2,106 results found
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver

    Bryan J Matthews, David J Waxman
    Certain types of 3D chromatin loops are easy to predict from existing or easily obtainable 2D information, which benefits gene expression studies in tissues/cells/organisms without extensive pre-existing 3D information.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    The dynamic three-dimensional organization of the diploid yeast genome

    Seungsoo Kim et al.
    Yeast homologous chromosomes exhibit condition-specific mitotic pairing at both global and local scales.
    1. Chromosomes and Gene Expression
    2. Structural Biology and Molecular Biophysics

    Evidence for DNA-mediated nuclear compartmentalization distinct from phase separation

    David Trombley McSwiggen et al.
    Transient DNA interactions by DNA-binding proteins are utilized by herpes simple virus as an alternative route to generate membraneless compartments in the nucleus without invoking phase separation.
    1. Cell Biology
    2. Chromosomes and Gene Expression

    The composition and organization of Drosophila heterochromatin are heterogeneous and dynamic

    Joel M Swenson et al.
    Identification of novel components and regulators of heterochromatin reveals a spatially complex and dynamic organization.
    1. Structural Biology and Molecular Biophysics
    2. Cell Biology

    Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus

    Ignacio Izeddin et al.
    While the transcription factor c-Myc explores the space in the nucleus in an unrestricted manner, the elongation factor P-TEFb's sampling of the nucleus is constrained to a complex domain with fractal characteristics.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Pi-Pi contacts are an overlooked protein feature relevant to phase separation

    Robert McCoy Vernon et al.
    Statistics on the frequencies of pi interactions in folded protein structures enable successful prediction of intrinsically disordered protein phase separation, with clear implications for a physical understanding of cellular organization.
    1. Cell Biology
    2. Developmental Biology

    Differentiation alters stem cell nuclear architecture, mechanics, and mechano-sensitivity

    Su-Jin Heo et al.
    Nuclear reorganization and stiffening accompanies mesenchymal stem cell differentiation, resulting in increased sensitivity to mechanical perturbation.
    1. Human Biology and Medicine

    Point of View: Competency-based assessment for the training of PhD students and early-career scientists

    Michael F Verderame et al.
    A method to assess the training of scientists, based on a set of 10 core competencies, is proposed.
  1. Point of view: Motivating participation in open science by examining researcher incentives

    Sarah E Ali-Khan et al.
    A survey of researchers at the Montreal Neurological Institute and Hospital provides insights into the challenges and opportunities involved in adopting an open science policy across an entire patient-oriented academic institution.

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