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. Computational and Systems Biology

    A real-time, multi-animal model for automatic face detection and identification of freely moving common marmosets based on YOLOv8 algorithms

    Jiayue Yang, James Wang, Justine Cléry
    A generalizable computational approach automatically identifies individual common marmosets to serve as support for presenting and analyzing behavioral tasks without relying on extensive manual work.
    1. Computational and Systems Biology
    2. Neuroscience

    Opening the black box toward a modular approach to spike sorting

    Samuel Garcia, Chris Halcrow ... Pierre Yger
    Modularized spike sorting pipelines can identify performance bottlenecks, lower contribution barriers, and enable the development of highly accurate algorithms to turn extracellular recordings into spikes.
    1. Computational and Systems Biology
    2. Neuroscience

    Real-time closed-loop feedback system for mouse mesoscale cortical signal and movement control

    Pankaj Kumar Gupta, Timothy H Murphy
    The open-source closed-loop system enables mice to learn modulation of cortical activity or movement by providing a platform for testing brain-behavior relationships in motor learning and neurorehabilitation research.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Linear antibody epitope prediction using AlphaFold2

    Jacob DeRoo, James S Terry ... Brian J Geiss
    AlphaFold2 can be used to accurately determine linear epitopes of antibodies with known heavy and light chain sequences.
    1. Neuroscience

    An applicable and efficient retrograde monosynaptic circuit mapping tool for larval zebrafish

    Tian-Lun Chen, Qiu-Sui Deng ... Xu-Fei Du
    An optimized rabies virus-based methodology enables efficient monosynaptic input mapping and circuit reconstruction from genetically defined neurons in larval zebrafish.
    1. Biochemistry and Chemical Biology

    A simplified and highly efficient cell-free protein synthesis system for prokaryotes

    Xianshengjie Lang, Changbin Zhang ... Wenfei Li
    A streamlined seven-component cell-free expression platform simplifies reaction design while maintaining high productivity and enabling robust synthesis of challenging proteins for diverse applications.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    A tool to pulse-label yeast nuclear pore complexes in imaging and biochemical experiments

    Annemiek C Veldsink, Jonas S Fischer ... Liesbeth M Veenhoff
    A non-perturbative nanobody-based strategy was developed for pulse-labeling yeast nuclear pore complexes to selectively capture Nup84-containing complexes for imaging and biochemical analysis.
    1. Neuroscience

    Efficient and reproducible pipelines for spike sorting large-scale electrophysiology data

    Alessio Paolo Buccino, Arjun Sridhar ... Joshua H Siegle
    Parallelized, cloud-compatible pipelines reduce spike sorting of large-scale neural recordings from weeks to hours, and enable systematic benchmarking of algorithms on hybrid data.
    1. Microbiology and Infectious Disease

    High-throughput quantification of population dynamics using luminescence

    Malte Muetter, Daniel C Angst ... Sebastian Bonhoeffer
    Tracking luminescent reporter light intensity is a fast, easy way to quantify population decline at high concentrations and tends to be a better proxy for biomass than for cell number.
    1. Immunology and Inflammation

    ImPaqT, a Golden Gate-based immunological toolkit for zebrafish transgenesis

    Saskia Hurst, Christiane Dimmler, Mark R Cronan
    ImPaqT is an immune toolkit that enables modular and expandable cloning of zebrafish transgenes using Golden Gate-based cloning techniques.