Browse our latest Computational and Systems Biology articles

Page 67 of 125
    1. Computational and Systems Biology

    Control and regulation of acetate overflow in Escherichia coli

    Pierre Millard, Brice Enjalbert ... Fabien Létisse
    Elucidating the control and regulation of acetate overflow in E. coli reveals that acetate is not only an end-product but also a co-substrate and a global regulator of glucose metabolism.
    1. Computational and Systems Biology
    2. Developmental Biology

    Single-cell transcriptomics of the Drosophila wing disc reveals instructive epithelium-to-myoblast interactions

    Nicholas J Everetts, Melanie I Worley ... Iswar K Hariharan
    A single-cell atlas of the developing Drosophila wing disc at two time points enables a detailed understanding of the signals exchanged between different cell populations during development.
    1. Cell Biology
    2. Computational and Systems Biology

    Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast

    Rosemary Yu, Egor Vorontsov ... Jens Nielsen
    Global gene expression control mechanisms are modeled using a large dataset consisting of absolute-quantitative proteomics, transcriptomics, and partial metabolomics of Saccharomyces cerevisiae at a wide range of growth conditions.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Topological signatures in regulatory network enable phenotypic heterogeneity in small cell lung cancer

    Lakshya Chauhan, Uday Ram ... Mohit Kumar Jolly
    Network topology and gene expression patterns in small cell lung cancer reveal two mutually opposing teams of regulators that enable multistability and consequent non-genetic heterogeneity, a clinically unsolved challenge.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Increased longevity due to sexual activity in mole-rats is associated with transcriptional changes in the HPA stress axis

    Arne Sahm, Matthias Platzer ... Philip Dammann
    The fact that sexual activity/reproduction doubles the lifespan of certain rodent species is most likely linked to critical changes in the regulation of the hypothalamic–pituitary–adrenal stress axis.
    1. Computational and Systems Biology
    2. Neuroscience

    3DeeCellTracker, a deep learning-based pipeline for segmenting and tracking cells in 3D time lapse images

    Chentao Wen, Takuya Miura ... Koutarou D Kimura
    A deep learning-based pipeline was developed for extracting cellular signals flexibly from moving cells in 3D time lapse images, and it outperformed previous methods under different imaging conditions.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Effective dynamics of nucleosome configurations at the yeast PHO5 promoter

    Michael Roland Wolff, Andrea Schmid ... Ulrich Gerland
    The integration of multi-nucleosome configuration data with histone turnover and new chromatin accessibility data by systematically investigated 'regulated on-off-slide' models reveals promoter state transitions regulated by just one assembly process.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    Evidence for additive and synergistic action of mammalian enhancers during cell fate determination

    Jinmi Choi, Kseniia Lysakovskaia ... Patrick Cramer
    Temporal changes in genome-wide enhancer transcription activity during a transdifferentiation event reveal additive and synergistic enhancer cooperation.
    1. Computational and Systems Biology
    2. Developmental Biology

    Constructing and optimizing 3D atlases from 2D data with application to the developing mouse brain

    David M Young, Siavash Fazel Darbandi ... Stephan J Sanders
    A computational tool developed to construct three-dimensional anatomical atlases from two-dimensional data generates volumetrically complete and aligned atlases for all stages of development in the Allen Developing Mouse Brain Atlas.
    1. Computational and Systems Biology

    Stochastic logistic models reproduce experimental time series of microbial communities

    Lana Descheemaeker, Sophie de Buyl
    Properties of various microbial communities time series, such as the noise color and neutrality, are captured by stochastic generalized Lotka-Volterra equations, even in the absence of interactions.