Variant report

Variant	rs792230
Chromosome Location	chr10:90160392-90160393
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	chr10:89622921..89625081-chr10:90159029..90160699,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000227268	Chromatin interaction
ENSG00000171862	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10509544	0.82[CHB][hapmap]
rs1067839	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs1067840	0.89[CEU][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10736351	0.89[CEU][hapmap]
rs10749590	0.89[CEU][hapmap]
rs10788592	0.86[JPT][hapmap]
rs10788597	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs10788598	0.89[CEU][hapmap]
rs10788599	0.89[CEU][hapmap]
rs10788600	0.89[CEU][hapmap]
rs10788602	0.89[CEU][hapmap]
rs10887801	0.83[JPT][hapmap]
rs10887813	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887817	1.00[CEU][hapmap];0.83[JPT][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10887818	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10887821	0.89[CEU][hapmap]
rs10887823	0.89[CEU][hapmap]
rs11202723	0.83[JPT][hapmap]
rs12266064	0.82[CHB][hapmap]
rs1342450	0.89[CEU][hapmap]
rs1342451	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1426619	0.83[JPT][hapmap]
rs1426620	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1617881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750274	0.85[CEU][hapmap]
rs1935579	0.89[CEU][hapmap]
rs1935584	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2096194	0.88[CEU][hapmap]
rs2185786	0.85[CEU][hapmap]
rs2312610	0.89[CEU][hapmap]
rs2433340	0.92[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2477956	0.86[CEU][hapmap]
rs2488270	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576181	0.85[CEU][hapmap]
rs4606392	0.89[CEU][hapmap]
rs4933480	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934403	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934404	0.89[CEU][hapmap]
rs4934409	0.89[CEU][hapmap]
rs4934411	0.89[CEU][hapmap]
rs6586129	0.85[JPT][hapmap]
rs6586132	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6586134	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7895582	0.81[JPT][hapmap]
rs7897033	0.87[CHB][hapmap]
rs7907732	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7909697	0.89[CEU][hapmap]
rs7910594	0.82[CEU][hapmap]
rs7911996	0.89[CEU][hapmap]
rs7917640	0.82[JPT][hapmap]
rs7918921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7920126	0.86[JPT][hapmap]
rs7921352	0.85[CEU][hapmap]
rs792205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792207	1.00[CEU][hapmap];0.82[JPT][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs792208	0.89[CEU][hapmap];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792209	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792211	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792212	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792213	1.00[CEU][hapmap];0.83[JPT][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs792214	0.86[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792215	0.87[CEU][hapmap];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792235	0.89[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792236	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs806694	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs811558	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs813782	0.89[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs814242	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	esv1796143	chr10:90156447-90168074	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90156000-90161600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90159400-90164400	Weak transcription	Fetal Lung	lung
3	chr10:90159800-90172800	Weak transcription	Primary hematopoietic stem cells	blood

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