GeoMx™ Digital Spatial Profiler

What is Digital Spatial Profiling?

GeoMx Digital Spatial Profiler is a novel platform developed by NanoString. Digital Spatial Profiling is based on the nCounter® barcoding technology that enables spatially resolved, digital characterization of proteins or mRNA in a highly multiplexed (up to 1,000-plex) assay. The assay relies upon antibody or RNA probes coupled to photocleavable oligonucleotide tags. After hybridization of probes to slide-mounted formalin fixed paraffin-embedded (FFPE) tissue sections, the oligonucleotide tags are released from discrete regions of the tissue via UV exposure. Released tags are quantitated in a standard nCounter assay, and counts are mapped back to tissue location, yielding a spatially-resolved digital profile of analyte abundance.

The DSP Workflow

1. Process: Apply high-plex oligo-labeled antibody cocktail + morphology markers
2. View: Use visible wavelength low-plex imaging to establish tissue "geography." Select regions-of-interest (ROIs) for high-plex profiling
3. Profile: UV-release oligo tags at selected ROIs
4. Plate: Store released tags in microtiter plate, index, and hybridize to barcodes
5. Digitally count up to 1 million data points per ROI
6. Analyze the data with nSolver™Advanced Analysis Software

GeoMx Assays

GeoMx DSP TAP

GeoMx DSP White Paper - Unlocking Predictive Potential for Response to Immunotherapy

Publications:

Prokop S, Miller KR, et al. Impact of TREM2 risk variants on brain region-specific immune activation and plaque microenvironment in Alzheimer's disease patient brain samples Acta Neuropathologica 2019

Balko J, et al. A case report of clonal EBV-like memory CD4+ T cell activation in fatal checkpoint inhibitor-induced encephalitis Nature Medicine 2019

Van TM, Blank C A user's perspective on GeoMxTM digital spatial profiling Immuno-Oncology Technology 2019

Toki MI, et al. High-plex predictive marker discovery for melanoma immunotherapy treated patients using Digital Spatial Profiling. CCR 2019; epub.

Ziai J, New tools for pathology: a user’s review of a highly multiplexed method for in situ analysis of protein and RNA expression in tissue. J. Pathol 2018; epub.

Wargo J, et al. Neoadjuvant immune checkpoint blockade in high-risk resectable melanoma. Nat Med 2018; 24(11): 1649-54.

Blank CU, et al. Neoadjuvant versus adjuvant ipilimumab plus nivolumab in macroscopic stage III melanoma. Nat Med 2018; 24: 1655-1661.

Poster Presentations:

• AGBT 2019_Comprehensive spatial RNA profiling of tumor, microenvironment and immune response pathways with the NanoString GeoMx™ Digital Spatial Profiler
• AGBT 2019_In situ RNA Expression Profiling of 1600+ Immuno-oncology Targets in FFPE Tissue using NanoString GeoMx™ Digital Spatial Profiler
• AGBT 2019_Single cell protein profiling of immune cells within the tumor microenvironment using NanoString GeoMxTM Digital Spatial Profiler
• AGBT 2019_Spatially Resolving RNA Biomarkers using GeoMx™ Digital Spatial Profiler for Early Diagnosis and Prognosis of Melanoma
• AGBT 2019_Mapping the Microenvironment Composition in Metastatic Prostate Cancer by Multi-analyte Profiling using GeoMx™ Digital Spatial Profiler
• Spatially-Resolved, High-Plex Digital Profiling Enables Characterization of Complex Immune Biology of the Colorectal Cancer Tumor Microenvironment
• Highly multiplexed analysis of immune cell subsets in non-small cell lung cancer: validation of protein and RNA analysis by the NanoString Digital Spatial Profiling (DSP) platform
• Validation of novel high-plex protein spatial profiling quantitation based on NanoString's Digital Spatial Profiling (DSP) technology with quantitative fluorescence (QIF)
• Spatially resolved, multiplexed digital characterization of protein and mRNA distribution and abundance in formalin-fixed, paraffin-embedded (FFPE) tissue sections based on NanoString’s Digital Spatial Profiling (DSP) technology: applications to immuno-oncology (IO) and tumor heterogeneity