T-Trees

A novel tree-based approach for Genome-Wide Association Studies

Supplementary data

Back

---

---

1	Best: rs2789336 (2)	Gene	18.83-18.84Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2743213		18829665	0.0007092	1	1	0.7104	0.00016	104
	rs2789336		18836715	0.00681	1	1	3.499e-08	0.00086	20
1	Best: rs562929 (2)	Gene	36.30-36.31Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs4653163	MAP7D1 NCBI Gene Pubmed Genecard	36296538	0.04586	0.1237	0.009823	1	8.3e-05	190
	rs562929	MAP7D1 NCBI Gene Pubmed Genecard	36308872	0.002663	1	1	2.02e-06	0.00026	64
1	Best: rs852996 (10)	Gene	226.94-226.99Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs701152		226935326	0.227	0.1514	0.4067	0.4465	0.00019	92
	rs17599139		226937684	0.05975	0.8415	0.6238	1	9.2e-05	170
	rs853010		226937760	0.2388	0.1572	0.9192	0.515	0.00016	105
	rs11122524		226938772	0.4577	0.01819	0.5299	0.5917	0.00014	112
	rs11581828		226943518	0.3525	0.1838	0.5728	0.5326	0.00011	148
	rs852996		226952791	0.009293	0.000255	1	1.046e-17	0.0097	2
	rs853002		226956611	0.0163	0.4361	1	0.6269	0.0094	3
	rs853007		226959789	0.01631	0.4364	1	0.6269	0.0009	19
	rs701156		226978457	0.0165	0.4168	1	1	0.00031	55
	rs853443		226988648	0.01691	0.4558	1	0.6904	0.00014	113
2	Best: rs1453783 (4)	Gene	5.37-5.38Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs10929488		5367555	0.3873	0.6654	0.2195	0.09548	0.00033	52
	rs1453783		5368662	0.3713	0.7713	0.01623	0.7976	0.0017	10
	rs6728135		5374777	0.3876	0.5619	0.1448	0.03257	0.00064	27
	rs10929491		5376586	0.3884	0.7728	0.2063	0.04505	0.00038	43
2	Best: rs902133 (2)	Gene	10.91-10.91Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs12623588		10908210	0.296	0.04681	0.1216	0.4992	0.00014	116
	rs902133		10908783	0.004091	1	1	3.718e-10	0.0013	14
2	Best: rs903229 (3)	Gene	53.60-53.61Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs903228		53603700	0.05674	1	0.5606	0.0008105	0.00013	121
	rs903229		53606735	0.4954	0.6509	0.8543	0.8691	0.00018	94
	rs17044786		53612155	0.03524	0.1109	0.04863	0.3432	8.5e-05	185
2	Best: rs12474907 (2)	Gene	111.30-111.30Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs17041561	ACOXL NCBI Gene Pubmed Genecard	111299993	0.03193	0.6259	0.0331	0.0002007	8.7e-05	177
	rs12474907	ACOXL NCBI Gene Pubmed Genecard	111301537	0.04838	0.8072	0.2235	0.8481	0.00023	75
2	Best: rs10188442 (2)	Gene	133.02-133.02Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs13420028	GPR39 NCBI Gene Pubmed Genecard	133021838	0.2017	0.4792	0.9098	0.6446	0.00011	146
	rs10188442	GPR39 NCBI Gene Pubmed Genecard	133022971	0.2042	0.9449	1	0.6829	0.00044	41
3	Best: rs3845903 (2)	Gene	66.60-66.60Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs3845903	LRIG1 NCBI Gene Pubmed Genecard	66600360	0.005829	1	1	2.907e-08	0.00028	62
	rs9846493	LRIG1 NCBI Gene Pubmed Genecard	66600833	0.000607	1	1	0.2234	0.00021	85
3	Best: rs5000487 (2)	Gene	96.66-96.66Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs7652786		96664072	0.432	0.3335	0.9405	0.8194	8.8e-05	176
	rs5000487		96664292	0.4274	0.6752	0.9404	0.2972	0.00012	126
4	Best: rs1503865 (3)	Gene	17.91-17.92Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2080231		17912133	0.2665	0.3087	0.6291	0.005565	0.0001	158
	rs1503865		17913113	0.2703	0.2649	0.8867	0.01795	0.00011	150
	rs6811915		17919583	0.2745	0.1081	0.4533	0.04222	9e-05	174
4	Best: rs582804 (5)	Gene	23.66-23.68Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs13119672		23660732	0.1415	0.0004049	0.2161	0.005783	0.00036	47
	rs615604		23665037	0.1566	0.547	0.73	0.821	0.00035	49
	rs582804		23668742	0.1564	0.4413	1	0.9323	0.00049	35
	rs10026136		23676749	0.1569	0.7334	1	0.9323	0.00028	61
	rs16874560		23683046	0.0004053	1	1	0.02486	0.0001	157
5	Best: rs2455278 (2)	Gene	36.46-36.50Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs7735940		36459688	0.249	0.05491	0.1984	0.4745	0.00012	136
	rs2455278		36495903	0.009967	1	1	1.374e-08	0.00013	125
5	Best: rs4916819 (2)	Gene	87.35-87.35Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs4916819		87349029	0.04151	0.06876	0.1773	0.2791	0.00013	123
	rs881601		87349293	0.04573	1	0.08741	0.0003724	8.2e-05	192
6	Best: rs2157082 (3)	Gene	32.87-32.88Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2157082		32868692	0.445	0.8202	0.000395	0.01301	0.00022	82
	rs2857154		32870594	0.3861	0.1807	0.8461	0.7827	8.6e-05	182
	rs2857129		32884601	0.3863	0.3179	0.9691	0.8658	0.00013	119
6	Best: rs6928585 (3)	Gene	96.00-96.08Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs6905412		96003236	0.1589	2.249e-05	0.6246	0.2837	0.00035	50
	rs6928585		96055581	0.1564	0.199	0.8352	1	0.00044	40
	rs6568636		96084834	0.3059	0.8719	1	0.3961	0.00026	68
8	Best: rs2875734 (3)	Gene	58.48-58.49Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs4552888		58478156	0.05145	0.08585	0.6878	0.09407	0.00011	143
	rs2875734		58478200	0.05227	2.862e-07	0.6802	0.001403	0.00023	74
	rs9297977		58491189	0.1097	0.0003915	0.6357	0.5987	0.00011	142
8	Best: rs2469997 (5)	Gene	120.42-120.42Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2447183		120422159	0.1846	0.5455	0.856	0.6715	0.00042	42
	rs2469996		120422192	0.1845	0.5977	0.8084	0.7706	0.00024	73
	rs2469997		120422448	0.1896	0.4297	0.9035	0.2173	0.0012	15
	rs6469823		120423165	0.1843	0.6506	0.7613	0.8114	9.1e-05	171
	rs2447179		120424956	0.1844	0.4958	0.8084	0.7303	0.00038	44
10	Best: rs12355606 (6)	Gene	18.53-18.55Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs16916965	CACNB2 NCBI Gene Pubmed Genecard	18533393	0.001114	1	1	0.05936	0.00026	65
	rs10828308	CACNB2 NCBI Gene Pubmed Genecard	18534882	0.009539	1	1	0.08979	0.0021	8
	rs11818851	CACNB2 NCBI Gene Pubmed Genecard	18535730	0.0009106	1	1	0.7475	0.00013	124
	rs11013005	CACNB2 NCBI Gene Pubmed Genecard	18536991	0.009902	1	1	0.04754	0.00022	80
	rs12355606	CACNB2 NCBI Gene Pubmed Genecard	18537827	0.006418	1	1	1.024e-12	0.0031	5
	rs10508559	CACNB2 NCBI Gene Pubmed Genecard	18545319	0.009312	1	1	0.04209	0.00011	151
10	Best: rs1505923 (5)	Gene	59.22-59.25Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs6481338		59215182	0.1432	0.8561	0.6507	0.5377	0.00048	36
	rs7920341		59232437	0.1308	0.4323	0.5696	0.6916	0.00015	110
	rs1505923		59239732	0.136	3.751e-06	0.6899	0.2536	0.00084	22
	rs16911099		59242689	0.08622	0.1377	0.3031	0.4421	0.00081	23
	rs6481363		59245929	0.3442	0.01092	0.001725	0.7453	0.00017	98
10	Best: rs11001473 (3)	Gene	77.08-77.12Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs1864486		77081630	0.0233	0.4006	0.6356	0.02451	0.00012	137
	rs7082404		77116071	0.003551	1	1	6.772e-07	0.0006	29
	rs11001473		77124024	0.007098	1	1	0.2206	0.00064	28
10	Best: rs1613776 (2)	Gene	123.23-123.24Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs1613776	FGFR2 NCBI Gene Pubmed Genecard	123234824	0.03569	0.07182	1	0.08377	0.00048	37
	rs3135806	FGFR2 NCBI Gene Pubmed Genecard	123235067	0.03049	1	0.4355	6.002e-06	0.00032	54
10	Best: rs7918047 (2)	Gene	131.97-132.00Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs7080464		131974739	0.02782	0.1704	0.4053	0.0003977	0.00028	60
	rs7918047		132001099	0.05585	0.6424	0.4041	0.1281	0.00036	45
11	Best: rs11034154 (2)	Gene	37.36-37.44Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs12224887		37356951	0.01168	0.417	1	0.0003352	0.00027	63
	rs11034154		37437630	0.0199	0.4857	1	0.4176	0.00032	53
12	Best: rs6489228 (5)	Gene	127.05-127.06Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs11059447		127049559	0.07111	0.00746	0.4773	0.5218	0.00014	118
	rs3924901		127059012	0.27	0.1575	0.3213	0.255	0.0001	161
	rs11059460		127063093	0.4677	1.47e-09	0.8826	0.00688	0.002	9
	rs10773472		127063120	0.4816	0.5266	0.7971	0.5101	0.0024	6
	rs6489228		127064925	0.481	0.7516	0.9124	0.5372	0.0033	4
13	Best: rs1218285 (2)	Gene	78.36-78.36Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs1218285		78357746	0.04217	0.07635	0.005966	0.7588	0.0003	58
	rs17771893		78364496	0.04043	0.1687	0.003915	0.01569	0.00011	147
14	Best: rs2401778 (2)	Gene	88.45-88.45Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs1885191		88449045	0.283	0.825	1	0.6646	9.6e-05	167
	rs2401778		88449846	0.2871	0.7011	0.9278	0.1922	0.00012	132
15	Best: rs1393940 (2)	Gene	98.87-98.88Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2411830	CERS3 NCBI Gene Pubmed Genecard	98868678	0.04038	0.531	0.03567	0.4341	0.00022	78
	rs1393940	CERS3 NCBI Gene Pubmed Genecard	98882089	0.03362	0.2569	0.01484	5.243e-07	0.00023	76
17	Best: rs17774763 (2)	Gene	45.48-45.49Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs17774763	LOC284080 NCBI Gene Pubmed Genecard	45483332	0.02786	0.3997	0.7311	0.8017	0.00053	32
	rs17701743	ITGA3 NCBI Gene Pubmed Genecard	45490916	0.03109	0.171	0.1751	0.07573	0.00014	115
17	Best: rs1873598 (3)	Gene	70.40-70.50Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs689992	FADS6 NCBI Gene Pubmed Genecard	70402069	0.2635	0.2561	0.8855	0.06528	0.00012	133
	rs1491766	OTOP3 NCBI Gene Pubmed Genecard	70445800	0.1495	0.8634	3.751e-05	0.1385	0.00025	70
	rs1873598	CDR2L NCBI Gene Pubmed Genecard	70504641	0.001825	1	1	6.103e-08	0.00077	25
19	Best: rs12980129 (4)	Gene	22.70-22.71Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs12980129		22700751	0.02823	1	1	8.266e-05	0.00091	17
	rs9676498		22702350	0.1106	0.817	0.4583	0.768	0.00017	100
	rs7248030		22705326	0.02462	0.4073	0.4023	0.02814	0.00018	95
	rs2194111		22714389	0.0252	0.4089	0.4045	0.04934	0.00091	18
20	Best: rs2207323 (2)	Gene	0.89-0.89Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2223961	RSPO4 NCBI Gene Pubmed Genecard	894462	0.1412	1.44e-05	0.06852	0.01084	8.7e-05	179
	rs2207323	RSPO4 NCBI Gene Pubmed Genecard	894498	0.1303	5.353e-05	0.001296	0.4247	0.00016	106
21	Best: rs999789 (7)	Gene	39.35-39.37Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs2836860		39345834	0.3766	0.1205	0.7266	0.2028	0.0011	16
	rs4279007		39346824	0.3764	0.1203	0.7269	0.1375	0.00053	33
	rs2836865		39348199	0.3762	0.5969	0.31	0.9662	8.7e-05	178
	rs999789		39348321	0.05831	0.03005	0.3499	0.0007959	0.0015	12
	rs428424		39367189	0.4175	0.2261	0.1325	0.4282	0.0013	13
	rs8133531		39367423	0.3953	0.7779	0.166	0.4003	0.00026	67
	rs2836870		39368554	0.4014	0.815	0.1794	0.2656	0.00014	114
22	Best: rs10212068 (8)	Gene	35.92-35.97Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs229541		35915818	0.4334	0.05966	0.07917	0.8195	0.00036	48
	rs16997923		35923326	0.001732	1	1	0.3231	0.00021	83
	rs69264	SSTR3 NCBI Gene Pubmed Genecard	35928450	0.1992	1	0.4553	0.9795	0.00031	56
	rs4821602	SSTR3 NCBI Gene Pubmed Genecard	35933689	0.4905	0.03361	0.7692	0.2755	0.00084	21
	rs13053175		35937809	0.4463	0.1216	0.71	0.1787	0.0002	87
	rs1476002	RAC2 NCBI Gene Pubmed Genecard	35955288	0.1189	0.05389	2.9e-05	0.7266	0.00022	77
	rs6000632		35968615	0.2596	0.7651	0.5672	0.7584	0.00026	66
	rs10212068		35969121	0.0281	1	0.002635	3.388e-58	0.033	1
23	Best: rs1350838 (2)	Gene	20.34-20.36Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs1350838		20341912	0.09926	0.2024	0.1655	0.2156	0.00012	138
	rs1523824		20363482	0.0997	0.3255	0.03131	0.09462	8e-05	197
23	Best: rs3928369 (6)	Gene	32.36-32.39Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs3928369	DMD NCBI Gene Pubmed Genecard	32356769	0.2407	0.006535	0.1835	0.002286	0.0002	86
	rs5928022	DMD NCBI Gene Pubmed Genecard	32356784	0.2444	0.195	0.1475	0.002196	0.00016	103
	rs808547	DMD NCBI Gene Pubmed Genecard	32371695	0.1904	0.768	0.109	0.0002563	9.1e-05	173
	rs808540	DMD NCBI Gene Pubmed Genecard	32374111	0.2087	0.282	0.3601	0.001567	0.00012	134
	rs808539	DMD NCBI Gene Pubmed Genecard	32374143	0.2061	0.1732	0.4901	0.002375	0.00011	155
	rs12559294	DMD NCBI Gene Pubmed Genecard	32393183	0.04039	0.7297	0.198	0.4802	8.4e-05	187
23	Best: rs975687 (6)	Gene	110.26-110.32Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs16986436	PAK3 NCBI Gene Pubmed Genecard	110264303	0.04137	1	1	0.06306	0.00019	89
	rs10521535	PAK3 NCBI Gene Pubmed Genecard	110265972	0.03229	1	0.691	0.008747	0.00019	91
	rs16986439	PAK3 NCBI Gene Pubmed Genecard	110266100	0.004169	1	1	0.8581	0.00011	144
	rs16986464	CAPN6 NCBI Gene Pubmed Genecard	110310427	0.02733	1	1	0.006854	0.00054	31
	rs975687	CAPN6 NCBI Gene Pubmed Genecard	110318150	0.03025	1	1	0.0002427	0.0023	7
	rs7882753	CAPN6 NCBI Gene Pubmed Genecard	110321826	0.1551	1	0.5563	0.1497	0.00025	69
23	Best: rs12689820 (3)	Gene	134.83-134.86Mb	MAF	HWE(case)	HWE(cont)	p-value	imp.	rank
	rs6654309	SLC9A6 NCBI Gene Pubmed Genecard	134830202	0.03362	0.6311	0.2623	0.02423	0.00011	153
	rs12689820	SLC9A6 NCBI Gene Pubmed Genecard	134832528	0.03083	0.6252	0.2592	0.0153	0.00021	84
	rs2361565		134862750	0.03208	1	0.1668	0.7926	8.6e-05	180