Variant report

Variant	rs10502589
Chromosome Location	chr18:29924170-29924171
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10502588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10502590	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes]
rs1458860	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1458861	0.86[ASW][hapmap];0.90[MKK][hapmap]
rs16963135	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16963169	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963196	0.90[EUR][1000 genomes]
rs16963205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[EUR][1000 genomes]
rs16963218	0.90[EUR][1000 genomes]
rs16963225	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[EUR][1000 genomes]
rs16963230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[EUR][1000 genomes]
rs16963239	0.90[EUR][1000 genomes]
rs16963245	0.90[EUR][1000 genomes]
rs16963272	1.00[CEU][hapmap]
rs16963275	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs16963279	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs16963339	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs2034968	0.83[MKK][hapmap]
rs2421455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap]
rs35779665	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs41527551	0.83[MKK][hapmap]
rs55642668	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56945883	0.89[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs57613491	0.90[EUR][1000 genomes]
rs58503085	0.81[EUR][1000 genomes]
rs59676860	0.90[EUR][1000 genomes]
rs7228337	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7236432	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7237501	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7240587	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7240755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72931898	0.81[EUR][1000 genomes]
rs72933507	0.81[EUR][1000 genomes]
rs73956883	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73956895	1.00[EUR][1000 genomes]
rs73958411	0.81[EUR][1000 genomes]
rs8085402	0.81[EUR][1000 genomes]
rs902950	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs902951	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs931494	1.00[CEU][hapmap];1.00[CHB][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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10502589	DSG2	cis	lymphoblastoid	seeQTL

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29897200-29926400	Weak transcription	Fetal Stomach	stomach
2	chr18:29904400-29930000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr18:29910600-29929800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr18:29913400-29926600	Weak transcription	Aorta	Aorta
5	chr18:29915600-29929600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr18:29916000-29925000	Weak transcription	Brain Angular Gyrus	brain
7	chr18:29916000-29925000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr18:29919400-29926600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr18:29920000-29930200	Weak transcription	Stomach Mucosa	stomach
10	chr18:29921600-29938200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr18:29922200-29924200	Enhancers	Brain Substantia Nigra	brain
12	chr18:29922600-29924800	Weak transcription	Fetal Intestine Large	intestine
13	chr18:29922600-29929600	Weak transcription	Fetal Intestine Small	intestine
14	chr18:29922600-29929800	Weak transcription	Fetal Heart	heart
15	chr18:29923000-29926400	Weak transcription	Colon Smooth Muscle	Colon
16	chr18:29923400-29924200	Enhancers	Fetal Muscle Leg	muscle
17	chr18:29923400-29924200	Enhancers	Ovary	ovary
18	chr18:29923400-29924200	Enhancers	Right Ventricle	heart
19	chr18:29923400-29924400	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr18:29923800-29924200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr18:29923800-29924200	Enhancers	Gastric	stomach
22	chr18:29923800-29924200	Enhancers	Left Ventricle	heart
23	chr18:29923800-29924200	Enhancers	Pancreas	Pancrea
24	chr18:29923800-29924200	Enhancers	Psoas Muscle	Psoas
25	chr18:29923800-29924200	Enhancers	Right Atrium	heart
26	chr18:29923800-29924400	Enhancers	Adipose Nuclei	Adipose
27	chr18:29923800-29924400	Enhancers	Liver	Liver
28	chr18:29923800-29924400	Enhancers	Brain Hippocampus Middle	brain
29	chr18:29923800-29924400	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr18:29923800-29926200	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr18:29924000-29924200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr18:29924000-29924200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr18:29924000-29924200	Weak transcription	Lung	lung
34	chr18:29924000-29926800	Weak transcription	Fetal Brain Female	brain
35	chr18:29924000-29929800	Weak transcription	Esophagus	oesophagus
36	chr18:29924000-29930800	Enhancers	Brain Anterior Caudate	brain

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