Browse our Tools and Resources

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    1. Chromosomes and Gene Expression

    Spatial chromatin accessibility sequencing resolves high-order spatial interactions of epigenomic markers

    Yeming Xie, Fengying Ruan ... Chong Tang
    SCA-seq enables simultaneous detection of spatial interactions, chromatin accessibility, and CpG methylation at single-molecule resolution, advancing multi-omics studies of genome spatial organization.
    1. Genetics and Genomics

    Leveraging inter-individual transcriptional correlation structure to infer discrete signaling mechanisms across metabolic tissues

    Mingqi Zhou, Ian Tamburini ... Marcus M Seldin
    A population resource to investigate mechanisms of organ communication.
    1. Epidemiology and Global Health

    Design of the HPV-automated visual evaluation (PAVE) study: Validating a novel cervical screening strategy

    Silvia de Sanjosé, Rebecca B Perkins ... Mark Schiffman
    The PAVE strategy aims to provide a cost-effective, high quality ‘Screen-Triage-Treat’ approach for cervical cancer screening to save many lives.
    1. Neuroscience

    Toolkits for detailed and high-throughput interrogation of synapses in C. elegans

    Maryam Majeed, Haejun Han ... Hang Lu
    An imaging pipeline together with a collection of transgenic nematode strains provide a strategy to visualize and properly quantify synaptic connectivity in the C. elegans brain.
    1. Neuroscience

    Eelbrain, a Python toolkit for time-continuous analysis with temporal response functions

    Christian Brodbeck, Proloy Das ... Jonathan Z Simon
    Brain activity is modelled as a function of stimuli that evolve continuously in time, in experimental designs without repeated trials.
    1. Neuroscience

    Myomatrix arrays for high-definition muscle recording

    Bryce Chung, Muneeb Zia ... Samuel J Sober
    A novel technology for recording muscle activity provides unprecedented access to the electrical signals that control the body across muscles, species, and behaviors.
    1. Neuroscience

    OpenApePose, a database of annotated ape photographs for pose estimation

    Nisarg Desai, Praneet Bala ... Benjamin Hayden
    A dedicated dataset for non-human apes improves pose estimation and tracking accuracy in apes.
    1. Medicine

    A single-cell atlas depicting the cellular and molecular features in human anterior cruciate ligamental degeneration: A single cell combined spatial transcriptomics study

    Runze Yang, Tianhao Xu ... Weili Fu
    Single-cell combined spatial transcriptomics provides the molecular foundation for investigating how ligamental cell identities, biochemical functions, and interactions contributed to the ligamental degeneration process.
    1. Genetics and Genomics
    2. Neuroscience

    Genomic stability of self-inactivating rabies

    Ernesto Ciabatti, Ana González-Rueda ... Marco Tripodi
    SiR does not revert to wild type when produced in high-TEVp cell lines, is non-toxic in vivo, maintains transsynaptic spreading capabilities and revertant mutations do not accumulate during in vivo experiments.
    1. Developmental Biology

    scMultiome analysis identifies embryonic hindbrain progenitors with mixed rhombomere identities

    Yong-Il Kim, Rebecca O'Rourke, Charles G Sagerström
    Combined single nucleus RNAseq and ATACseq enabled the first molecular resolution of all hindbrain rhombomeres, the derivation of a unique gene regulatory network for each rhombomere, and the identification of gene expression changes as rhombomeres form from early progenitor pools.