Variant report

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr3:155755064-155755408	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
KCNAB1	TF binding region

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

rs_ID	r²[population]
rs12330366	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12330401	0.88[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13062621	0.89[ASN][1000 genomes]
rs2013676	0.84[CEU][hapmap]
rs28670754	0.82[AMR][1000 genomes]
rs34908778	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs34921805	0.89[ASN][1000 genomes]
rs35639351	0.89[ASN][1000 genomes]
rs35917295	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs56000398	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs56811290	0.91[ASN][1000 genomes]
rs56836738	0.97[ASN][1000 genomes]
rs58487502	0.82[AMR][1000 genomes]
rs60469462	0.86[ASN][1000 genomes]
rs60683789	0.98[ASN][1000 genomes]
rs61623796	0.91[ASN][1000 genomes]
rs62284909	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62284913	0.95[ASN][1000 genomes]
rs62284916	0.92[ASN][1000 genomes]
rs62284918	0.91[ASN][1000 genomes]
rs62284919	0.91[ASN][1000 genomes]
rs62284920	0.91[ASN][1000 genomes]
rs6781558	0.86[TSI][hapmap]
rs7644218	0.82[AMR][1000 genomes]
rs9822881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9836680	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9837458	0.82[AMR][1000 genomes]
rs9850516	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs9866512	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv592084	chr3:155751484-155830578	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv521239	chr3:155755327-155762725	Weak transcription Enhancers Active TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9848466	SLC33A1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155754200-155758200	Enhancers	Brain Hippocampus Middle	brain
2	chr3:155754400-155755400	Enhancers	Brain Cingulate Gyrus	brain
3	chr3:155754400-155755600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:155754400-155755600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:155754400-155755600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:155754600-155755600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:155754800-155758000	Weak transcription	Brain Angular Gyrus	brain
8	chr3:155754800-155758000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:155755000-155755600	Active TSS	Brain Anterior Caudate	brain
10	chr3:155755200-155756800	Weak transcription	Brain Substantia Nigra	brain

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