Variant report

Variant	rs4586658
Chromosome Location	chr2:191379268-191379269
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10165897	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10209172	0.98[ASN][1000 genomes]
rs12478437	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12613365	0.89[LWK][hapmap]
rs12693578	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13019278	0.89[LWK][hapmap];0.81[AFR][1000 genomes]
rs13392968	1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs3811609	0.89[LWK][hapmap]
rs4129697	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4146923	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4264585	0.89[LWK][hapmap]
rs4324342	0.89[LWK][hapmap]
rs4438514	1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs4500977	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4853509	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4853708	0.81[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6707773	0.89[LWK][hapmap]
rs6711006	0.80[AFR][1000 genomes]
rs7584794	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585173	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4586658	FLJ20160	Cis_1M	lymphoblastoid	RTeQTL
rs4586658	INPP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:191334800-191394800	Weak transcription	HSMMtube	muscle
2	chr2:191349600-191394600	Weak transcription	NHLF	lung
3	chr2:191351400-191385400	Weak transcription	NHEK	skin
4	chr2:191352200-191380600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr2:191352400-191381600	Weak transcription	Osteobl	bone
6	chr2:191354600-191394600	Weak transcription	HSMM	muscle
7	chr2:191357200-191398200	Weak transcription	Fetal Kidney	kidney
8	chr2:191361600-191379800	Strong transcription	Fetal Thymus	thymus
9	chr2:191362800-191398200	Weak transcription	Fetal Brain Male	brain
10	chr2:191365000-191383200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr2:191365200-191380000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:191365200-191398000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr2:191365400-191392400	Weak transcription	HepG2	liver
14	chr2:191365800-191397400	Weak transcription	Liver	Liver
15	chr2:191366400-191386400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr2:191366600-191381000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr2:191367200-191393000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:191367400-191382400	Weak transcription	NHDF-Ad	bronchial
19	chr2:191368400-191379800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr2:191368600-191380000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr2:191369000-191379600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr2:191369000-191379800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr2:191369000-191394400	Weak transcription	Aorta	Aorta
24	chr2:191369200-191380000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr2:191370000-191380000	Weak transcription	Fetal Brain Female	brain
26	chr2:191370800-191382800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr2:191370800-191394400	Weak transcription	A549	lung
28	chr2:191371000-191379800	Weak transcription	Brain Germinal Matrix	brain
29	chr2:191371000-191393000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:191371800-191381000	Weak transcription	HMEC	breast
31	chr2:191372000-191394600	Weak transcription	Brain Anterior Caudate	brain
32	chr2:191372200-191385400	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr2:191372200-191394600	Weak transcription	Brain Substantia Nigra	brain
34	chr2:191373800-191390800	Weak transcription	Spleen	Spleen
35	chr2:191374000-191381200	Weak transcription	Brain Cingulate Gyrus	brain
36	chr2:191374000-191384400	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr2:191374000-191390800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr2:191374000-191390800	Weak transcription	Fetal Intestine Large	intestine
39	chr2:191374200-191379800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr2:191374200-191380400	Weak transcription	Placenta	Placenta
41	chr2:191375200-191379400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr2:191375200-191382400	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr2:191375200-191398600	Weak transcription	Ovary	ovary
44	chr2:191375400-191380000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr2:191376000-191385000	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr2:191376000-191397800	Weak transcription	Colon Smooth Muscle	Colon
47	chr2:191377000-191379400	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr2:191377000-191379600	Strong transcription	Primary T cells from cord blood	blood
49	chr2:191377200-191380200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr2:191377400-191379400	Strong transcription	Fetal Muscle Trunk	muscle

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