0%)	457	0.051454	1	0.0075524	1	3.3137e-17	2.72e-14	2.9393e-08	2.25e-05	0.04811	1	0.15296	1	0.067066	1	0.12831	1	3.7074e-05	0.0258	5.4163e-07	0.000407	0.00089569	0.559	0.00010589	0.0713
6p loss	0 (0%)	494	NA	NA	NA	NA	4.1779e-05	0.029	0.046248	1	NA	NA	1	1	0.17972	1	0.012144	1	0.15594	1	0.005857	1	0.47433	1	0.30056	1
6q loss	0 (0%)	492	0.6894	1	0.27248	1	3.1009e-05	0.0218	0.035568	1	0.85846	1	0.55767	1	0.29992	1	0.036617	1	0.087442	1	0.0038913	1	0.28214	1	0.11985	1
7p loss	0 (0%)	474	0.1372	1	0.019423	1	2.8948e-09	2.25e-06	0.0031824	1	0.15846	1	0.20053	1	0.43018	1	0.16865	1	0.00051097	0.326	0.028203	1	0.14083	1	0.060817	1
7q loss	0 (0%)	476	NA	NA	NA	NA	4.603e-12	3.69e-09	6.1247e-05	0.0418	0.19732	1	0.012085	1	0.15384	1	0.26698	1	4.2095e-06	0.00308	0.00040693	0.262	0.021751	1	0.0012992	0.783
8p loss	0 (0%)	448	0.0080894	1	0.0010465	0.645	4.1708e-24	3.47e-21	6.0236e-11	4.76e-08	0.165	1	0.18109	1	0.0013238	0.797	1.5011e-05	0.0107	1.3626e-13	1.1e-10	2.7209e-14	2.21e-11	7.8927e-07	0.00059	1.325e-07	0.000101
8q loss	0 (0%)	491	NA	NA	NA	NA	1.2712e-05	0.0091	0.00031957	0.208	NA	NA	1	1	0.17513	1	0.11639	1	0.011195	1	0.0010142	0.627	0.00058748	0.371	0.0044668	1
9p loss	0 (0%)	427	0.012904	1	0.0019294	1	4.1275e-30	3.45e-27	3.2156e-06	0.00236	0.011722	1	0.24436	1	0.044341	1	0.64592	1	1.1369e-08	8.78e-06	9.2584e-07	0.000691	0.085474	1	0.0048111	1
9q loss	0 (0%)	411	0.0005666	0.359	4.1747e-05	0.029	1.7965e-37	1.51e-34	1.7373e-06	0.00128	0.013661	1	0.35955	1	0.0012801	0.773	0.11076	1	4.1344e-13	3.32e-10	5.3617e-07	0.000404	0.030314	1	0.010935	1
10p loss	0 (0%)	481	0.1372	1	0.019423	1	1.502e-09	1.17e-06	0.0003055	0.199	0.47447	1	0.63255	1	0.29124	1	0.14605	1	3.4793e-06	0.00255	0.0040427	1	0.11812	1	0.012923	1
10q loss	0 (0%)	480	NA	NA	NA	NA	9.6475e-09	7.46e-06	0.0017201	1	0.45123	1	1	1	0.13048	1	0.10709	1	0.00012043	0.0808	0.0080759	1	0.15478	1	0.074601	1
11p loss	0 (0%)	449	NA	NA	NA	NA	1.71e-22	1.42e-19	1.494e-05	0.0107	0.18182	1	0.75005	1	0.0097288	1	0.068467	1	1.32e-07	1e-04	0.00013907	0.0929	0.01233	1	0.00057779	0.365
11q loss	0 (0%)	457	NA	NA	NA	NA	1.004e-16	8.2e-14	0.00071636	0.45	0.92479	1	0.71272	1	0.037425	1	0.19954	1	1.3899e-06	0.00103	0.00050102	0.32	0.062177	1	0.00048063	0.308
12p loss	0 (0%)	478	NA	NA	NA	NA	3.447e-11	2.74e-08	6.9981e-05	0.0477	0.057656	1	1	1	0.015101	1	0.0076299	1	1.5333e-08	1.18e-05	0.00010495	0.0707	0.0023645	1	0.00020433	0.135
12q loss	0 (0%)	485	NA	NA	NA	NA	1.5394e-08	1.18e-05	4.3047e-05	0.0298	0.30993	1	0.42867	1	0.0016219	0.967	5.8766e-05	0.0401	3.4987e-05	0.0245	1.8708e-05	0.0133	0.0026385	1	0.0006681	0.421
13q loss	0 (0%)	443	0.6894	1	0.27248	1	3.8906e-17	3.19e-14	7.7686e-05	0.0527	0.16118	1	0.39315	1	0.19292	1	0.20977	1	2.7548e-05	0.0194	0.00020007	0.133	0.446	1	0.24261	1
14q loss	0 (0%)	461	0.0080894	1	0.0010465	0.645	7.5146e-17	6.15e-14	8.3352e-09	6.45e-06	0.084745	1	0.0051992	1	0.035638	1	0.027667	1	1.2395e-05	0.00889	1.0481e-11	8.35e-09	4.6031e-06	0.00336	1.1021e-05	0.00791
15q loss	0 (0%)	420	0.0020193	1	0.00021801	0.143	6.8007e-35	5.71e-32	9.3111e-12	7.43e-09	0.00259	1	0.26661	1	2.6073e-10	2.05e-07	4.488e-07	0.000338	1.3884e-14	1.13e-11	4.7207e-14	3.82e-11	3.2554e-06	0.00239	9.955e-07	0.00074
16p loss	0 (0%)	431	0.0080894	1	0.0010465	0.645	1.538e-30	1.29e-27	1.8571e-09	1.45e-06	0.10515	1	0.60038	1	3.4675e-08	2.65e-05	9.3383e-07	0.000695	4.6394e-12	3.72e-09	6.3487e-11	5.02e-08	5.7489e-05	0.0393	7.3173e-06	0.00529
16q loss	0 (0%)	390	0.0032363	1	0.0004537	0.291	7.7213e-37	6.49e-34	2.5485e-11	2.03e-08	0.23685	1	1	1	8.8908e-08	6.77e-05	1.7937e-06	0.00132	9.4487e-14	7.64e-11	2.9014e-10	2.28e-07	2.0218e-05	0.0143	1.4621e-07	0.000111
17p loss	0 (0%)	393	0.0032363	1	0.0004537	0.291	4.957e-54	4.18e-51	2.1663e-12	1.74e-09	0.00057115	0.362	0.66522	1	7.4078e-06	0.00535	0.00010377	0.07	2.2367e-18	1.84e-15	3.2229e-10	2.52e-07	9.2695e-05	0.0628	2.0512e-06	0.00151
17q loss	0 (0%)	430	0.0080894	1	0.0010465	0.645	8.265e-32	6.93e-29	3.6573e-05	0.0255	0.092362	1	0.61178	1	0.0041936	1	0.0089313	1	1.7438e-08	1.34e-05	3.3318e-05	0.0234	0.0030809	1	0.00095231	0.591
18p loss	0 (0%)	468	NA	NA	NA	NA	1.7322e-11	1.38e-08	0.00041583	0.267	0.32575	1	0.74551	1	0.36924	1	0.60811	1	0.003903	1	0.00090894	0.566	0.034559	1	0.0062007	1
18q loss	0 (0%)	454	NA	NA	NA	NA	2.699e-16	2.2e-13	4.8096e-05	0.033	0.88341	1	0.76978	1	0.027323	1	0.29263	1	5.3544e-05	0.0367	4.6813e-06	0.00341	0.017847	1	0.0041682	1
19p loss	0 (0%)	468	NA	NA	NA	NA	5.0432e-12	4.03e-09	2.0104e-09	1.57e-06	0.28546	1	0.73096	1	0.0076019	1	0.0048297	1	1.3485e-06	0.000999	5.5217e-07	0.000415	1.4246e-05	0.0102	5.6201e-08	4.29e-05
19q loss	0 (0%)	475	NA	NA	NA	NA	1.1942e-08	9.21e-06	7.2295e-06	0.00523	0.56301	1	1	1	0.037146	1	0.010664	1	4.1353e-05	0.0287	3.5675e-05	0.0249	0.0003254	0.212	5.3131e-06	0.00386
20p loss	0 (0%)	488	NA	NA	NA	NA	9.5051e-06	0.00684	0.083037	1	0.24267	1	0.63255	1	0.20663	1	1	1	0.0031292	1	0.023389	1	0.18748	1	0.18744	1
20q loss	0 (0%)	497	NA	NA	NA	NA	0.0081307	1	0.01457	1	NA	NA	0.52818	1	NA	NA	NA	NA	0.034955	1	0.019441	1	0.11677	1	0.023813	1
21q loss	0 (0%)	470	0.039088	1	0.0046615	1	3.0865e-08	2.36e-05	0.0011988	0.728	0.09504	1	0.75005	1	0.17551	1	0.12597	1	0.00039671	0.256	4.3323e-05	0.0299	0.00033414	0.216	0.00021057	0.139
22q loss	0 (0%)	414	0.0080894	1	0.0010465	0.645	1.0188e-37	8.58e-35	2.0082e-07	0.000152	0.072103	1	1	1	0.014219	1	0.049104	1	5.304e-11	4.2e-08	1.823e-07	0.000138	0.044495	1	0.0040161	1
Xq loss	0 (0%)	488	NA	NA	NA	NA	4.76e-06	0.00347	0.0017341	1	0.61718	1	0.63255	1	0.79967	1	0.11639	1	0.062921	1	0.0013882	0.834	0.01441	1	0.006114	1
