Variant report

Variant	rs56788440
Chromosome Location	chr8:54844925-54844926
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10504159	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11984932	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11992921	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16919683	0.92[ASN][1000 genomes]
rs16919694	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1905359	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55938755	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56863500	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56900698	1.00[EUR][1000 genomes]
rs57122000	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57381301	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58070188	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58344188	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58564664	0.95[ASN][1000 genomes]
rs58603618	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58780122	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59371117	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59537268	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59633885	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60060985	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60067061	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs61054351	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73680368	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73680370	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73680373	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73680374	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023983	chr8:54790309-55145770	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv539623	chr8:54790309-55145770	Bivalent Enhancer Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2758160	chr8:54832990-55016965	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2759617	chr8:54832990-55016965	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv427821	chr8:54832990-55016965	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:54841400-54845800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:54842600-54845200	ZNF genes & repeats	A549	lung
3	chr8:54842600-54845600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr8:54843000-54845600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr8:54843000-54845800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr8:54843000-54845800	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr8:54843200-54845400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr8:54843400-54845600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr8:54843400-54845600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr8:54843400-54846000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
11	chr8:54843600-54845000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr8:54844200-54845400	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr8:54844200-54845400	ZNF genes & repeats	Liver	Liver
14	chr8:54844200-54845600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr8:54844600-54853000	Weak transcription	NHLF	lung
16	chr8:54844800-54845000	ZNF genes & repeats	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr8:54844800-54845000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr8:54844800-54845000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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