Pancreatic islet chromatin accessibility and conformation reveals distal enhancer networks of type 2 diabetes risk View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-05-07

AUTHORS

William W. Greenwald, Joshua Chiou, Jian Yan, Yunjiang Qiu, Ning Dai, Allen Wang, Naoki Nariai, Anthony Aylward, Jee Yun Han, Nikita Kadakia, Laura Regue, Mei-Lin Okino, Frauke Drees, Dana Kramer, Nicholas Vinckier, Liliana Minichiello, David Gorkin, Joseph Avruch, Kelly A. Frazer, Maike Sander, Bing Ren, Kyle J. Gaulton

ABSTRACT

Genetic variants affecting pancreatic islet enhancers are central to T2D risk, but the gene targets of islet enhancer activity are largely unknown. We generate a high-resolution map of islet chromatin loops using Hi-C assays in three islet samples and use loops to annotate target genes of islet enhancers defined using ATAC-seq and published ChIP-seq data. We identify candidate target genes for thousands of islet enhancers, and find that enhancer looping is correlated with islet-specific gene expression. We fine-map T2D risk variants affecting islet enhancers, and find that candidate target genes of these variants defined using chromatin looping and eQTL mapping are enriched in protein transport and secretion pathways. At IGF2BP2, a fine-mapped T2D variant reduces islet enhancer activity and IGF2BP2 expression, and conditional inactivation of IGF2BP2 in mouse islets impairs glucose-stimulated insulin secretion. Our findings provide a resource for studying islet enhancer function and identifying genes involved in T2D risk. More... »

PAGES

2078

References to SciGraph publications

  • 2012-04-11. Topological domains in mammalian genomes identified by analysis of chromatin interactions in NATURE
  • 2016-10-19. Chromosome conformation elucidates regulatory relationships in developing human brain in NATURE
  • 2017-04-07. Pgltools: a genomic arithmetic tool suite for manipulation of Hi-C peak and other chromatin interaction data in BMC BIOINFORMATICS
  • 2015-09-28. Partitioning heritability by functional annotation using genome-wide association summary statistics in NATURE GENETICS
  • 2008-09-17. Model-based Analysis of ChIP-Seq (MACS) in GENOME BIOLOGY
  • 2016-07-11. The genetic architecture of type 2 diabetes in NATURE
  • 2018-01-09. Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers in CELL RESEARCH
  • 2012-02-28. ChromHMM: automating chromatin-state discovery and characterization in NATURE METHODS
  • 2015-11-09. Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci in NATURE GENETICS
  • 2017-10-12. Genetic effects on gene expression across human tissues in NATURE
  • 2010-01-31. A map of open chromatin in human pancreatic islets in NATURE GENETICS
  • 2015-09-14. WASP: allele-specific software for robust molecular quantitative trait locus discovery in NATURE METHODS
  • 2017-07-24. Mechanisms of Type 2 Diabetes Risk Loci in CURRENT DIABETES REPORTS
  • 2019-03-05. Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression in NATURE COMMUNICATIONS
  • 2012-09-05. An integrated encyclopedia of DNA elements in the human genome in NATURE
  • 2013-10-06. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position in NATURE METHODS
  • 2014-01-12. Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants in NATURE GENETICS
  • Journal

    TITLE

    Nature Communications

    ISSUE

    1

    VOLUME

    10

    Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/s41467-019-09975-4

    DOI

    http://dx.doi.org/10.1038/s41467-019-09975-4

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1113953567

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/31064983


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