Variant report

Variant	rs16961588
Chromosome Location	chr18:28849157-28849158
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1365290	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961568	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961573	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961579	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961589	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961590	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961592	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961601	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961605	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961609	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961613	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961641	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16961648	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs16961657	1.00[CEU][hapmap];0.82[MEX][hapmap]
rs16961679	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs17728162	0.83[ASN][1000 genomes]
rs17728400	0.88[EUR][1000 genomes]
rs17801172	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17801274	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2912319	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56697971	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59592286	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59593146	0.88[EUR][1000 genomes]
rs59844732	0.93[AMR][1000 genomes]
rs60220975	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs62087705	0.86[AMR][1000 genomes]
rs62087706	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62087750	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087751	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087754	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087755	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087756	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62088669	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62088670	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62088672	0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62088673	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62088674	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62088676	0.82[EUR][1000 genomes]
rs62088713	0.88[EUR][1000 genomes]
rs6506905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6506907	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7234474	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7237750	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8096678	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9966811	1.00[CEU][hapmap]

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:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28842600-28849200	Weak transcription	Fetal Kidney	kidney
2	chr18:28847600-28850400	Enhancers	Fetal Intestine Small	intestine
3	chr18:28847800-28849200	Enhancers	Stomach Mucosa	stomach
4	chr18:28847800-28849600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr18:28847800-28850800	Enhancers	Fetal Intestine Large	intestine
6	chr18:28848000-28849400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr18:28848000-28849400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr18:28848000-28849800	Enhancers	NHEK	skin
9	chr18:28848200-28849400	Enhancers	HMEC	breast
10	chr18:28848200-28849600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr18:28848200-28854800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr18:28848800-28849200	Enhancers	A549	lung
13	chr18:28848800-28849400	Flanking Active TSS	GM12878-XiMat	blood
14	chr18:28848800-28849400	Enhancers	Hela-S3	cervix
15	chr18:28848800-28850800	Enhancers	Liver	Liver
16	chr18:28849000-28849200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr18:28849000-28849400	Enhancers	NH-A	brain
18	chr18:28849000-28849600	Enhancers	Fetal Lung	lung
19	chr18:28849000-28849600	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr18:28849000-28849600	Enhancers	HepG2	liver
21	chr18:28849000-28849800	Active TSS	Pancreatic Islets	Pancreatic Islet
22	chr18:28849000-28850000	Enhancers	Small Intestine	intestine

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