Variant report

Variant	rs62569566
Chromosome Location	chr9:110412089-110412090
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:110398297..110401226-chr9:110410750..110413610,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10759246	0.90[EUR][1000 genomes]
rs10816543	0.88[EUR][1000 genomes]
rs10816544	0.88[EUR][1000 genomes]
rs10816545	0.88[EUR][1000 genomes]
rs10816546	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10978956	0.81[EUR][1000 genomes]
rs10978964	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978969	0.90[EUR][1000 genomes]
rs10978974	0.89[EUR][1000 genomes]
rs10978976	0.90[EUR][1000 genomes]
rs10978978	0.90[EUR][1000 genomes]
rs10978979	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978980	0.90[EUR][1000 genomes]
rs10978983	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11790667	0.90[EUR][1000 genomes]
rs11791331	0.90[EUR][1000 genomes]
rs11792278	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11794132	1.00[AFR][1000 genomes]
rs12335966	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12339172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12341787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12344177	0.90[EUR][1000 genomes]
rs12344206	0.92[EUR][1000 genomes]
rs12344248	0.90[EUR][1000 genomes]
rs12345493	0.88[EUR][1000 genomes]
rs12345691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347957	0.87[EUR][1000 genomes]
rs12348111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440356	0.89[EUR][1000 genomes]
rs1523780	0.90[EUR][1000 genomes]
rs1523781	0.90[EUR][1000 genomes]
rs1523782	0.90[EUR][1000 genomes]
rs4540459	0.90[EUR][1000 genomes]
rs62568436	0.85[EUR][1000 genomes]
rs62569567	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7027436	0.91[EUR][1000 genomes]
rs7029376	0.90[EUR][1000 genomes]
rs7029428	0.89[EUR][1000 genomes]
rs7857028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7866207	0.90[EUR][1000 genomes]
rs7870632	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792559	0.90[EUR][1000 genomes]
rs9792645	0.89[EUR][1000 genomes]
rs9792647	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv831683	chr9:110275212-110461288	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv893700	chr9:110365337-110451516	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110407800-110412200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr9:110408000-110415400	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr9:110409800-110413200	Enhancers	HSMM	muscle
4	chr9:110410000-110413200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:110410600-110412600	Weak transcription	Fetal Muscle Leg	muscle
6	chr9:110410800-110412400	Weak transcription	HSMMtube	muscle
7	chr9:110410800-110412600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:110411000-110412400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr9:110412000-110413000	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr9:110412000-110413200	Enhancers	Muscle Satellite Cultured Cells	--
11	chr9:110412000-110413600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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