		Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		MIR_CNMF		MIR_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	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	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	101 (18%)	458	0.096769	1	0.44715	1	0.093072	1	0.51293	1	0.096666	1	0.93189	1	0.21019	1	0.23043	1	0.46337	1	0.32925	1	0.073132	1	0.012123	1
1q gain	154 (28%)	405	0.5238	1	0.47814	1	0.7722	1	0.57685	1	1.0896e-06	0.00101	0.1771	1	0.48154	1	0.43856	1	0.65129	1	0.96914	1	0.23969	1	0.02703	1
2p gain	125 (22%)	434	5.2076e-09	4.91e-06	1.0256e-10	9.72e-08	0.61454	1	1.315e-05	0.0121	2.4701e-11	2.34e-08	1.0523e-11	1e-08	0.019859	1	0.051754	1	7.9599e-05	0.0724	0.0032078	1	0.53713	1	0.06473	1
2q gain	99 (18%)	460	1.5275e-06	0.00142	6.4768e-07	0.000605	0.64763	1	0.0025452	1	1.7957e-09	1.7e-06	3.1588e-07	0.000296	0.021581	1	0.40088	1	0.00076714	0.683	0.00078679	0.699	0.5435	1	0.077828	1
3p gain	106 (19%)	453	0.40688	1	0.11848	1	0.10243	1	0.61945	1	0.025258	1	0.8647	1	0.11027	1	0.24362	1	0.42607	1	0.89734	1	0.58804	1	0.3793	1
3q gain	206 (37%)	353	0.90545	1	0.0012857	1	0.80131	1	0.32729	1	1.7107e-08	1.61e-05	0.003035	1	0.59448	1	0.097938	1	0.56546	1	0.34271	1	0.37903	1	0.32197	1
4p gain	30 (5%)	529	0.88827	1	0.49936	1	0.0046954	1	0.68829	1	0.11359	1	0.092585	1	0.089914	1	0.3624	1	0.86477	1	0.62587	1	0.32379	1	0.008691	1
4q gain	17 (3%)	542	0.90379	1	0.90406	1	0.70296	1	0.78793	1	0.28601	1	0.051358	1	0.059595	1	0.27063	1	0.83506	1	0.30183	1	0.033578	1	0.18736	1
5p gain	142 (25%)	417	0.60382	1	0.19595	1	0.6287	1	0.61374	1	2.3281e-06	0.00216	0.39509	1	0.14387	1	0.19005	1	0.5052	1	0.98202	1	0.012959	1	0.48641	1
5q gain	32 (6%)	527	0.03651	1	0.11803	1	0.49887	1	0.356	1	0.78334	1	0.27426	1	0.12397	1	0.68421	1	0.29852	1	0.36818	1	0.0029094	1	0.44723	1
6p gain	122 (22%)	437	0.47655	1	0.010162	1	0.87519	1	0.015881	1	8.9695e-07	0.000835	9.3581e-05	0.0849	0.20851	1	0.35055	1	0.17998	1	0.30908	1	0.31733	1	0.21127	1
6q gain	61 (11%)	498	0.82877	1	0.016757	1	0.9401	1	0.055848	1	0.00026079	0.235	2.5864e-05	0.0237	0.32355	1	0.6337	1	0.014295	1	0.17177	1	1	1	0.75645	1
7p gain	122 (22%)	437	0.18693	1	0.13571	1	0.056916	1	0.0088762	1	1.2175e-09	1.15e-06	6.826e-07	0.000637	0.21917	1	0.30661	1	0.047174	1	0.3933	1	0.9429	1	0.68839	1
7q gain	147 (26%)	412	0.095061	1	0.326	1	0.39361	1	0.4141	1	2.0554e-07	0.000193	0.00017833	0.161	0.16971	1	0.093699	1	0.14562	1	0.91557	1	0.2833	1	0.80802	1
8p gain	86 (15%)	473	0.35484	1	0.12471	1	0.97718	1	0.013128	1	0.49895	1	0.9232	1	0.70382	1	0.20084	1	0.43597	1	0.37909	1	0.37304	1	0.33634	1
8q gain	203 (36%)	356	0.11866	1	0.41747	1	0.17004	1	0.088278	1	0.014692	1	0.91956	1	0.53991	1	0.10348	1	0.002969	1	0.411	1	0.56058	1	0.92805	1
9p gain	61 (11%)	498	0.032484	1	0.50541	1	0.27997	1	0.31866	1	0.048591	1	0.022387	1	0.23066	1	0.29342	1	0.89675	1	0.74806	1	0.17449	1	0.67403	1
9q gain	26 (5%)	533	0.39655	1	0.27531	1	0.10378	1	0.61874	1	0.10443	1	0.16271	1	0.66374	1	0.0635	1	0.56795	1	0.85141	1	0.82556	1	0.84892	1
10p gain	133 (24%)	426	0.0072895	1	3.4392e-05	0.0315	0.7274	1	0.0082554	1	2.5289e-09	2.39e-06	0.0011596	1	0.47545	1	0.18891	1	0.0049794	1	0.24622	1	0.66448	1	1	1
10q gain	68 (12%)	491	0.0084956	1	0.0025424	1	0.94529	1	0.032841	1	0.049664	1	0.033776	1	0.56706	1	0.33864	1	0.046782	1	0.13728	1	0.6117	1	0.61754	1
11p gain	41 (7%)	518	0.42715	1	0.54275	1	0.3025	1	0.39654	1	0.088787	1	0.015343	1	0.037665	1	0.017439	1	0.075286	1	0.10888	1	0.16222	1	0.4671	1
11q gain	60 (11%)	499	0.35937	1	0.81101	1	0.89614	1	0.012805	1	0.0008857	0.785	0.0014969	1	0.40775	1	0.64803	1	0.29092	1	0.033111	1	0.34785	1	0.53433	1
12p gain	202 (36%)	357	7.5575e-05	0.0688	1.2699e-05	0.0117	0.30575	1	4.4576e-05	0.0407	3.0231e-14	2.88e-11	2.3884e-09	2.26e-06	0.26765	1	0.46763	1	2.755e-05	0.0252	6.0147e-05	0.0549	0.1658	1	0.10241	1
12q gain	116 (21%)	443	0.0012568	1	9.1075e-06	0.00842	0.56598	1	0.0019569	1	1.1883e-13	1.13e-10	1.5266e-05	0.0141	0.040249	1	0.11371	1	0.0017859	1	0.00034356	0.309	0.071888	1	0.044118	1
13q gain	39 (7%)	520	0.016757	1	0.22145	1	0.88927	1	0.0017428	1	0.018931	1	0.0003753	0.336	0.92423	1	0.71565	1	0.41076	1	0.49552	1	0.15716	1	0.40141	1
14q gain	34 (6%)	525	0.010969	1	0.052066	1	0.34817	1	0.054636	1	1	1	0.17715	1	0.10898	1	0.043317	1	0.16463	1	0.10038	1	0.42261	1	0.48324	1
15q gain	24 (4%)	535	0.38177	1	0.6402	1	0.33659	1	0.45908	1	0.26133	1	0.50824	1	0.10581	1	0.78887	1	1	1	1	1	0.7032	1	0.37741	1
16p gain	32 (6%)	527	0.055169	1	0.016432	1	0.78035	1	0.38549	1	0.091196	1	0.16922	1	0.78468	1	0.065122	1	1	1	1	1	0.92348	1	0.56929	1
16q gain	16 (3%)	543	0.018331	1	0.00096084	0.847	0.21931	1	0.49092	1	0.50637	1	0.04752	1	0.32629	1	0.088843	1	NA	NA	NA	NA	0.12824	1	0.15851	1
17p gain	10 (2%)	549	0.4335	1	0.12858	1	0.50862	1	0.27029	1	0.44147	1	0.21481	1	0.39634	1	0.61147	1	0.35325	1	0.57697	1	0.57107	1	0.32778	1
17q gain	23 (4%)	536	0.7286	1	0.2846	1	0.27071	1	0.24493	1	0.21379	1	0.3528	1	0.89705	1	0.79511	1	0.6364	1	0.57143	1	0.66217	1	0.32147	1
18p gain	73 (13%)	486	0.0046966	1	0.00069521	0.619	0.92385	1	0.15632	1	0.0011045	0.972	3.8541e-05	0.0352	0.0021968	1	0.060058	1	0.1543	1	0.25255	1	0.26067	1	0.63354	1
18q gain	41 (7%)	518	0.28188	1	0.51843	1	0.60268	1	0.40753	1	0.0060365	1	0.0062132	1	0.09944	1	0.40641	1	0.83742	1	0.62271	1	0.0799	1	0.4671	1
19p gain	99 (18%)	460	0.017398	1	0.014495	1	0.58159	1	0.17754	1	7.5222e-09	7.09e-06	0.00069048	0.616	0.038761	1	0.024833	1	0.64479	1	0.58572	1	0.63196	1	0.83004	1
19q gain	91 (16%)	468	0.022589	1	0.04697	1	0.62351	1	0.15994	1	7.97e-07	0.000743	0.00058491	0.522	0.052699	1	0.043632	1	0.2908	1	0.78907	1	0.31272	1	0.62258	1
20p gain	231 (41%)	328	0.001844	1	5.5793e-07	0.000522	0.21752	1	1.7331e-06	0.00161	2.9154e-15	2.79e-12	3.7446e-13	3.56e-10	0.51472	1	0.54464	1	0.011343	1	0.005714	1	0.32675	1	0.65682	1
20q gain	268 (48%)	291	1.9449e-05	0.0179	3.3497e-13	3.19e-10	0.58531	1	4.8324e-07	0.000452	1.7099e-17	1.64e-14	4.1733e-17	3.99e-14	0.67066	1	0.14394	1	0.0073365	1	0.0046643	1	0.22145	1	0.91014	1
21q gain	67 (12%)	492	0.6664	1	0.032214	1	0.98582	1	0.90641	1	4.2147e-06	0.0039	0.00033469	0.302	0.24867	1	0.063214	1	0.36904	1	0.51907	1	0.10958	1	0.74159	1
22q gain	9 (2%)	550	0.37902	1	0.83325	1	0.69186	1	0.64053	1	0.086273	1	0.83975	1	0.39745	1	1	1	0.83472	1	0.53197	1	0.17241	1	0.4568	1
Xq gain	33 (6%)	526	0.24439	1	0.03655	1	0.92285	1	0.50344	1	0.035674	1	0.15995	1	0.08223	1	0.3103	1	0.76432	1	0.1981	1	0.4513	1	0.13514	1
1p loss	35 (6%)	524	0.0044312	1	0.011222	1	0.28424	1	0.49019	1	0.74136	1	0.2018	1	0.60552	1	0.28178	1	0.78315	1	0.4551	1	0.96782	1	0.61163	1
1q loss	22 (4%)	537	0.01796	1	0.0042763	1	0.0041224	1	0.34687	1	0.26736	1	0.49623	1	0.27821	1	0.17446	1	0.8004	1	0.42619	1	0.45399	1	0.5118	1
2p loss	26 (5%)	533	0.76101	1	0.87146	1	0.90496	1	0.18135	1	0.65083	1	0.42222	1	0.32184	1	0.7202	1	0.20183	1	0.28417	1	0.66605	1	0.71485	1
2q loss	30 (5%)	529	0.78853	1	0.53048	1	0.81572	1	0.085826	1	0.79394	1	0.1657	1	0.30595	1	0.85938	1	0.54994	1	0.2526	1	0.64871	1	0.34611	1
3p loss	60 (11%)	499	0.06079	1	0.011189	1	0.8668	1	0.039125	1	0.0013167	1	0.073192	1	0.83606	1	0.58328	1	0.023354	1	0.051707	1	0.5057	1	0.31478	1
3q loss	23 (4%)	536	0.23936	1	0.086622	1	0.96379	1	0.18181	1	0.17737	1	0.2034	1	0.93561	1	0.44494	1	0.080186	1	0.15067	1	0.66654	1	0.50106	1
4p loss	254 (45%)	305	0.1163	1	0.082623	1	0.45385	1	0.03734	1	0.059014	1	0.96448	1	0.16784	1	0.23504	1	0.44754	1	0.056359	1	0.041875	1	0.036901	1
4q loss	294 (53%)	265	0.062746	1	0.024318	1	0.21507	1	0.023006	1	0.010539	1	0.9141	1	0.20873	1	0.14707	1	0.53791	1	0.042883	1	0.071757	1	0.0029297	1
5p loss	84 (15%)	475	0.28003	1	0.088016	1	0.28928	1	0.099965	1	0.052286	1	0.0070328	1	0.049235	1	0.32931	1	0.00089865	0.794	0.40534	1	0.93136	1	0.49658	1
5q loss	169 (30%)	390	7.5187e-05	0.0685	2.2205e-05	0.0204	0.62293	1	0.00088647	0.785	0.00036192	0.325	2.8066e-07	0.000263	0.010579	1	0.11647	1	0.00054675	0.489	0.092668	1	0.56752	1	0.96194	1
6p loss	121 (22%)	438	0.99099	1	0.076514	1	0.68215	1	0.822	1	0.058873	1	0.035953	1	0.21331	1	0.48324	1	0.50156	1	0.13544	1	0.23102	1	0.86635	1
6q loss	192 (34%)	367	0.92769	1	0.018181	1	0.76962	1	0.79298	1	0.11162	1	0.0098476	1	0.27203	1	0.52621	1	0.40225	1	0.12806	1	0.56217	1	0.68107	1
7p loss	91 (16%)	468	0.68256	1	0.33564	1	0.18447	1	0.30391	1	0.15118	1	0.1993	1	0.64738	1	0.74925	1	0.82591	1	0.29033	1	0.042108	1	0.59804	1
7q loss	48 (9%)	511	0.33653	1	0.85539	1	0.43114	1	0.65245	1	0.30389	1	0.020294	1	0.28989	1	0.54493	1	0.64135	1	1	1	0.05569	1	0.19827	1
8p loss	229 (41%)	330	0.6995	1	0.60118	1	0.54009	1	0.9086	1	0.0021478	1	0.13309	1	0.25657	1	0.28391	1	0.64204	1	0.54983	1	0.78154	1	1	1
8q loss	62 (11%)	497	0.048888	1	0.024454	1	0.11598	1	0.1209	1	0.00034203	0.308	0.042854	1	0.14695	1	0.20014	1	0.012789	1	0.046968	1	0.56215	1	0.47673	1
9p loss	207 (37%)	352	0.00077271	0.687	0.0064335	1	0.77052	1	0.061151	1	0.0008518	0.756	0.00046879	0.42	0.67561	1	0.81212	1	0.53753	1	0.3423	1	0.021914	1	0.2122	1
9q loss	235 (42%)	324	0.0013298	1	0.000371	0.333	0.14181	1	0.0065078	1	3.3209e-15	3.17e-12	0.0010462	0.922	0.55898	1	0.99885	1	0.013008	1	0.51483	1	0.11878	1	0.052175	1
10p loss	63 (11%)	496	0.30262	1	0.53848	1	0.38084	1	0.79321	1	0.52113	1	0.66977	1	0.28466	1	0.07366	1	0.77576	1	0.49379	1	0.14964	1	0.75074	1
10q loss	87 (16%)	472	0.47354	1	0.38031	1	0.14388	1	0.83557	1	0.28178	1	0.51224	1	0.39841	1	0.13803	1	0.80273	1	0.16485	1	0.19459	1	0.75378	1
11p loss	142 (25%)	417	0.0060894	1	0.0052393	1	0.096389	1	0.26223	1	0.086692	1	0.009407	1	0.66611	1	0.13723	1	0.036141	1	0.14238	1	0.88169	1	0.50756	1
11q loss	105 (19%)	454	0.14736	1	0.46229	1	0.0099188	1	0.26024	1	0.21855	1	0.14768	1	0.89469	1	0.29227	1	0.12396	1	0.22174	1	0.26057	1	0.11415	1
12p loss	50 (9%)	509	0.29389	1	0.089145	1	1	1	0.11972	1	0.0058512	1	0.24846	1	0.88356	1	0.061281	1	0.2451	1	0.54063	1	0.29666	1	0.22899	1
12q loss	74 (13%)	485	0.19206	1	0.0019896	1	0.38899	1	0.27697	1	0.0029736	1	0.12914	1	0.83176	1	0.097107	1	0.16715	1	0.045741	1	0.24822	1	0.64356	1
13q loss	256 (46%)	303	0.12033	1	0.74033	1	0.90684	1	0.068734	1	7.9692e-05	0.0724	1.4674e-06	0.00136	0.0053799	1	0.020113	1	0.44855	1	0.57552	1	0.12545	1	0.96762	1
14q loss	162 (29%)	397	0.068855	1	0.13014	1	0.92209	1	0.90576	1	0.0040359	1	0.017725	1	0.30095	1	0.22314	1	0.039857	1	0.68218	1	0.35429	1	0.14312	1
15q loss	218 (39%)	341	0.0031156	1	0.0070245	1	0.00090543	0.799	0.0044629	1	1.2028e-08	1.13e-05	0.00012691	0.115	0.49447	1	0.92689	1	0.033918	1	0.4551	1	0.024406	1	0.50985	1
16p loss	263 (47%)	296	0.97558	1	0.91075	1	0.29325	1	0.80557	1	0.060317	1	0.11489	1	0.76575	1	0.69037	1	0.57463	1	0.6183	1	0.31987	1	0.71322	1
16q loss	350 (63%)	209	0.96768	1	0.81383	1	0.038036	1	0.29662	1	0.015488	1	0.083216	1	0.8422	1	0.93159	1	0.49528	1	0.68239	1	0.31193	1	0.34619	1
17p loss	420 (75%)	139	0.16731	1	0.060149	1	0.9441	1	0.6256	1	0.12106	1	0.055799	1	0.43022	1	0.1461	1	0.20296	1	0.25276	1	0.30148	1	0.47021	1
17q loss	323 (58%)	236	0.0054847	1	0.0063844	1	0.020053	1	0.52795	1	0.26642	1	0.16466	1	0.32344	1	0.20058	1	0.011028	1	0.050034	1	0.00036432	0.327	0.32597	1
18p loss	182 (33%)	377	0.88731	1	0.81387	1	0.32619	1	0.47209	1	0.28972	1	0.0093973	1	0.80035	1	0.29705	1	0.038891	1	0.58284	1	0.88561	1	0.8533	1
18q loss	228 (41%)	331	0.27482	1	0.81354	1	0.71228	1	0.65707	1	0.57146	1	0.37838	1	0.87999	1	0.18361	1	0.0018499	1	0.14453	1	0.7356	1	0.49316	1
19p loss	140 (25%)	419	0.42728	1	0.82056	1	0.05435	1	0.12509	1	0.22404	1	0.13414	1	0.016634	1	0.50236	1	0.64668	1	0.15962	1	0.55604	1	0.29566	1
19q loss	140 (25%)	419	0.085282	1	0.30943	1	0.17804	1	0.15669	1	0.11203	1	0.81919	1	0.040011	1	0.64365	1	1	1	0.2493	1	0.15437	1	0.1281	1
20p loss	37 (7%)	522	0.30354	1	0.52881	1	0.62489	1	0.3615	1	0.053421	1	0.044687	1	0.41623	1	0.28373	1	0.015052	1	0.032781	1	0.028705	1	0.1447	1
20q loss	21 (4%)	538	0.71663	1	0.18782	1	0.2757	1	0.73726	1	0.24701	1	0.54609	1	0.27132	1	0.099258	1	0.24482	1	0.43997	1	0.43389	1	0.072201	1
21q loss	148 (26%)	411	0.34275	1	0.24828	1	0.31	1	0.063403	1	0.96996	1	0.04495	1	0.09389	1	0.17268	1	0.60176	1	0.76259	1	0.20984	1	0.8857	1
22q loss	378 (68%)	181	0.00012018	0.109	1.8045e-05	0.0166	0.055997	1	0.036336	1	0.0028278	1	0.012951	1	0.019161	1	0.11143	1	0.05665	1	0.26236	1	0.0042866	1	0.27161	1
Xq loss	102 (18%)	457	0.088372	1	0.17521	1	0.033679	1	0.12426	1	0.1548	1	0.37909	1	0.73536	1	0.41748	1	0.39503	1	0.61535	1	0.95081	1	0.36133	1
