Variant report

Variant	rs10852458
Chromosome Location	chr16:69672410-69672411
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10048108	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10163235	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10454066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10500551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10852457	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11075727	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11075728	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11075730	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11075734	1.00[CEU][hapmap]
rs11639947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11641050	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11641233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11642030	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11642115	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11643240	0.96[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11643530	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11646884	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11648249	0.81[ASN][1000 genomes]
rs12232410	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12447326	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12447883	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12449005	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12595869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12595878	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12595927	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12596679	1.00[CEU][hapmap]
rs12596823	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13337236	0.99[ASN][1000 genomes]
rs1437135	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1437136	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16958970	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16959025	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16959035	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1800566	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1865965	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2118220	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2161631	0.95[CEU][hapmap]
rs2196574	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2217950	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2361838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2361839	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3169315	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3743673	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3885612	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4464069	1.00[CEU][hapmap]
rs4497676	1.00[CEU][hapmap]
rs4985518	1.00[CEU][hapmap]
rs4985523	1.00[CEU][hapmap]
rs55701476	0.81[AMR][1000 genomes]
rs55751101	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56316408	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57488237	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57565297	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60010276	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60472033	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61310815	0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61460899	0.97[ASN][1000 genomes]
rs6499239	0.96[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6499255	1.00[CEU][hapmap]
rs689455	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7186002	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7187653	0.94[CEU][hapmap]
rs7190652	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7194753	1.00[CEU][hapmap]
rs7196943	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7198242	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7200935	1.00[CEU][hapmap]
rs72783115	0.98[ASN][1000 genomes]
rs74026882	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74029403	0.88[EUR][1000 genomes]
rs8045142	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8045682	1.00[CEU][hapmap]
rs8046314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8047885	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8052086	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8053080	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8054000	0.95[ASN][1000 genomes]
rs8054096	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8060588	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs920191	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9788803	0.99[ASN][1000 genomes]
rs9788837	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9921045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9929720	1.00[CEU][hapmap]
rs9933526	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9940548	0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10852458	LOC440348	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:69645800-69681000	Weak transcription	Fetal Brain Female	brain
2	chr16:69647600-69705000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr16:69653600-69680800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr16:69653600-69689600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr16:69654200-69703600	Weak transcription	Brain Angular Gyrus	brain
6	chr16:69654200-69705600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr16:69654600-69705000	Weak transcription	Psoas Muscle	Psoas
8	chr16:69660400-69709600	Weak transcription	Fetal Brain Male	brain
9	chr16:69667000-69727600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr16:69667600-69681000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr16:69667800-69680800	Weak transcription	Colon Smooth Muscle	Colon
12	chr16:69669000-69673800	Weak transcription	NHDF-Ad	bronchial
13	chr16:69670400-69681000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr16:69670600-69680800	Weak transcription	Gastric	stomach
15	chr16:69670600-69680800	Weak transcription	Right Ventricle	heart
16	chr16:69670600-69680800	Weak transcription	NHLF	lung
17	chr16:69670600-69689200	Weak transcription	Brain Germinal Matrix	brain
18	chr16:69670800-69674000	Weak transcription	Primary hematopoietic stem cells	blood
19	chr16:69670800-69680600	Weak transcription	NHEK	skin
20	chr16:69670800-69680800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr16:69670800-69680800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr16:69670800-69680800	Weak transcription	Pancreas	Pancrea
23	chr16:69670800-69681000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr16:69670800-69681000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr16:69670800-69681000	Weak transcription	Lung	lung
26	chr16:69670800-69681000	Weak transcription	Ovary	ovary
27	chr16:69670800-69681000	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr16:69670800-69681000	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr16:69670800-69681000	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr16:69670800-69681000	Weak transcription	K562	blood
31	chr16:69670800-69689600	Weak transcription	Esophagus	oesophagus
32	chr16:69670800-69715400	Weak transcription	Aorta	Aorta
33	chr16:69671000-69676200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr16:69671000-69677800	Weak transcription	Liver	Liver
35	chr16:69671000-69680800	Weak transcription	Colonic Mucosa	Colon
36	chr16:69671000-69680800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr16:69671000-69680800	Weak transcription	Small Intestine	intestine
38	chr16:69671000-69680800	Weak transcription	Hela-S3	cervix
39	chr16:69671000-69681000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr16:69671000-69681000	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr16:69671000-69681000	Weak transcription	Fetal Kidney	kidney
42	chr16:69671200-69680800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr16:69671200-69680800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr16:69671200-69680800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr16:69671200-69680800	Weak transcription	Adipose Nuclei	Adipose
46	chr16:69671200-69680800	Weak transcription	Brain Hippocampus Middle	brain
47	chr16:69671200-69680800	Weak transcription	Dnd41	blood
48	chr16:69671200-69680800	Weak transcription	HSMM	muscle
49	chr16:69671200-69681000	Weak transcription	Stomach Smooth Muscle	stomach
50	chr16:69671200-69689600	Weak transcription	Spleen	Spleen

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