Variant report

Variant	rs10112818
Chromosome Location	chr8:50842883-50842884
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10216383	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10504093	0.82[CHD][hapmap];0.88[JPT][hapmap]
rs10957710	0.82[JPT][hapmap]
rs1157932	0.88[JPT][hapmap]
rs11773979	0.83[AFR][1000 genomes]
rs12543434	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs12549981	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12679386	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13252824	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13264385	0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs13266009	0.83[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap]
rs13271446	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs1484806	0.84[MEX][hapmap];0.89[TSI][hapmap]
rs1486258	0.81[ASW][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1486263	0.83[CHD][hapmap]
rs1552316	0.83[MEX][hapmap];0.89[TSI][hapmap]
rs1552380	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17676077	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2054743	0.84[MEX][hapmap];0.89[TSI][hapmap]
rs2170953	0.81[ASW][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.83[AFR][1000 genomes]
rs2385554	0.90[ASW][hapmap];0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2385696	0.88[JPT][hapmap]
rs2385697	0.88[JPT][hapmap];0.83[AFR][1000 genomes]
rs2385699	0.84[MEX][hapmap];0.89[TSI][hapmap]
rs2449961	0.80[ASN][1000 genomes]
rs2450286	0.83[CHD][hapmap]
rs2450290	0.83[CHD][hapmap]
rs318851	0.86[CHD][hapmap];0.88[JPT][hapmap]
rs318853	0.86[CHD][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs318861	0.83[CHD][hapmap]
rs36160411	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3812424	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3812426	0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs4460388	0.88[JPT][hapmap];0.81[AFR][1000 genomes]
rs4873120	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs62503966	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6991925	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs923060	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs931293	0.82[JPT][hapmap]
rs9643685	0.81[AFR][1000 genomes]
rs9643689	0.86[CHD][hapmap];0.82[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap]

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	esv3353749	chr8:50530807-51139242	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv916392	chr8:50827638-51395140	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv971234	chr8:50842641-50848642	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10112818	SNTG1	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:50838600-50854400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr8:50838800-50853200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr8:50841800-50844000	Enhancers	Dnd41	blood
4	chr8:50842200-50850400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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