1,308 results found
    1. Computational and Systems Biology
    2. Neuroscience

    Bi-channel image registration and deep-learning segmentation (BIRDS) for efficient, versatile 3D mapping of mouse brain

    Xuechun Wang et al.
    A dual-channel image registration pipeline combined with deep-learning inference achieves accurate-and-flexible registration/segmentation/mapping of mouse brain.
    1. Plant Biology

    Accurate and versatile 3D segmentation of plant tissues at cellular resolution

    Adrian Wolny et al.
    Convolutional neural networks and graph partitioning algorithms can be combined into an easy-to-use tool for segmentation of cells in dense plant tissue volumes imaged with light microscopy.
    1. Neuroscience

    Extracellular space preservation aids the connectomic analysis of neural circuits

    Marta Pallotto et al.
    Automated segmentation of neurons and identification of synapses in electron micrographs is significantly improved by using simple modifications to chemical fixation protocols that preserve extracellular space in the brain.
    1. Developmental Biology

    The Wg and Dpp morphogens regulate gene expression by modulating the frequency of transcriptional bursts

    Rachael Bakker et al.
    Experimental results in Drosophila support a model in which gene expression is fundamentally controlled by morphogens tuning the same transcription parameter for genes that are expressed in highly diverse patterns.
    1. Cell Biology
    2. Developmental Biology

    CytoCensus, mapping cell identity and division in tissues and organs using machine learning

    Martin Hailstone et al.
    Easy-to-use image analysis software enables single cell quantitation of cell types and division rates in complex 3D tissues including living Drosophila brains, mouse embryos and Zebrafish organoids.
    1. Plant Biology

    Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth

    Martial Sankar et al.
    Combining high-resolution imaging with automated image segmentation and supervised machine learning achieves accurate cellular feature extraction and automated cell type recognition in a large-scale developmental process.
    1. Developmental Biology
    2. Plant Biology

    A digital 3D reference atlas reveals cellular growth patterns shaping the Arabidopsis ovule

    Athul Vijayan et al.
    Deep imaging, machine-learning-based segmentation, and tissue annotation resulted in a developmental series of 3D digital ovules with cellular resolution allowing next-level analysis of the ontogenesis of this complex organ.
    1. Neuroscience

    A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling

    Samsoon Inayat et al.
    Analysis methods for video data of rodents engaged in string-pulling behavior have been developed and used to highlight differences in motion profiles of Swiss Webster and C57Bl/6 mice.
    1. Neuroscience

    SynEM, automated synapse detection for connectomics

    Benedikt Staffler et al.
    The detection of chemical synapses in 3-dimensional electron microscopy data has been automated such that synapses in large-scale connectivity maps of the cerebral cortex, connectomes, can be charted without the need for human interaction.
    1. Computational and Systems Biology
    2. Developmental Biology

    MorphoGraphX: A platform for quantifying morphogenesis in 4D

    Pierre Barbier de Reuille et al.
    MorphoGraphX summarizes full 3D datasets as curved surface images (2.5D), enabling the efficient quantification of growth and gene expression data from large time-lapse volumetric datasets.

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