Browse our Tools and Resources

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    1. Microbiology and Infectious Disease

    PGFinder, a novel analysis pipeline for the consistent, reproducible, and high-resolution structural analysis of bacterial peptidoglycans

    Ankur V Patel, Robert D Turner ... Stéphane Mesnage
    PGFinder is an open-source software dedicated to the analysis of peptidoglycan mass spectrometry data that paves the way for peptidoglycomics.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants

    Elizabeth Jaworski, Rose M Langsjoen ... Andrew L Routh
    Tiled-ClickSeq provides a simple and novel next-generation sequencing approach for complete genome sequencing of viruses including SARS-CoV-2, whilst capturing RNA recombination events and minority variants.
    1. Medicine
    2. Stem Cells and Regenerative Medicine

    Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19

    Courtney Tindle, MacKenzie Fuller ... Soumita Das
    An integrated stem cell-based disease modeling and computational approach demonstrates how proximal airway epithelium is critical for SARS-CoV-2 infectivity and distal alveolar cells are critical for simulating the host responses.
    1. Neuroscience

    A unified platform to manage, share, and archive morphological and functional data in insect neuroscience

    Stanley Heinze, Basil el Jundi ... Kevin Tedore
    The InsectBrain Database is a novel, freely available software tool designed to accelerate research in the field of insect neuroscience and to improve implementation of open data concepts.
    1. Neuroscience

    DeepEthogram, a machine learning pipeline for supervised behavior classification from raw pixels

    James P Bohnslav, Nivanthika K Wimalasena ... Christopher D Harvey
    DeepEthogram automatically classifies animal behavior videos into researcher-defined behaviors of interest, saving researcher time and enabling more detailed downstream analysis of behavior.
    1. Biochemistry and Chemical Biology
    2. Neuroscience

    Precise optical control of gene expression in C elegans using improved genetic code expansion and Cre recombinase

    Lloyd Davis, Inja Radman ... Sebastian Greiss
    A method combining optimised genetic code expansion and optogenetics allows dissection of neural circuits with single-cell precision in freely moving animals.
    1. Computational and Systems Biology

    PARROT is a flexible recurrent neural network framework for analysis of large protein datasets

    Daniel Griffith, Alex S Holehouse
    PARROT makes it easy for anyone to train and use system- or data-specific deep learning models that map between protein sequence and arbitrary sequence annotations.
    1. Immunology and Inflammation

    Ascorbic acid supports ex vivo generation of plasmacytoid dendritic cells from circulating hematopoietic stem cells

    Anders Laustsen, Renée M van der Sluis ... Rasmus O Bak
    Probing of various culture conditions leads to fundamental advances in ex vivo production of plasmacytoid dendritic cells for use in immunotherapy.
    1. Neuroscience

    The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging

    Casey Paquola, Jessica Royer ... Boris Bernhardt
    The BigBrainWarp toolbox facilitates integration of 3D human brain histology with neuroimaging, helping neuroscientists to utilise cytoarchitectural information in conjunction with in vivo imaging.
    1. Neuroscience

    Classification and genetic targeting of cell types in the primary taste and premotor center of the adult Drosophila brain

    Gabriella R Sterne, Hideo Otsuna ... Kristin Scott
    A split-GAL4 collection provides precise genetic targeting of 138 neuronal cell types in the subesophageal zone of adult Drosophila melanogaster.