Variant report

Variant	rs10898301
Chromosome Location	chr11:84532363-84532364
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:84525910..84528533-chr11:84530847..84533253,2	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10501571	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs10501572	0.84[CEU][hapmap];0.90[EUR][1000 genomes]
rs10501575	1.00[CHD][hapmap]
rs10501576	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10898299	0.88[CEU][hapmap];0.88[GIH][hapmap];0.86[MKK][hapmap];0.90[TSI][hapmap]
rs11234157	0.88[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs11234167	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs11234170	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs11234171	0.91[EUR][1000 genomes]
rs11234176	0.90[EUR][1000 genomes]
rs11234178	0.92[EUR][1000 genomes]
rs11234179	0.92[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs11234180	0.88[CEU][hapmap]
rs11234181	0.87[CEU][hapmap]
rs11234182	0.84[CEU][hapmap]
rs11234189	1.00[CHD][hapmap]
rs11234194	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.87[MEX][hapmap];0.90[MKK][hapmap];0.87[TSI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234195	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234219	1.00[CHB][hapmap]
rs11234230	1.00[CHB][hapmap]
rs11518753	0.88[CEU][hapmap]
rs11518754	0.92[EUR][1000 genomes]
rs12271903	0.81[CEU][hapmap];0.85[GIH][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs12361278	0.90[EUR][1000 genomes]
rs12361279	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs12362064	0.96[CEU][hapmap];0.94[GIH][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs17741047	0.90[EUR][1000 genomes]
rs17741065	0.91[EUR][1000 genomes]
rs17741384	1.00[CHD][hapmap]
rs17808315	0.90[EUR][1000 genomes]
rs17808541	1.00[CHD][hapmap]
rs1943524	0.93[EUR][1000 genomes]
rs1943525	0.83[EUR][1000 genomes]
rs1943696	0.92[CEU][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs1943698	0.88[CEU][hapmap];0.91[GIH][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs1943705	0.88[CEU][hapmap];0.88[GIH][hapmap];0.90[TSI][hapmap]
rs1943708	0.88[CEU][hapmap];0.89[GIH][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs2187359	0.88[CEU][hapmap];0.91[GIH][hapmap];0.95[TSI][hapmap]
rs4451754	0.81[CEU][hapmap];0.89[TSI][hapmap]
rs4511292	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897909	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6592202	0.81[CEU][hapmap];0.84[TSI][hapmap]
rs7101454	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs7129466	1.00[CHB][hapmap]
rs72945887	0.90[EUR][1000 genomes]
rs957438	1.00[CHB][hapmap];1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1045974	chr11:84187214-84708462	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1049964	chr11:84315563-84578721	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv555615	chr11:84334144-84541403	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1051456	chr11:84355133-84544954	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1048051	chr11:84419442-84784233	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv541109	chr11:84419442-84784233	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv898036	chr11:84420132-84576644	Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv527928	chr11:84449507-84548547	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv870278	chr11:84477088-84534255	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv817205	chr11:84497319-84628963	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv555619	chr11:84521977-84553807	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv898040	chr11:84524697-84600597	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv555620	chr11:84530538-84568024	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10898301	OR10A4	trans	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:84530200-84535800	Weak transcription	Left Ventricle	heart
2	chr11:84531000-84535000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr11:84532000-84534600	Weak transcription	Fetal Heart	heart

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