Variant report

Variant	rs4877756
Chromosome Location	chr9:85966597-85966598
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10125561	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10867997	0.97[ASN][1000 genomes]
rs11140060	0.87[EUR][1000 genomes]
rs2375922	0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs28585601	0.87[EUR][1000 genomes]
rs3849865	0.87[EUR][1000 genomes]
rs3860901	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.88[TSI][hapmap];0.99[ASN][1000 genomes]
rs3860902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3860905	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs3860906	0.87[EUR][1000 genomes]
rs3860907	0.86[EUR][1000 genomes]
rs3860909	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs3860912	0.84[CEU][hapmap];0.88[GIH][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs3860914	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs3904187	0.82[CHD][hapmap]
rs3904189	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4085854	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4297106	0.90[CEU][hapmap];0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4478644	0.88[GIH][hapmap];0.84[TSI][hapmap]
rs4877757	0.85[CEU][hapmap];0.81[CHD][hapmap];0.88[GIH][hapmap];0.83[MEX][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs7019165	0.84[EUR][1000 genomes]
rs7037795	0.87[EUR][1000 genomes]
rs7037928	0.87[EUR][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	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4877756	GKAP1	cis	cerebellum	SCAN
rs4877756	C9orf64	cis	parietal	SCAN
rs4877756	TLE1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85937400-85998000	Weak transcription	Aorta	Aorta
2	chr9:85942600-85970200	Weak transcription	Psoas Muscle	Psoas
3	chr9:85950200-85976000	Weak transcription	HepG2	liver
4	chr9:85956200-85986600	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr9:85958200-85980600	Weak transcription	Left Ventricle	heart
6	chr9:85958200-86007600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:85965000-85969800	Weak transcription	Fetal Brain Male	brain
8	chr9:85965000-85969800	Weak transcription	Fetal Muscle Leg	muscle
9	chr9:85965000-85970000	Weak transcription	Ovary	ovary
10	chr9:85965000-85970200	Weak transcription	Fetal Brain Female	brain

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