Variant report

Variant	rs12879580
Chromosome Location	chr14:32883750-32883751
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:32730953..32733918-chr14:32882288..32884788,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11156742	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11624620	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11627622	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12436868	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12881908	0.81[YRI][hapmap];0.86[AFR][1000 genomes]
rs12888500	0.90[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12895473	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17098988	1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17098990	0.83[YRI][hapmap];0.87[AFR][1000 genomes]
rs1885131	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1957000	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1957001	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1957004	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2383300	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35534415	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3784183	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3784184	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825750	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4981154	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4981961	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4981962	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4981964	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4981965	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61981113	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8013938	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941743	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][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	esv2758352	chr14:32858480-33016442	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2759978	chr14:32858480-33016442	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:32876800-32895800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr14:32877400-32886000	Weak transcription	HSMMtube	muscle
3	chr14:32877600-32886200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr14:32880200-32884400	Enhancers	Brain Anterior Caudate	brain
5	chr14:32880200-32884600	Enhancers	Brain Angular Gyrus	brain
6	chr14:32880200-32889000	Enhancers	Brain Cingulate Gyrus	brain
7	chr14:32880600-32884400	Enhancers	Brain Substantia Nigra	brain
8	chr14:32881600-32887000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr14:32882000-32884400	Enhancers	Colon Smooth Muscle	Colon
10	chr14:32882600-32883800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr14:32882600-32884200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr14:32882600-32884400	Enhancers	Fetal Heart	heart
13	chr14:32882600-32884600	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr14:32882600-32888800	Enhancers	Brain Hippocampus Middle	brain
15	chr14:32882800-32884200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr14:32882800-32884600	Enhancers	HUVEC	blood vessel
17	chr14:32883000-32884400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr14:32883000-32884400	Enhancers	Rectal Smooth Muscle	rectum
19	chr14:32883000-32884400	Enhancers	NHEK	skin
20	chr14:32883200-32883800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr14:32883200-32883800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr14:32883200-32884200	Enhancers	Brain Germinal Matrix	brain
23	chr14:32883200-32884200	Enhancers	HMEC	breast
24	chr14:32883200-32884400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr14:32883200-32884400	Enhancers	Muscle Satellite Cultured Cells	--
26	chr14:32883200-32884400	Enhancers	HSMM	muscle
27	chr14:32883200-32884600	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr14:32883200-32884800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr14:32883400-32883800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr14:32883400-32884000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr14:32883400-32884400	Enhancers	iPS-18 Cell Line	embryonic stem cell
32	chr14:32883400-32886200	Weak transcription	Psoas Muscle	Psoas
33	chr14:32883400-32886400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr14:32883600-32884000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr14:32883600-32884800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr14:32883600-32886000	Weak transcription	Fetal Brain Female	brain

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