Variant report

Variant	rs4478161
Chromosome Location	chr4:46789898-46789899
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10005129	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs10015595	0.82[ASW][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs10018906	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1002190	0.86[ASN][1000 genomes]
rs10029471	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs10030045	0.90[ASN][1000 genomes]
rs10032643	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs10050154	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10805150	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10938455	0.80[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10938456	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs10938457	0.88[ASW][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap]
rs1123700	0.86[ASN][1000 genomes]
rs1124442	0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs11727711	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11735744	0.97[ASN][1000 genomes]
rs11934342	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11943836	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11946667	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs11947685	1.00[ASW][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.85[TSI][hapmap];0.96[YRI][hapmap]
rs12503660	0.91[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12503816	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12504855	0.87[ASW][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.96[YRI][hapmap]
rs12505727	0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap]
rs12508418	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs12509566	0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12511771	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs12511862	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs12512515	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap]
rs1588606	0.86[ASN][1000 genomes]
rs1588607	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2036941	0.92[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2175554	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2203139	0.86[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap]
rs2350889	0.94[ASW][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs28418541	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs28649107	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4312731	0.97[ASN][1000 genomes]
rs4588430	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55809140	0.86[ASN][1000 genomes]
rs59277224	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6813531	0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6830441	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6831990	0.95[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs6835325	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs6838604	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs6855790	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7435882	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs7438079	0.95[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs925479	0.87[ASW][hapmap]
rs9996022	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs9997648	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs9998421	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs9999799	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878998	chr4:46565663-46823634	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv878999	chr4:46565663-46860626	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv461356	chr4:46635167-46846042	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv594117	chr4:46635167-46846042	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv879000	chr4:46635167-46890046	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4478161	YIPF7	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:46789600-46790000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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