Variant report

Variant	rs10109609
Chromosome Location	chr8:107637500-107637501
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	chr8:107618803..107621024-chr8:107635376..107637603,2	MCF-7	breast:
2	chr8:107635047..107638167-chr8:107668813..107672580,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164830	Chromatin interaction
ENSG00000253582	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10088694	1.00[CEU][hapmap];0.93[GIH][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap]
rs10089338	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10092734	0.82[CHB][hapmap];0.87[CHD][hapmap]
rs10096751	0.87[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10100453	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10102200	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10106834	1.00[TSI][hapmap]
rs10108240	0.88[TSI][hapmap]
rs10112678	0.87[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10283130	0.88[TSI][hapmap]
rs10505094	0.87[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[TSI][hapmap];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10505095	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs11989387	0.87[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12114857	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12542218	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12543558	0.88[TSI][hapmap]
rs13257540	0.82[ASN][1000 genomes]
rs13259080	0.88[TSI][hapmap]
rs13272695	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13273300	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13281794	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1564117	0.87[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[TSI][hapmap];0.82[ASN][1000 genomes]
rs16875066	1.00[TSI][hapmap]
rs1872282	1.00[TSI][hapmap]
rs1968804	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1968806	0.84[ASN][1000 genomes]
rs1968807	0.84[ASN][1000 genomes]
rs28515157	0.82[ASN][1000 genomes]
rs35480722	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35638470	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56746010	0.82[ASN][1000 genomes]
rs7008064	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7462454	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533134	chr8:107307812-107670002	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831419	chr8:107624709-107827801	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107601600-107669600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr8:107617200-107641000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr8:107620400-107653400	Weak transcription	Aorta	Aorta
4	chr8:107630600-107643400	Weak transcription	Gastric	stomach
5	chr8:107630600-107657200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr8:107635600-107638000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr8:107636000-107638000	Enhancers	Stomach Mucosa	stomach
8	chr8:107636800-107638000	Enhancers	HepG2	liver
9	chr8:107636800-107641000	Weak transcription	Fetal Intestine Small	intestine
10	chr8:107636800-107657400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr8:107637000-107638000	Enhancers	Liver	Liver
12	chr8:107637000-107641200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr8:107637200-107637800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr8:107637200-107648400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr8:107637400-107637600	Enhancers	Small Intestine	intestine
16	chr8:107637400-107638000	Enhancers	Hela-S3	cervix
17	chr8:107637400-107641200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr8:107637400-107642600	Weak transcription	Muscle Satellite Cultured Cells	--

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