Variant report

Variant	rs2168818
Chromosome Location	chr3:55853269-55853270
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:55850876..55853376-chr3:55857822..55860534,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12631767	0.93[ASN][1000 genomes]
rs1495368	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1495369	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17272960	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17332241	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17714443	0.91[ASN][1000 genomes]
rs1870274	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2315943	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35664654	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4129821	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129822	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129823	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4260395	0.93[ASN][1000 genomes]
rs4299453	0.96[ASN][1000 genomes]
rs4493400	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4521190	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4955877	0.86[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap]
rs4955878	0.85[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.96[TSI][hapmap]
rs4955879	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4955880	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4955881	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4955883	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974144	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4974145	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4974146	0.93[ASN][1000 genomes]
rs56912263	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57059589	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57802485	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60551886	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61072124	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72877116	0.91[ASN][1000 genomes]
rs73076938	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73076939	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73076947	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7641474	0.88[ASN][1000 genomes]
rs9815001	0.82[CHB][hapmap];0.83[CHD][hapmap]
rs9835091	0.85[CHB][hapmap]
rs9838012	0.93[ASN][1000 genomes]
rs9846380	0.87[ASN][1000 genomes]
rs9852746	0.82[CHB][hapmap];0.83[CHD][hapmap]
rs9852888	0.82[CHB][hapmap]
rs9853067	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs9854025	0.84[ASN][1000 genomes]
rs9854247	0.84[ASN][1000 genomes]
rs9866297	0.84[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	nsv876814	chr3:55802749-55860526	Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv590361	chr3:55834871-55876104	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55847600-55860200	Weak transcription	Fetal Lung	lung
2	chr3:55852400-55853400	Enhancers	Gastric	stomach
3	chr3:55852600-55853400	Enhancers	Brain Cingulate Gyrus	brain
4	chr3:55852800-55853400	Enhancers	Brain Substantia Nigra	brain
5	chr3:55852800-55854200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr3:55853000-55853400	Enhancers	Brain Inferior Temporal Lobe	brain

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