Variant report

Variant	rs11163887
Chromosome Location	chr1:84474718-84474719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 125 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10127737	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10465746	0.92[ASN][1000 genomes]
rs10493741	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10493744	0.94[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10874423	0.90[ASN][1000 genomes]
rs10874424	0.87[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[ASN][1000 genomes]
rs11163861	0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11163862	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.83[ASN][1000 genomes]
rs11163865	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11163866	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11163867	1.00[CHB][hapmap];0.94[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.86[YRI][hapmap];0.91[ASN][1000 genomes]
rs11163868	0.94[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs11163872	0.84[ASN][1000 genomes]
rs11163874	0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11163875	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11163876	0.93[ASN][1000 genomes]
rs11163877	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11163878	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11163879	0.96[ASN][1000 genomes]
rs11163884	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163885	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11807807	0.93[ASN][1000 genomes]
rs12070578	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12118434	0.94[CHB][hapmap];0.94[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs12119275	0.92[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.90[GIH][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs12121175	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12127266	0.87[ASN][1000 genomes]
rs12133778	0.87[ASN][1000 genomes]
rs12135028	0.81[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12139191	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.82[YRI][hapmap];0.93[ASN][1000 genomes]
rs12140068	0.92[ASN][1000 genomes]
rs12141272	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12145258	0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[ASN][1000 genomes]
rs12145516	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12146038	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12184292	0.83[ASN][1000 genomes]
rs12401314	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12402130	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12403631	0.82[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12406984	0.91[ASN][1000 genomes]
rs12407641	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12410398	0.96[ASN][1000 genomes]
rs12410617	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12723239	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12730621	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[ASN][1000 genomes]
rs12732697	0.82[ASN][1000 genomes]
rs12738214	0.83[ASN][1000 genomes]
rs12748268	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12749350	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[ASN][1000 genomes]
rs12757632	0.83[GIH][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs12758441	0.82[ASN][1000 genomes]
rs12759527	0.94[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs1324484	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1324486	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.91[ASN][1000 genomes]
rs1359331	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1475263	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs1536165	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1536166	0.82[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1570690	0.90[ASN][1000 genomes]
rs1570691	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.88[ASN][1000 genomes]
rs1602999	0.88[EUR][1000 genomes]
rs17099118	0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17475760	0.94[ASN][1000 genomes]
rs17534614	0.90[ASN][1000 genomes]
rs1871924	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1871925	0.96[ASN][1000 genomes]
rs1886769	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1886770	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1925710	0.94[ASN][1000 genomes]
rs1952065	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.90[YRI][hapmap];0.96[ASN][1000 genomes]
rs1952066	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[ASN][1000 genomes]
rs2024591	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap]
rs2147392	0.90[ASN][1000 genomes]
rs2147950	0.93[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2224990	0.97[ASN][1000 genomes]
rs2389616	0.96[ASN][1000 genomes]
rs2389617	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2389647	0.90[ASN][1000 genomes]
rs2389648	0.91[ASN][1000 genomes]
rs2389649	0.90[ASN][1000 genomes]
rs2477201	0.85[JPT][hapmap]
rs28445286	0.96[ASN][1000 genomes]
rs28567085	0.97[ASN][1000 genomes]
rs28726372	0.80[ASN][1000 genomes]
rs34155960	0.95[ASN][1000 genomes]
rs34274953	0.86[ASN][1000 genomes]
rs34636124	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs35485748	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35946036	0.97[ASN][1000 genomes]
rs35969331	0.97[ASN][1000 genomes]
rs4258241	0.94[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4907186	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4907188	0.84[ASN][1000 genomes]
rs4907189	0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs4907190	0.95[ASN][1000 genomes]
rs4907191	0.94[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs558567	0.85[JPT][hapmap]
rs575633	0.85[JPT][hapmap]
rs598531	0.85[JPT][hapmap]
rs639666	0.85[JPT][hapmap]
rs663136	0.85[JPT][hapmap]
rs6658559	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6667468	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6670658	0.97[ASN][1000 genomes]
rs6685344	0.85[ASN][1000 genomes]
rs6687372	0.97[ASN][1000 genomes]
rs6692233	0.82[CHB][hapmap];0.94[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs6694752	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6699501	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[ASN][1000 genomes]
rs670284	0.85[JPT][hapmap]
rs6703382	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6703493	0.81[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs685472	0.85[JPT][hapmap]
rs686839	0.85[JPT][hapmap]
rs7531537	0.96[ASN][1000 genomes]
rs7550413	0.80[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs7551787	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs882897	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.98[ASN][1000 genomes]
rs936661	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs942848	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs942849	0.97[ASN][1000 genomes]
rs9660265	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs980417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs980418	0.88[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11163887	LPHN2	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84473800-84475200	Enhancers	NHEK	skin
2	chr1:84473800-84475400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr1:84474000-84484000	Weak transcription	Esophagus	oesophagus
4	chr1:84474400-84474800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:84474400-84475000	Enhancers	HMEC	breast
6	chr1:84474400-84475400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:84474600-84475000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:84474600-84475000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr1:84474600-84475000	Enhancers	K562	blood
10	chr1:84474600-84477600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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