Variant report

Variant	rs16961553
Chromosome Location	chr18:28836704-28836705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10502562	0.82[AFR][1000 genomes]
rs10502564	0.82[AFR][1000 genomes]
rs1346166	0.82[AFR][1000 genomes]
rs1365291	0.82[AFR][1000 genomes]
rs16959853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961523	0.82[AFR][1000 genomes]
rs16961525	0.82[AFR][1000 genomes]
rs16961526	0.82[AFR][1000 genomes]
rs16961531	0.82[AFR][1000 genomes]
rs16961534	0.82[AFR][1000 genomes]
rs16961535	0.82[AFR][1000 genomes]
rs16961544	0.82[AFR][1000 genomes]
rs16961547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961554	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961562	1.00[AMR][1000 genomes]
rs16961603	1.00[AMR][1000 genomes]
rs16961607	1.00[AMR][1000 genomes]
rs16961612	1.00[AMR][1000 genomes]
rs35162901	0.82[AFR][1000 genomes]
rs57902116	1.00[AMR][1000 genomes]
rs58788919	0.82[AFR][1000 genomes]
rs59401819	0.82[AFR][1000 genomes]
rs60163794	0.82[AFR][1000 genomes]
rs60546751	0.82[AFR][1000 genomes]
rs6506902	0.82[AFR][1000 genomes]
rs6506906	1.00[AMR][1000 genomes]
rs7238045	1.00[AMR][1000 genomes]
rs7238707	1.00[AMR][1000 genomes]
rs8086759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8095737	0.82[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28827000-28841400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr18:28828000-28841400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr18:28833000-28840200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr18:28834400-28837200	Strong transcription	Liver	Liver
5	chr18:28835200-28836800	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr18:28835200-28836800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr18:28835200-28836800	Enhancers	HMEC	breast
8	chr18:28835600-28836800	Enhancers	GM12878-XiMat	blood
9	chr18:28835600-28841800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr18:28836600-28837200	Enhancers	NHEK	skin

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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