3,071 results found
    1. Computational and Systems Biology

    Building accurate sequence-to-affinity models from high-throughput in vitro protein-DNA binding data using FeatureREDUCE

    Todd R Riley, Allan Lazarovici ... Harmen J Bussemaker
    A biophysically principled algorithm can build quantitative models of protein-DNA binding specificity of unprecedented accuracy from a leading type of high-throughput in vitro binding data.
    1. Chromosomes and Gene Expression
    2. Structural Biology and Molecular Biophysics

    Dissociation rate compensation mechanism for budding yeast pioneer transcription factors

    Benjamin T Donovan, Hengye Chen ... Michael G Poirier
    The budding yeast transcription factors Reb1 and Cbf1 function as pioneer factors by slowly dissociating from nucleosomes, allowing them to target and unwrap nucleosomes efficiently to regulate transcription.
    1. Structural Biology and Molecular Biophysics

    Measuring the sequence-affinity landscape of antibodies with massively parallel titration curves

    Rhys M Adams, Thierry Mora ... Justin B Kinney
    The absolute affinities of thousands of variant antibodies are measured in parallel using a combination of cell sorting and high-throughput DNA sequencing.
    1. Cell Biology
    2. Chromosomes and Gene Expression

    Quantification of protein abundance and interaction defines a mechanism for operation of the circadian clock

    Alex A Koch, James S Bagnall ... Andrew SI Loudon
    Dynamic interactions of core clock molecules are quantitively measured and mathematically modelled to reveal the hidden role of PER:CRY complexes in enhancing the mobility of CLOCK:BMAL1 to move to new DNA sites.
    1. Cancer Biology
    2. Cell Biology

    Different promoter affinities account for specificity in MYC-dependent gene regulation

    Francesca Lorenzin, Uwe Benary ... Elmar Wolf
    Differences in promoter affinity and MYC levels explain distinct expression profiles induced by physiological and oncogenic MYC.
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    Effects of common mutations in the SARS-CoV-2 Spike RBD and its ligand, the human ACE2 receptor on binding affinity and kinetics

    Michael I Barton, Stuart A MacGowan ... P Anton van der Merwe
    Common variants of the SARS-CoV-2 Spike protein and its ligand, the human ACE2 receptor, increase the binding affinity, suggesting that they could increase viral transmissibility.
    1. Structural Biology and Molecular Biophysics
    2. Chromosomes and Gene Expression

    Nuclear microenvironments modulate transcription from low-affinity enhancers

    Albert Tsai, Anand K Muthusamy ... Justin Crocker
    Efficient transcription from low-affinity enhancers is driven by nuclear microenvironments of transcription factors.
    1. Biochemistry and Chemical Biology

    RNA binding to human METTL3-METTL14 restricts N6-deoxyadenosine methylation of DNA in vitro

    Shan Qi, Javier Mota ... Yogesh K Gupta
    Structured RNA elements bind to the human methyltransferase like-3 (METTL3)-METTL14 enzyme complex with high affinity and restrict the formation of N6-deoxymethyladenosine in DNA.
    1. Microbiology and Infectious Disease

    Single cell, super-resolution imaging reveals an acid pH-dependent conformational switch in SsrB regulates SPI-2

    Andrew Tze Fui Liew, Yong Hwee Foo ... Linda J Kenney
    Inside the acidic vacuole, expression, DNA binding and DNA binding affinity of the Salmonella regulator SsrB is stimulated by acid pH.
    1. Chromosomes and Gene Expression
    2. Structural Biology and Molecular Biophysics

    CtIP forms a tetrameric dumbbell-shaped particle which bridges complex DNA end structures for double-strand break repair

    Oliver J Wilkinson, Alejandro Martín-González ... Mark Simon Dillingham
    Structural and biochemical analysis of human CtIP provides new insights into DNA break recognition, binding and bridging during homologous recombination.

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