Variant report

Variant	rs9526475
Chromosome Location	chr13:48964748-48964749
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11839271	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12100135	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs12430215	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12871740	0.80[EUR][1000 genomes]
rs1894255	0.85[CEU][hapmap]
rs1951775	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1981434	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1981435	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs198561	0.80[EUR][1000 genomes]
rs198604	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs198619	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2243626	1.00[ASW][hapmap];0.86[CEU][hapmap];0.81[GIH][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs2248488	0.81[CEU][hapmap]
rs2254423	0.81[EUR][1000 genomes]
rs375105	0.82[EUR][1000 genomes]
rs3803188	0.85[CEU][hapmap]
rs3809328	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs3825417	0.82[AMR][1000 genomes]
rs399413	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4151450	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4594153	0.82[EUR][1000 genomes]
rs4942765	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7139578	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap]
rs7984554	0.80[EUR][1000 genomes]
rs7984795	0.90[CEU][hapmap]
rs8001315	0.80[EUR][1000 genomes]
rs9316395	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap]
rs9316399	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs943278	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9526465	0.90[CEU][hapmap]
rs9526479	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs9535002	0.81[EUR][1000 genomes]
rs9535007	0.82[EUR][1000 genomes]
rs9535015	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9535016	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535018	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535032	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9535033	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9562819	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568029	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs9568031	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9568032	0.81[EUR][1000 genomes]
rs9568035	0.89[CEU][hapmap]
rs9568042	0.89[AFR][1000 genomes]
rs990814	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9526475	ITM2B	Cis_1M	lymphoblastoid	RTeQTL
rs9526475	LPAR6	cis	parietal	SCAN
rs9526475	ITM2B	cis	lymphoblastoid	seeQTL
rs9526475	ATAD2	trans	parietal	SCAN

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48909000-48972200	Weak transcription	NHEK	skin
2	chr13:48912200-48968200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr13:48914000-48965800	Weak transcription	Lung	lung
4	chr13:48914800-48972000	Weak transcription	NHLF	lung
5	chr13:48916800-48985400	Weak transcription	Colonic Mucosa	Colon
6	chr13:48918600-48967200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr13:48920200-48974400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr13:48921600-48972000	Weak transcription	Stomach Mucosa	stomach
9	chr13:48925200-48974800	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr13:48925400-48976400	Weak transcription	Ovary	ovary
11	chr13:48925600-48968000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr13:48926800-48972000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr13:48928200-48971800	Weak transcription	A549	lung
14	chr13:48929800-48968400	Weak transcription	Esophagus	oesophagus
15	chr13:48933400-48974000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr13:48934600-48984200	Weak transcription	Right Ventricle	heart
17	chr13:48935400-48968200	Weak transcription	Spleen	Spleen
18	chr13:48936000-48974600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr13:48936200-48968200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr13:48936400-48973200	Weak transcription	Hela-S3	cervix
21	chr13:48941800-48973200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr13:48942400-48967200	Weak transcription	Brain Germinal Matrix	brain
23	chr13:48943000-48970800	Weak transcription	Pancreas	Pancrea
24	chr13:48943600-48984200	Weak transcription	Brain Angular Gyrus	brain
25	chr13:48944000-48974400	Weak transcription	Brain Anterior Caudate	brain
26	chr13:48944200-48973800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr13:48944600-48965600	Weak transcription	Aorta	Aorta
28	chr13:48944600-48983400	Weak transcription	Psoas Muscle	Psoas
29	chr13:48945000-48966000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr13:48945000-48972000	Weak transcription	HSMMtube	muscle
31	chr13:48945200-48967000	Weak transcription	HepG2	liver
32	chr13:48945400-48974400	Weak transcription	Small Intestine	intestine
33	chr13:48949200-48967800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr13:48949400-48972800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr13:48949600-48965400	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr13:48949600-48968200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr13:48949600-48968200	Weak transcription	Fetal Kidney	kidney
38	chr13:48950000-48967800	Weak transcription	Stomach Smooth Muscle	stomach
39	chr13:48950000-48967800	Weak transcription	Thymus	Thymus
40	chr13:48950000-48968200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr13:48950600-48965600	Weak transcription	Left Ventricle	heart
42	chr13:48950600-48968400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr13:48951200-48965400	Weak transcription	Placenta	Placenta
44	chr13:48952600-48967400	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr13:48953800-48965400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr13:48953800-48972000	Weak transcription	Osteobl	bone
47	chr13:48954000-48965600	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr13:48954400-48972200	Weak transcription	HUVEC	blood vessel
49	chr13:48954800-48967200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr13:48954800-48967200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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