Variant report

Variant	rs1858256
Chromosome Location	chr8:112800389-112800390
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10088669	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10101381	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10106758	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10107360	0.82[EUR][1000 genomes]
rs10110811	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1031898	0.87[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10955598	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11995581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12386939	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12675386	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13271090	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13274098	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13274311	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13281100	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1397362	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1397363	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1397364	0.85[ASN][1000 genomes]
rs1397369	0.80[EUR][1000 genomes]
rs1397370	0.80[EUR][1000 genomes]
rs1479467	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1510564	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1871406	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1904354	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1904356	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1904357	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1904358	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1904359	0.83[EUR][1000 genomes]
rs1904360	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1904361	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2048358	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2048359	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2169980	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2352439	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2352440	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2352444	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2352451	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3106198	0.82[EUR][1000 genomes]
rs320503	0.82[EUR][1000 genomes]
rs320565	0.81[EUR][1000 genomes]
rs4147335	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs417300	0.82[EUR][1000 genomes]
rs440036	0.94[CEU][hapmap];0.85[GIH][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs4500105	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs451616	0.82[EUR][1000 genomes]
rs4633090	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4876436	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6469374	0.87[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6469375	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6469376	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs6469377	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6469379	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6987768	0.87[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6988656	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6995414	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6996495	0.87[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7000737	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7001512	0.81[AMR][1000 genomes]
rs7007090	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7812994	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7813398	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7813401	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7820488	0.87[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7826804	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7828410	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7829760	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7838290	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7843064	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7843611	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9297453	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9297454	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9643064	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs979733	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs992953	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs992954	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs995288	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs995289	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];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	nsv1027070	chr8:112490160-112844323	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1015355	chr8:112558586-113154605	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv539722	chr8:112558586-113154605	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv611906	chr8:112752967-112803755	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1023006	chr8:112756497-113141033	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv539724	chr8:112756497-113141033	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1858256	TRHR	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:112800000-112800400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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