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    Data

    Download the data shown in the Brain Cell Data Viewer here for your own analysis. Citation and contact information for the following data sets is available in the About page.

  • Raw data on Neuroscience Multi-omic Archive (NeMO)

    Raw single-nucleus RNA sequencing and Slide-seq data are available in the Neuroscience Multi-omic Archive (www.NeMOArchive.org; Research Resource Identification: SCR_016152) under identifier nemo:dat-aa0jwmj.
    Download

  • Slide-seq Data

    3D aligned Slide-seq spatial transcriptomics data with accompanying metadata (e.g. gene counts, aligned CCF coordinates, CCF regions).
    A README text file with additional information and sample code to load.
    Download

  • Single-nuclei (snRNA-seq) Data

    snRNA-seq data including:

    • Post-QC single-nuclei gene counts
    • Per-library metadata (e.g. dissectate, donor, sex)
    • Cell-type clustering annotations
    • Cell-type clustering summaries (mean, %Nonzero)
    • Genomic reference used
    A README file with additional information is included in the same folder.
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  • Spatial Localization of Cell-Types

    An integration of both datasets from above: the mapping of the snRNA-seq clusters onto the Slide-seq beads using RCTD (see manuscript methods).
    A README file with additional information is included in the same folder.
    Download

  • Nissl Images

    Nissl images in PNG format.
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    Additional raw images are available on the Brain Image Library (BIL) here and here.