Variant report

Variant	rs10022608
Chromosome Location	chr4:97444956-97444957
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10009386	0.86[ASN][1000 genomes]
rs10010700	0.82[ASN][1000 genomes]
rs10012312	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10012487	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10015613	0.81[EUR][1000 genomes]
rs10016180	0.90[JPT][hapmap]
rs10018197	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10021889	0.82[EUR][1000 genomes]
rs10032944	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10032960	0.82[ASN][1000 genomes]
rs10213429	0.82[EUR][1000 genomes]
rs11097505	0.84[EUR][1000 genomes]
rs11097514	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11932562	0.85[ASN][1000 genomes]
rs11935830	0.86[EUR][1000 genomes]
rs11946551	1.00[ASN][1000 genomes]
rs12639647	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12640599	0.98[ASN][1000 genomes]
rs12645609	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12645669	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12646509	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13139267	0.86[ASN][1000 genomes]
rs1354706	0.82[EUR][1000 genomes]
rs1400340	0.81[ASN][1000 genomes]
rs1400341	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1506319	0.82[EUR][1000 genomes]
rs1516670	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1516671	0.86[ASN][1000 genomes]
rs1516672	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1516673	0.85[ASN][1000 genomes]
rs1516676	0.95[ASN][1000 genomes]
rs1588981	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1911076	0.82[EUR][1000 genomes]
rs2090376	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2090377	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2102786	0.86[ASN][1000 genomes]
rs2203629	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2203630	0.86[ASN][1000 genomes]
rs2203631	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28407945	0.84[EUR][1000 genomes]
rs28409524	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34198564	0.85[ASN][1000 genomes]
rs4235424	0.86[ASN][1000 genomes]
rs4289448	0.86[ASN][1000 genomes]
rs4299674	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4619895	0.82[EUR][1000 genomes]
rs4699512	0.87[EUR][1000 genomes]
rs4699513	0.87[EUR][1000 genomes]
rs4699522	0.84[ASN][1000 genomes]
rs4699523	0.84[ASN][1000 genomes]
rs4699524	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5017345	0.86[ASN][1000 genomes]
rs57499976	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58334182	0.83[ASN][1000 genomes]
rs59070882	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6419138	0.84[ASN][1000 genomes]
rs6532611	0.86[ASN][1000 genomes]
rs6532613	0.86[ASN][1000 genomes]
rs6532614	0.86[ASN][1000 genomes]
rs6532615	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6532621	0.86[ASN][1000 genomes]
rs6532622	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532623	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532624	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6532626	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6816447	0.82[EUR][1000 genomes]
rs6826069	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6826365	0.86[ASN][1000 genomes]
rs6826478	0.86[ASN][1000 genomes]
rs6827340	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6829988	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6831693	0.86[ASN][1000 genomes]
rs6831867	0.86[ASN][1000 genomes]
rs6836315	0.86[ASN][1000 genomes]
rs6838629	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6852663	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6855505	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6856143	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72885485	0.85[ASN][1000 genomes]
rs7435962	0.85[ASN][1000 genomes]
rs7654868	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7664054	0.86[ASN][1000 genomes]
rs7664207	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7664279	0.84[ASN][1000 genomes]
rs7667137	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7670117	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7671980	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7677339	0.86[ASN][1000 genomes]
rs7677553	0.86[ASN][1000 genomes]
rs7684850	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7688060	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7688727	0.86[ASN][1000 genomes]
rs7698381	0.85[ASN][1000 genomes]
rs931842	0.82[EUR][1000 genomes]
rs9683832	0.86[ASN][1000 genomes]
rs9993653	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9998383	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs9999006	0.86[CEU][hapmap];0.91[JPT][hapmap];0.82[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	nsv879634	chr4:97371381-97727113	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv879635	chr4:97389090-97591085	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv1007650	chr4:97393803-97485770	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10022608	EIF4E	cis	parietal	SCAN
rs10022608	DAPP1	cis	parietal	SCAN
rs10022608	RAP1GDS1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:97442400-97446400	Weak transcription	Dnd41	blood
2	chr4:97442800-97446000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr4:97443600-97445000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:97444400-97445000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr4:97444600-97445200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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