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Showing 1–5 of 5 results
Advanced filters: Author: Nils Krietenstein Clear advanced filters

  • The 4D Nucleome Project demonstrates the use of genomic assays and computational methods to measure genome folding and then predict genomic structure from DNA sequence, facilitating the discovery of potential effects of genetic variants, including variants associated with disease, on genome structure and function.

    • Job Dekker
    • Betul Akgol Oksuz
    • Feng Yue
    ResearchOpen Access
    Nature
    Volume: 649, P: 759-776

  • This analysis systematically evaluates cross-linking chemistry and chromatin fragmentation strategies commonly used in 3C assays and introduces an improved Hi-C protocol for detecting loops and compartments.

    • Betul Akgol Oksuz
    • Liyan Yang
    • Job Dekker
    ResearchOpen Access
    Nature Methods
    Volume: 18, P: 1046-1055

  • DNA sequence preferences or statistical positioning of histones has not explained genomic patterns of nucleosome organisation in vivo. Here, the authors establish DNA shape/mechanics as key elements that have evolved together with binding sites of DNA sequence-specific barriers so that such information directs nucleosome positioning by chromatin remodelers.

    • Elisa Oberbeckmann
    • Nils Krietenstein
    • Sebastian Eustermann
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-19

  • Perturbation of RNA polymerase II (Pol II) via chemical inhibition or dTAG-induced degradation and analysis using Micro-C and run-on sequencing show that enhancer–promoter contacts are dependent on transcription and stabilized by paused RNA Pol II.

    • Gilad Barshad
    • James J. Lewis
    • Charles G. Danko
    Research
    Nature Genetics
    Volume: 55, P: 1370-1380