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. Developmental Biology

    Single nuclei RNA-sequencing of adult brain neurons derived from type 2 neuroblasts reveals transcriptional complexity in the insect central complex

    Derek G Epiney, Gonzalo Morales Chaya ... Chris Q Doe
    The central complex of the adult Drosophila brain, required for sensorimotor integration, is transcriptionally complex as detected by single-cell transcriptome analysis.
    1. Neuroscience

    Dual-color optical activation and suppression of neurons with high temporal precision

    Noëmie Mermet-Joret, Andrea Moreno ... Sadegh Nabavi
    An optogenetic system capable of precise, high-frequency neuronal excitation using red pulsed light and rapid, millisecond inhibition using blue light.
    1. Neuroscience

    Anti-drift pose tracker (ADPT), a transformer-based network for robust animal pose estimation cross-species

    Guoling Tang, Yaning Han ... Pengfei Wei
    ADPT enhances the robustness of animal pose estimation by minimizing keypoint tracking drift, enabling more accurate multi-animal tracking and facilitating refined behavioral analysis across species.
    1. Neuroscience

    A toolbox for ablating excitatory and inhibitory synapses

    Aida Bareghamyan, Changfeng Deng ... Don B Arnold
    Novel genetically encoded tools PFE3, paGFE3, and chGFE3 can be used to reversibly ablate excitatory synapses constitutively, and inhibitory synapses in a light- or chemically dependent manner.
    1. Computational and Systems Biology

    Barcode-free multiplex plasmid sequencing using Bayesian analysis and nanopore sequencing

    Masaaki Uematsu, Jeremy M Baskin
    SAVEMONEY is a computational tool that guides users to mix plasmids prior to nanopore sequencing, reducing the effective cost of whole-plasmid sequencing to below that of Sanger sequencing.
    1. Cell Biology
    2. Immunology and Inflammation

    UFMTrack, an Under-Flow Migration Tracker enabling analysis of the entire multi-step immune cell extravasation cascade across the blood-brain barrier in microfluidic devices

    Mykhailo Vladymyrov, Luca Marchetti ... Britta Engelhardt
    The established under-flow migration tracker (UFMTrack) framework allows for automated and scalable studies of immune cell interactions with and extravasation across endothelial monolayer under flow in vitro.
    1. Developmental Biology

    A single-cell atlas of spatial and temporal gene expression in the mouse cranial neural plate

    Eric R Brooks, Andrew R Moorman ... Jennifer A Zallen
    Single-cell RNA sequencing and computational analysis define a spatial and temporal map of gene expression during early patterning and morphogenesis of the mouse cranial neural plate, providing a resource for elucidating the transcriptional basis of mammalian brain development.
    1. Biochemistry and Chemical Biology

    Decoding m6Am by simultaneous transcription-start mapping and methylation quantification

    Jianheng Fox Liu, Ben R Hawley ... Samie R Jaffrey
    CROWN-seq provides the first precise and quantitative map of N6,2’-O-dimethyladenosine (m6Am) in mRNA and snRNA, revealing the link between m6Am modification and efficient transcription, rather than translation and RNA stability.
    1. Developmental Biology

    3D reconstruction of neuronal allometry and neuromuscular projections in asexual planarians using expansion tiling light sheet microscopy

    Jing Lu, Hao Xu ... Kai Lei
    A high-resolution, high-speed tissue imaging analysis reveals how neural and muscular tissues coordinate during planarian growth and regeneration.
    1. Developmental Biology

    Spatial transcriptomics in the adult Drosophila brain and body

    Jasper Janssens, Pierre Mangeol ... Frank Schnorrer
    Spatial transcriptomics of adult Drosophila brain and body sections determined the spatial expression for 150 genes, which identified the locations of unknown neuronal cell types and transcriptional diversity within muscle.