		Clinical Features	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL		MIRSEQ_MATURE_CNMF		MIRSEQ_MATURE_CHIERARCHICAL	
	nMutated (%)	nWild-Type	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square 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
PIK3CA	316 (32%)	659	7.3213e-13	5.87e-10	3.4819e-10	2.78e-07	2.645e-12	2.11e-09	2.4604e-14	1.98e-11	0.00016969	0.132	5.3753e-06	0.00424	1.3599e-14	1.09e-11	8.7063e-19	7.04e-16	1.0999e-12	8.8e-10	4.2188e-20	3.42e-17	5.3762e-09	4.27e-06	1.2872e-12	1.03e-09
CBFB	23 (2%)	952	0.13441	1	0.92543	1	0.039004	1	0.00015956	0.124	0.12372	1	0.5135	1	0.090424	1	0.14882	1	0.064896	1	1.7311e-05	0.0136	0.0039533	1	0.0048085	1
GATA3	77 (8%)	898	4.4184e-06	0.00349	1.1563e-06	0.000915	0.0005203	0.402	0.0034112	1	0.21784	1	0.038833	1	7.8764e-10	6.27e-07	9.9595e-13	7.98e-10	3.3422e-05	0.0263	3.1471e-07	0.000249	5.9136e-05	0.0463	5.391e-08	4.28e-05
FOXA1	23 (2%)	952	0.35554	1	0.23773	1	0.24783	1	0.044781	1	0.8942	1	0.309	1	0.015531	1	0.048076	1	0.12562	1	0.041109	1	0.070473	1	0.57976	1
SF3B1	16 (2%)	959	0.81451	1	0.29829	1	0.43348	1	0.15456	1	0.4505	1	0.02458	1	0.12455	1	0.26457	1	0.049717	1	0.90101	1	0.66952	1	0.20042	1
TP53	295 (30%)	680	2.3466e-31	1.92e-28	2.139e-29	1.75e-26	6.9443e-52	5.71e-49	3.9073e-31	3.19e-28	4.6324e-23	3.77e-20	2.5759e-23	2.1e-20	1.6178e-64	1.33e-61	2.8593e-61	2.36e-58	1.9855e-49	1.63e-46	1.4497e-59	1.19e-56	1.3208e-41	1.08e-38	1.6264e-34	1.33e-31
CDH1	105 (11%)	870	0.00017383	0.135	0.0033612	1	6.8705e-14	5.52e-11	5.8934e-09	4.68e-06	0.0040434	1	0.01062	1	8.3584e-15	6.74e-12	3.6969e-18	2.98e-15	6.4202e-25	5.23e-22	3.0393e-22	2.47e-19	4.9983e-21	4.05e-18	2.0636e-18	1.67e-15
RUNX1	29 (3%)	946	0.014949	1	0.045249	1	0.0090456	1	0.034625	1	1	1	0.28489	1	0.062115	1	0.0049317	1	0.0057018	1	0.0021253	1	0.18284	1	0.05935	1
PTEN	35 (4%)	940	0.28021	1	0.65816	1	0.16967	1	0.32714	1	0.92182	1	0.66696	1	0.96724	1	0.96867	1	0.65472	1	0.81019	1	0.43789	1	0.71969	1
TBX3	27 (3%)	948	0.42752	1	0.30676	1	0.44612	1	0.057841	1	0.082966	1	0.6092	1	0.05061	1	0.089064	1	0.15873	1	0.096252	1	0.31474	1	0.30048	1
MAP2K4	32 (3%)	943	0.12266	1	0.0039455	1	0.072194	1	0.016884	1	0.0026164	1	0.029833	1	0.00068125	0.525	0.0003078	0.238	0.00023682	0.184	0.0022805	1	2.8252e-05	0.0222	0.013714	1
MLL3	69 (7%)	906	0.59769	1	0.68788	1	0.59624	1	0.29165	1	0.59668	1	0.86545	1	0.056831	1	0.1275	1	0.085948	1	0.071574	1	0.46247	1	0.56611	1
MAP3K1	70 (7%)	905	9.8197e-05	0.0768	0.00068883	0.53	0.0078231	1	0.018398	1	0.0006903	0.531	3.812e-05	0.0299	0.0003039	0.236	0.00031891	0.247	5.8372e-05	0.0458	0.00072492	0.557	0.00028108	0.218	0.018787	1
NCOR1	41 (4%)	934	0.57078	1	0.9535	1	0.9338	1	0.82308	1	0.43549	1	0.16749	1	0.84736	1	0.88344	1	0.69869	1	0.66637	1	0.7941	1	0.67725	1
RB1	19 (2%)	956	0.66565	1	0.40335	1	0.15325	1	0.063942	1	0.48237	1	0.76252	1	0.023272	1	0.070698	1	0.059062	1	0.075557	1	0.011564	1	0.28723	1
CTCF	17 (2%)	958	0.033075	1	0.32247	1	0.014476	1	0.0041324	1	0.068463	1	0.29653	1	0.11895	1	0.19535	1	0.042839	1	0.062952	1	0.69851	1	0.44393	1
THEM5	11 (1%)	964	0.23079	1	0.44097	1	0.23056	1	0.48761	1	0.20861	1	0.039824	1	0.63124	1	0.55936	1	1	1	0.56198	1	1	1	0.18598	1
GPS2	10 (1%)	965	0.0013319	1	0.0059227	1	0.068238	1	0.37481	1	0.26774	1	0.31541	1	0.17205	1	0.25265	1	0.37891	1	0.0083012	1	1	1	0.25871	1
RPGR	18 (2%)	957	0.98994	1	0.6639	1	0.8721	1	0.6672	1	0.76744	1	0.69524	1	0.80447	1	0.9002	1	0.91709	1	0.57355	1	0.90766	1	0.45146	1
DNAH12	17 (2%)	958	0.97269	1	0.15798	1	0.57381	1	0.63142	1	0.4505	1	0.62739	1	0.94631	1	0.37659	1	0.28326	1	0.79766	1	0.40017	1	0.16389	1
CDKN1B	10 (1%)	965	0.63407	1	0.17826	1	0.0061977	1	0.07241	1	0.74133	1	0.28049	1	0.096597	1	0.19265	1	0.02942	1	0.10718	1	0.33128	1	0.56142	1
ZFP36L1	9 (1%)	966	0.56989	1	0.44097	1	0.020838	1	0.24436	1	0.026587	1	0.023322	1	0.28222	1	0.32416	1	0.53446	1	0.91239	1	0.86462	1	0.71625	1
ASB10	8 (1%)	967	0.86924	1	0.81129	1	0.97844	1	0.7381	1	NA	NA	NA	NA	0.50111	1	0.90822	1	0.092578	1	0.74013	1	0.86462	1	1	1
HIST1H3B	11 (1%)	964	0.6378	1	1	1	0.91747	1	0.73295	1	0.63112	1	1	1	0.91776	1	0.46683	1	0.69372	1	0.58752	1	0.87992	1	0.87172	1
FAM86B1	8 (1%)	967	NA	NA	NA	NA	0.73845	1	0.89118	1	NA	NA	NA	NA	0.89365	1	0.53335	1	0.22728	1	0.60031	1	0.89227	1	0.5963	1
PIK3R1	15 (2%)	960	0.026604	1	0.72247	1	0.88044	1	0.086842	1	0.63112	1	0.45223	1	0.14165	1	0.53014	1	0.05482	1	1	1	0.13955	1	0.43632	1
MYH9	19 (2%)	956	0.71129	1	0.18169	1	0.2277	1	0.43662	1	0.82166	1	0.60571	1	0.87321	1	0.50711	1	0.61439	1	0.066769	1	0.65163	1	0.13651	1
CASP8	12 (1%)	963	0.42308	1	0.3584	1	0.38677	1	0.37155	1	0.53088	1	0.73899	1	1	1	1	1	0.40171	1	0.45833	1	0.74026	1	0.45146	1
COL6A5	25 (3%)	950	0.14393	1	0.44035	1	0.63074	1	0.34247	1	0.075044	1	0.076018	1	0.21749	1	0.11176	1	0.034698	1	0.2965	1	0.044794	1	0.024419	1
TBL1XR1	10 (1%)	965	0.12343	1	0.23773	1	0.04456	1	0.43976	1	0.45066	1	0.56754	1	0.42568	1	0.14324	1	0.17522	1	0.0499	1	0.64197	1	0.23929	1
ASXL2	16 (2%)	959	0.40257	1	0.097462	1	0.89419	1	0.86753	1	0.28059	1	0.0050502	1	0.33435	1	0.40813	1	1	1	0.14427	1	0.74026	1	0.25162	1
ARID1A	27 (3%)	948	0.13486	1	0.94281	1	0.055199	1	0.10362	1	1	1	0.47473	1	0.20623	1	0.29461	1	0.20139	1	0.12959	1	0.30729	1	0.87698	1
AQP12A	6 (1%)	969	0.71456	1	0.20312	1	0.23009	1	0.031676	1	0.20118	1	0.1152	1	0.86707	1	0.5838	1	0.77657	1	1	1	1	1	1	1
EPDR1	5 (1%)	970	0.37908	1	1	1	0.71924	1	NA	NA	0.55688	1	0.46841	1	0.71525	1	1	1	0.82275	1	1	1	0.28926	1	1	1
ERBB2	21 (2%)	954	0.8865	1	0.34862	1	0.10944	1	0.013403	1	0.54884	1	0.90641	1	0.25628	1	0.37705	1	0.015527	1	0.00078762	0.604	0.66587	1	0.39621	1
MYB	12 (1%)	963	0.63095	1	1	1	0.20797	1	0.51234	1	1	1	0.86234	1	1	1	0.87016	1	0.46876	1	0.86997	1	0.45409	1	0.36007	1
TMEM151B	6 (1%)	969	0.91457	1	0.29719	1	0.30619	1	0.52004	1	0.026587	1	0.19462	1	0.34304	1	0.0298	1	0.28251	1	0.13211	1	0.38941	1	0.7847	1
GALNTL6	5 (1%)	970	0.9212	1	1	1	0.21114	1	0.012448	1	NA	NA	NA	NA	0.0402	1	0.10219	1	0.57234	1	0.16536	1	0.38941	1	0.17909	1
AKD1	18 (2%)	957	0.43967	1	0.59834	1	0.32172	1	0.54521	1	0.23548	1	0.12395	1	0.2818	1	0.076892	1	0.21584	1	0.58157	1	0.11111	1	0.3392	1
AARS	9 (1%)	966	0.40254	1	0.010742	1	0.74175	1	0.50896	1	0.83639	1	0.56319	1	0.057123	1	0.1094	1	0.24163	1	0.35892	1	0.039847	1	0.83704	1
HLA-C	9 (1%)	966	0.31633	1	0.20312	1	0.5508	1	0.092617	1	0.39944	1	0.63373	1	0.080603	1	0.39179	1	0.26655	1	0.14265	1	0.16749	1	0.024685	1
GPRIN2	11 (1%)	964	0.65545	1	0.46464	1	0.92734	1	0.65485	1	0.87729	1	0.33049	1	0.46128	1	0.39523	1	0.66987	1	0.33082	1	0.6416	1	0.2879	1
TRPM5	11 (1%)	964	0.23713	1	0.61488	1	0.60638	1	0.033047	1	0.77844	1	0.78159	1	0.040848	1	0.06027	1	0.093321	1	0.09375	1	0.021554	1	0.038314	1
ANKRD12	18 (2%)	957	0.17774	1	0.11479	1	0.6031	1	0.89703	1	0.38495	1	0.51771	1	0.46398	1	0.034278	1	0.53921	1	0.33225	1	1	1	0.4909	1
FBXW7	15 (2%)	960	0.818	1	0.63995	1	0.064232	1	0.0029613	1	0.77844	1	0.78159	1	0.22246	1	0.13007	1	0.39827	1	0.14427	1	0.41089	1	0.096829	1
PRICKLE3	11 (1%)	964	0.33466	1	0.28151	1	0.94145	1	0.6452	1	0.50889	1	0.89075	1	0.17012	1	0.431	1	0.80118	1	0.086352	1	0.59376	1	0.63939	1
WDR52	16 (2%)	959	0.76787	1	0.056495	1	0.31838	1	0.165	1	0.0042406	1	0.13693	1	0.011861	1	0.36613	1	0.0095824	1	0.36944	1	0.04484	1	1	1
CDC42EP1	5 (1%)	970	0.57864	1	0.45178	1	0.60676	1	0.25157	1	0.83639	1	0.82863	1	0.83942	1	0.53101	1	0.618	1	0.13211	1	NA	NA	NA	NA
ERBB3	18 (2%)	957	0.41249	1	0.2245	1	0.80267	1	0.19246	1	0.33474	1	0.29835	1	0.16814	1	0.098587	1	0.925	1	0.77675	1	1	1	1	1
FHOD3	13 (1%)	962	0.0431	1	0.020462	1	0.064893	1	0.09072	1	0.38495	1	0.026144	1	0.021512	1	0.0020774	1	0.08291	1	0.0031311	1	0.6416	1	0.23493	1
PTHLH	7 (1%)	968	0.44175	1	0.3584	1	0.027646	1	0.004115	1	0.68982	1	0.39157	1	0.16354	1	0.29521	1	0.11395	1	0.2136	1	NA	NA	NA	NA
SHISA4	5 (1%)	970	0.021349	1	0.20312	1	0.1882	1	0.41349	1	NA	NA	NA	NA	0.83942	1	0.45341	1	0.34171	1	1	1	NA	NA	NA	NA
KCNN3	9 (1%)	966	0.32125	1	0.8387	1	0.20741	1	0.28884	1	0.32773	1	0.14438	1	0.24837	1	0.21311	1	0.24163	1	0.76293	1	0.16219	1	0.61632	1
FGFR2	11 (1%)	964	0.84052	1	0.87614	1	0.32309	1	0.23972	1	1	1	1	1	0.84966	1	0.79671	1	0.54789	1	0.86309	1	0.80235	1	0.36341	1
HLA-DRB5	6 (1%)	969	0.0072308	1	0.013513	1	0.12657	1	0.65367	1	NA	NA	NA	NA	0.64537	1	0.77012	1	0.25956	1	0.12682	1	0.78082	1	1	1
ICOSLG	6 (1%)	969	0.69284	1	1	1	0.16095	1	0.65367	1	NA	NA	NA	NA	0.55392	1	1	1	0.88572	1	0.77226	1	1	1	1	1
GYG2	8 (1%)	967	0.70324	1	1	1	0.18929	1	0.71942	1	0.15561	1	0.039824	1	1	1	0.43309	1	0.4031	1	0.9042	1	0.38941	1	0.17909	1
PPEF1	11 (1%)	964	0.83986	1	1	1	0.07714	1	0.36027	1	1	1	1	1	0.24937	1	0.92827	1	0.80118	1	0.50533	1	1	1	0.31691	1
MAP4K1	10 (1%)	965	0.82776	1	0.45178	1	0.2321	1	0.59864	1	1	1	0.78159	1	0.3575	1	0.048784	1	0.4427	1	0.66153	1	0.27381	1	0.20153	1
ZNF41	11 (1%)	964	0.80994	1	0.46464	1	0.60161	1	0.24368	1	0.87729	1	0.29104	1	0.18708	1	0.431	1	0.37046	1	0.86309	1	0.091757	1	0.10948	1
FBXO17	5 (1%)	970	NA	NA	NA	NA	0.83105	1	0.43335	1	NA	NA	NA	NA	0.40138	1	0.62182	1	0.74026	1	1	1	1	1	1	1
HRNR	31 (3%)	944	0.89175	1	0.45977	1	0.22488	1	0.94421	1	0.58685	1	0.58809	1	0.57686	1	0.43609	1	0.30036	1	0.67693	1	0.69337	1	1	1
STAG2	13 (1%)	962	0.3573	1	1	1	0.29449	1	0.37294	1	0.87729	1	0.67628	1	0.52587	1	0.93636	1	0.19385	1	0.59524	1	0.50671	1	0.88306	1
CEP57	6 (1%)	969	0.32441	1	1	1	0.40589	1	0.14452	1	NA	NA	NA	NA	0.55392	1	1	1	0.073139	1	0.77226	1	0.058139	1	0.027044	1
SPRR2B	3 (0%)	972	NA	NA	NA	NA	0.73408	1	NA	NA	NA	NA	NA	NA	0.43218	1	0.7978	1	0.63316	1	0.79337	1	NA	NA	NA	NA
ZFP36L2	7 (1%)	968	0.43694	1	1	1	0.010789	1	0.78702	1	1	1	1	1	0.34544	1	0.44158	1	0.65433	1	0.89073	1	1	1	0.83704	1
DMXL2	19 (2%)	956	0.6965	1	0.18169	1	0.037617	1	0.26308	1	0.10691	1	0.072694	1	0.046416	1	0.056612	1	0.016827	1	0.19235	1	0.071305	1	0.10168	1
ZBTB7C	5 (1%)	970	NA	NA	NA	NA	0.67347	1	0.75175	1	NA	NA	NA	NA	0.26434	1	0.38053	1	0.86827	1	1	1	0.78082	1	1	1
MUC5B	33 (3%)	942	0.69434	1	0.87918	1	0.44446	1	0.3709	1	0.91544	1	0.69524	1	0.32913	1	0.77132	1	0.53254	1	0.72907	1	0.81797	1	0.8597	1
XBP1	4 (0%)	971	NA	NA	NA	NA	0.019942	1	0.38558	1	NA	NA	NA	NA	1	1	0.82291	1	0.48147	1	0.69299	1	0.39343	1	0.81394	1
FXYD5	5 (1%)	970	0.69284	1	0.61488	1	0.25884	1	NA	NA	0.64325	1	1	1	0.079658	1	0.45341	1	0.4009	1	0.86196	1	NA	NA	NA	NA
ATXN2	15 (2%)	960	0.83659	1	0.36588	1	0.37967	1	0.70144	1	0.23413	1	0.076608	1	0.60274	1	0.34483	1	0.8458	1	1	1	0.8556	1	0.91643	1
CCL13	4 (0%)	971	NA	NA	NA	NA	0.00015071	0.118	0.30632	1	NA	NA	NA	NA	0.31234	1	0.5652	1	0.3113	1	0.47991	1	NA	NA	NA	NA
