Variant report

Variant	rs28538579
Chromosome Location	chr8:96068364-96068365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:96056185..96059291-chr8:96067561..96070788,3	MCF-7	breast:
2	chr8:96068165..96069769-chr8:96128418..96130836,2	K562	blood:
3	chr8:96066564..96073895-chr8:96144947..96151399,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175895	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10090057	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10090293	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10095570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10095895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10095935	1.00[EUR][1000 genomes]
rs10096991	1.00[EUR][1000 genomes]
rs10097190	1.00[EUR][1000 genomes]
rs10097223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10100838	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10101843	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10107910	1.00[EUR][1000 genomes]
rs10108090	1.00[EUR][1000 genomes]
rs10109093	1.00[EUR][1000 genomes]
rs10110511	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10111383	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10956935	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12334742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28395411	1.00[EUR][1000 genomes]
rs28411864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28573244	1.00[EUR][1000 genomes]
rs28620649	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28645447	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28785859	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58297413	1.00[EUR][1000 genomes]
rs59279108	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59353178	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60724818	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61910718	1.00[EUR][1000 genomes]
rs7000577	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7013875	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73276462	1.00[EUR][1000 genomes]
rs73276471	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73276474	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73276483	1.00[EUR][1000 genomes]
rs73276487	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73276494	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73276495	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73276497	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73276498	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73278508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73278511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73278524	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7823562	0.90[AFR][1000 genomes]
rs7839513	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs877351	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017301	chr8:95273503-96248352	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv539680	chr8:95273503-96248352	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv508520	chr8:95939373-96140068	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv891205	chr8:96062601-96115476	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:96037800-96070200	Weak transcription	Aorta	Aorta
2	chr8:96038200-96072400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr8:96038200-96080000	Weak transcription	Colonic Mucosa	Colon
4	chr8:96038400-96085200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr8:96042800-96072200	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr8:96044200-96071800	Strong transcription	Dnd41	blood
7	chr8:96045000-96068800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr8:96046400-96070200	Weak transcription	Gastric	stomach
9	chr8:96048400-96071800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr8:96052200-96070200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr8:96056200-96068600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr8:96058400-96068800	Strong transcription	Fetal Muscle Trunk	muscle
13	chr8:96061600-96070000	Weak transcription	NHDF-Ad	bronchial
14	chr8:96061800-96068600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr8:96062000-96070400	Weak transcription	Right Ventricle	heart
16	chr8:96062000-96073200	Weak transcription	Psoas Muscle	Psoas
17	chr8:96062000-96078400	Weak transcription	Small Intestine	intestine
18	chr8:96062000-96083800	Weak transcription	Fetal Brain Male	brain
19	chr8:96062200-96070200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr8:96062200-96070200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr8:96062200-96070200	Weak transcription	NHEK	skin
22	chr8:96062200-96072600	Weak transcription	Fetal Heart	heart
23	chr8:96062400-96073000	Weak transcription	Pancreas	Pancrea
24	chr8:96062600-96070200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr8:96062600-96070200	Weak transcription	Brain Germinal Matrix	brain
26	chr8:96062600-96070200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr8:96062600-96070200	Weak transcription	Esophagus	oesophagus
28	chr8:96062600-96070200	Weak transcription	Lung	lung
29	chr8:96062600-96070200	Weak transcription	Spleen	Spleen
30	chr8:96062600-96070200	Weak transcription	Osteobl	bone
31	chr8:96062600-96072000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr8:96062600-96072800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr8:96062600-96079000	Weak transcription	NHLF	lung
34	chr8:96062600-96079800	Weak transcription	Brain Cingulate Gyrus	brain
35	chr8:96062800-96073000	Weak transcription	Ovary	ovary
36	chr8:96062800-96074600	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr8:96062800-96079200	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr8:96062800-96079800	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr8:96062800-96080200	Weak transcription	Brain Angular Gyrus	brain
40	chr8:96063000-96069600	Weak transcription	Hela-S3	cervix
41	chr8:96063000-96070200	Weak transcription	Brain Hippocampus Middle	brain
42	chr8:96063000-96070200	Weak transcription	Rectal Smooth Muscle	rectum
43	chr8:96063200-96074200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr8:96063200-96078800	Weak transcription	HSMM	muscle
45	chr8:96063200-96078800	Weak transcription	NH-A	brain
46	chr8:96063400-96068400	Weak transcription	Fetal Brain Female	brain
47	chr8:96063400-96070200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr8:96063400-96070200	Weak transcription	Colon Smooth Muscle	Colon
49	chr8:96063400-96070200	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr8:96063400-96071800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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