CosMx™ SMI - Spatial Multiomics Single-Cell Imaging Platform

The CosMx^® Spatial Molecular Imager (SMI) redefines spatial biology by delivering high-fidelity, single-cell whole-transcriptome analysis with subcellular resolution and same-cell multiomics. As the first and only high-plex in situ imaging platform capable of detecting the whole transcriptome, CosMx enables researchers to explore biology with unprecedented molecular breadth and spatial precision.

Designed to power both discovery and translational research, CosMx SMI enables the simultaneous visualization and quantification of the whole transcriptome and up to 72 proteins within a single tissue section. This unique integration of RNA and protein measurements in intact tissue allows researchers to move beyond targeted panels and uncover deeper biological insight—revealing cellular identity, function, and interaction in true spatial context.

CosMx SMI features a tunable workflow that seamlessly supports high-plex, unbiased discovery as well as focused, biology-driven analysis, making it adaptable across a wide range of scientific questions—from foundational cell biology to translational and clinical research.

As a fully integrated sample-to-result spatial multiomics solution, CosMx SMI is built on familiar ISH/IHC-style sample preparation and supports both custom and pre-validated assay panels for streamlined setup and reproducible performance. The platform combines highly sensitive cyclic in situ hybridization chemistry, an ultra-high-resolution imaging system, and interactive, cloud-based data analysis and visualization software, enabling intuitive exploration and interpretation of complex spatial data.

By uniting whole-transcriptome scale, same-cell RNA and protein detection, and subcellular spatial resolution, CosMx unlocks a new dimension of biological insight—revealing not just what cells express, but where biology happens and how molecular programs are spatially organized within tissue.

Key Capabilities

• High-plex in situ spatial analysis at single-cell and subcellular resolution
• Spatial multiomics compatible with FFPE and fresh-frozen tissue samples
• Simultaneous detection of the whole transcriptome and up to 72 proteins
• Flexible workflows supporting discovery and translational research

Applications

• Cell Atlas & Characterization: Define cell types, states, tissue architecture, and gene expression programs in spatial context
• Cell–Cell Interaction Analysis: Reveal spatially driven signaling and ligand–receptor interactions
• Spatial Biomarker Discovery: Identify and quantify single-cell and subcellular biomarkers with spatial precision
• CosMx^® Spatial Molecular Imager brings whole-transcriptome biology into focus—at single-cell and subcellular resolution, exactly where biology happens.