Variant report

Variant	rs1934983
Chromosome Location	chr10:96801929-96801930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10128123	0.82[CHB][hapmap]
rs10218877	0.82[CHB][hapmap]
rs10509683	0.82[CHB][hapmap]
rs1057910	0.89[CHD][hapmap]
rs10882566	0.82[CHB][hapmap]
rs10882568	0.82[CHB][hapmap]
rs11188144	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188155	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188157	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188159	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188165	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188166	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188223	0.82[CHB][hapmap]
rs11188225	0.82[CHB][hapmap]
rs11188228	0.82[CHB][hapmap]
rs11188229	0.82[CHB][hapmap]
rs11188230	0.82[CHB][hapmap]
rs11572093	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11572139	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11572177	0.82[CHD][hapmap];0.81[GIH][hapmap];0.89[MKK][hapmap]
rs12262878	0.82[CHB][hapmap]
rs12359863	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341164	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[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];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1592037	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16872	0.82[CHB][hapmap]
rs17110288	0.89[CHD][hapmap]
rs17524438	0.82[CHB][hapmap]
rs1934952	0.82[CHD][hapmap];0.86[GIH][hapmap];0.88[MKK][hapmap]
rs1934955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1934957	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1934975	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs1934982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2071426	0.95[CEU][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs2185571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2449809	0.82[CHB][hapmap]
rs2478478	0.82[CHB][hapmap]
rs2478479	0.82[CHB][hapmap]
rs2860977	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34909476	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35394919	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35427080	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36084004	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs489807	0.82[CHB][hapmap]
rs509736	0.82[CHB][hapmap]
rs591157	0.82[CHB][hapmap]
rs591171	0.82[CHB][hapmap]
rs592055	0.82[CHB][hapmap]
rs594448	0.82[CHB][hapmap]
rs610046	0.82[CHB][hapmap]
rs611343	0.82[CHB][hapmap]
rs612490	0.82[CHB][hapmap]
rs613340	0.82[CHB][hapmap]
rs614682	0.82[CHB][hapmap]
rs626415	0.82[CHB][hapmap]
rs627173	0.82[CHB][hapmap]
rs628102	0.82[CHB][hapmap]
rs633345	0.82[CHB][hapmap]
rs637465	0.82[CHB][hapmap]
rs648695	0.82[CHB][hapmap]
rs6583967	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs659949	0.82[CHB][hapmap]
rs664093	0.82[CHB][hapmap]
rs672860	0.82[CHB][hapmap]
rs688706	0.82[CHB][hapmap]
rs689207	0.82[CHB][hapmap]
rs695217	0.82[CHB][hapmap]
rs7098376	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7913269	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9325473	0.89[CHD][hapmap]
rs9332092	0.89[CHD][hapmap]
rs9332093	0.89[CHD][hapmap]
rs9332108	0.89[CHD][hapmap]
rs9332169	0.89[CHD][hapmap]
rs9332214	0.89[CHD][hapmap]
rs9332217	0.89[CHD][hapmap]
rs9332227	0.89[CHD][hapmap]
rs9332238	0.89[CHD][hapmap]

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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1035409	chr10:96495177-96832057	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1050544	chr10:96766934-96814689	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1044182	chr10:96783996-96814689	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	esv2761618	chr10:96784008-96814689	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1934983	TNKS2	cis	cerebellum	SCAN
rs1934983	CYP2C8	cis	cerebellum	SCAN
rs1934983	CYP2C8	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96796400-96805400	Strong transcription	Liver	Liver

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