Variant report

Variant	rs13282106
Chromosome Location	chr8:9981900-9981901
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10087802	0.89[JPT][hapmap]
rs10088663	0.85[ASN][1000 genomes]
rs10088890	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10090114	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10100022	0.89[JPT][hapmap]
rs1023961	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11984513	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11986122	0.91[ASN][1000 genomes]
rs11990555	0.89[JPT][hapmap]
rs11993089	0.91[ASN][1000 genomes]
rs12678797	1.00[CEU][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12678800	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13249486	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs13254175	1.00[CEU][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13264586	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1351876	1.00[CEU][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1484639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1484640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1484642	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1484644	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1521190	0.80[ASN][1000 genomes]
rs1531918	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1531919	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17151244	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs17689007	0.80[AMR][1000 genomes]
rs17689037	0.80[AMR][1000 genomes]
rs17689563	0.90[ASN][1000 genomes]
rs17689674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2046399	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2046400	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2062331	0.83[ASW][hapmap];1.00[CEU][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];0.81[MKK][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2062332	0.92[CEU][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2062333	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2220149	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2220150	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2661755	0.80[ASN][1000 genomes]
rs4841281	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4841282	1.00[CEU][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4841284	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4841285	0.85[ASN][1000 genomes]
rs569446	0.80[ASN][1000 genomes]
rs57726127	0.90[ASN][1000 genomes]
rs57980126	0.80[ASN][1000 genomes]
rs58133870	0.80[ASN][1000 genomes]
rs58437548	0.80[ASN][1000 genomes]
rs60384372	0.82[AMR][1000 genomes]
rs658385	0.85[ASN][1000 genomes]
rs6601414	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6601415	1.00[CEU][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6983332	1.00[CEU][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6986885	0.81[CEU][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6986911	1.00[CEU][hapmap];0.89[JPT][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6995837	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6995859	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7005350	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7823314	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs7823714	0.89[JPT][hapmap]
rs7832670	0.89[JPT][hapmap]
rs7833387	1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7833895	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7843443	0.84[JPT][hapmap]
rs7843924	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs923046	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9329216	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs963592	1.00[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916493	chr8:9806580-10029482	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv610263	chr8:9941021-10090149	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1034343	chr8:9948342-10014155	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv831230	chr8:9953343-10139350	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1027280	chr8:9958259-10058984	Enhancers Active TSS Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1021921	chr8:9958259-10212555	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv1850829	chr8:9958321-10045451	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs13282106	TDH	cis	cerebellum	SCAN
rs13282106	MFHAS1	cis	cerebellum	SCAN
rs13282106	BLK	Cis_chr	lymphoblastoid	RTeQTL
rs13282106	C8orf5	Cis_1M	lymphoblastoid	RTeQTL
rs13282106	CTSB	cis	cerebellum	SCAN
rs13282106	FLJ10661	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:9970600-9995800	Weak transcription	Pancreas	Pancrea
2	chr8:9975600-9987400	Weak transcription	Brain Germinal Matrix	brain
3	chr8:9977000-9988000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr8:9978200-9988000	Weak transcription	Fetal Brain Female	brain
5	chr8:9980600-9988200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr8:9981200-9982000	Enhancers	Primary neutrophils fromperipheralblood	blood

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