Variant report

Variant	rs59179413
Chromosome Location	chr9:107891888-107891889
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:107889900..107891931-chr9:107892522..107895026,3	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10991555	0.89[EUR][1000 genomes]
rs12003255	0.90[EUR][1000 genomes]
rs4317634	0.90[EUR][1000 genomes]
rs4381000	0.90[EUR][1000 genomes]
rs55872032	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56202605	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56232005	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66488152	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7022410	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7033651	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7047481	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72607116	0.90[EUR][1000 genomes]
rs72607117	0.90[EUR][1000 genomes]
rs72607118	0.90[EUR][1000 genomes]
rs72607119	0.90[EUR][1000 genomes]
rs72607120	0.90[EUR][1000 genomes]
rs72607121	0.90[EUR][1000 genomes]
rs72607122	0.90[EUR][1000 genomes]
rs72607123	0.90[EUR][1000 genomes]
rs72607124	0.90[EUR][1000 genomes]
rs72607125	0.90[EUR][1000 genomes]
rs7861505	0.80[EUR][1000 genomes]
rs7862701	0.80[EUR][1000 genomes]
rs7866729	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7872742	0.83[EUR][1000 genomes]
rs9792436	0.86[EUR][1000 genomes]
rs9792586	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9792666	0.86[EUR][1000 genomes]
rs9792667	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046935	chr9:107414720-108028061	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107882400-107900600	Weak transcription	Brain Hippocampus Middle	brain
2	chr9:107887600-107894600	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr9:107887800-107892600	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr9:107888000-107892600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:107888200-107892000	Enhancers	Primary hematopoietic stem cells	blood
6	chr9:107888200-107892400	Enhancers	Primary T cells fromperipheralblood	blood
7	chr9:107888200-107892400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:107888200-107892600	Enhancers	Placenta	Placenta
9	chr9:107888200-107892600	Enhancers	Fetal Thymus	thymus
10	chr9:107888400-107892000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr9:107888600-107892000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:107888800-107900800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:107889600-107895200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr9:107890000-107894200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:107890200-107892600	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr9:107890200-107894400	Weak transcription	Hela-S3	cervix
17	chr9:107890400-107892200	Weak transcription	Fetal Kidney	kidney
18	chr9:107890400-107892400	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr9:107890400-107892400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr9:107890400-107893400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr9:107890400-107894000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr9:107890400-107894200	Weak transcription	NHLF	lung
23	chr9:107890400-107894600	Weak transcription	NHDF-Ad	bronchial
24	chr9:107890400-107894800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr9:107890400-107895200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:107890600-107892400	Enhancers	Dnd41	blood
27	chr9:107890600-107892600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr9:107890600-107892600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr9:107890600-107894000	Weak transcription	NH-A	brain
30	chr9:107890600-107894200	Weak transcription	A549	lung
31	chr9:107890600-107894400	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr9:107890600-107894600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr9:107890600-107894600	Weak transcription	Osteobl	bone
34	chr9:107890600-107895000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:107890800-107892600	Enhancers	Primary T cells from cord blood	blood
36	chr9:107890800-107892600	Enhancers	Thymus	Thymus
37	chr9:107891000-107892400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:107891000-107893800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr9:107891200-107894600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr9:107891400-107892200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr9:107891400-107892200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr9:107891400-107892200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
43	chr9:107891400-107892400	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr9:107891600-107892600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr9:107891600-107893800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr9:107891600-107903000	Weak transcription	Esophagus	oesophagus

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