		Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		MIR_CNMF		MIR_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		MRNASEQ_CNMF		MRNASEQ_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	40 (7%)	523	0.68087	1	0.093426	1	0.93357	1	0.065064	1	1.1016e-05	0.00719	0.38839	1	0.47773	1	0.92453	1	0.4599	1	0.069597	1
1q gain	45 (8%)	518	0.62112	1	0.11628	1	0.43965	1	0.34345	1	2.6408e-08	1.78e-05	0.29525	1	0.71251	1	0.88151	1	1	1	0.15175	1
2p gain	20 (4%)	543	0.10988	1	0.78553	1	0.0019972	1	0.1284	1	0.2516	1	0.46032	1	0.68524	1	0.38479	1	0.57734	1	0.79667	1
2q gain	18 (3%)	545	0.17277	1	0.44651	1	3.903e-05	0.0254	0.074318	1	0.37173	1	0.46032	1	0.53498	1	0.51996	1	0.79538	1	0.3663	1
3p gain	30 (5%)	533	0.0035955	1	0.057296	1	0.55096	1	0.67656	1	0.019313	1	0.15031	1	0.40452	1	0.13699	1	0.80774	1	0.77856	1
3q gain	30 (5%)	533	0.0035955	1	0.057296	1	0.55096	1	0.90721	1	0.047297	1	0.15031	1	0.40452	1	0.13699	1	0.74816	1	0.57974	1
4p gain	15 (3%)	548	0.74677	1	0.65551	1	0.38221	1	0.045643	1	0.28984	1	NA	NA	0.4441	1	0.14938	1	NA	NA	NA	NA
4q gain	14 (2%)	549	0.73329	1	0.63255	1	0.20631	1	0.082752	1	0.19264	1	NA	NA	0.4441	1	0.14938	1	NA	NA	NA	NA
5p gain	30 (5%)	533	0.11223	1	0.31043	1	0.24106	1	0.3533	1	0.0036962	1	NA	NA	0.1693	1	0.65201	1	0.20133	1	0.20182	1
5q gain	23 (4%)	540	0.042686	1	0.18309	1	0.050792	1	0.090482	1	0.01521	1	NA	NA	NA	NA	NA	NA	0.4425	1	0.36479	1
6p gain	7 (1%)	556	0.78987	1	0.76862	1	0.65661	1	0.39511	1	0.16089	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
6q gain	9 (2%)	554	0.23727	1	0.60124	1	0.59532	1	0.7463	1	0.02951	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
7p gain	434 (77%)	129	4.496e-08	3.02e-05	7.1983e-07	0.000482	0.00071765	0.451	1.8178e-09	1.23e-06	1.9998e-16	1.38e-13	0.0011004	0.687	0.0016235	0.995	0.47149	1	0.041144	1	0.005521	1
7q gain	439 (78%)	124	3.4884e-06	0.00231	1.749e-05	0.0114	0.0010184	0.637	1.5607e-06	0.00104	9.3585e-15	6.46e-12	0.0034775	1	0.019908	1	0.36112	1	0.091588	1	0.011457	1
8p gain	26 (5%)	537	0.0012374	0.767	0.081363	1	0.3346	1	0.0081176	1	0.0015023	0.924	0.15031	1	0.064059	1	0.060006	1	0.80774	1	0.5513	1
8q gain	31 (6%)	532	0.00051068	0.324	0.041582	1	0.28577	1	0.005352	1	0.0036246	1	0.043391	1	0.064059	1	0.060006	1	0.33783	1	0.54716	1
9p gain	17 (3%)	546	0.23381	1	0.039366	1	0.73832	1	0.55983	1	0.042235	1	0.54431	1	0.21472	1	0.30529	1	0.31935	1	0.7656	1
9q gain	34 (6%)	529	0.43124	1	0.031685	1	0.61869	1	0.73907	1	0.16894	1	1	1	0.43331	1	0.11583	1	0.58832	1	0.67007	1
10p gain	12 (2%)	551	0.00052018	0.329	0.0047211	1	0.091096	1	0.0014495	0.893	0.0012274	0.762	NA	NA	0.30734	1	0.38357	1	NA	NA	NA	NA
11p gain	4 (1%)	559	1	1	1	1	0.6817	1	0.49737	1	0.25879	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
11q gain	7 (1%)	556	0.15234	1	0.20907	1	0.26518	1	0.078108	1	0.16089	1	NA	NA	1	1	0.42091	1	NA	NA	NA	NA
12p gain	43 (8%)	520	0.41254	1	0.20086	1	1	1	0.26493	1	0.0012597	0.78	0.44579	1	0.35954	1	0.79984	1	0.042701	1	0.25906	1
12q gain	33 (6%)	530	0.31979	1	0.066373	1	0.99342	1	0.20921	1	0.0056682	1	0.63417	1	0.54957	1	0.69468	1	0.10947	1	0.69967	1
13q gain	3 (1%)	560	0.77651	1	0.79227	1	0.15622	1	0.49737	1	0.28937	1	NA	NA	NA	NA	NA	NA	1	1	0.52663	1
14q gain	7 (1%)	556	0.70562	1	0.67434	1	0.056688	1	0.56424	1	0.63794	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
15q gain	6 (1%)	557	0.37943	1	0.53571	1	0.51228	1	0.58797	1	0.012615	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
16p gain	18 (3%)	545	0.031801	1	0.29738	1	0.60037	1	0.26252	1	0.01546	1	NA	NA	0.33206	1	0.44161	1	NA	NA	NA	NA
16q gain	18 (3%)	545	0.047996	1	0.25275	1	0.4388	1	0.032451	1	0.01546	1	NA	NA	0.43331	1	0.44161	1	NA	NA	NA	NA
17p gain	11 (2%)	552	0.018837	1	0.38893	1	0.72128	1	0.34903	1	0.10809	1	NA	NA	1	1	0.28433	1	NA	NA	NA	NA
17q gain	19 (3%)	544	0.21995	1	1	1	0.80602	1	0.60914	1	0.058389	1	NA	NA	0.78567	1	0.38357	1	0.20817	1	0.56157	1
18p gain	28 (5%)	535	0.50098	1	0.18804	1	0.50908	1	0.36419	1	0.00032644	0.208	0.31253	1	0.40836	1	0.54773	1	0.065603	1	0.25906	1
18q gain	30 (5%)	533	0.1095	1	0.186	1	0.35609	1	0.59709	1	0.00015903	0.102	0.31253	1	0.72162	1	0.40714	1	0.020882	1	0.103	1
19p gain	176 (31%)	387	2.1502e-14	1.48e-11	3.1164e-10	2.12e-07	0.23626	1	0.00011721	0.0755	1.0224e-23	7.09e-21	0.00045117	0.286	0.017521	1	3.0851e-06	0.00205	0.10158	1	0.0082126	1
19q gain	151 (27%)	412	7.2243e-16	4.99e-13	3.7547e-12	2.57e-09	0.06713	1	2.3083e-05	0.015	1.6393e-28	1.14e-25	0.011177	1	0.052846	1	4.3117e-06	0.00285	0.025026	1	0.012356	1
20p gain	180 (32%)	383	2.1678e-13	1.49e-10	3.7172e-12	2.55e-09	0.20059	1	6.2058e-05	0.0402	1.5381e-09	1.04e-06	0.064489	1	0.09463	1	0.0022784	1	0.91408	1	0.00071253	0.448
20q gain	178 (32%)	385	3.2454e-13	2.23e-10	4.3762e-11	2.98e-08	0.15703	1	6.8018e-06	0.00446	2.9794e-09	2.01e-06	0.011022	1	0.059476	1	0.0011577	0.72	0.83414	1	0.0004034	0.257
21q gain	36 (6%)	527	0.0026753	1	0.031762	1	0.0081585	1	0.0019135	1	0.046905	1	NA	NA	0.41081	1	0.9117	1	0.017132	1	0.032917	1
22q gain	11 (2%)	552	0.037825	1	0.14315	1	0.1269	1	0.47972	1	0.076683	1	NA	NA	1	1	0.28433	1	NA	NA	NA	NA
Xq gain	4 (1%)	559	0.3308	1	0.46842	1	0.75657	1	0.2588	1	0.070179	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
1p loss	5 (1%)	558	0.84895	1	0.82265	1	1	1	0.099622	1	0.53161	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
1q loss	4 (1%)	559	0.2177	1	1	1	0.6817	1	1	1	1	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
2p loss	10 (2%)	553	0.027368	1	0.070517	1	0.65554	1	0.11199	1	0.16334	1	0.13489	1	0.72416	1	1	1	0.039301	1	0.11956	1
2q loss	9 (2%)	554	0.035033	1	0.071016	1	0.23618	1	0.056192	1	0.18334	1	0.13489	1	0.72416	1	1	1	0.039301	1	0.11956	1
3p loss	22 (4%)	541	0.85448	1	0.5126	1	0.58219	1	0.50162	1	0.0076254	1	0.15031	1	0.083521	1	0.65346	1	0.36977	1	0.43586	1
3q loss	16 (3%)	547	0.64281	1	0.47259	1	0.027112	1	0.38333	1	0.0002967	0.19	NA	NA	0.80732	1	1	1	0.45435	1	0.27807	1
4p loss	26 (5%)	537	0.019939	1	0.66862	1	0.17472	1	0.021059	1	0.87616	1	0.76135	1	0.090276	1	0.43045	1	0.14019	1	0.43586	1
4q loss	25 (4%)	538	0.04257	1	0.64428	1	0.16244	1	0.14536	1	0.10113	1	0.7007	1	0.098474	1	0.55099	1	0.51727	1	0.56157	1
5p loss	21 (4%)	542	0.0042313	1	0.094713	1	0.18584	1	0.096646	1	0.10997	1	0.08582	1	0.46938	1	1	1	0.78531	1	0.49478	1
5q loss	20 (4%)	543	0.074287	1	0.87215	1	0.30362	1	0.12203	1	0.051235	1	0.08582	1	0.87271	1	1	1	0.46511	1	0.48265	1
6p loss	47 (8%)	516	0.97995	1	0.55299	1	0.37527	1	0.53796	1	2.8402e-09	1.92e-06	0.62167	1	0.91389	1	0.59227	1	0.89628	1	0.60397	1
6q loss	80 (14%)	483	0.67175	1	0.57986	1	0.46152	1	0.11223	1	1.8677e-08	1.26e-05	0.085252	1	0.89585	1	0.6777	1	0.82443	1	0.38273	1
7p loss	5 (1%)	558	0.54206	1	0.45331	1	0.8104	1	0.034114	1	0.53161	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
7q loss	4 (1%)	559	0.84895	1	0.82265	1	1	1	0.099622	1	0.83344	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
8p loss	34 (6%)	529	0.89438	1	0.59278	1	0.78347	1	0.23936	1	0.27205	1	0.13415	1	0.65148	1	0.9117	1	0.72571	1	0.69967	1
8q loss	21 (4%)	542	0.71695	1	0.14364	1	0.38399	1	0.18485	1	0.015407	1	NA	NA	0.21181	1	0.82341	1	1	1	0.36479	1
9p loss	164 (29%)	399	0.013659	1	0.0013308	0.822	0.83219	1	0.14675	1	0.22653	1	0.92065	1	0.28153	1	0.058514	1	0.034762	1	0.026047	1
9q loss	63 (11%)	500	0.046121	1	0.025175	1	0.5635	1	0.2616	1	0.058693	1	0.55243	1	0.036699	1	0.052832	1	0.63558	1	0.18437	1
10p loss	437 (78%)	126	1.1958e-06	0.000799	8.3746e-06	0.00548	0.035758	1	1.5818e-08	1.07e-05	1.7964e-28	1.25e-25	0.0034774	1	0.00056666	0.358	0.00065568	0.413	0.53073	1	0.06028	1
10q loss	450 (80%)	113	2.1639e-06	0.00144	4.4995e-06	0.00297	0.024215	1	7.6534e-06	0.00501	3.0902e-31	2.15e-28	0.0020187	1	6.963e-05	0.045	0.0016438	1	0.72949	1	0.090801	1
11p loss	64 (11%)	499	1.1977e-07	8.04e-05	6.6108e-06	0.00434	0.094557	1	2.4322e-06	0.00162	7.7704e-12	5.31e-09	0.0010687	0.668	0.67888	1	0.065924	1	0.044323	1	0.42633	1
11q loss	55 (10%)	508	9.716e-05	0.0627	0.0042704	1	0.51227	1	0.0050141	1	2.0983e-10	1.43e-07	0.25352	1	0.5772	1	0.093295	1	0.64757	1	0.8683	1
12p loss	38 (7%)	525	0.011562	1	0.017206	1	0.15074	1	0.030631	1	0.75622	1	0.42488	1	0.10009	1	0.47409	1	1	1	1	1
12q loss	35 (6%)	528	0.0088162	1	0.018454	1	0.61033	1	0.053631	1	0.12705	1	0.13959	1	0.10189	1	0.69468	1	0.8388	1	0.54716	1
13q loss	138 (25%)	425	0.00080072	0.502	4.4193e-05	0.0287	0.56854	1	0.64706	1	4.2999e-13	2.95e-10	0.0011431	0.712	0.60059	1	0.018195	1	0.21993	1	0.30902	1
14q loss	121 (21%)	442	4.4911e-07	0.000301	0.025015	1	0.59547	1	0.71406	1	8.6332e-34	6.02e-31	0.015872	1	0.75255	1	0.06036	1	0.035904	1	0.004944	1
15q loss	62 (11%)	501	5.4289e-05	0.0352	0.0003151	0.201	0.00062222	0.393	4.0575e-06	0.00269	6.2567e-06	0.00412	0.00025796	0.165	0.10831	1	0.022362	1	0.015296	1	0.45219	1
16p loss	23 (4%)	540	0.20025	1	0.68421	1	0.46021	1	0.79298	1	0.12681	1	0.39679	1	0.64396	1	0.88983	1	0.50141	1	0.18455	1
16q loss	41 (7%)	522	0.11169	1	0.020949	1	0.12157	1	0.51995	1	0.28729	1	0.22791	1	0.075369	1	0.94503	1	0.70619	1	0.56879	1
17p loss	36 (6%)	527	0.42912	1	0.62014	1	0.83476	1	0.63284	1	5.9367e-06	0.00391	0.17989	1	0.05555	1	0.82603	1	0.50251	1	1	1
17q loss	19 (3%)	544	0.39029	1	0.13631	1	0.40222	1	0.34677	1	0.0016983	1	NA	NA	0.21433	1	0.27726	1	0.1677	1	0.093343	1
18p loss	44 (8%)	519	0.024424	1	0.087057	1	0.50372	1	0.71238	1	0.0015637	0.96	0.074704	1	0.2461	1	0.038732	1	0.059642	1	0.52075	1
18q loss	39 (7%)	524	0.28026	1	0.38096	1	0.33713	1	0.92284	1	0.079532	1	0.05994	1	0.15398	1	0.006512	1	0.56663	1	0.68736	1
19p loss	13 (2%)	550	0.0028351	1	0.023992	1	0.00041824	0.266	0.007381	1	0.15821	1	0.59226	1	0.37089	1	0.57388	1	0.57734	1	0.15653	1
19q loss	18 (3%)	545	0.0090173	1	0.047047	1	0.0096366	1	0.0014393	0.888	0.073818	1	0.59226	1	0.37089	1	0.57388	1	0.8579	1	0.36479	1
20p loss	11 (2%)	552	0.054022	1	0.12912	1	0.11565	1	0.062145	1	0.0037726	1	NA	NA	0.41365	1	0.38357	1	NA	NA	NA	NA
20q loss	10 (2%)	553	0.078923	1	0.17139	1	0.65554	1	0.39895	1	0.019047	1	NA	NA	0.41365	1	0.38357	1	NA	NA	NA	NA
21q loss	25 (4%)	538	0.013321	1	0.01525	1	0.090285	1	0.012074	1	0.028397	1	0.21912	1	0.027916	1	0.32615	1	0.60213	1	0.84833	1
22q loss	140 (25%)	423	0.80852	1	1	1	0.51073	1	0.8861	1	0.00014802	0.0952	0.27507	1	0.73138	1	0.95544	1	0.1561	1	0.88475	1
Xq loss	11 (2%)	552	0.44326	1	0.46795	1	0.11565	1	0.36973	1	0.15293	1	NA	NA	0.63573	1	0.31618	1	0.51727	1	0.45361	1
