Variant report

Variant	rs16961525
Chromosome Location	chr18:28826864-28826865
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10502561	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10502562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10502563	1.00[AMR][1000 genomes]
rs10502564	1.00[AFR][1000 genomes]
rs1346166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1365291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16959853	0.82[AFR][1000 genomes]
rs16961508	1.00[AMR][1000 genomes]
rs16961510	0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961517	1.00[AMR][1000 genomes]
rs16961522	1.00[AMR][1000 genomes]
rs16961523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961528	1.00[AMR][1000 genomes]
rs16961531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961539	1.00[AMR][1000 genomes]
rs16961544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961547	0.82[AFR][1000 genomes]
rs16961551	0.82[AFR][1000 genomes]
rs16961553	0.82[AFR][1000 genomes]
rs16961554	0.82[AFR][1000 genomes]
rs16961556	0.82[AFR][1000 genomes]
rs16961558	0.82[AFR][1000 genomes]
rs35162901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58788919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59401819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60163794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60546751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60880428	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61049172	1.00[AMR][1000 genomes]
rs6506902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241480	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241623	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241921	0.89[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7242340	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7242348	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8086759	0.82[AFR][1000 genomes]
rs8095737	1.00[AFR][1000 genomes];1.00[AMR][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:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28820600-28828000	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr18:28824200-28827000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr18:28824200-28827600	Weak transcription	Pancreas	Pancrea
4	chr18:28824800-28830200	Weak transcription	Left Ventricle	heart
5	chr18:28825200-28835400	Weak transcription	Right Atrium	heart
6	chr18:28825400-28827400	Weak transcription	Liver	Liver
7	chr18:28825400-28828000	Enhancers	GM12878-XiMat	blood
8	chr18:28825800-28827600	Weak transcription	A549	lung
9	chr18:28826000-28827600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr18:28826000-28827600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr18:28826000-28829000	Weak transcription	NH-A	brain
12	chr18:28826000-28831000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr18:28826200-28827400	Weak transcription	HMEC	breast
14	chr18:28826200-28827600	Weak transcription	Fetal Intestine Small	intestine
15	chr18:28826200-28827600	Weak transcription	NHEK	skin
16	chr18:28826200-28828800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr18:28826200-28830200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr18:28826400-28827000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr18:28826600-28827600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr18:28826600-28827600	Weak transcription	Fetal Intestine Large	intestine
21	chr18:28826600-28827600	Weak transcription	Fetal Kidney	kidney
22	chr18:28826600-28827800	Weak transcription	HepG2	liver
23	chr18:28826600-28828000	Enhancers	Placenta Amnion	Placenta Amnion
24	chr18:28826800-28827000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr18:28826800-28827000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr18:28826800-28827600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr18:28826800-28827600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr18:28826800-28827800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr18:28826800-28828200	Enhancers	Hela-S3	cervix

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