Tools and Resources

A Tools and Resources article allows authors to publish the details of new experimental techniques, datasets, software tools, and other resources.

Latest articles

    1. Genetics and Genomics

    One-step efficient generation of dual-function conditional knockout and geno-tagging alleles in zebrafish

    Wenyuan Li et al.
    Conditional gene knockout in combination with fluorescent labeling of different alleles can be achieved with high efficiency in zebrafish through NHEJ-mediated targeted insertion using a CRISPR/Cas system.
    1. Neuroscience

    DeepFly3D, a deep learning-based approach for 3D limb and appendage tracking in tethered, adult Drosophila

    Semih Günel et al.
    DeepFly3D, a deep learning-based software, measures limb and appendage movements in tethered, behaving Drosophila and enables precise behavioral measurements during neural recordings, stimulation, and other biological experiments.
    1. Neuroscience

    A statistical framework to assess cross-frequency coupling while accounting for confounding analysis effects

    Jessica K Nadalin et al.
    A new measure for cross-frequency coupling assesses phase-amplitude coupling and amplitude-amplitude coupling, and accounts for confounding factors such as low-frequency amplitude fluctuations, using a flexible statistical modeling approach.
    1. Biochemistry and Chemical Biology
    2. Physics of Living Systems

    Optical estimation of absolute membrane potential using fluorescence lifetime imaging

    Julia R Lazzari-Dean et al.
    Fluorescence lifetime imaging microscopy, paired with fluorescent, voltage-sensitive dyes, provides a method for measuring and quantifying membrane potentials of living cells.
    1. Neuroscience

    Visualizing endogenous opioid receptors in living neurons using ligand-directed chemistry

    Seksiri Arttamangkul et al.
    Opioid sensitive neurons were identified using a traceless affinity labeling strategy to covalently label endogenous mu-opioid receptors with fluorescent compounds in living brain slices from wild type animals.
    1. Epidemiology and Global Health
    2. Human Biology and Medicine

    Discovery proteomics in aging human skeletal muscle finds change in spliceosome, immunity, proteostasis and mitochondria

    Ceereena Ubaida-Mohien et al.
    The changes in the skeletal muscle proteome with age indicate the roots of the decline in muscle function with age.
    1. Neuroscience

    C. elegans neurons have functional dendritic spines

    Andrea Cuentas-Condori et al.
    Caenorhabditis elegans has bona fide dendritic spines, suggesting that the advantages of small model organisms, such as genetic manipulations and live-cell imaging, can be exploited to study dendritic spines.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    ASPEN, a methodology for reconstructing protein evolution with improved accuracy using ensemble models

    Roman Sloutsky, Kristen M Naegle
    Using different sets of input sequences to evolutionary reconstruction algorithms results in the exploration of many possible models, the intergration over which produces significantly more accurate models.
    1. Computational and Systems Biology
    2. Stem Cells and Regenerative Medicine

    Self-assembling manifolds in single-cell RNA sequencing data

    Alexander J Tarashansky et al.
    An iterative self-assembling algorithm identifies the intrinsic structures in single-cell transcriptomic data and helps to discover new cell populations that are undetectable by existing methods.
    1. Cell Biology
    2. Neuroscience

    Implementation of an antibody characterization procedure and application to the major ALS/FTD disease gene C9ORF72

    Carl Laflamme et al.
    An easy-to-implement antibody validation pipeline addresses the reproducibility crisis resulting from the use of non-specific antibodies.