Variant report

Variant	rs2071098
Chromosome Location	chr4:74352916-74352917
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10002756	0.84[JPT][hapmap]
rs10028196	0.81[ASN][1000 genomes]
rs10212657	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10213305	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10518115	1.00[ASW][hapmap]
rs10518116	0.84[CEU][hapmap]
rs10805065	0.83[ASN][1000 genomes]
rs10938075	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10938077	0.83[ASN][1000 genomes]
rs10938078	0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs10938079	0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1158101	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1159624	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11733262	0.81[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11935001	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11939341	0.86[ASN][1000 genomes]
rs12504448	0.83[ASN][1000 genomes]
rs12510629	0.83[ASN][1000 genomes]
rs12510870	0.89[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13103378	0.83[ASN][1000 genomes]
rs13107306	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13120998	0.83[ASN][1000 genomes]
rs13124940	0.81[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs13150405	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1358592	1.00[ASW][hapmap];0.86[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1590115	0.81[ASN][1000 genomes]
rs1590116	0.81[ASN][1000 genomes]
rs16849364	1.00[ASW][hapmap]
rs16849461	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16849484	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16849508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1894293	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1919479	0.82[ASN][1000 genomes]
rs1997332	0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1997333	0.83[ASN][1000 genomes]
rs2040354	0.81[ASN][1000 genomes]
rs2071097	0.83[ASN][1000 genomes]
rs2141465	0.83[ASN][1000 genomes]
rs2178290	0.83[ASN][1000 genomes]
rs2178292	0.81[ASN][1000 genomes]
rs2204736	0.81[ASN][1000 genomes]
rs34400902	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34468776	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35233345	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35858007	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35988516	0.83[ASN][1000 genomes]
rs3765639	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4235119	0.85[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4267703	0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4267704	0.83[ASN][1000 genomes]
rs4267705	0.83[ASN][1000 genomes]
rs4438732	0.81[ASN][1000 genomes]
rs4618279	0.81[ASN][1000 genomes]
rs4694170	1.00[ASW][hapmap]
rs4694173	0.81[ASN][1000 genomes]
rs56011127	0.81[ASN][1000 genomes]
rs56384466	0.81[ASN][1000 genomes]
rs6446937	0.81[CEU][hapmap];0.86[CHB][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6446938	0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6446939	0.84[ASN][1000 genomes]
rs6446941	0.80[ASN][1000 genomes]
rs6852149	0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs6852772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72647083	0.81[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	esv3430875	chr4:74243646-74420354	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2071098	ANKRD17	cis	cerebellum	SCAN
rs2071098	IL8	cis	parietal	SCAN
rs2071098	CXCL2	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74351000-74357200	Genic enhancers	Liver	Liver
2	chr4:74352000-74353000	Enhancers	Fetal Intestine Small	intestine
3	chr4:74352200-74353000	Enhancers	Stomach Mucosa	stomach
4	chr4:74352200-74354000	Enhancers	Fetal Intestine Large	intestine
5	chr4:74352600-74353400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:74352600-74353800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr4:74352800-74353200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr4:74352800-74353600	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr4:74352800-74354600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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