Molecular subtypes	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
Amp Peak  1(1p12)	73 (30%)	171	0.00038232	0.145	0.48473	1	0.37927	1	0.4039	1	0.10939	1	0.39632	1	0.72041	1	0.74418	1
Amp Peak  2(1q21.3)	123 (50%)	121	1.1449e-08	4.64e-06	0.1014	1	0.66228	1	0.30317	1	0.055584	1	0.78771	1	0.38315	1	0.29087	1
Amp Peak  3(1q44)	130 (53%)	114	1.7977e-08	7.26e-06	0.014458	1	0.9431	1	0.94952	1	0.20911	1	0.56552	1	0.15322	1	0.074542	1
Amp Peak  4(3p13)	64 (26%)	180	0.17741	1	0.45534	1	0.37625	1	0.12347	1	0.82111	1	0.54641	1	1	1	0.48985	1
Amp Peak  5(4q12)	46 (19%)	198	0.0011896	0.443	0.41695	1	0.2935	1	0.31317	1	0.81649	1	0.35764	1	0.06878	1	0.013609	1
Amp Peak  6(5p15.33)	73 (30%)	171	0.0003331	0.126	0.36627	1	0.096079	1	0.60304	1	0.52209	1	0.15809	1	0.018688	1	0.11048	1
Amp Peak  7(5q35.3)	38 (16%)	206	2.5977e-05	0.0101	0.00052773	0.199	0.56422	1	0.34181	1	0.25289	1	0.098488	1	0.10437	1	0.19506	1
Amp Peak  8(6p25.1)	139 (57%)	105	1.6495e-10	6.73e-08	0.00069197	0.26	0.0079811	1	0.54198	1	0.085629	1	0.0048491	1	0.0015283	0.563	1.0461e-05	0.00408
Amp Peak  9(6q12)	56 (23%)	188	0.0028849	1	0.61388	1	0.58714	1	0.42721	1	0.068815	1	0.42838	1	0.32719	1	0.23822	1
Amp Peak 10(7p22.3)	131 (54%)	113	4.7056e-08	1.9e-05	0.43432	1	0.65003	1	0.92417	1	0.097928	1	0.24974	1	0.95799	1	0.46778	1
Amp Peak 11(7q34)	145 (59%)	99	8.1569e-09	3.31e-06	0.58038	1	0.24937	1	0.54551	1	0.21711	1	0.35944	1	0.34329	1	0.30173	1
Amp Peak 12(8q11.21)	101 (41%)	143	3.2779e-06	0.00129	0.0093102	1	0.68728	1	0.64482	1	0.036719	1	0.31998	1	0.35005	1	0.87197	1
Amp Peak 13(8q24.21)	118 (48%)	126	6.1209e-07	0.000245	0.007876	1	0.52927	1	0.8897	1	0.035708	1	0.67848	1	0.47556	1	0.3862	1
Amp Peak 14(9p24.1)	21 (9%)	223	0.80981	1	0.33656	1	0.71095	1	0.81546	1	0.61291	1	0.56037	1	0.26228	1	0.8412	1
Amp Peak 15(11q13.3)	47 (19%)	197	0.18393	1	0.1403	1	0.73268	1	0.95615	1	0.89558	1	1	1	0.49878	1	0.32601	1
Amp Peak 16(11q13.4)	44 (18%)	200	0.08069	1	0.056092	1	0.96816	1	0.96764	1	0.53164	1	0.60189	1	0.2628	1	0.13691	1
Amp Peak 17(12q14.1)	41 (17%)	203	0.018598	1	0.29783	1	0.62023	1	0.50836	1	0.3997	1	0.047315	1	0.90531	1	0.69491	1
Amp Peak 18(12q15)	39 (16%)	205	0.0099819	1	0.92659	1	0.40803	1	0.51993	1	0.71635	1	0.58773	1	0.94967	1	0.61514	1
Amp Peak 19(15q24.3)	81 (33%)	163	0.00010244	0.0395	0.65692	1	0.95508	1	0.65284	1	0.47403	1	0.32118	1	0.95242	1	0.38657	1
Amp Peak 20(17q25.3)	87 (36%)	157	6.9815e-05	0.027	0.0036705	1	0.020398	1	0.14853	1	0.25681	1	0.2326	1	0.087973	1	0.032986	1
Amp Peak 21(19p13.2)	50 (20%)	194	0.0015253	0.563	0.19073	1	0.75768	1	0.33009	1	0.026529	1	0.010885	1	0.35105	1	0.089955	1
Amp Peak 22(20q13.2)	129 (53%)	115	5.3138e-06	0.00208	0.011086	1	0.75293	1	0.99257	1	0.014748	1	0.31513	1	0.83003	1	0.57593	1
Amp Peak 23(22q13.2)	102 (42%)	142	0.0066928	1	0.065623	1	0.74548	1	0.78913	1	0.80928	1	0.88433	1	0.41929	1	0.53556	1
Amp Peak 24(Xq28)	42 (17%)	202	0.044472	1	0.011125	1	0.45496	1	0.71506	1	0.20285	1	0.44659	1	0.56816	1	0.2257	1
Del Peak  1(1p36.31)	59 (24%)	185	0.006485	1	0.0001063	0.0409	0.13388	1	0.41896	1	0.20591	1	0.0063149	1	0.44223	1	0.33753	1
Del Peak  2(1p22.1)	63 (26%)	181	0.034281	1	0.00033265	0.126	0.76003	1	0.30081	1	0.0015128	0.56	0.052533	1	0.51239	1	0.70943	1
Del Peak  3(2q37.3)	63 (26%)	181	0.040084	1	0.077087	1	0.43321	1	0.24585	1	0.044771	1	0.027061	1	0.071668	1	0.034577	1
Del Peak  4(3q23)	37 (15%)	207	0.12505	1	0.014276	1	0.8454	1	0.90276	1	0.576	1	0.51943	1	0.60684	1	0.6921	1
Del Peak  5(4q22.1)	56 (23%)	188	0.02635	1	0.30399	1	0.64131	1	0.64755	1	0.00071482	0.268	0.0031005	1	0.0046732	1	0.0024306	0.887
Del Peak  6(4q34.3)	67 (27%)	177	0.019359	1	0.18474	1	0.65759	1	0.7692	1	0.012384	1	0.0077112	1	0.014196	1	0.0032366	1
Del Peak  7(5q11.2)	67 (27%)	177	0.41145	1	0.039162	1	0.046502	1	0.22734	1	0.68672	1	0.70276	1	0.77717	1	0.52443	1
Del Peak  8(5q31.3)	90 (37%)	154	0.22385	1	2.4089e-05	0.00937	0.12494	1	0.82331	1	0.91594	1	0.7508	1	0.51079	1	0.33435	1
Del Peak  9(6q26)	153 (63%)	91	9.3722e-06	0.00366	0.02683	1	0.36723	1	0.78222	1	0.0009489	0.355	0.72563	1	0.70311	1	0.94102	1
Del Peak 10(8p23.3)	61 (25%)	183	0.042081	1	0.052839	1	0.0091817	1	0.20958	1	0.077452	1	0.62411	1	0.31968	1	0.33608	1
Del Peak 11(9p23)	168 (69%)	76	2.5009e-06	0.00099	0.042161	1	0.84151	1	0.55497	1	0.005918	1	0.036438	1	0.87701	1	0.39842	1
Del Peak 12(9p21.3)	189 (77%)	55	4.5881e-09	1.87e-06	0.0014302	0.531	0.74887	1	0.12661	1	0.00014649	0.0563	0.010226	1	0.96076	1	0.60247	1
Del Peak 13(10p15.3)	133 (55%)	111	6.7265e-07	0.000268	0.012289	1	0.48052	1	0.78734	1	2.7608e-06	0.00109	0.00028902	0.11	0.11624	1	0.25869	1
Del Peak 14(10q23.31)	149 (61%)	95	5.8937e-08	2.37e-05	0.072089	1	0.21405	1	0.73182	1	0.00016499	0.0632	0.0015805	0.578	0.73938	1	0.71271	1
Del Peak 15(10q26.3)	151 (62%)	93	4.5887e-07	0.000184	0.34847	1	0.40015	1	0.82999	1	3.5854e-06	0.00141	0.00019504	0.0745	0.20665	1	0.85175	1
Del Peak 16(11q23.3)	134 (55%)	110	2.0516e-06	0.000814	0.098895	1	0.22742	1	0.46408	1	0.2823	1	0.59901	1	0.1452	1	0.12956	1
Del Peak 17(12p13.31)	37 (15%)	207	0.59147	1	0.19373	1	0.36295	1	0.78696	1	0.1965	1	0.48088	1	0.71621	1	0.86395	1
Del Peak 18(12q23.3)	58 (24%)	186	0.1203	1	0.0087612	1	0.58942	1	0.49224	1	0.8449	1	0.35334	1	0.6689	1	0.49933	1
Del Peak 19(12q24.33)	57 (23%)	187	0.06965	1	0.012818	1	0.58089	1	0.54135	1	0.7664	1	0.12784	1	0.77055	1	0.58687	1
Del Peak 20(13q34)	58 (24%)	186	0.094137	1	0.0048333	1	0.077994	1	0.78531	1	0.96289	1	0.21529	1	0.82006	1	0.1063	1
Del Peak 21(14q32.2)	83 (34%)	161	1.7513e-06	0.000697	0.5659	1	0.16205	1	0.41927	1	0.018422	1	0.66188	1	0.78628	1	0.68174	1
Del Peak 22(15q13.3)	54 (22%)	190	0.0015329	0.563	0.18419	1	0.39265	1	0.6563	1	0.62319	1	0.21797	1	0.41042	1	0.4051	1
Del Peak 23(15q15.3)	56 (23%)	188	0.0011266	0.42	0.2141	1	0.38185	1	0.50063	1	0.87201	1	0.61459	1	0.30936	1	0.081858	1
Del Peak 24(16p13.3)	46 (19%)	198	0.71811	1	0.027968	1	0.19945	1	0.40752	1	0.32877	1	0.6812	1	0.37342	1	0.55498	1
Del Peak 25(16q12.1)	81 (33%)	163	0.21729	1	0.34619	1	0.015096	1	0.54677	1	0.17936	1	0.34765	1	0.14745	1	0.1434	1
Del Peak 26(16q24.3)	89 (36%)	155	0.26924	1	0.48192	1	0.33124	1	0.82795	1	0.012239	1	0.18015	1	0.071349	1	0.054261	1
Del Peak 27(19p13.3)	71 (29%)	173	0.038979	1	0.47132	1	0.0060741	1	0.021335	1	0.0045109	1	0.15587	1	0.8563	1	0.40052	1