Variant report

Variant	rs16961679
Chromosome Location	chr18:28917892-28917893
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1365290	0.93[AMR][1000 genomes]
rs16961568	0.87[AMR][1000 genomes]
rs16961573	0.93[AMR][1000 genomes]
rs16961588	0.87[AMR][1000 genomes]
rs16961589	0.87[AMR][1000 genomes]
rs16961590	0.87[AMR][1000 genomes]
rs16961592	0.87[AMR][1000 genomes]
rs16961641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961657	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17728400	0.90[EUR][1000 genomes]
rs17801172	0.93[AMR][1000 genomes]
rs17801274	0.93[AMR][1000 genomes]
rs2912319	0.87[AMR][1000 genomes]
rs56697971	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59592286	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59593146	0.90[EUR][1000 genomes]
rs59844732	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62087705	0.86[AMR][1000 genomes]
rs62087706	0.93[AMR][1000 genomes]
rs62087754	0.93[AMR][1000 genomes]
rs62087755	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62087756	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62088669	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62088670	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62088672	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62088673	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62088674	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62088676	0.90[EUR][1000 genomes]
rs62088713	0.90[EUR][1000 genomes]
rs6506905	1.00[CEU][hapmap]
rs6506907	1.00[CEU][hapmap]
rs8090965	1.00[ASN][1000 genomes]
rs9966811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv916545	chr18:28898800-29166364	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv909516	chr18:28910615-28946104	Active TSS ZNF genes & repeats Enhancers Strong transcription Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28899600-28927200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr18:28904800-28933800	Weak transcription	Esophagus	oesophagus
3	chr18:28913600-28925000	Weak transcription	Liver	Liver
4	chr18:28917600-28918000	Enhancers	H1 Cell Line	embryonic stem cell
5	chr18:28917600-28918000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr18:28917600-28918000	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr18:28917600-28918000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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