Clinical Features	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	10 (28%)	26	0.13937	1	0.64898	1	0.65296	1	0.79319	1	0.63417	1	0.55021	1	0.10757	1	0.2636	1	0.26005	1	0.68832	1
1q gain	21 (58%)	15	0.516	1	0.093069	1	1	1	1	1	0.6913	1	0.235	1	0.11443	1	0.17692	1	0.73579	1	0.5918	1
2p gain	6 (17%)	30	0.66171	1	0.63104	1	1	1	0.63512	1	1	1	0.92107	1	0.36575	1	0.54641	1	1	1	0.5986	1
2q gain	6 (17%)	30	0.18213	1	0.62799	1	0.72605	1	0.71944	1	0.52594	1	0.5027	1	0.36948	1	0.39676	1	1	1	0.60071	1
3p gain	3 (8%)	33	0.23095	1	0.096489	1	NA	NA	NA	NA	0.32467	1	0.15316	1	0.33803	1	0.23635	1	0.063725	1	0.57665	1
3q gain	8 (22%)	28	0.2357	1	0.059279	1	0.18505	1	0.7163	1	0.10127	1	0.099389	1	0.53964	1	0.66655	1	1	1	0.39776	1
4p gain	3 (8%)	33	1	1	1	1	NA	NA	NA	NA	1	1	0.79131	1	0.76916	1	0.42282	1	0.55882	1	1	1
5p gain	12 (33%)	24	1	1	0.82204	1	0.88462	1	0.19967	1	0.61471	1	0.97723	1	0.76138	1	1	1	1	1	0.76107	1
5q gain	12 (33%)	24	1	1	0.82408	1	0.88388	1	0.19902	1	0.61265	1	0.97768	1	0.76394	1	1	1	1	1	0.7624	1
6p gain	7 (19%)	29	0.68426	1	1	1	0.85983	1	1	1	0.37092	1	0.89306	1	0.18522	1	0.31673	1	0.67378	1	0.23883	1
7p gain	7 (19%)	29	0.68426	1	1	1	1	1	0.29965	1	0.20851	1	0.38766	1	0.37263	1	0.56623	1	0.67378	1	0.0183	0.636
7q gain	6 (17%)	30	1	1	0.63005	1	0.52533	1	0.68921	1	0.44758	1	0.53361	1	0.68666	1	0.82002	1	1	1	0.0067799	0.53
8p gain	6 (17%)	30	1	1	0.23885	1	0.39254	1	0.67021	1	0.33722	1	0.16686	1	0.20403	1	0.36397	1	0.36668	1	0.1162	1
8q gain	12 (33%)	24	1	1	0.20486	1	0.38334	1	0.57038	1	0.16969	1	0.53705	1	0.18381	1	0.16628	1	0.72102	1	0.1318	1
10p gain	5 (14%)	31	1	1	0.3972	1	0.39075	1	0.04057	0.884	0.83517	1	0.073799	1	0.78494	1	0.93396	1	0.62957	1	0.86328	1
11p gain	4 (11%)	32	0.60519	1	0.17651	1	0.60286	1	0.10294	1	0.20271	1	0.0058099	0.53	0.74002	1	0.74875	1	0.28699	1	0.18666	1
11q gain	4 (11%)	32	0.60519	1	0.17614	1	0.59747	1	0.10351	1	0.20211	1	0.0055399	0.53	0.73885	1	0.74759	1	0.28699	1	0.18463	1
12p gain	9 (25%)	27	1	1	0.55827	1	0.04537	0.907	0.23737	1	1	1	0.90519	1	0.46336	1	0.84184	1	0.4427	1	0.33515	1
12q gain	8 (22%)	28	1	1	0.53308	1	0.15361	1	0.53638	1	0.88033	1	0.98308	1	0.43657	1	0.82438	1	0.23576	1	0.62868	1
13q gain	3 (8%)	33	0.23095	1	0.096699	1	NA	NA	NA	NA	0.04152	0.884	0.0396	0.884	0.39533	1	0.88825	1	1	1	0.02495	0.686
15q gain	6 (17%)	30	0.66171	1	0.85937	1	1	1	0.91422	1	0.86256	1	0.65574	1	0.19416	1	0.43868	1	0.67737	1	0.0088699	0.532
16p gain	7 (19%)	29	0.091789	1	0.57337	1	0.72705	1	0.63297	1	0.66274	1	0.63952	1	0.37378	1	0.91353	1	0.67378	1	0.29825	1
16q gain	5 (14%)	31	0.34199	1	1	1	0.80698	1	0.094969	1	1	1	0.62501	1	0.92263	1	0.93245	1	1	1	0.92694	1
17p gain	3 (8%)	33	1	1	1	1	0.59864	1	0.24933	1	0.77449	1	0.21288	1	0.6846	1	0.61145	1	0.55882	1	0.57895	1
17q gain	7 (19%)	29	1	1	1	1	0.15257	1	0.53329	1	0.49507	1	0.25608	1	0.93432	1	1	1	0.41782	1	0.52377	1
18p gain	7 (19%)	29	1	1	0.75915	1	0.065939	1	0.30184	1	0.66497	1	0.75992	1	0.48522	1	0.88136	1	0.41782	1	0.8467	1
18q gain	6 (17%)	30	0.39108	1	0.33247	1	0.32135	1	0.67553	1	0.069529	1	0.57006	1	0.19452	1	0.43763	1	0.67737	1	0.39261	1
19p gain	6 (17%)	30	0.66171	1	0.85848	1	0.70152	1	0.72215	1	0.6276	1	0.65711	1	0.58062	1	0.4348	1	0.062805	1	1	1
19q gain	6 (17%)	30	0.66171	1	0.85929	1	0.70578	1	0.72078	1	0.62572	1	0.65952	1	0.58148	1	0.43849	1	0.062805	1	1	1
20p gain	11 (31%)	25	1	1	0.60711	1	0.31193	1	0.47829	1	0.7256	1	0.42314	1	0.23566	1	0.28204	1	0.46459	1	0.33972	1
20q gain	12 (33%)	24	0.73173	1	0.61479	1	0.14333	1	0.26639	1	0.75211	1	0.28271	1	0.14227	1	0.14883	1	0.49911	1	0.2243	1
21q gain	3 (8%)	33	1	1	0.48131	1	1	1	0.67753	1	0.4585	1	0.88684	1	0.18522	1	0.71105	1	0.25	1	0.13277	1
22q gain	5 (14%)	31	0.34199	1	0.59876	1	0.80989	1	1	1	0.085579	1	0.28706	1	0.84841	1	0.93328	1	1	1	0.92802	1
1p loss	4 (11%)	32	1	1	1	1	0.5283	1	0.75182	1	0.65699	1	0.60967	1	0.81534	1	0.79431	1	0.62567	1	0.81256	1
3p loss	22 (61%)	14	0.0022205	0.366	0.25156	1	1	1	0.061569	1	0.62017	1	0.01191	0.561	0.77243	1	0.58629	1	0.49921	1	0.99079	1
3q loss	3 (8%)	33	0.59286	1	0.47884	1	NA	NA	NA	NA	0.16283	1	0.02204	0.649	0.69048	1	0.6126	1	0.55882	1	0.39433	1
4p loss	10 (28%)	26	0.27417	1	0.10063	1	1	1	1	1	0.22289	1	0.32206	1	0.78652	1	0.64633	1	0.7086	1	0.28836	1
4q loss	13 (36%)	23	1	1	0.39042	1	0.61779	1	0.68836	1	0.36926	1	0.39071	1	0.4597	1	0.83873	1	0.73555	1	0.36772	1
6p loss	5 (14%)	31	0.65043	1	0.02262	0.649	0.70231	1	1	1	0.70363	1	0.98263	1	0.3706	1	0.24035	1	0.62957	1	0.98201	1
6q loss	20 (56%)	16	0.00024181	0.16	0.01294	0.569	0.088699	1	0.02197	0.649	0.19296	1	0.14567	1	0.20942	1	0.25611	1	0.32043	1	0.40915	1
7p loss	4 (11%)	32	0.60519	1	0.4258	1	NA	NA	NA	NA	0.43027	1	0.28001	1	0.51618	1	0.90429	1	1	1	0.8576	1
7q loss	4 (11%)	32	1	1	0.42317	1	NA	NA	NA	NA	0.42838	1	0.28484	1	0.3208	1	0.27653	1	0.28699	1	0.39135	1
8p loss	10 (28%)	26	0.71692	1	0.12817	1	1	1	0.54683	1	0.01739	0.636	0.077499	1	0.093509	1	0.03747	0.883	0.26005	1	0.17165	1
8q loss	3 (8%)	33	0.59286	1	0.26249	1	0.76521	1	0.52422	1	0.24224	1	0.79276	1	0.76881	1	0.075579	1	1	1	0.13312	1
9p loss	18 (50%)	18	1	1	0.28353	1	0.2688	1	0.0066499	0.53	0.69364	1	0.29806	1	0.18582	1	0.12713	1	0.49979	1	0.59144	1
9q loss	19 (53%)	17	1	1	0.76967	1	0.25857	1	0.01145	0.561	0.58122	1	0.13173	1	0.71016	1	0.37008	1	0.19221	1	0.60429	1
10p loss	6 (17%)	30	1	1	0.86095	1	0.20557	1	0.11103	1	0.73253	1	0.36221	1	0.57954	1	0.77687	1	0.67737	1	0.01504	0.584
10q loss	5 (14%)	31	0.16721	1	0.59707	1	1	1	0.67553	1	0.40856	1	0.98168	1	0.84991	1	0.6973	1	1	1	0.55749	1
11p loss	8 (22%)	28	0.43385	1	1	1	0.065649	1	0.48841	1	0.20733	1	0.53148	1	1	1	0.8404	1	0.69403	1	0.3894	1
11q loss	9 (25%)	27	0.25529	1	1	1	0.26832	1	0.48203	1	0.072699	1	0.47443	1	0.76644	1	0.58301	1	0.70496	1	0.75949	1
12q loss	3 (8%)	33	0.23095	1	0.47819	1	NA	NA	NA	NA	0.32594	1	0.15529	1	0.60809	1	1	1	1	1	0.39946	1
13q loss	15 (42%)	21	1	1	1	1	0.27031	1	0.51645	1	0.63079	1	0.74388	1	0.75742	1	0.31184	1	0.73579	1	0.33516	1
14q loss	13 (36%)	23	0.013954	0.576	0.56352	1	0.24736	1	0.0072699	0.53	1	1	0.04363	0.9	1	1	0.91098	1	0.4837	1	0.28095	1
15q loss	5 (14%)	31	0.34199	1	0.59641	1	1	1	1	1	0.084959	1	0.28755	1	0.51119	1	0.75546	1	0.62957	1	0.98221	1
16p loss	4 (11%)	32	1	1	1	1	NA	NA	NA	NA	0.80673	1	1	1	0.73899	1	0.96557	1	0.62567	1	0.18727	1
16q loss	7 (19%)	29	0.68426	1	0.33296	1	0.39248	1	0.42941	1	0.66171	1	0.41417	1	0.65888	1	0.01929	0.637	1	1	0.66234	1
17p loss	10 (28%)	26	0.71692	1	0.51962	1	0.85823	1	1	1	0.1146	1	0.35183	1	0.25222	1	0.29061	1	1	1	0.14275	1
18p loss	6 (17%)	30	1	1	1	1	0.65197	1	0.48045	1	0.44975	1	0.60344	1	0.24016	1	0.57129	1	0.36668	1	0.30705	1
18q loss	8 (22%)	28	0.2357	1	0.7006	1	0.58262	1	0.83936	1	0.10299	1	0.61379	1	0.13247	1	0.25241	1	0.42405	1	0.063049	1
19p loss	4 (11%)	32	0.60519	1	0.2958	1	0.80657	1	1	1	0.14642	1	0.6825	1	0.051369	0.997	0.24175	1	0.12478	1	0.0080299	0.53
19q loss	3 (8%)	33	1	1	0.48248	1	NA	NA	NA	NA	0.3275	1	0.7325	1	0.86177	1	1	1	1	1	0.57924	1
20p loss	5 (14%)	31	1	1	0.59462	1	NA	NA	NA	NA	0.03192	0.78	0.51929	1	0.097679	1	0.41545	1	0.37611	1	0.01131	0.561
21q loss	15 (42%)	21	0.31067	1	1	1	1	1	0.71499	1	0.13301	1	0.28838	1	0.33655	1	0.62907	1	0.31037	1	0.68961	1
22q loss	5 (14%)	31	0.65043	1	0.8381	1	0.70369	1	0.37632	1	0.33122	1	0.15236	1	0.67686	1	0.80501	1	0.37611	1	0.4014	1
xp loss	15 (42%)	21	0.0018513	0.366	0.02715	0.694	0.65027	1	0.84909	1	1	1	0.26536	1	0.57368	1	0.96094	1	0.50061	1	0.99586	1
xq loss	15 (42%)	21	0.0018513	0.366	0.02735	0.694	0.64865	1	0.84921	1	1	1	0.26512	1	0.5733	1	0.96222	1	0.50061	1	0.99604	1