Variant report

Variant	rs7096710
Chromosome Location	chr10:90213213-90213214
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90212145..90213848-chr10:90226282..90228506,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10509544	1.00[CEU][hapmap];0.84[GIH][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10736353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736355	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10749585	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs10749586	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10749587	0.99[ASN][1000 genomes]
rs10749588	0.99[ASN][1000 genomes]
rs10788595	0.87[EUR][1000 genomes]
rs10788597	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10788601	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10788604	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10788605	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10887820	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs10887827	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10887829	0.94[ASW][hapmap];0.80[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.81[TSI][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11202750	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12266064	1.00[CEU][hapmap];0.93[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12778446	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1325903	0.81[ASW][hapmap];0.84[LWK][hapmap];0.85[MEX][hapmap]
rs1409134	0.88[ASW][hapmap];0.80[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.81[TSI][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1426620	0.86[TSI][hapmap];0.87[EUR][1000 genomes]
rs1935578	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1935580	0.95[EUR][1000 genomes]
rs1952122	0.80[LWK][hapmap];0.85[MEX][hapmap]
rs2153856	0.93[CEU][hapmap];0.88[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2477957	0.83[JPT][hapmap]
rs4403718	0.95[ASN][1000 genomes]
rs6586130	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6586134	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7077182	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7895199	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7897033	0.88[EUR][1000 genomes]
rs7902230	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7904229	0.98[ASN][1000 genomes]
rs7907866	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7913372	1.00[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7916937	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7919420	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7922053	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7096710	BTAF1	cis	cerebellum	SCAN
rs7096710	LIPM	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90193800-90227600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90210200-90215400	Weak transcription	Adipose Nuclei	Adipose
3	chr10:90210400-90217600	Weak transcription	Right Atrium	heart
4	chr10:90211000-90215600	Weak transcription	Aorta	Aorta
5	chr10:90211400-90215800	Weak transcription	Ovary	ovary

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