Variant report

Variant	rs10889118
Chromosome Location	chr1:59221647-59221648
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:59220212..59222272-chr1:59278796..59281544,2	MCF-7	breast:
2	chr1:59220027..59223017-chr1:59223976..59225807,2	K562	blood:
3	chr1:59221512..59223085-chr1:59223474..59225809,3	K562	blood:
4	chr1:59215864..59218251-chr1:59218581..59221945,3	MCF-7	breast:
5	chr1:59219806..59223167-chr1:59247510..59251005,5	MCF-7	breast:
6	chr1:59214840..59216632-chr1:59220643..59222898,2	K562	blood:
7	chr1:59212166..59214810-chr1:59218835..59222671,3	K562	blood:
8	chr1:59212166..59214915-chr1:59219961..59222671,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000177606	Chromatin interaction
ENSG00000234807	Chromatin interaction
ENSG00000272226	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11207303	0.97[ASN][1000 genomes]
rs11802053	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12021968	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12025067	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12028847	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12127952	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1323285	0.80[ASN][1000 genomes]
rs1570480	0.95[ASN][1000 genomes]
rs1969772	0.82[JPT][hapmap]
rs2760484	0.81[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap];0.84[TSI][hapmap]
rs6684756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10889118	OMA1	cis	cerebellum	SCAN
rs10889118	MYSM1	cis	parietal	SCAN
rs10889118	MYSM1	cis	cerebellum	SCAN

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59218000-59223200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr1:59218200-59223000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:59218200-59223200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr1:59218200-59223800	Enhancers	NHDF-Ad	bronchial
5	chr1:59218400-59221800	Enhancers	A549	lung
6	chr1:59218400-59222200	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr1:59218400-59222800	Enhancers	NHEK	skin
8	chr1:59218400-59223000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr1:59218600-59222400	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr1:59218600-59222400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr1:59218600-59222800	Enhancers	HMEC	breast
12	chr1:59218600-59223400	Enhancers	NHLF	lung
13	chr1:59218800-59222600	Enhancers	HSMM	muscle
14	chr1:59218800-59223200	Enhancers	Fetal Thymus	thymus
15	chr1:59219200-59221800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr1:59219200-59221800	Enhancers	Brain Cingulate Gyrus	brain
17	chr1:59219400-59222000	Enhancers	Liver	Liver
18	chr1:59219400-59222600	Enhancers	HepG2	liver
19	chr1:59219600-59222800	Enhancers	Osteobl	bone
20	chr1:59219800-59221800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:59219800-59222000	Enhancers	K562	blood
22	chr1:59219800-59222400	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr1:59219800-59222400	Enhancers	Aorta	Aorta
24	chr1:59219800-59222800	Enhancers	Right Atrium	heart
25	chr1:59219800-59223000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr1:59219800-59223000	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr1:59219800-59223200	Enhancers	Primary hematopoietic stem cells	blood
28	chr1:59219800-59223200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr1:59220000-59222000	Enhancers	Placenta Amnion	Placenta Amnion
30	chr1:59220000-59222000	Enhancers	Psoas Muscle	Psoas
31	chr1:59220000-59222200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr1:59220000-59222200	Enhancers	Lung	lung
33	chr1:59220000-59223200	Enhancers	Left Ventricle	heart
34	chr1:59220000-59223200	Enhancers	Small Intestine	intestine
35	chr1:59220000-59223400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr1:59220400-59222200	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr1:59220400-59222200	Enhancers	Brain Substantia Nigra	brain
38	chr1:59220400-59223200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
39	chr1:59220400-59223200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
40	chr1:59220600-59222000	Enhancers	Brain Anterior Caudate	brain
41	chr1:59220600-59222200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr1:59220600-59222200	Enhancers	Adipose Nuclei	Adipose
43	chr1:59220600-59222200	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr1:59220600-59222400	Enhancers	Thymus	Thymus
45	chr1:59220800-59221800	Enhancers	HUES6 Cell Line	embryonic stem cell
46	chr1:59220800-59221800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr1:59220800-59221800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
48	chr1:59220800-59221800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr1:59220800-59222600	Flanking Active TSS	Dnd41	blood
50	chr1:59220800-59223200	Enhancers	Duodenum Mucosa	Duodenum

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