Variant report

Variant	rs10106855
Chromosome Location	chr8:87340319-87340320
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	chr8:87334379..87336674-chr8:87338339..87340717,2	MCF-7	breast:

Extended variants
information (count: 95 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10089169	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10089317	1.00[ASN][1000 genomes]
rs10090898	1.00[JPT][hapmap]
rs10092168	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10093867	0.93[ASN][1000 genomes]
rs10097546	0.93[ASN][1000 genomes]
rs10098365	0.87[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10100182	0.84[EUR][1000 genomes]
rs10100368	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs10100698	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10107571	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap]
rs10109032	0.85[ASN][1000 genomes]
rs10110096	0.87[EUR][1000 genomes]
rs10113158	0.97[ASN][1000 genomes]
rs10481195	0.87[EUR][1000 genomes]
rs10504823	0.93[ASN][1000 genomes]
rs10956820	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10956821	0.82[ASN][1000 genomes]
rs10956822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11774253	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11781993	0.93[ASN][1000 genomes]
rs11783382	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11994508	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11997927	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11998558	0.87[EUR][1000 genomes]
rs12155981	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs12156004	0.93[ASN][1000 genomes]
rs12216783	0.93[ASN][1000 genomes]
rs12335013	0.93[ASN][1000 genomes]
rs13265266	0.93[ASN][1000 genomes]
rs17681534	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs28384362	0.87[ASN][1000 genomes]
rs28433311	0.93[ASN][1000 genomes]
rs28445847	0.97[ASN][1000 genomes]
rs28504479	0.93[ASN][1000 genomes]
rs28715255	0.93[ASN][1000 genomes]
rs28783474	0.97[ASN][1000 genomes]
rs2917553	1.00[ASN][1000 genomes]
rs2953507	0.97[ASN][1000 genomes]
rs2953508	0.97[ASN][1000 genomes]
rs2953512	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.83[MKK][hapmap];0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2953514	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2953515	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2953518	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2953519	1.00[ASN][1000 genomes]
rs2954348	1.00[JPT][hapmap]
rs2976170	1.00[ASN][1000 genomes]
rs2976173	1.00[ASN][1000 genomes]
rs2976174	1.00[ASN][1000 genomes]
rs2976175	1.00[ASN][1000 genomes]
rs2976176	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2976180	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2976192	0.90[ASN][1000 genomes]
rs2976194	1.00[ASN][1000 genomes]
rs2976195	0.93[ASN][1000 genomes]
rs2976196	0.93[ASN][1000 genomes]
rs2976199	0.93[ASN][1000 genomes]
rs2976202	0.97[ASN][1000 genomes]
rs3087641	1.00[CHD][hapmap];0.83[GIH][hapmap]
rs4370511	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4440616	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs55671538	0.93[ASN][1000 genomes]
rs55871514	0.93[ASN][1000 genomes]
rs60163902	0.83[EUR][1000 genomes]
rs6471284	0.97[ASN][1000 genomes]
rs6471295	0.93[ASN][1000 genomes]
rs6471317	0.93[ASN][1000 genomes]
rs67332431	0.87[EUR][1000 genomes]
rs6980476	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap]
rs6993497	0.87[ASN][1000 genomes]
rs6993612	0.93[ASN][1000 genomes]
rs7015772	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7018083	0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs73262925	0.97[ASN][1000 genomes]
rs73262927	0.97[ASN][1000 genomes]
rs73688817	0.93[ASN][1000 genomes]
rs73688823	0.93[ASN][1000 genomes]
rs73688824	0.93[ASN][1000 genomes]
rs73688827	0.93[ASN][1000 genomes]
rs7815489	0.97[ASN][1000 genomes]
rs7837581	0.93[ASN][1000 genomes]
rs7837618	0.93[ASN][1000 genomes]
rs7839096	0.93[ASN][1000 genomes]
rs7843272	0.93[ASN][1000 genomes]
rs7843399	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7844014	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7846468	0.97[ASN][1000 genomes]
rs9656823	1.00[ASN][1000 genomes]
rs9656824	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529563	chr8:86467090-87381984	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv932023	chr8:86845979-87490694	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv429926	chr8:87161695-87429872	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv3349873	chr8:87185763-87603726	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	esv3360246	chr8:87200232-87419244	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv1017535	chr8:87261702-87367934	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10106855	CPNE3	cis	parietal	SCAN
rs10106855	FAM82B	cis	cerebellum	SCAN
rs10106855	CPNE3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:87334800-87346400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr8:87339600-87342600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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