Variant report

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10948787	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12663216	0.90[CEU][hapmap]
rs13437448	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2076496	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2076497	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3003492	0.86[CEU][hapmap]
rs3003498	0.90[CEU][hapmap];0.84[GIH][hapmap];0.86[TSI][hapmap]
rs4486000	0.90[CEU][hapmap];0.83[GIH][hapmap];0.86[TSI][hapmap]
rs4712050	0.99[EUR][1000 genomes]
rs4712051	0.97[EUR][1000 genomes]
rs5006063	0.99[EUR][1000 genomes]
rs61068246	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62396285	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62397090	0.93[AFR][1000 genomes]
rs6905563	0.89[CEU][hapmap]
rs6927232	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs763813	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs763815	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750173	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9296727	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9474687	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]

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	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11751301	BAG2	cis	cerebellum	SCAN
rs11751301	C6orf142	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53827400-53832000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr6:53827400-53832200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr6:53827400-53832200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr6:53827400-53836000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:53827400-53836000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:53827800-53832000	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr6:53827800-53836000	Weak transcription	Psoas Muscle	Psoas

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