Variant report

Variant	rs11661183
Chromosome Location	chr18:24793163-24793164
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11659338	0.94[EUR][1000 genomes]
rs11660384	0.93[GIH][hapmap];0.92[TSI][hapmap]
rs11660925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11661240	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11663112	0.92[EUR][1000 genomes]
rs11663416	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11664424	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11874060	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11875079	0.93[EUR][1000 genomes]
rs1426870	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1593604	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1593605	0.94[EUR][1000 genomes]
rs16943384	0.93[EUR][1000 genomes]
rs16943395	0.92[EUR][1000 genomes]
rs16943397	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2006887	0.92[EUR][1000 genomes]
rs2247559	0.83[ASN][1000 genomes]
rs55756763	0.90[EUR][1000 genomes]
rs58269864	0.93[EUR][1000 genomes]
rs59648588	0.94[EUR][1000 genomes]
rs60539757	0.96[EUR][1000 genomes]
rs61499406	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7231906	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7241555	0.92[EUR][1000 genomes]
rs7242600	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72639454	0.97[EUR][1000 genomes]
rs72639455	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72639456	0.96[EUR][1000 genomes]
rs73408433	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7342997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8087045	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8087183	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8094742	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9635909	0.93[EUR][1000 genomes]
rs9635980	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909474	chr18:24683823-24832023	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv530515	chr18:24704459-24883897	Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv518698	chr18:24779601-24793163	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
4	esv3354552	chr18:24789654-24793852	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11661183	CHST9	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:24791800-24793200	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr18:24792200-24794000	Weak transcription	HMEC	breast
3	chr18:24793000-24793200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr18:24793000-24793400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr18:24793000-24793400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr18:24793000-24793800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr18:24793000-24793800	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr18:24793000-24794000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr18:24793000-24794200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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