Variant report

Variant	rs2096059
Chromosome Location	chr6:70605160-70605161
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	chr6:70604781..70606444-chr6:70609800..70611681,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10428870	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1417577	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16868360	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes]
rs17689265	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17689448	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17709736	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17745952	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2096060	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2096061	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2345783	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56163905	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56978419	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57358062	0.85[EUR][1000 genomes]
rs60536675	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901568	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6903986	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6929367	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73480069	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747604	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9446176	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454920	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454921	0.83[CEU][hapmap]
rs9767586	0.88[EUR][1000 genomes];1.00[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	nsv886140	chr6:70354682-70728202	Strong transcription Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv886141	chr6:70590638-70694162	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70602800-70605200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:70602800-70605200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:70603000-70605200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:70603600-70605200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:70603800-70605600	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:70604000-70605200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:70604000-70605200	Enhancers	HSMMtube	muscle
8	chr6:70604200-70605200	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr6:70604200-70605400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:70604200-70605600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:70604400-70605200	Enhancers	Primary B cells from cord blood	blood
12	chr6:70604400-70605200	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:70604400-70605200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:70604400-70605200	Enhancers	Fetal Stomach	stomach
15	chr6:70604400-70617800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:70604600-70605200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:70604600-70605200	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr6:70604600-70605200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:70604600-70605200	Enhancers	NHDF-Ad	bronchial
20	chr6:70604600-70605600	Flanking Active TSS	GM12878-XiMat	blood
21	chr6:70604800-70605200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:70604800-70605200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:70604800-70605600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:70604800-70606000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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