Variant report

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

rs_ID	r²[population]
rs10018906	0.80[CEU][hapmap]
rs10805150	0.80[CEU][hapmap]
rs10938458	0.81[YRI][hapmap]
rs1124442	0.80[CEU][hapmap]
rs11735590	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11934342	0.88[YRI][hapmap]
rs11947685	0.83[MEX][hapmap]
rs12503660	0.84[CEU][hapmap]
rs12503816	0.80[CEU][hapmap]
rs12504855	0.80[CEU][hapmap];0.92[MEX][hapmap]
rs12505727	0.82[CHB][hapmap]
rs12509566	0.85[YRI][hapmap]
rs12512515	0.81[LWK][hapmap];0.83[MEX][hapmap];0.88[YRI][hapmap]
rs1588605	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2036943	0.93[ASW][hapmap];0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap]
rs2203139	0.80[CEU][hapmap];0.96[MEX][hapmap]
rs2350889	0.80[CEU][hapmap];0.92[MEX][hapmap]
rs28396265	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6813531	0.87[CEU][hapmap]
rs6835325	0.81[CEU][hapmap]
rs6847738	0.90[LWK][hapmap];1.00[MKK][hapmap];0.88[YRI][hapmap]
rs7435882	0.83[CEU][hapmap]
rs925479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878999	chr4:46565663-46860626	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv461356	chr4:46635167-46846042	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv594117	chr4:46635167-46846042	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv879000	chr4:46635167-46890046	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv879001	chr4:46823634-46893766	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1473092	KCTD8	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:46839000-46841600	Enhancers	HepG2	liver
2	chr4:46840000-46843000	Enhancers	Brain Substantia Nigra	brain
3	chr4:46840400-46841600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr4:46840400-46842200	Enhancers	Brain Angular Gyrus	brain
5	chr4:46840400-46842600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr4:46840600-46841200	Enhancers	Brain Hippocampus Middle	brain
7	chr4:46840600-46841800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:46840600-46842200	Enhancers	Brain Cingulate Gyrus	brain
9	chr4:46840600-46842200	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr4:46840800-46841200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr4:46840800-46841400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:46840800-46841400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:46840800-46841600	Enhancers	HUES48 Cell Line	embryonic stem cell

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