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	0 (0%)	523	0.46495	1	0.24951	1	0.93357	1	0.065064	1	1.1016e-05	0.00723	0.63579	1	0.47773	1	0.92453	1	0.4599	1	0.069597	1
1q gain	0 (0%)	518	0.013172	1	0.18271	1	0.43965	1	0.34345	1	2.6408e-08	1.77e-05	0.44839	1	0.71251	1	0.88151	1	1	1	0.15175	1
2p gain	0 (0%)	543	0.10036	1	0.34657	1	0.0019972	1	0.1284	1	0.2516	1	0.51346	1	0.68524	1	0.38479	1	0.57734	1	0.79667	1
2q gain	0 (0%)	545	0.13171	1	0.1552	1	3.903e-05	0.0253	0.074318	1	0.37173	1	0.51346	1	0.53498	1	0.51996	1	0.79538	1	0.3663	1
3p gain	0 (0%)	533	0.010578	1	0.14483	1	0.55096	1	0.67656	1	0.019313	1	0.16386	1	0.40452	1	0.13699	1	0.80774	1	0.77856	1
3q gain	0 (0%)	533	0.010578	1	0.14483	1	0.55096	1	0.90721	1	0.047297	1	0.16386	1	0.40452	1	0.13699	1	0.74816	1	0.57974	1
4p gain	0 (0%)	548	0.031204	1	0.73912	1	0.38221	1	0.045643	1	0.28984	1	NA	NA	0.4441	1	0.14938	1	NA	NA	NA	NA
4q gain	0 (0%)	549	0.40022	1	0.6816	1	0.20631	1	0.082752	1	0.19264	1	NA	NA	0.4441	1	0.14938	1	NA	NA	NA	NA
5p gain	0 (0%)	533	0.3006	1	0.12908	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	0 (0%)	540	0.25752	1	0.052378	1	0.050792	1	0.090482	1	0.01521	1	NA	NA	NA	NA	NA	NA	0.4425	1	0.36479	1
6p gain	0 (0%)	556	0.74166	1	0.67461	1	0.65661	1	0.39511	1	0.16089	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
6q gain	0 (0%)	554	0.47026	1	0.66485	1	0.59532	1	0.7463	1	0.02951	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
7p gain	0 (0%)	129	1.033e-05	0.00679	2.465e-07	0.000165	0.00071765	0.449	1.8178e-09	1.23e-06	1.9998e-16	1.38e-13	0.002182	1	0.0016235	0.992	0.47149	1	0.041144	1	0.005521	1
7q gain	0 (0%)	124	3.639e-06	0.00242	1.7462e-05	0.0114	0.0010184	0.633	1.5607e-06	0.00104	9.3585e-15	6.47e-12	0.0021092	1	0.019908	1	0.36112	1	0.091588	1	0.011457	1
8p gain	0 (0%)	537	0.00017597	0.113	0.14172	1	0.3346	1	0.0081176	1	0.0015023	0.922	0.16386	1	0.064059	1	0.060006	1	0.80774	1	0.5513	1
8q gain	0 (0%)	532	0.00048291	0.305	0.062298	1	0.28577	1	0.005352	1	0.0036246	1	0.058947	1	0.064059	1	0.060006	1	0.33783	1	0.54716	1
9p gain	0 (0%)	546	0.029293	1	0.21055	1	0.73832	1	0.55983	1	0.042235	1	0.57318	1	0.21472	1	0.30529	1	0.31935	1	0.7656	1
9q gain	0 (0%)	529	0.11463	1	0.067603	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	0 (0%)	551	3.5709e-05	0.0232	0.0037999	1	0.091096	1	0.0014495	0.891	0.0012274	0.76	NA	NA	0.30734	1	0.38357	1	NA	NA	NA	NA
11p gain	0 (0%)	559	0.88137	1	1	1	0.6817	1	0.49737	1	0.25879	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
11q gain	0 (0%)	556	0.076841	1	0.18024	1	0.26518	1	0.078108	1	0.16089	1	NA	NA	1	1	0.42091	1	NA	NA	NA	NA
12p gain	0 (0%)	520	0.4186	1	0.28545	1	1	1	0.26493	1	0.0012597	0.778	0.48991	1	0.35954	1	0.79984	1	0.042701	1	0.25906	1
12q gain	0 (0%)	530	0.1828	1	0.061599	1	0.99342	1	0.20921	1	0.0056682	1	0.74877	1	0.54957	1	0.69468	1	0.10947	1	0.69967	1
13q gain	0 (0%)	560	0.14904	1	0.78963	1	0.15622	1	0.49737	1	0.28937	1	NA	NA	NA	NA	NA	NA	1	1	0.52663	1
14q gain	0 (0%)	556	0.535	1	0.21005	1	0.056688	1	0.56424	1	0.63794	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
15q gain	0 (0%)	557	0.25594	1	0.53306	1	0.51228	1	0.58797	1	0.012615	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
16p gain	0 (0%)	545	0.040057	1	0.097756	1	0.60037	1	0.26252	1	0.01546	1	NA	NA	0.33206	1	0.44161	1	NA	NA	NA	NA
16q gain	0 (0%)	545	0.023932	1	0.097756	1	0.4388	1	0.032451	1	0.01546	1	NA	NA	0.43331	1	0.44161	1	NA	NA	NA	NA
17p gain	0 (0%)	552	0.026231	1	0.39168	1	0.72128	1	0.34903	1	0.10809	1	NA	NA	1	1	0.28433	1	NA	NA	NA	NA
17q gain	0 (0%)	544	0.35445	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	0 (0%)	535	0.019344	1	0.50744	1	0.50908	1	0.36419	1	0.00032644	0.208	0.23626	1	0.40836	1	0.54773	1	0.065603	1	0.25906	1
18q gain	0 (0%)	533	0.0051973	1	0.64302	1	0.35609	1	0.59709	1	0.00015903	0.102	0.23626	1	0.72162	1	0.40714	1	0.020882	1	0.103	1
19p gain	0 (0%)	387	6.8989e-12	4.74e-09	1.2093e-09	8.22e-07	0.23626	1	0.00011721	0.0756	1.0224e-23	7.09e-21	0.00052082	0.329	0.017521	1	3.0851e-06	0.00205	0.10158	1	0.0082126	1
19q gain	0 (0%)	412	1.7514e-14	1.21e-11	5.0891e-12	3.5e-09	0.06713	1	2.3083e-05	0.0151	1.6393e-28	1.14e-25	0.017109	1	0.052846	1	4.3117e-06	0.00285	0.025026	1	0.012356	1
20p gain	0 (0%)	383	1.2421e-10	8.47e-08	9.2416e-11	6.32e-08	0.20059	1	6.2058e-05	0.0402	1.5381e-09	1.04e-06	0.065387	1	0.09463	1	0.0022784	1	0.91408	1	0.00071253	0.446
20q gain	0 (0%)	385	4.2542e-11	2.91e-08	1.0161e-10	6.94e-08	0.15703	1	6.8018e-06	0.00448	2.9794e-09	2.01e-06	0.016008	1	0.059476	1	0.0011577	0.718	0.83414	1	0.0004034	0.256
21q gain	0 (0%)	527	0.028029	1	0.035347	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	0 (0%)	552	0.015113	1	0.1171	1	0.1269	1	0.47972	1	0.076683	1	NA	NA	1	1	0.28433	1	NA	NA	NA	NA
Xq gain	0 (0%)	559	0.25588	1	1	1	0.75657	1	0.2588	1	0.070179	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
1p loss	0 (0%)	558	0.47366	1	0.82372	1	1	1	0.099622	1	0.53161	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
1q loss	0 (0%)	559	0.36627	1	1	1	0.6817	1	1	1	1	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
2p loss	0 (0%)	553	0.089417	1	0.080664	1	0.65554	1	0.11199	1	0.16334	1	0.27101	1	0.72416	1	1	1	0.039301	1	0.11956	1
2q loss	0 (0%)	554	0.064722	1	0.073451	1	0.23618	1	0.056192	1	0.18334	1	0.27101	1	0.72416	1	1	1	0.039301	1	0.11956	1
3p loss	0 (0%)	541	0.92321	1	0.32294	1	0.58219	1	0.50162	1	0.0076254	1	0.16386	1	0.083521	1	0.65346	1	0.36977	1	0.43586	1
3q loss	0 (0%)	547	0.25465	1	0.71293	1	0.027112	1	0.38333	1	0.0002967	0.189	NA	NA	0.80732	1	1	1	0.45435	1	0.27807	1
4p loss	0 (0%)	537	0.075534	1	0.19601	1	0.17472	1	0.021059	1	0.87616	1	0.57318	1	0.090276	1	0.43045	1	0.14019	1	0.43586	1
4q loss	0 (0%)	538	0.00081784	0.51	0.45188	1	0.16244	1	0.14536	1	0.10113	1	0.82113	1	0.098474	1	0.55099	1	0.51727	1	0.56157	1
5p loss	0 (0%)	542	0.0002901	0.185	0.1056	1	0.18584	1	0.096646	1	0.10997	1	0.047965	1	0.46938	1	1	1	0.78531	1	0.49478	1
5q loss	0 (0%)	543	0.003387	1	0.87465	1	0.30362	1	0.12203	1	0.051235	1	0.047965	1	0.87271	1	1	1	0.46511	1	0.48265	1
6p loss	0 (0%)	516	0.92293	1	0.54468	1	0.37527	1	0.53796	1	2.8402e-09	1.92e-06	0.74343	1	0.91389	1	0.59227	1	0.89628	1	0.60397	1
6q loss	0 (0%)	483	0.92267	1	0.54351	1	0.46152	1	0.11223	1	1.8677e-08	1.26e-05	0.040391	1	0.89585	1	0.6777	1	0.82443	1	0.38273	1
7p loss	0 (0%)	558	0.23645	1	0.45515	1	0.8104	1	0.034114	1	0.53161	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
7q loss	0 (0%)	559	0.31146	1	0.82372	1	1	1	0.099622	1	0.83344	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
8p loss	0 (0%)	529	0.45498	1	0.56066	1	0.78347	1	0.23936	1	0.27205	1	0.33074	1	0.65148	1	0.9117	1	0.72571	1	0.69967	1
8q loss	0 (0%)	542	0.6512	1	0.12691	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	0 (0%)	399	0.0051516	1	0.010157	1	0.83219	1	0.14675	1	0.22653	1	0.84308	1	0.28153	1	0.058514	1	0.034762	1	0.026047	1
9q loss	0 (0%)	500	0.37607	1	0.0015154	0.929	0.5635	1	0.2616	1	0.058693	1	0.56107	1	0.036699	1	0.052832	1	0.63558	1	0.18437	1
10p loss	0 (0%)	126	1.1794e-07	7.9e-05	2.7194e-05	0.0177	0.035758	1	1.5818e-08	1.07e-05	1.7964e-28	1.25e-25	0.0056414	1	0.00056666	0.357	0.00065568	0.411	0.53073	1	0.06028	1
10q loss	0 (0%)	113	3.2044e-08	2.15e-05	3.3831e-05	0.022	0.024215	1	7.6534e-06	0.00504	3.0902e-31	2.15e-28	0.0036405	1	6.963e-05	0.045	0.0016438	1	0.72949	1	0.090801	1
11p loss	0 (0%)	499	3.5879e-09	2.42e-06	6.6766e-05	0.0432	0.094557	1	2.4322e-06	0.00162	7.7704e-12	5.33e-09	0.0019238	1	0.67888	1	0.065924	1	0.044323	1	0.42633	1
11q loss	0 (0%)	508	2.357e-05	0.0154	0.027629	1	0.51227	1	0.0050141	1	2.0983e-10	1.43e-07	0.31223	1	0.5772	1	0.093295	1	0.64757	1	0.8683	1
12p loss	0 (0%)	525	0.04194	1	0.0083616	1	0.15074	1	0.030631	1	0.75622	1	0.60641	1	0.10009	1	0.47409	1	1	1	1	1
12q loss	0 (0%)	528	0.075221	1	0.0064615	1	0.61033	1	0.053631	1	0.12705	1	0.40522	1	0.10189	1	0.69468	1	0.8388	1	0.54716	1
13q loss	0 (0%)	425	0.00013192	0.085	0.0013824	0.853	0.56854	1	0.64706	1	4.2999e-13	2.96e-10	0.0011267	0.7	0.60059	1	0.018195	1	0.21993	1	0.30902	1
14q loss	0 (0%)	442	3.5489e-06	0.00236	0.018502	1	0.59547	1	0.71406	1	8.6332e-34	6.02e-31	0.01486	1	0.75255	1	0.06036	1	0.035904	1	0.004944	1
15q loss	0 (0%)	501	0.0018329	1	0.00023317	0.149	0.00062222	0.391	4.0575e-06	0.00269	6.2567e-06	0.00413	0.00061195	0.385	0.10831	1	0.022362	1	0.015296	1	0.45219	1
16p loss	0 (0%)	540	0.12818	1	0.68351	1	0.46021	1	0.79298	1	0.12681	1	0.32657	1	0.64396	1	0.88983	1	0.50141	1	0.18455	1
16q loss	0 (0%)	522	0.057155	1	0.1922	1	0.12157	1	0.51995	1	0.28729	1	0.40561	1	0.075369	1	0.94503	1	0.70619	1	0.56879	1
17p loss	0 (0%)	527	0.098662	1	0.4084	1	0.83476	1	0.63284	1	5.9367e-06	0.00392	0.38031	1	0.05555	1	0.82603	1	0.50251	1	1	1
17q loss	0 (0%)	544	0.17555	1	0.36173	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	0 (0%)	519	0.0051441	1	0.074067	1	0.50372	1	0.71238	1	0.0015637	0.957	0.18076	1	0.2461	1	0.038732	1	0.059642	1	0.52075	1
18q loss	0 (0%)	524	0.44272	1	0.52932	1	0.33713	1	0.92284	1	0.079532	1	0.18719	1	0.15398	1	0.006512	1	0.56663	1	0.68736	1
19p loss	0 (0%)	550	0.00038785	0.246	0.0037999	1	0.00041824	0.265	0.007381	1	0.15821	1	0.82113	1	0.37089	1	0.57388	1	0.57734	1	0.15653	1
19q loss	0 (0%)	545	0.00087482	0.545	0.014531	1	0.0096366	1	0.0014393	0.887	0.073818	1	0.82113	1	0.37089	1	0.57388	1	0.8579	1	0.36479	1
20p loss	0 (0%)	552	0.0032813	1	0.1171	1	0.11565	1	0.062145	1	0.0037726	1	NA	NA	0.41365	1	0.38357	1	NA	NA	NA	NA
20q loss	0 (0%)	553	0.013213	1	0.16025	1	0.65554	1	0.39895	1	0.019047	1	NA	NA	0.41365	1	0.38357	1	NA	NA	NA	NA
21q loss	0 (0%)	538	0.00026346	0.168	0.015367	1	0.090285	1	0.012074	1	0.028397	1	0.076523	1	0.027916	1	0.32615	1	0.60213	1	0.84833	1
22q loss	0 (0%)	423	0.86187	1	0.90806	1	0.51073	1	0.8861	1	0.00014802	0.0952	0.32244	1	0.73138	1	0.95544	1	0.1561	1	0.88475	1
Xq loss	0 (0%)	552	0.44812	1	0.54708	1	0.11565	1	0.36973	1	0.15293	1	NA	NA	0.63573	1	0.31618	1	0.51727	1	0.45361	1