Variant report

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11708862	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11720835	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11916409	0.95[ASN][1000 genomes]
rs11924123	0.95[ASN][1000 genomes]
rs12629410	1.00[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs12634753	0.94[ASN][1000 genomes]
rs1394596	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1394597	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1502620	0.90[ASN][1000 genomes]
rs28606076	0.94[ASN][1000 genomes]
rs4679582	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4679583	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55914841	0.95[ASN][1000 genomes]
rs56218373	0.95[ASN][1000 genomes]
rs56227728	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62250695	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7340589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7340623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7340628	0.95[ASN][1000 genomes]
rs9852282	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9866013	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9883594	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011181	chr3:58665373-59542339	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv536574	chr3:58665373-59542339	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv534257	chr3:58855959-59606464	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv998676	chr3:59485915-59519363	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11716806	FAM107A	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59491200-59491600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr3:59491200-59492800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:59491400-59492600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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