2010
DOI: 10.1038/ng.530
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A map of open chromatin in human pancreatic islets

Abstract: Tissue-specific transcriptional regulation is central to human disease1. To identify regulatory DNA active in human pancreatic islets, we profiled chromatin by FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements)2–4 coupled with high-throughput sequencing. We identified ~80,000 open chromatin sites. Comparison of islet FAIRE-seq to five non-islet cell lines revealed ~3,300 physically linked clusters of islet-selective open chromatin sites, which typically encompassed single genes exhibiting islet-spe… Show more

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Cited by 524 publications
(538 citation statements)
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“…Open chromatin is much more likely to be sensitive to action of DNase I digestion, therefore DHS are typical of open chromatin. A similar technology of DNase-seq is called FAIRE-seq (Gaulton et al 2010). …”
Section: High Throughput Genomic Technologymentioning
confidence: 99%
“…Open chromatin is much more likely to be sensitive to action of DNase I digestion, therefore DHS are typical of open chromatin. A similar technology of DNase-seq is called FAIRE-seq (Gaulton et al 2010). …”
Section: High Throughput Genomic Technologymentioning
confidence: 99%
“…1,2 The rs7903146 single-nucleotide polymorphism (SNP), located in intron 3 and the one with the strongest association to T2D risk, has been the most widely studied TCF7L2 variant. Current evidence suggests that rs7903146 may affect risk of T2D through its effects on enhancer activity 3,4 resulting in higher TCF7L2 gene expression. [3][4][5] The rs7903146 SNP has been found located inside islet-selective open chromatin sites using either formaldehyde-assisted isolation of regulatory elements coupled with high throughput sequencing (FAIRE-seq), 3 or histone H3 lysine methylation modifications as marks of regulatory elements.…”
mentioning
confidence: 99%
“…Current evidence suggests that rs7903146 may affect risk of T2D through its effects on enhancer activity 3,4 resulting in higher TCF7L2 gene expression. [3][4][5] The rs7903146 SNP has been found located inside islet-selective open chromatin sites using either formaldehyde-assisted isolation of regulatory elements coupled with high throughput sequencing (FAIRE-seq), 3 or histone H3 lysine methylation modifications as marks of regulatory elements. 4 In addition, the T-allele of rs7903146 (ie, the allele associated with higher risk of T2D) has been found associated with higher TCF7L2 gene expression in human pancreatic islets, 5 and in luciferase reporter assays in the mouse pancreatic MIN6 cell line, 3,4 and the rat pancreatic 832/13 cell line.…”
mentioning
confidence: 99%
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