Variant report

Variant	rs11186862
Chromosome Location	chr10:93983657-93983658
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10882029	0.93[ASN][1000 genomes]
rs10882034	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882035	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882036	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882039	0.93[ASN][1000 genomes]
rs10882043	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11186840	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11186848	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186851	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11186869	0.93[ASN][1000 genomes]
rs11186872	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12246924	0.93[ASN][1000 genomes]
rs2011483	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3740302	0.93[ASN][1000 genomes]
rs56072007	0.94[ASN][1000 genomes]
rs57381242	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59386062	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66521023	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66882667	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7073372	0.93[ASN][1000 genomes]
rs7080101	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7080731	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7098170	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs730075	0.82[ASN][1000 genomes]
rs7900400	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7917088	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs932820	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9804247	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv975763	chr10:93822289-94105956	Enhancers Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11186862	TNKS2	cis	Thyroid	GTEx

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93927400-93997800	Weak transcription	Fetal Intestine Large	intestine
2	chr10:93929200-93984800	Weak transcription	Fetal Intestine Small	intestine
3	chr10:93959000-93985800	Weak transcription	Brain Substantia Nigra	brain
4	chr10:93961000-93990800	Weak transcription	Spleen	Spleen
5	chr10:93964200-93993000	Weak transcription	Fetal Brain Female	brain
6	chr10:93964200-93996000	Weak transcription	Brain Germinal Matrix	brain
7	chr10:93964200-93997600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr10:93966400-93986200	Weak transcription	Ovary	ovary
9	chr10:93967400-93986200	Weak transcription	Fetal Heart	heart
10	chr10:93967600-93986200	Weak transcription	Left Ventricle	heart
11	chr10:93967600-93990800	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr10:93968400-93997000	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr10:93968600-93989200	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr10:93969200-93997800	Weak transcription	Pancreas	Pancrea
15	chr10:93969200-93998600	Weak transcription	Lung	lung
16	chr10:93969600-93997800	Weak transcription	Esophagus	oesophagus
17	chr10:93971000-93990800	Weak transcription	Duodenum Mucosa	Duodenum
18	chr10:93971200-93984200	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr10:93971200-93990400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr10:93971400-93993200	Weak transcription	Fetal Muscle Leg	muscle
21	chr10:93971400-93997800	Weak transcription	Stomach Mucosa	stomach
22	chr10:93971600-93988000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr10:93971600-93989000	Weak transcription	Primary B cells from peripheral blood	blood
24	chr10:93971600-93997000	Weak transcription	Adipose Nuclei	Adipose
25	chr10:93973000-93997000	Weak transcription	Liver	Liver
26	chr10:93974800-93991600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr10:93975400-93998000	Weak transcription	Colonic Mucosa	Colon
28	chr10:93975600-93997000	Weak transcription	HepG2	liver
29	chr10:93976600-93999000	Weak transcription	Aorta	Aorta
30	chr10:93976800-93984000	Weak transcription	Brain Anterior Caudate	brain
31	chr10:93976800-93989000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr10:93976800-93989400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr10:93976800-93990600	Weak transcription	Right Ventricle	heart
34	chr10:93976800-93997200	Weak transcription	Stomach Smooth Muscle	stomach
35	chr10:93976800-93998800	Weak transcription	Gastric	stomach
36	chr10:93977000-93998400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr10:93977600-93998000	Weak transcription	Primary B cells from cord blood	blood
38	chr10:93978200-93990600	Weak transcription	Fetal Stomach	stomach
39	chr10:93978600-93985800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:93979000-93991000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:93979200-93994600	Weak transcription	Fetal Brain Male	brain
42	chr10:93979400-93998600	Weak transcription	Primary T cells from cord blood	blood
43	chr10:93979800-93986800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr10:93979800-93996800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr10:93980400-93990800	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr10:93980800-93984200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr10:93980800-93986000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr10:93980800-93986000	Weak transcription	Brain Angular Gyrus	brain
49	chr10:93980800-93986000	Weak transcription	Brain Hippocampus Middle	brain
50	chr10:93980800-93989000	Weak transcription	Brain Cingulate Gyrus	brain

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