Variant report

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1033637	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1033729	0.85[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10489624	0.89[MKK][hapmap]
rs2076776	0.92[AMR][1000 genomes]
rs2145403	0.83[AFR][1000 genomes]
rs594105	0.89[MKK][hapmap]
rs601662	0.86[MEX][hapmap];0.85[AMR][1000 genomes]
rs603154	0.87[AMR][1000 genomes]
rs622299	0.91[MEX][hapmap];0.86[AMR][1000 genomes]
rs635922	0.87[AMR][1000 genomes]
rs647513	0.93[AMR][1000 genomes]
rs647962	0.92[AMR][1000 genomes]
rs648939	0.93[AMR][1000 genomes]
rs649798	0.93[AMR][1000 genomes]
rs652785	0.89[MKK][hapmap]
rs658444	0.93[AMR][1000 genomes]
rs659330	0.93[AMR][1000 genomes]
rs663352	0.89[AFR][1000 genomes]
rs664142	1.00[MEX][hapmap];0.91[AMR][1000 genomes]
rs668551	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs669444	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682584	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs706476	0.83[MEX][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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv1000266	chr1:57291371-57319480	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv508215	chr1:57319460-57351150	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs671137	BSND	cis	parietal	SCAN
rs671137	USP24	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57315800-57320000	Enhancers	HepG2	liver
2	chr1:57316600-57323200	Enhancers	Fetal Intestine Small	intestine
3	chr1:57318200-57320000	Enhancers	Liver	Liver
4	chr1:57319000-57320400	Weak transcription	Duodenum Mucosa	Duodenum
5	chr1:57319200-57320200	Weak transcription	Fetal Intestine Large	intestine

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