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Showing 1–11 of 11 results
Advanced filters: Author: Daan Noordermeer Clear advanced filters

  • Most mammalian TAD boundaries, which separate functional chromosomal domains, bind the CTCF protein. Here, the authors identify multi-level clustering of CTCF binding sites at TAD boundaries and confirm their individual contribution to TAD formation.

    • Li-Hsin Chang
    • Sourav Ghosh
    • Daan Noordermeer
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-19

  • The three-dimensional organization of mammalian chromosomes can regulate transcription. Whether transcription itself influences genome structure has remained a source of debate. Using sensitive genome-wide readouts, two recent studies describe the involvement of transcription on genome architecture by different mechanisms.

    • Daan Noordermeer
    News & Views
    Nature Genetics
    Volume: 55, P: 1256-1258

  • How regulatory elements spatially interact with their target DNA sequences is unclear. The β-globin locus control region (LCR) is found to take part in interchromosomal interactions with a few genes controlled by shared transcription factors, and to transcriptionally upregulate β-globin mRNA in a subset of cells.

    • Daan Noordermeer
    • Elzo de Wit
    • Wouter de Laat
    Research
    Nature Cell Biology
    Volume: 13, P: 944-951

  • After the production of double-stranded breaks in mammalian cells, ATM drives the formation of the D compartment, which regulates DNA damage-responsive genes, through the clustering of damaged topologically associating domains, with a mechanism that is consistent with polymer–polymer phase separation.

    • Coline Arnould
    • Vincent Rocher
    • Gaëlle Legube
    ResearchOpen Access
    Nature
    Volume: 623, P: 183-192

  • The contractile properties of adult myofibers are shaped by their Myosin heavy chain isoform content. Here the authors show that a super enhancer controls the spatiotemporal expression of the genes at the fast myosin heavy chain locus by DNA looping and that this expression profile is recapitulated in a rainbow transgenic mouse model of the locus.

    • Matthieu Dos Santos
    • Stéphanie Backer
    • Pascal Maire
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-17

  • In this Review, the authors present an overview of our current understanding of the relationship between DNA methylation and three-dimensional chromatin architecture, discussing the extent to which DNA methylation may regulate the folding of the genome.

    • Ana Monteagudo-Sánchez
    • Daan Noordermeer
    • Maxim V. C. Greenberg
    Reviews
    Nature Structural & Molecular Biology
    Volume: 31, P: 404-412

  • A high-resolution map of enhancer three-dimensional contacts during Drosophila embryogenesis shows that although local regulatory interactions are frequent, long-range interactions are also very common; unexpectedly, most interactions appear unchanged between tissues and across development and are formed prior to gene expression, indicating that transcription initiates from preformed enhancer–promoter loops, which are associated with paused polymerase.

    • Yad Ghavi-Helm
    • Felix A. Klein
    • Eileen E. M. Furlong
    Research
    Nature
    Volume: 512, P: 96-100