Variant report

Variant	rs1972689
Chromosome Location	chr15:52124939-52124940
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52120607..52125174-chr15:52151783..52155506,6	MCF-7	breast:
2	chr15:52124634..52127289-chr15:52149355..52151056,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259632	Chromatin interaction
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 232 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:231)

rs_ID	r²[population]
rs1001690	0.86[CHB][hapmap]
rs1025184	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1035737	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs1035739	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10444798	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10444823	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10775145	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070864	0.83[EUR][1000 genomes]
rs11070865	0.86[GIH][hapmap];0.84[TSI][hapmap]
rs11070868	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs1133882	0.96[CEU][hapmap];0.81[CHB][hapmap]
rs11630084	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11630943	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs11632106	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11636345	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11637876	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs11638161	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11638766	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11638820	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12438686	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12902346	0.80[AMR][1000 genomes]
rs12903707	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12905283	0.91[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12908327	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs12917133	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1350174	0.96[CEU][hapmap];0.82[CHB][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs1466276	0.92[CEU][hapmap];0.82[CHB][hapmap]
rs1545602	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17526463	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs17526760	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs17611193	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs17612123	0.81[AMR][1000 genomes]
rs17705732	0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1811326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1840708	0.91[GIH][hapmap];0.87[TSI][hapmap]
rs1867984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1895863	0.94[ASN][1000 genomes]
rs1902430	0.96[CEU][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs2006772	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2006773	0.81[CHB][hapmap];0.92[YRI][hapmap];0.86[AMR][1000 genomes]
rs2007355	0.93[GIH][hapmap];0.89[TSI][hapmap]
rs2009972	0.91[CHB][hapmap];0.86[CHD][hapmap];0.82[TSI][hapmap];0.83[ASN][1000 genomes]
rs2011995	0.89[YRI][hapmap]
rs2014638	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.82[LWK][hapmap];0.92[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2034856	0.93[GIH][hapmap];0.89[TSI][hapmap]
rs2034857	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.98[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2034858	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2052705	0.81[CHB][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes]
rs2052706	0.88[YRI][hapmap];0.86[AMR][1000 genomes]
rs2052709	0.95[CHB][hapmap];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2077743	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs2114191	0.86[GIH][hapmap];0.89[TSI][hapmap]
rs2241503	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2252606	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2252831	0.81[CHB][hapmap];0.93[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.87[AMR][1000 genomes]
rs2253116	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2264339	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2303443	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.98[TSI][hapmap];0.94[EUR][1000 genomes]
rs2414116	0.89[GIH][hapmap]
rs2414117	0.84[EUR][1000 genomes]
rs2414119	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2414122	0.83[GIH][hapmap]
rs2433217	0.88[GIH][hapmap];0.87[TSI][hapmap]
rs2433221	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2433222	0.81[AMR][1000 genomes]
rs2436657	0.82[AMR][1000 genomes]
rs2436658	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2436660	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2436661	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2436662	0.87[AMR][1000 genomes]
rs2441780	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2448946	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2470602	0.87[ASN][1000 genomes]
rs2470603	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2470604	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2470605	0.85[ASN][1000 genomes]
rs2470607	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2470612	0.87[TSI][hapmap]
rs2470616	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2470617	0.85[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.84[TSI][hapmap]
rs2470619	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2554305	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554306	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554308	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554315	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs2554322	0.82[AMR][1000 genomes]
rs2554327	0.82[CHB][hapmap];0.93[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes]
rs2554328	0.85[AMR][1000 genomes]
rs2554332	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2554334	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2554336	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2554342	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2554345	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2554348	0.96[YRI][hapmap]
rs2554349	0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554350	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554353	0.88[AMR][1000 genomes]
rs2554354	0.84[CEU][hapmap]
rs2554355	0.82[CEU][hapmap]
rs2570224	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2570228	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2570231	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2570233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570235	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2570236	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2570237	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2570238	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2570239	0.82[CHB][hapmap];0.93[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2570240	0.88[AMR][1000 genomes]
rs2570241	0.93[GIH][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.92[YRI][hapmap];0.88[AMR][1000 genomes]
rs2570243	0.85[CEU][hapmap]
rs2570248	0.87[AMR][1000 genomes]
rs2570251	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2570252	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2570253	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2570258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2570260	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2570263	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2570268	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2570269	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2570271	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2570275	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2593167	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2593169	0.85[CEU][hapmap]
rs2593170	0.82[CHB][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap]
rs2593173	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2593179	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2593182	0.86[AMR][1000 genomes]
rs2593183	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2593185	0.95[CHB][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2593187	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2593188	0.82[CHB][hapmap];0.88[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap]
rs2593191	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2593194	0.81[AMR][1000 genomes]
rs2593198	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2593199	0.84[YRI][hapmap]
rs2593202	1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2593204	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2623245	0.82[CEU][hapmap]
rs2623247	0.85[CEU][hapmap]
rs2623251	0.85[CEU][hapmap]
rs2623254	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2623255	0.82[CHB][hapmap];0.88[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.80[AMR][1000 genomes]
rs2623259	1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2623262	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2623263	0.85[CEU][hapmap]
rs2623266	0.86[AMR][1000 genomes]
rs2623270	0.82[CEU][hapmap]
rs2623271	0.82[CHB][hapmap];0.93[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes]
rs2623279	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2623281	1.00[CHB][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2623282	0.82[CHB][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes]
rs2623283	1.00[CHB][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2623284	0.82[AMR][1000 genomes]
rs2623285	0.82[AMR][1000 genomes]
rs2623286	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2623288	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2623289	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2912189	0.91[GIH][hapmap];0.87[TSI][hapmap]
rs2916172	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2916176	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2916177	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2929425	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2929426	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2959285	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2959293	0.86[GIH][hapmap];0.89[TSI][hapmap]
rs2959298	0.86[GIH][hapmap];0.89[TSI][hapmap]
rs2959299	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs2959302	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3110553	0.81[AMR][1000 genomes]
rs3751596	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3794530	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3794534	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3794535	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3794536	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4238383	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4502160	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4534783	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4622456	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4774602	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4775978	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4775982	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4775983	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55843525	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55887408	0.92[EUR][1000 genomes]
rs58758283	0.99[ASN][1000 genomes]
rs60329909	0.99[ASN][1000 genomes]
rs6493518	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493519	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6493520	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs6493522	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6493523	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6493525	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs6493526	0.88[GIH][hapmap];0.89[TSI][hapmap]
rs67895020	0.94[EUR][1000 genomes]
rs689884	0.92[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs689922	0.89[ASN][1000 genomes]
rs690287	0.90[ASN][1000 genomes]
rs690638	0.91[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs7162554	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7163176	0.84[EUR][1000 genomes]
rs7165283	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7165585	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs7166110	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7168659	0.86[CHB][hapmap]
rs7170091	0.82[CHB][hapmap]
rs7171459	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7173375	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174497	0.91[GIH][hapmap];0.87[TSI][hapmap]
rs7174808	0.91[GIH][hapmap];0.87[TSI][hapmap]
rs7174941	0.94[EUR][1000 genomes]
rs7176421	0.94[ASN][1000 genomes]
rs7178561	0.82[CHB][hapmap]
rs7181553	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7182917	0.92[EUR][1000 genomes]
rs72732952	0.93[ASN][1000 genomes]
rs8024081	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8024088	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8024589	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8026521	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs8028258	1.00[CEU][hapmap];0.88[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs8028890	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8028922	0.91[GIH][hapmap];0.89[TSI][hapmap]
rs8029036	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs8035173	0.83[GIH][hapmap]
rs8040991	0.85[AMR][1000 genomes]
rs8041268	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs919059	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9635308	0.91[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs990665	0.94[AMR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1972689	TMOD2	cis	cerebellum	SCAN
rs1972689	SCG3	cis	cerebellum	SCAN
rs1972689	TMOD2	cis	parietal	SCAN
rs1972689	SCG3	cis	Frontal Cortex	GTEx
rs1972689	SCG3	cis	Cerebellum	GTEx
rs1972689	SCG3	cis	Temporal Cortex	GTEx
rs1972689	TRPM7	cis	parietal	SCAN

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52122400-52126800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr15:52122800-52126600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:52122800-52126800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:52122800-52129800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr15:52123000-52125200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr15:52123000-52125200	Enhancers	Small Intestine	intestine
7	chr15:52123000-52129800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:52123000-52129800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:52123000-52130000	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr15:52123000-52134000	Weak transcription	Pancreas	Pancrea
11	chr15:52123200-52125200	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr15:52123200-52125200	Enhancers	Primary B cells from peripheral blood	blood
13	chr15:52123200-52127000	Weak transcription	Brain Germinal Matrix	brain
14	chr15:52123200-52128200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:52123200-52129600	Weak transcription	Brain Angular Gyrus	brain
16	chr15:52123200-52129600	Weak transcription	Brain Substantia Nigra	brain
17	chr15:52123200-52129800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr15:52123200-52129800	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr15:52123200-52129800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:52123200-52129800	Weak transcription	Brain Cingulate Gyrus	brain
21	chr15:52123200-52129800	Weak transcription	Right Ventricle	heart
22	chr15:52123400-52125200	Enhancers	Ovary	ovary
23	chr15:52123400-52125800	Enhancers	Colon Smooth Muscle	Colon
24	chr15:52123400-52126400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr15:52123400-52127000	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr15:52123400-52129000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:52123400-52129200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr15:52123400-52129600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:52123400-52129600	Weak transcription	Fetal Muscle Leg	muscle
30	chr15:52123400-52133600	Weak transcription	Colonic Mucosa	Colon
31	chr15:52123600-52125000	Transcr. at gene 5' and 3'	NHEK	skin
32	chr15:52123600-52127000	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:52123600-52128200	Enhancers	HepG2	liver
34	chr15:52123600-52128400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr15:52123600-52129600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:52123600-52140000	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr15:52123800-52125000	Active TSS	GM12878-XiMat	blood
38	chr15:52123800-52125200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr15:52123800-52125200	Enhancers	Adipose Nuclei	Adipose
40	chr15:52123800-52126000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr15:52123800-52126800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr15:52123800-52127000	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr15:52123800-52127000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr15:52123800-52127000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr15:52123800-52127200	Enhancers	Primary T helper naive cells from peripheral blood	blood
46	chr15:52123800-52127600	Weak transcription	Osteobl	bone
47	chr15:52123800-52129400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr15:52123800-52129600	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr15:52123800-52129800	Weak transcription	Stomach Smooth Muscle	stomach
50	chr15:52123800-52130000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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