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Chromatin & Epigenetics

  • C-terminal binding protein 2 interacts with JUNB to control macrophage inflammation
    Open Access
    C-terminal binding protein 2 interacts with JUNB to control macrophage inflammation

    Benjamin A Strickland, Antonia Babl, Lena Wolff, Priya Singh, Marika E Friano, Franziska Greulich, N Henriette Uhlenhaut

    Benjamin A Strickland ... N Henriette Uhlenhaut

    Published 9 June 2025

    This study identifies CTBP2 as an oligomerization-dependent bridge between pro-inflammatory transcription factors and co-repressors that balances the expression of inflammatory genes.

  • DNA methylation predicts infection risk in kidney transplant recipients
    Open Access
    DNA methylation predicts infection risk in kidney transplant recipients

    Fei-Man Hsu, Harry Pickering, Liudmilla Rubbi, Michael Thompson, Elaine F Reed, Matteo Pellegrini, Joanna M Schaenman

    Fei-Man Hsu ... Joanna M Schaenman

    Published 5 May 2025

    This study analyzed DNA methylation perturbations in patients after kidney transplantation, revealing the infection risk can be predicted using DNA methylation profiles.

  • Single-molecule tracking reveals the dynamic turnover of Ipl1 at the kinetochores in <em>Saccharomyces cerevisiae</em>
    Open Access
    Single-molecule tracking reveals the dynamic turnover of Ipl1 at the kinetochores in Saccharomyces cerevisiae

    Nitesh Kumar Podh, Ayan Das, Akriti Kumari, Kirti Garg, Rashmi Yadav, Kirti Kashyap, Sahil Islam, Anupam Gupta, Gunjan Mehta

    Nitesh Kumar Podh ... Gunjan Mehta

    Published 18 April 2025

    Unlike ensemble averaging methods, this study visualizes the single molecules of Ipl1 in live yeast cells to quantify its recruitment dynamics and assembly as a part of the CPC at the kinetochores.

  • Predicting cell cycle stage from 3D single-cell nuclear-stained images
    Open Access
    Predicting cell cycle stage from 3D single-cell nuclear-stained images

    Gang Li, Eva K Nichols, Valentino E Browning, Nicolas J Longhi, Madison Sanchez-Forman, Conor K Camplisson, Brian J Beliveau, William Stafford Noble

    Gang Li ... William Stafford Noble

    Published 3 April 2025

    CellCycleNet simplifies cell cycle staging from microscopy images using only a nuclear stain (DAPI). Trained on Fucci2a reporter data, our 3D deep learning model achieves high classification accuracy (AUROC = 0.95), providing a cost-effective, intervention-free tool for cell cycle profiling.

  • Canonical and non-canonical PRC1 differentially contribute to regulation of neural stem cell fate
    Open Access
    Canonical and non-canonical PRC1 differentially contribute to regulation of neural stem cell fate

    Janine Hoffmann, Theresa M Schütze, Annika Kolodziejczyk, Karolin Küster, Annekathrin Kränkel, Susanne Reinhardt, Razvan P Derihaci, Cahit Birdir, Pauline Wimberger, Haruhiko Koseki, Mareike Albert

    Janine Hoffmann ... Mareike Albert

    Published 11 February 2025

    Epigenetic regulation affects the capacity of stem cells to proliferate and differentiate, with canonical PRC1 being particularly important for neural stem cell fate.

  • PICH impacts the spindle assembly checkpoint via its DNA translocase and SUMO-interaction activities
    Open Access
    PICH impacts the spindle assembly checkpoint via its DNA translocase and SUMO-interaction activities

    Bunu Lama, Hyewon Park, Anita Saraf, Victoria Hassebroek, Daniel Keifenheim, Tomoko Saito-Fujita, Noriko Saitoh, Vasilisa Aksenova, Alexei Arnaoutov, Mary Dasso, Duncan J Clarke, Yoshiaki Azuma

    Bunu Lama ... Yoshiaki Azuma

    Published 7 February 2025

    Genome-edited cell lines for PICH depletion or replacement to loss of function mutants revealed an unidentified PICH function impacting SAC activity through modulating Bub1 association at kinetochores.

  • High-resolution analysis of human centromeric chromatin
    Open Access
    High-resolution analysis of human centromeric chromatin

    Daniël P Melters, Minh Bui, Tatini Rakshit, Sergei A Grigoryev, David Sturgill, Yamini Dalal

    Daniël P Melters ... Yamini Dalal

    Published 23 January 2025

    Centromeres contain two physically distinct CENP-A nucleosomes, one of which associates with the CENP-C complex, and regulating CENP-C levels is critical for accessibility of the centromeric chromatin fiber for transcriptional machinery.

  • KAT6B is required for histone 3 lysine 9 acetylation and SOX gene expression in the developing brain
    Open Access
    KAT6B is required for histone 3 lysine 9 acetylation and SOX gene expression in the developing brain

    Maria I Bergamasco, Waruni Abeysekera, Alexandra L Garnham, Yifang Hu, Connie SN Li-Wai-Suen, Bilal N Sheikh, Gordon K Smyth, Tim Thomas, Anne K Voss

    Maria I Bergamasco ... Anne K Voss

    Published 13 November 2024

    Heterozygous mutations in the MYST family histone lysine acetyltransferase, KAT6B, cause intellectual disability disorders. This study identifies the histone and gene targets of KAT6B which include SOX2, a master regulator of neural stem and progenitor cells.

  • Chromosome-specific barcode system with centromeric repeat in cultivated soybean and wild progenitor
    Open Access
    Chromosome-specific barcode system with centromeric repeat in cultivated soybean and wild progenitor

    Ahmet L Tek, Kiyotaka Nagaki, Hümeyra Yıldız Akkamış, Keisuke Tanaka, Hisato Kobayashi

    Ahmet L Tek ... Hisato Kobayashi

    Published 1 October 2024

    A centromeric satellite DNA forms a higher order repeat structure for each chromosome in both cultivated and wild soybean genomes. This unique system provides a chromosome barcode and glimpses centromere conservation during domestication and breeding.

  • Nanoscale imaging of DNA-RNA identifies transcriptional plasticity at heterochromatin
    Open Access
    Nanoscale imaging of DNA-RNA identifies transcriptional plasticity at heterochromatin

    Christelle Guillermier, Naveen VG Kumar, Ronan C Bracken, Diana Alvarez, John O’Keefe, Aditi Gurkar, Jonathan D Brown, Matthew L Steinhauser

    Christelle Guillermier ... Matthew L Steinhauser

    Published 17 September 2024

    Imaging mass spectrometry quantifies spatial relationships between DNA and newly formed RNA in the nucleus and illuminates transcription plasticity at condensed DNA.

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