Variant report

Variant	rs2161934
Chromosome Location	chr15:57040227-57040228
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57038395..57040361-chr15:57049426..57051956,2	K562	blood:
2	chr15:57039206..57041236-chr15:57044908..57046817,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1010700	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10518870	0.84[CEU][hapmap]
rs11071293	0.97[ASN][1000 genomes]
rs11630168	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap]
rs11632471	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11638497	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11638580	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11638707	0.96[CEU][hapmap];0.91[CHB][hapmap];0.81[TSI][hapmap]
rs11856558	0.91[CEU][hapmap];0.90[CHB][hapmap]
rs11857706	0.89[CEU][hapmap];0.91[CHB][hapmap]
rs12438709	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12442018	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12442189	0.96[CEU][hapmap];0.86[CHB][hapmap];0.81[TSI][hapmap]
rs12591502	0.95[CEU][hapmap]
rs12592389	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[GIH][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap]
rs12593286	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12595822	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12898521	0.96[CEU][hapmap];0.91[CHB][hapmap];0.86[EUR][1000 genomes]
rs12900045	0.95[ASN][1000 genomes]
rs12900244	0.96[CEU][hapmap];0.86[CHB][hapmap];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12900441	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12903283	0.88[CEU][hapmap];0.91[CHB][hapmap];0.82[CHD][hapmap];0.80[TSI][hapmap]
rs12903336	0.89[CEU][hapmap];0.81[CHB][hapmap]
rs12903862	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[TSI][hapmap]
rs12905514	0.96[CEU][hapmap];0.91[CHB][hapmap];0.82[TSI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12906591	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12908806	0.97[ASN][1000 genomes]
rs12910403	0.95[ASN][1000 genomes]
rs12910459	0.85[CEU][hapmap]
rs12911381	0.96[CEU][hapmap];0.86[CHB][hapmap];0.80[TSI][hapmap]
rs12912666	0.92[CEU][hapmap]
rs12913361	0.96[CEU][hapmap];0.86[CHB][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12913871	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12913960	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12915816	0.96[ASN][1000 genomes]
rs1424694	0.96[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1477475	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16977020	0.82[CHB][hapmap]
rs17238845	0.89[CEU][hapmap];0.91[CHB][hapmap]
rs1812395	0.97[ASN][1000 genomes]
rs1895640	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1979467	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs1994081	1.00[CEU][hapmap];0.80[CHB][hapmap]
rs2052640	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2170459	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs2170463	0.84[CEU][hapmap];0.80[CHB][hapmap];0.80[TSI][hapmap]
rs2279298	0.96[CEU][hapmap];0.81[CHB][hapmap]
rs2279299	1.00[CEU][hapmap];0.86[CHB][hapmap];0.80[GIH][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28575268	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28620278	0.96[CEU][hapmap];0.91[CHB][hapmap];0.82[TSI][hapmap]
rs3803457	0.89[CEU][hapmap];0.85[CHB][hapmap];0.81[TSI][hapmap]
rs3816752	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs3929265	0.92[CEU][hapmap];0.86[CHB][hapmap]
rs4601984	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774244	0.96[CEU][hapmap];0.91[CHB][hapmap];0.82[TSI][hapmap]
rs4774886	0.96[CEU][hapmap];0.85[CHB][hapmap]
rs521904	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs538382	0.96[CEU][hapmap];0.86[CHB][hapmap];0.81[EUR][1000 genomes]
rs553421	0.96[CEU][hapmap];0.90[CHB][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs559736	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57387969	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62022931	0.86[EUR][1000 genomes]
rs62022933	0.85[EUR][1000 genomes]
rs62022934	0.87[EUR][1000 genomes]
rs62022954	0.95[ASN][1000 genomes]
rs6493885	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7162317	0.96[CEU][hapmap];0.86[CHB][hapmap];0.86[EUR][1000 genomes]
rs7165831	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7168178	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7169454	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs795032	0.81[EUR][1000 genomes]
rs8025391	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8043223	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[GIH][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2161934	MNS1	cis	lymphoblastoid	seeQTL
rs2161934	TCF12	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57038800-57040800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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