Variant report

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

rs_ID	r²[population]
rs10493578	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10493580	0.87[CEU][hapmap];0.91[EUR][1000 genomes]
rs11162070	0.92[EUR][1000 genomes]
rs11162073	0.90[EUR][1000 genomes]
rs11805321	0.88[EUR][1000 genomes]
rs12023970	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12035171	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12038667	0.86[EUR][1000 genomes]
rs12039427	0.88[EUR][1000 genomes]
rs12040748	0.88[EUR][1000 genomes]
rs12045798	0.87[CEU][hapmap];0.84[GIH][hapmap];0.81[TSI][hapmap]
rs2289240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4146895	0.85[EUR][1000 genomes]
rs4146896	0.85[EUR][1000 genomes]
rs4949690	0.88[EUR][1000 genomes]
rs58483436	0.82[EUR][1000 genomes]
rs6703146	0.87[CEU][hapmap];0.91[EUR][1000 genomes]
rs6704184	0.86[EUR][1000 genomes]
rs7517793	0.88[EUR][1000 genomes]
rs7517974	0.88[EUR][1000 genomes]
rs7529565	0.91[EUR][1000 genomes]
rs7556623	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][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	nsv998499	chr1:76361784-76598712	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs2289241	MSH4	cis	cerebellum	SCAN
rs2289241	ACADM	cis	cerebellum	SCAN
rs2289241	LRRIQ3	cis	cerebellum	SCAN
rs2289241	MSH4	cis	parietal	SCAN
rs2289241	RABGGTB	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76484600-76489400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:76484800-76487400	Weak transcription	Fetal Lung	lung
3	chr1:76484800-76489600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:76485000-76488400	Weak transcription	Placenta Amnion	Placenta Amnion

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