Variant report

Variant	rs10505176
Chromosome Location	chr8:113394699-113394700
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1019350	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs1019351	0.84[EUR][1000 genomes]
rs1021438	0.81[GIH][hapmap]
rs10216803	0.81[GIH][hapmap];0.86[MKK][hapmap]
rs10505174	0.81[GIH][hapmap]
rs10505175	0.86[GIH][hapmap]
rs10955618	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs1158895	1.00[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];0.84[JPT][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes]
rs11775013	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11775082	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11776386	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11776765	0.82[JPT][hapmap]
rs11778155	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap]
rs11778209	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11778262	1.00[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.80[EUR][1000 genomes]
rs11778443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11778532	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes]
rs11780474	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11782384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11783361	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11783495	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11783519	0.83[EUR][1000 genomes]
rs11784683	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11785270	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[EUR][1000 genomes]
rs11785419	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs12155759	0.83[JPT][hapmap]
rs1388965	0.83[JPT][hapmap]
rs1420857	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1472166	0.83[JPT][hapmap]
rs1492670	0.83[JPT][hapmap]
rs1492676	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1548986	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs1602703	0.83[JPT][hapmap]
rs16883301	0.93[CEU][hapmap]
rs16883320	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16883325	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16883359	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs16883360	1.00[CEU][hapmap];0.89[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.83[EUR][1000 genomes]
rs16883401	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs16883404	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs16883432	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs16883437	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.87[EUR][1000 genomes]
rs16883454	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs16883506	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16883510	0.83[JPT][hapmap]
rs16883753	0.81[GIH][hapmap]
rs1861754	0.93[CEU][hapmap];0.84[GIH][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap]
rs1861755	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1873746	0.83[JPT][hapmap]
rs1948411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1994795	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs1994796	0.93[CEU][hapmap];0.81[CHB][hapmap];0.89[GIH][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap]
rs2035895	0.83[JPT][hapmap]
rs2045033	0.81[GIH][hapmap]
rs2052339	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2098455	0.93[CEU][hapmap]
rs2111426	1.00[CEU][hapmap];0.89[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs2111427	0.84[EUR][1000 genomes]
rs2123489	0.86[GIH][hapmap]
rs2201203	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap]
rs2353271	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[EUR][1000 genomes]
rs3922407	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.84[EUR][1000 genomes]
rs3950674	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs41340951	0.83[JPT][hapmap]
rs4143626	0.86[CEU][hapmap];0.83[EUR][1000 genomes]
rs4398953	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4428695	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4469486	0.85[JPT][hapmap]
rs4563913	0.83[JPT][hapmap]
rs4876281	0.83[JPT][hapmap]
rs4876283	0.83[JPT][hapmap]
rs4876467	0.81[JPT][hapmap]
rs4876468	0.83[JPT][hapmap]
rs4876469	0.83[JPT][hapmap]
rs4876470	0.82[JPT][hapmap]
rs55691798	0.82[EUR][1000 genomes]
rs59534399	0.84[EUR][1000 genomes]
rs62514386	0.82[EUR][1000 genomes]
rs62514388	0.82[EUR][1000 genomes]
rs62514389	0.83[EUR][1000 genomes]
rs62514394	0.85[EUR][1000 genomes]
rs62514395	0.85[EUR][1000 genomes]
rs62514396	0.85[EUR][1000 genomes]
rs62514397	0.85[EUR][1000 genomes]
rs62514400	0.85[EUR][1000 genomes]
rs62514401	0.85[EUR][1000 genomes]
rs62514402	0.85[EUR][1000 genomes]
rs62514417	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62514453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6415459	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6981814	0.81[CEU][hapmap]
rs6986274	0.86[GIH][hapmap];0.86[MKK][hapmap]
rs7006962	0.81[GIH][hapmap]
rs7009195	0.85[EUR][1000 genomes]
rs72672877	0.84[EUR][1000 genomes]
rs72672894	0.85[EUR][1000 genomes]
rs72674722	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72674733	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72674741	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72674746	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7463918	0.81[JPT][hapmap]
rs7820425	1.00[CEU][hapmap];0.89[CHB][hapmap];0.85[EUR][1000 genomes]
rs7825635	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[EUR][1000 genomes]
rs7826270	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs7832317	0.83[JPT][hapmap]
rs7844829	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes]
rs888254	1.00[CEU][hapmap];0.86[GIH][hapmap];0.82[EUR][1000 genomes]
rs929686	1.00[CEU][hapmap];0.89[GIH][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs990616	1.00[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.94[TSI][hapmap];0.82[EUR][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	nsv533857	chr8:112819659-113801258	Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1022457	chr8:113071774-113811177	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	esv2755868	chr8:113282795-113634842	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2753595	chr8:113283214-114190390	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	esv2754232	chr8:113294967-113634842	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv891323	chr8:113359377-113394699	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10505176	CSMD3	cis	parietal	SCAN
rs10505176	TRHR	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:113393400-113396400	Enhancers	Fetal Intestine Small	intestine

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