Variant report

Variant	rs11572472
Chromosome Location	chr1:217126034-217126035
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10492954	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10492957	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10495038	0.82[GIH][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs10735491	0.80[AMR][1000 genomes]
rs11117732	0.84[AMR][1000 genomes]
rs11117733	0.84[AMR][1000 genomes]
rs11117735	0.80[EUR][1000 genomes]
rs11117737	0.84[ASW][hapmap];0.85[CEU][hapmap];0.94[CHB][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.83[LWK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11117738	0.84[CEU][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12025193	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12029369	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12040129	0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs12043713	0.87[ASW][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12758444	0.83[EUR][1000 genomes]
rs1339219	0.82[GIH][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs1436886	0.84[CHB][hapmap]
rs1816565	1.00[ASW][hapmap];0.83[CHB][hapmap];0.81[GIH][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2028097	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2818781	0.83[CHB][hapmap]
rs5017053	0.82[GIH][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs6698252	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6698256	0.81[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7517404	0.81[EUR][1000 genomes]
rs7520445	0.83[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7526109	0.83[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11572472	CENPF	cis	parietal	SCAN
rs11572472	LQK1	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:217120400-217126200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr1:217122400-217146200	Weak transcription	Pancreas	Pancrea
3	chr1:217125200-217135400	Weak transcription	Fetal Heart	heart
4	chr1:217125400-217126600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr1:217125400-217127000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr1:217125600-217127000	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr1:217125800-217126800	Weak transcription	Left Ventricle	heart
8	chr1:217126000-217126600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr1:217126000-217126800	Enhancers	H9 Cell Line	embryonic stem cell
10	chr1:217126000-217127000	Enhancers	HUES64 Cell Line	embryonic stem cell

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