Variant report

Variant	rs668857
Chromosome Location	chr18:29905667-29905668
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10502592	0.88[CHB][hapmap]
rs11876773	0.88[CHB][hapmap]
rs1689030	0.94[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs16963285	0.88[CHB][hapmap]
rs1824304	0.88[CHB][hapmap]
rs594344	0.82[MKK][hapmap];0.86[YRI][hapmap]
rs595792	0.94[CEU][hapmap]
rs598074	0.93[EUR][1000 genomes]
rs606638	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs616601	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618004	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs619154	0.86[JPT][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs625361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs638142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638868	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs643836	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs644274	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs656946	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs657479	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs671090	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs677721	0.86[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681347	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs686196	0.88[CEU][hapmap];0.88[LWK][hapmap];0.97[MKK][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes]
rs687850	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7230250	0.88[CHB][hapmap]
rs736218	0.88[CHB][hapmap]
rs8084215	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][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	nsv833616	chr18:29792336-29964212	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29868200-29923800	Weak transcription	Gastric	stomach
2	chr18:29891000-29905800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr18:29891000-29914000	Weak transcription	Fetal Brain Female	brain
4	chr18:29897200-29918800	Weak transcription	Fetal Intestine Large	intestine
5	chr18:29897200-29926400	Weak transcription	Fetal Stomach	stomach
6	chr18:29897400-29909000	Weak transcription	Left Ventricle	heart
7	chr18:29897400-29923800	Weak transcription	Esophagus	oesophagus
8	chr18:29897400-29923800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr18:29898000-29906000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr18:29898000-29906400	Weak transcription	Small Intestine	intestine
11	chr18:29898000-29906600	Weak transcription	Brain Angular Gyrus	brain
12	chr18:29898000-29918600	Weak transcription	Fetal Intestine Small	intestine
13	chr18:29898200-29915400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr18:29899800-29908400	Weak transcription	Stomach Mucosa	stomach
15	chr18:29900000-29905800	Weak transcription	Liver	Liver
16	chr18:29900000-29906000	Weak transcription	Fetal Heart	heart
17	chr18:29902600-29907400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr18:29903400-29915800	Weak transcription	Fetal Brain Male	brain
19	chr18:29903600-29906400	Weak transcription	Psoas Muscle	Psoas
20	chr18:29904200-29913200	Weak transcription	Pancreas	Pancrea
21	chr18:29904200-29913800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr18:29904200-29915200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr18:29904400-29906400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr18:29904400-29906600	Weak transcription	Fetal Muscle Leg	muscle
25	chr18:29904400-29930000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr18:29904600-29906600	Weak transcription	Fetal Kidney	kidney
27	chr18:29904600-29906600	Weak transcription	Fetal Lung	lung
28	chr18:29904600-29917200	Weak transcription	HMEC	breast
29	chr18:29904800-29905800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr18:29904800-29905800	Weak transcription	Brain Hippocampus Middle	brain
31	chr18:29904800-29906000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr18:29904800-29906200	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr18:29904800-29906400	Weak transcription	HSMM	muscle
34	chr18:29904800-29906800	Enhancers	Adipose Nuclei	Adipose
35	chr18:29905000-29905800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr18:29905000-29906000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr18:29905000-29906200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr18:29905000-29906200	Weak transcription	Osteobl	bone
39	chr18:29905000-29908800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr18:29905200-29905800	Enhancers	HepG2	liver
41	chr18:29905400-29907000	Enhancers	Right Ventricle	heart
42	chr18:29905400-29907000	Enhancers	HSMMtube	muscle
43	chr18:29905400-29907800	Enhancers	Brain Anterior Caudate	brain
44	chr18:29905400-29907800	Enhancers	Brain Cingulate Gyrus	brain
45	chr18:29905400-29908200	Enhancers	Cortex derived primary cultured neurospheres	brain
46	chr18:29905600-29906400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr18:29905600-29906600	Enhancers	Stomach Smooth Muscle	stomach
48	chr18:29905600-29906800	Enhancers	Ovary	ovary
49	chr18:29905600-29907200	Enhancers	HUES48 Cell Line	embryonic stem cell
50	chr18:29905600-29907800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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