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SM-Omics is an automated platform for high-throughput spatial multi-omics

Author

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  • S. Vickovic

    (Klarman Cell Observatory Broad Institute of MIT and Harvard
    Massachusetts Institute of Technology
    New York Genome Center
    Stockholm University)

  • B. Lötstedt

    (Klarman Cell Observatory Broad Institute of MIT and Harvard
    KTH Royal Institute of Technology
    Massachusetts Institute of Technology)

  • J. Klughammer

    (Klarman Cell Observatory Broad Institute of MIT and Harvard)

  • S. Mages

    (Klarman Cell Observatory Broad Institute of MIT and Harvard)

  • Å Segerstolpe

    (Klarman Cell Observatory Broad Institute of MIT and Harvard)

  • O. Rozenblatt-Rosen

    (Klarman Cell Observatory Broad Institute of MIT and Harvard
    Genentech, 1 DNA Way)

  • A. Regev

    (Klarman Cell Observatory Broad Institute of MIT and Harvard
    Massachusetts Institute of Technology
    Genentech, 1 DNA Way)

Abstract

The spatial organization of cells and molecules plays a key role in tissue function in homeostasis and disease. Spatial transcriptomics has recently emerged as a key technique to capture and positionally barcode RNAs directly in tissues. Here, we advance the application of spatial transcriptomics at scale, by presenting Spatial Multi-Omics (SM-Omics) as a fully automated, high-throughput all-sequencing based platform for combined and spatially resolved transcriptomics and antibody-based protein measurements. SM-Omics uses DNA-barcoded antibodies, immunofluorescence or a combination thereof, to scale and combine spatial transcriptomics and spatial antibody-based multiplex protein detection. SM-Omics allows processing of up to 64 in situ spatial reactions or up to 96 sequencing-ready libraries, of high complexity, in a ~2 days process. We demonstrate SM-Omics in the mouse brain, spleen and colorectal cancer model, showing its broad utility as a high-throughput platform for spatial multi-omics.

Suggested Citation

  • S. Vickovic & B. Lötstedt & J. Klughammer & S. Mages & Å Segerstolpe & O. Rozenblatt-Rosen & A. Regev, 2022. "SM-Omics is an automated platform for high-throughput spatial multi-omics," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-28445-y
    DOI: 10.1038/s41467-022-28445-y
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