Variant report

Variant	rs2311740
Chromosome Location	chr10:89828889-89828890
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10788580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11202642	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11202645	0.94[AMR][1000 genomes];0.97[EUR][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	nsv831940	chr10:89811247-89989199	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1042027	chr10:89822721-89851993	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2311740	TNKS2	cis	parietal	SCAN
rs2311740	TNKS2	cis	cerebellum	SCAN

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89819400-89830400	Enhancers	Primary T cells from cord blood	blood
2	chr10:89819800-89832800	Enhancers	Primary B cells from peripheral blood	blood
3	chr10:89820800-89829400	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr10:89820800-89832400	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr10:89821600-89830800	Enhancers	Fetal Thymus	thymus
6	chr10:89822000-89829600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr10:89822200-89829600	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr10:89823000-89835600	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr10:89823600-89829800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:89825000-89829400	Weak transcription	NHLF	lung
11	chr10:89825200-89830800	Weak transcription	Lung	lung
12	chr10:89825200-89831600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr10:89825200-89835000	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr10:89825600-89829400	Weak transcription	NHDF-Ad	bronchial
15	chr10:89825800-89830800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr10:89826000-89830000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr10:89826000-89830400	Weak transcription	Liver	Liver
18	chr10:89826400-89830200	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr10:89826400-89839200	Weak transcription	Fetal Lung	lung
20	chr10:89826600-89830200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:89826600-89831600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr10:89826600-89835800	Weak transcription	Psoas Muscle	Psoas
23	chr10:89827000-89829800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr10:89827200-89829600	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr10:89827200-89829600	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr10:89827200-89831400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:89827200-89831600	Weak transcription	Fetal Muscle Leg	muscle
28	chr10:89827600-89830400	Weak transcription	Duodenum Mucosa	Duodenum
29	chr10:89827600-89831400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:89827800-89830000	Enhancers	Primary B cells from cord blood	blood
31	chr10:89828000-89830000	Weak transcription	Placenta	Placenta
32	chr10:89828000-89830600	Weak transcription	Adipose Nuclei	Adipose
33	chr10:89828000-89830800	Weak transcription	Primary hematopoietic stem cells	blood
34	chr10:89828200-89829400	Weak transcription	Spleen	Spleen
35	chr10:89828200-89831600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr10:89828200-89831600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr10:89828200-89839400	Weak transcription	Left Ventricle	heart
38	chr10:89828400-89830800	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr10:89828400-89831400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr10:89828400-89832000	Weak transcription	Thymus	Thymus
41	chr10:89828600-89829200	Enhancers	GM12878-XiMat	blood
42	chr10:89828600-89829800	Enhancers	Dnd41	blood
43	chr10:89828800-89829800	Enhancers	Monocytes-CD14+_RO01746	blood

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