Variant report

Variant	rs8180405
Chromosome Location	chr5:107303749-107303750
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10477882	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs176385	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs188275	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2116823	0.83[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2416521	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs288180	0.82[TSI][hapmap]
rs288183	0.96[TSI][hapmap]
rs288187	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs288188	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs288190	0.91[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs288191	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs288193	0.91[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2916577	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3925679	0.83[CEU][hapmap]
rs56201157	0.85[ASN][1000 genomes]
rs6596762	0.85[CHB][hapmap]
rs6867577	0.90[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs6882731	0.80[CHB][hapmap];0.97[CHD][hapmap];0.85[MEX][hapmap]
rs6886275	0.83[CEU][hapmap];0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6886766	0.80[CHB][hapmap];0.97[CHD][hapmap];0.85[MEX][hapmap]
rs6896080	0.85[CHB][hapmap]
rs7444532	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7707026	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7716454	0.92[CHD][hapmap]
rs7719708	0.80[CHB][hapmap]
rs7720904	0.80[CHB][hapmap]
rs7721143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs867912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9328026	0.85[CHB][hapmap]
rs967489	0.85[CHB][hapmap]

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	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8180405	FER	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107287400-107304600	Weak transcription	Aorta	Aorta
2	chr5:107287400-107308600	Weak transcription	Left Ventricle	heart
3	chr5:107295800-107305400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr5:107296200-107321000	Weak transcription	Primary T cells from cord blood	blood
5	chr5:107301000-107305200	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr5:107302200-107310400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:107302400-107308400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:107302400-107309400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr5:107302400-107313800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:107302400-107334600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:107302600-107304000	Weak transcription	HUVEC	blood vessel
12	chr5:107303000-107305800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr5:107303200-107309200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr5:107303400-107304200	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr5:107303600-107304600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr5:107303600-107306000	Enhancers	NHDF-Ad	bronchial
17	chr5:107303600-107306400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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