Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95563386..95565101-chr9:95567156..95569894,2	MCF-7	breast:

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

rs_ID	r²[population]
rs10821017	0.88[EUR][1000 genomes]
rs10992394	0.82[EUR][1000 genomes]
rs10992404	0.83[EUR][1000 genomes]
rs10992406	0.83[EUR][1000 genomes]
rs10992426	0.84[EUR][1000 genomes]
rs10992433	0.86[EUR][1000 genomes]
rs10992474	0.94[ASN][1000 genomes]
rs10992475	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10992476	0.89[ASN][1000 genomes]
rs12057034	0.96[ASN][1000 genomes]
rs12236788	0.87[EUR][1000 genomes]
rs12237216	0.83[EUR][1000 genomes]
rs1407944	0.85[EUR][1000 genomes]
rs16908560	0.96[ASN][1000 genomes]
rs1853429	0.96[ASN][1000 genomes]
rs2398780	0.98[ASN][1000 genomes]
rs4141966	0.96[ASN][1000 genomes]
rs72618187	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7850871	0.86[EUR][1000 genomes]
rs7851947	0.86[EUR][1000 genomes]
rs7859967	0.94[ASN][1000 genomes]
rs912261	0.83[EUR][1000 genomes]
rs9775970	0.81[EUR][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	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv3394460	chr9:95565031-95568629	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3435839	chr9:95565031-95568729	Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv972420	chr9:95566045-95588965	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1853427	CENPP	cis	multi-tissue	Pritchard
rs1853427	BICD2	Cis_1M	lymphoblastoid	RTeQTL
rs1853427	ECM2	cis	Muscle Skeletal	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95558600-95569600	Weak transcription	Right Atrium	heart
2	chr9:95566600-95569600	Weak transcription	Pancreas	Pancrea

Quick Search: