Variant report

Variant	rs728908
Chromosome Location	chr1:173488449-173488450
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1024266	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10399838	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10494490	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10737301	1.00[CHB][hapmap]
rs10737303	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753078	1.00[CHB][hapmap]
rs10798283	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10798284	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798285	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798290	0.82[CEU][hapmap];0.80[CHB][hapmap]
rs10912624	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10912625	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10912626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10912632	0.92[AMR][1000 genomes]
rs10912634	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10912635	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10912636	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10912641	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912642	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912643	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912651	0.82[CEU][hapmap];0.83[AMR][1000 genomes]
rs10912656	0.88[MKK][hapmap];0.80[AMR][1000 genomes]
rs11582670	0.86[AMR][1000 genomes]
rs12026427	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12026637	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12026677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12026993	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12027451	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12027495	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12033623	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12034341	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12034533	0.92[AMR][1000 genomes]
rs12035105	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12037210	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12041114	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12065426	1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs12077271	0.81[ASN][1000 genomes]
rs12406352	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12406500	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12565753	0.81[ASN][1000 genomes]
rs12744504	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs12745058	0.81[ASN][1000 genomes]
rs1461014	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1461023	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1547155	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16846113	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16846206	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1886639	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1925340	0.92[AMR][1000 genomes]
rs2017323	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2422433	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2901747	0.81[AMR][1000 genomes]
rs2901748	0.81[AMR][1000 genomes]
rs35607505	0.81[ASN][1000 genomes]
rs3934575	1.00[CHB][hapmap]
rs3934576	1.00[CHB][hapmap]
rs4244195	1.00[CHB][hapmap]
rs4294450	1.00[CHB][hapmap]
rs4310474	1.00[CHB][hapmap]
rs4336887	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4539167	1.00[CHB][hapmap]
rs4916365	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4916368	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60043192	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6425248	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6425249	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6425251	0.82[CEU][hapmap];0.80[CHB][hapmap]
rs6660804	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs6671141	0.85[CHB][hapmap]
rs6675929	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6681766	0.80[CHB][hapmap]
rs6687872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6696443	0.81[ASN][1000 genomes]
rs6699094	1.00[CHB][hapmap]
rs6702320	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72709325	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7413754	0.81[ASN][1000 genomes]
rs745573	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs745574	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7516544	0.81[ASN][1000 genomes]
rs7520814	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7524592	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7525100	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7530469	1.00[CHB][hapmap]
rs7541082	0.82[CEU][hapmap];0.80[CHB][hapmap]
rs7549074	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs898657	0.86[AMR][1000 genomes]
rs898658	0.84[AMR][1000 genomes]
rs898659	0.84[AMR][1000 genomes]
rs912767	1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs728908	PRDX6	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173487200-173488600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr1:173487400-173488600	Enhancers	Primary T cells from cord blood	blood
3	chr1:173487400-173488600	Enhancers	Dnd41	blood
4	chr1:173487600-173488600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
5	chr1:173487600-173488600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:173487600-173488600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:173487600-173488600	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr1:173487600-173488600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr1:173487600-173488600	Enhancers	Fetal Kidney	kidney
10	chr1:173488000-173489600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr1:173488200-173488600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:173488400-173490200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr1:173488400-173490800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:173488400-173495200	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr1:173488400-173496000	Weak transcription	Right Atrium	heart
16	chr1:173488400-173496800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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