Variant report

Variant	rs16839668
Chromosome Location	chr1:196197655-196197656
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	chr1:196195233..196196964-chr1:196196967..196198866,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16829753	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16839682	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16839685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16839693	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16839698	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16839700	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16839716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16839751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16839758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16839763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16839771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16839782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16839791	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16839795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16839822	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16839832	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16839841	1.00[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs16839848	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839856	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839872	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839878	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839881	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839884	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839886	1.00[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839905	1.00[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.90[AMR][1000 genomes]
rs16839906	1.00[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16839910	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs16839919	1.00[AFR][1000 genomes]
rs17639647	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs2296269	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41451950	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61822083	1.00[ASN][1000 genomes]
rs74133631	1.00[EUR][1000 genomes]
rs74133640	0.96[EUR][1000 genomes]
rs74133658	0.92[EUR][1000 genomes]
rs7544202	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7544383	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][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	nsv872948	chr1:195872295-196236425	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv534209	chr1:196011881-196208885	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv872952	chr1:196174790-196304223	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv548741	chr1:196186750-196293493	Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:196194800-196205200	Strong transcription	Liver	Liver
2	chr1:196195200-196197800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:196195600-196210600	Weak transcription	Fetal Brain Male	brain
4	chr1:196197400-196213000	Weak transcription	Ovary	ovary

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