Variant report

Variant	rs4128725
Chromosome Location	chr1:159405959-159405960
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:159405703-159406409	K562	blood:	n/a	n/a

Variant related genes	Relation type
OR10J1	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10908724	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11265174	0.93[ASN][1000 genomes]
rs11265186	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11265187	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11265193	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11265206	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12041803	0.93[ASN][1000 genomes]
rs12045356	0.95[ASN][1000 genomes]
rs12118628	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12131860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12142583	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12143656	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12145616	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12410729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1584250	1.00[TSI][hapmap]
rs2427824	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs2427825	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs2427828	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs2494260	1.00[YRI][hapmap]
rs2494261	1.00[YRI][hapmap]
rs2494263	1.00[YRI][hapmap]
rs2494265	1.00[YRI][hapmap]
rs2511212	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs4269772	0.94[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs4326616	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4656237	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4656821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4656826	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9782926	0.94[ASN][1000 genomes]

Variant related diseases (count:1)

Disease	PMID	Source
Select biomarker traits	17903293	GWAS catalog

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4128725	DENND4B	cis	cerebellum	SCAN
rs4128725	KCNJ9	cis	parietal	SCAN
rs4128725	BGLAP	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159404600-159407800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr1:159405800-159406800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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