Digital Spatial Profiling / Spatial Transcriptomics

Digital Spatial Profiling combines high-plex gene expression profiling with the spatial resolution of immunohistochemistry. Spatial Profiling, a complement to Cellecta’s DriverMap™ Targeted RNA Sequencing products for rapid and sensitive expression profiling, is useful for examining cellular interactions, tissue heterogeneity, pathogenicity, and response to therapy.

  • The Nanostring GeoMx® Digital Spatial Profiling platform enables the measurement of patterns of gene expression in specific targeted areas of interest on tumor sections (e.g., center of tumor, near tumor/normal tissue interface, areas of immune cell infiltration, etc.) to identify gene or pathway activation differences that may provide information on potential diagnostic markers or therapeutic targets. Investigators interested in understanding tumor biology and genetic drivers of metastasis, developing diagnostic and treatment prognosis assays, looking for genetic markers of drug susceptibility, and numerous other applications will find this technology invaluable.

    Cellecta is a GeoMx Premier Access site, and customers can send their sample slides for processing and conveniently obtain spatial profiling information using the NanoString GeoMx Digital Spatial Profiler (DSP) instrument.


    NanoString and GeoMx are registered trademarks of NanoString Technologies, Inc.

  • Tissue sections or fixed cells on slides are fluorescently labeled to identify sets of cells or to visualize morphological structures, and then also hybridized to pre-mixed biological probes that have been designed with UV-cleavable DNA barcodes that target RNA transcripts.

    With the GeoMx instrument, barcoded labels from the RNA probes can be selected and cleaved from defined regions of interest (ROIs) using UV illumination. Probes from each ROI are collected separately and quantified by NGS. The resulting read number of each probe then correlates to the expression level of its gene target in the selected ROI.

  • Analyzing expression profiles of selected regions of interest in tissues sections and fixed cell samples is useful to

    • Investigate heterogeneity and microenvironments of tumors
    • Identify genes associated with lymphocyte tumor infiltration
    • Characterize markers of immune response
    • Profile normal and diseased tissues in the same sample
    • Compare pluripotent and differentiated cells
    • Characterize disease pathology
    • Monitor therapeutic response