Variant report

Variant	rs2788112
Chromosome Location	chr9:84971296-84971297
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:84970664..84973580-chr9:84975501..84978043,2	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]
rs10867835	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10867836	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10867837	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10867839	0.87[JPT][hapmap]
rs10867840	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10867844	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11139554	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1888327	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1933580	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1933582	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1933583	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2774634	0.99[ASN][1000 genomes]
rs2774635	0.94[ASN][1000 genomes]
rs2788109	0.94[ASN][1000 genomes]
rs2788110	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2788113	0.84[AMR][1000 genomes]
rs35064221	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4276765	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4338186	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4563967	0.91[JPT][hapmap]
rs4877229	0.96[CEU][hapmap];0.91[JPT][hapmap];0.94[YRI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4877231	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6559659	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7020546	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7021352	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7047870	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7848263	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7848823	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7849168	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9410578	0.99[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	nsv893507	chr9:84799537-85097651	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv893508	chr9:84954592-85080395	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893509	chr9:84954592-85097651	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893510	chr9:84954592-85117420	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:84967800-84971600	Enhancers	HMEC	breast
2	chr9:84968000-84972200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:84968200-84972200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:84968200-84972200	Enhancers	NHEK	skin
5	chr9:84968400-84972200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:84968600-84971400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr9:84970200-84971400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr9:84970200-84978400	Weak transcription	HSMM	muscle
9	chr9:84970400-84971600	Weak transcription	Osteobl	bone
10	chr9:84970600-84971800	Weak transcription	NHDF-Ad	bronchial
11	chr9:84970600-84972200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:84971000-84971600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:84971000-84972000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:84971200-84971600	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr9:84971200-84971800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:84971200-84972200	Enhancers	ES-I3 Cell Line	embryonic stem cell

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