Variant report

Variant	rs2879895
Chromosome Location	chr8:39756052-39756053
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	chr8:39749700..39751721-chr8:39753992..39756986,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10086641	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10105530	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs10283355	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10958571	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12156145	0.88[AMR][1000 genomes]
rs13273328	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1808344	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2010450	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2111742	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2340950	0.95[CHB][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs28375138	0.85[ASW][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];0.81[LWK][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];0.89[TSI][hapmap];0.80[YRI][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs28462997	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs34208092	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3808606	1.00[ASW][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3824259	0.92[ASW][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.86[YRI][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4472503	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6474185	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs6474189	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6474190	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6474191	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6474192	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6980572	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6984521	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs6989075	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6993167	0.81[CEU][hapmap]
rs7004950	0.89[AMR][1000 genomes]
rs7017272	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7017446	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7816397	0.95[CHB][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7838952	1.00[ASW][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];0.85[LWK][hapmap];0.96[MEX][hapmap];0.96[MKK][hapmap];0.89[TSI][hapmap];0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7838957	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7839240	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs888447	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs888448	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9298585	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9657182	0.95[CHB][hapmap];0.87[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9657183	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv508505	chr8:39730094-39791331	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1033371	chr8:39749437-39899540	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39747400-39757400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr8:39754400-39759800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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