Variant report

Variant	rs9837982
Chromosome Location	chr3:78840694-78840695
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:78838533..78841279-chr3:78841928..78844326,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11127634	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12495127	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13087237	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1480687	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs1480688	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs1487139	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1623449	0.84[ASN][1000 genomes]
rs162870	0.88[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1840969	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1843786	0.88[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28629289	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs333481	0.82[ASN][1000 genomes]
rs333491	1.00[JPT][hapmap]
rs333495	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs365165	0.82[ASN][1000 genomes]
rs416551	1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs439325	0.85[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs444598	0.81[ASN][1000 genomes]
rs510006	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs6762005	0.84[JPT][hapmap]
rs9309818	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9309819	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9309820	0.92[CEU][hapmap]
rs9631512	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9835958	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs9861264	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9863758	0.88[CEU][hapmap]
rs9873248	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9877603	0.88[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9881587	0.92[CEU][hapmap];0.84[CHB][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes];0.89[ASN][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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv877019	chr3:78808850-78877217	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv432459	chr3:78819310-78874310	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78826600-78843600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:78834200-78841200	Weak transcription	Small Intestine	intestine
3	chr3:78835000-78843600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:78835200-78843800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:78838800-78843600	Weak transcription	NHEK	skin
6	chr3:78839800-78841800	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:78840000-78841600	Enhancers	Brain Germinal Matrix	brain
8	chr3:78840000-78842200	Enhancers	Brain Hippocampus Middle	brain
9	chr3:78840200-78841200	Weak transcription	Brain Substantia Nigra	brain
10	chr3:78840400-78843600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:78840600-78841400	Enhancers	Brain Anterior Caudate	brain
12	chr3:78840600-78841800	Enhancers	Brain Angular Gyrus	brain
13	chr3:78840600-78842000	Weak transcription	HUES64 Cell Line	embryonic stem cell

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