Variant report

Variant	rs12295855
Chromosome Location	chr11:8527418-8527419
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1026021	0.94[CEU][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];0.90[MEX][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs10500703	0.88[CEU][hapmap];0.83[GIH][hapmap];0.89[MEX][hapmap];0.97[TSI][hapmap]
rs10743073	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap]
rs10743084	0.86[GIH][hapmap];0.90[MEX][hapmap]
rs10769936	0.84[CEU][hapmap]
rs10769938	0.84[CEU][hapmap]
rs10840057	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10840059	0.96[YRI][hapmap]
rs11041928	0.82[YRI][hapmap]
rs11041942	0.82[YRI][hapmap]
rs11041945	0.96[YRI][hapmap]
rs11041948	0.82[YRI][hapmap]
rs11042025	0.84[CEU][hapmap]
rs11517715	0.94[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12276661	0.92[YRI][hapmap]
rs12281285	0.89[YRI][hapmap]
rs12282398	0.82[YRI][hapmap]
rs12289533	0.81[YRI][hapmap]
rs12577287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs12787407	0.88[EUR][1000 genomes]
rs12787554	0.89[MEX][hapmap]
rs12791925	0.88[EUR][1000 genomes]
rs12808779	0.88[CEU][hapmap];0.83[GIH][hapmap];0.90[MEX][hapmap];0.97[TSI][hapmap]
rs1502317	0.84[CEU][hapmap]
rs16938253	0.94[CEU][hapmap];0.98[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1867810	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs1867812	0.96[YRI][hapmap]
rs2100067	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2166470	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2311392	0.88[CEU][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34059271	0.88[EUR][1000 genomes]
rs34413282	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34413622	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35091649	0.89[EUR][1000 genomes]
rs35807094	0.87[EUR][1000 genomes]
rs3942866	0.84[MEX][hapmap]
rs4291677	0.84[CEU][hapmap]
rs57757082	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67191473	0.89[EUR][1000 genomes]
rs7127840	0.96[YRI][hapmap]
rs71474991	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72855149	0.81[EUR][1000 genomes]
rs7924477	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7929546	0.96[YRI][hapmap]
rs7931834	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7947230	0.88[GIH][hapmap];0.90[MEX][hapmap]
rs7952429	0.91[EUR][1000 genomes]
rs885114	0.84[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751035	chr11:8431654-8685451	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv32551	chr11:8457023-8534642	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv896983	chr11:8526643-8682465	ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs12295855	OR56B4	cis	parietal	SCAN
rs12295855	STK33	cis	cerebellum	SCAN
rs12295855	RPL27A	cis	cerebellum	SCAN
rs12295855	TRIM66	cis	Whole Blood	GTEx
rs12295855	OR52E2	cis	parietal	SCAN
rs12295855	RPL27A	cis	parietal	SCAN
rs12295855	SNORA45	cis	cerebellum	SCAN
rs12295855	AMPD3	cis	parietal	SCAN
rs12295855	OR10A4	cis	parietal	SCAN
rs12295855	SNORA45	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8527400-8527600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr11:8527400-8528600	Weak transcription	Stomach Mucosa	stomach

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