Variant report

Variant	rs10489540
Chromosome Location	chr1:59159954-59159955
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:59153434..59155685-chr1:59156385..59160435,3	K562	blood:
2	chr1:59158510..59160600-chr1:59164102..59165657,2	MCF-7	breast:
3	chr1:58980558..58982758-chr1:59159727..59161929,2	K562	blood:

Variant related genes	Relation type
ENSG00000162601	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11207278	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11207284	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11207297	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11207299	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12062727	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12070703	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12073211	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12078684	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12080369	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12082192	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12092264	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12562490	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12737926	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12742701	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1323282	0.82[AMR][1000 genomes]
rs17117968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17118041	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17118097	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1961787	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2760482	0.82[YRI][hapmap];0.82[AMR][1000 genomes]
rs2760483	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2760485	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2811856	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2811858	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2897558	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35180093	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4244016	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4414067	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4483434	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4553223	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4612650	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4912361	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4912364	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4912365	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4912366	0.93[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4912371	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4912375	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55677434	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55892958	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56398740	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61292499	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6659809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6664796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6673162	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6682078	0.96[CEU][hapmap];0.91[CHB][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs999158	0.83[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10489540	DAB1///OMA1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59118200-59163400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:59119800-59162200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:59119800-59163200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:59121000-59161200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:59121400-59161000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:59121600-59161200	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:59121600-59161200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr1:59123800-59161800	Strong transcription	Dnd41	blood
9	chr1:59125000-59162200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:59125600-59161200	Strong transcription	Rectal Mucosa Donor 29	rectum
11	chr1:59129200-59161000	Strong transcription	H1 Cell Line	embryonic stem cell
12	chr1:59131200-59161000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr1:59131200-59161000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr1:59139600-59162800	Weak transcription	Fetal Brain Male	brain
15	chr1:59139800-59162000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr1:59143600-59160600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr1:59144600-59161800	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr1:59146600-59163200	Strong transcription	Osteobl	bone
19	chr1:59148000-59161000	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr1:59148000-59164000	Weak transcription	A549	lung
21	chr1:59148200-59164400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr1:59149200-59161000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr1:59149400-59160200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:59149800-59160000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr1:59151000-59163200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr1:59151400-59161000	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr1:59151400-59161200	Strong transcription	Duodenum Mucosa	Duodenum
28	chr1:59151400-59161400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr1:59151600-59160000	Strong transcription	NHDF-Ad	bronchial
30	chr1:59151800-59164400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr1:59152000-59161000	Weak transcription	Brain Substantia Nigra	brain
32	chr1:59152200-59163200	Strong transcription	Primary B cells from peripheral blood	blood
33	chr1:59153000-59160600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr1:59153000-59161200	Strong transcription	HUVEC	blood vessel
35	chr1:59153200-59161200	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr1:59153400-59162600	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr1:59153600-59161800	Weak transcription	Fetal Heart	heart
38	chr1:59153600-59164400	Weak transcription	Right Atrium	heart
39	chr1:59153600-59164800	Weak transcription	Esophagus	oesophagus
40	chr1:59153800-59162000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr1:59153800-59164000	Weak transcription	Gastric	stomach
42	chr1:59153800-59165000	Weak transcription	Pancreas	Pancrea
43	chr1:59154200-59161000	Strong transcription	Liver	Liver
44	chr1:59154400-59160000	Strong transcription	HMEC	breast
45	chr1:59154400-59161400	Strong transcription	Placenta	Placenta
46	chr1:59154600-59160600	Strong transcription	Adipose Nuclei	Adipose
47	chr1:59154600-59161000	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr1:59154600-59161200	Strong transcription	Fetal Intestine Large	intestine
49	chr1:59154600-59161200	Strong transcription	Fetal Thymus	thymus
50	chr1:59154800-59160200	Strong transcription	NH-A	brain

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