Variant report

Variant	rs7627008
Chromosome Location	chr3:180289788-180289789
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	chr3:180288597..180290197-chr3:180293496..180295208,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs13327745	0.89[AFR][1000 genomes]
rs1520606	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2338578	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28595523	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];0.94[TSI][hapmap];0.83[YRI][hapmap]
rs3860513	1.00[CHD][hapmap]
rs4490359	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4615077	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62291003	0.81[AMR][1000 genomes]
rs6443696	0.82[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.82[LWK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap]
rs6443700	0.94[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6769457	1.00[CHD][hapmap]
rs6771979	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6791597	0.91[GIH][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs7611683	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7613520	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7624210	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7627857	1.00[CHD][hapmap]
rs7633153	0.81[EUR][1000 genomes]
rs7633440	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7637098	0.84[AFR][1000 genomes]
rs7645817	0.91[GIH][hapmap];0.80[LWK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs7647210	0.91[GIH][hapmap];0.85[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs904241	0.89[AFR][1000 genomes]
rs9857056	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9865427	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][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	nsv1007831	chr3:180162003-180348203	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv536818	chr3:180162003-180348203	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7627008	TTC14	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:180285600-180293200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:180289400-180289800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:180289400-180290800	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:180289600-180289800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:180289600-180290600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:180289600-180290600	Enhancers	GM12878-XiMat	blood

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