Browse our Tools and Resources

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    1. Neuroscience

    Fully autonomous mouse behavioral and optogenetic experiments in home-cage

    Yaoyao Hao, Alyse Marian Thomas, Nuo Li
    A fully automated workflow for high-throughput mouse behavioral and optogenetic experiments in homecage reveals involvement of brain regions in tactile decision-making.
    1. Cell Biology
    2. Immunology and Inflammation

    Molecular tracking devices quantify antigen distribution and archiving in the murine lymph node

    Shannon M Walsh, Ryan M Sheridan ... Beth Ann Jiron Tamburini
    Antigen-phosphorothioate DNA conjugation provides a vaccination strategy where stable barcodes facilitate the detection and quantification of antigen using single-cell RNA sequencing.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    ImmunoCluster provides a computational framework for the nonspecialist to profile high-dimensional cytometry data

    James W Opzoomer, Jessica A Timms ... Shahram Kordasti
    ImmunoCluster permits nonspecialist users to interrogate liquid and imaging mass, and flow cytometry datasets, resolving novel layers of cellular heterogeneity and insight, as well as producing publishable outputs and figures.
    1. Epidemiology and Global Health
    2. Genetics and Genomics

    Single mosquito metatranscriptomics identifies vectors, emerging pathogens and reservoirs in one assay

    Joshua Batson, Gytis Dudas ... Hanna Retallack
    How large-scale single mosquito metatranscriptomics can define the mosquito’s complex microbiota and its blood meal sources, and contribute critical epidemiological information needed to control vector borne disease transmission, is shown.
    1. Chromosomes and Gene Expression

    Chromatin structure-dependent histone incorporation revealed by a genome-wide deposition assay

    Hiroaki Tachiwana, Mariko Dacher ... Noriko Saitoh
    A new method using permeabilized cells and recombinant histones enables to analyze histone incorporations at the DNA sequence level.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    CRISPR-based functional genomics in human dendritic cells

    Marco Jost, Amy N Jacobson ... Jonathan S Weissman
    A CRISPR-based method enables targeted knockouts and genetic screens in human dendritic cells.
    1. Cell Biology

    A robust method for particulate detection of a genetic tag for 3D electron microscopy

    James Rae, Charles Ferguson ... Robert G Parton
    Development of a new system for gold particle detection of a genetic tag for electron microscopy.
    1. Neuroscience

    Likelihood approximation networks (LANs) for fast inference of simulation models in cognitive neuroscience

    Alexander Fengler, Lakshmi N Govindarajan ... Michael J Frank
    A novel method and software provides researchers with the capability to rapidly, flexibly, and robustly perform Bayesian parameter estimation of theoretically meaningful models in cognitive neuroscience that were heretofore intractable.
    1. Computational and Systems Biology
    2. Ecology

    TRex, a fast multi-animal tracking system with markerless identification, and 2D estimation of posture and visual fields

    Tristan Walter, Iain D Couzin
    Being fast, memory efficient, easy to use, and with powerful integrated tools, TRex will lower barriers of entry into, and enable more ambitious approaches to, the quantitative study of behavior.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

    Francesco Beghini, Lauren J McIver ... Nicola Segata
    The bioBakery 3 platform enables improved, integrated, and strain-level analysis of microbial communities from large-scale meta-omic data.