Variant report

Variant	rs16908561
Chromosome Location	chr9:24602765-24602766
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10511742	1.00[CEU][hapmap]
rs12115192	0.96[EUR][1000 genomes]
rs12115222	0.96[EUR][1000 genomes]
rs1329848	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1475672	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908482	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs16908486	1.00[CEU][hapmap]
rs16908488	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs16908493	0.87[EUR][1000 genomes]
rs16908496	0.87[EUR][1000 genomes]
rs16908502	0.80[EUR][1000 genomes]
rs16908537	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16908539	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908541	1.00[EUR][1000 genomes]
rs16908545	0.96[EUR][1000 genomes]
rs16908550	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908556	1.00[EUR][1000 genomes]
rs16908564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908577	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16908582	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16908586	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16908593	0.96[EUR][1000 genomes]
rs16908596	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16908600	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16908604	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16908610	0.96[EUR][1000 genomes]
rs16908626	0.96[EUR][1000 genomes]
rs16908629	0.96[EUR][1000 genomes]
rs16908636	0.96[EUR][1000 genomes]
rs16908639	0.96[EUR][1000 genomes]
rs16908644	0.96[EUR][1000 genomes]
rs16908647	0.96[EUR][1000 genomes]
rs1813872	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2014716	1.00[EUR][1000 genomes]
rs2225317	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4416915	0.96[EUR][1000 genomes]
rs4484783	0.96[EUR][1000 genomes]
rs55841402	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57263657	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59984102	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60464775	1.00[EUR][1000 genomes]
rs7032868	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7032913	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7041483	0.96[EUR][1000 genomes]
rs73652283	0.80[EUR][1000 genomes]
rs73652297	0.80[EUR][1000 genomes]
rs73652302	0.96[EUR][1000 genomes]
rs73653933	1.00[EUR][1000 genomes]
rs73653934	1.00[EUR][1000 genomes]
rs73653937	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73653950	0.96[EUR][1000 genomes]
rs73653951	0.96[EUR][1000 genomes]
rs73655209	0.96[EUR][1000 genomes]
rs7859588	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9696309	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9696831	1.00[EUR][1000 genomes]
rs991798	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533263	chr9:24386546-24942407	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1032395	chr9:24396046-24945219	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892801	chr9:24488294-24671257	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831529	chr9:24495736-24635767	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1029750	chr9:24531007-24657061	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	esv2762804	chr9:24553117-24631812	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1025979	chr9:24554118-24684863	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1032634	chr9:24563101-24684863	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1021315	chr9:24566715-25341680	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv540098	chr9:24566715-25341680	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16908561	AHSP	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:24599400-24604200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr9:24602400-24603200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:24602400-24604200	Enhancers	HMEC	breast
4	chr9:24602600-24603200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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