The mammalian brain is composed of millions to billions of cells that are organized into numerous cell types with specific spatial distribution patterns and structural and functional properties. An essential step towards understanding brain...
Neuroscience and neurology applications
Build Comprehensive Whole Brain Atlas with the MERSCOPE® Platform
Accurately characterizing every individual cell within the brain is challenging due to the low expression of many functionally important genes. MERSCOPE’s high sensitivity, effective multiplexing capacity, and sub-celluar resolution enable users to build a comprehensive whole brain atlas.Contact us for more information
MERFISH Mouse Brain Atlas
To demonstrate the power of the MERSCOPE® Platform, we generated the MERFISH Mouse Brain Receptor Map that includes canonical cell type markers, nonsensory G-Protein coupled receptors (GPCRs), and Receptor Tyrosine Kinases (RTKs). We designed this specific gene panel because nonsensory GPCRs mediate signaling and may play vital roles behind brain aging and neurodegenerative disorders. However, GPCRs are notoriously difficult to analyze. Thus, the ability to completely spatially profile GPCR expression across the brain with cellular context can assist with gaining a deeper understanding of brain tissue structure and function.Explore Data
PanNeuro Cell Type Panel Features
Comprehensive Coverage of Neurobiology
500 expertly curated genes enable the resolution of all major cell types and non-neuron subtypes as well as measure expression of key neural receptors, transmitters, and ion channels.
Single Molecule Sensitivity to Detect Low Expressors
Detect difficult-to-characterize lowly expressed genes such as with single-molecule sensitivity.
Robust, Reproducible Results
Highly reproducible data between technical replicates with strong correlation to RNA-Seq results.
Broad sample type compatibility
Proven performance in FFPE, Fresh frozen, fixed frozen, and cell culture sample types.
Designing gene panels that capture key marker genes for cell typing and investigation of cellular functional states can be difficult and time consuming. To address this need, we developed a 500-gene PanNeuro Cell Type Panel featuring a comprehensive list of genes specifically designed to identify all major cell types and established neuron subtypes in the mouse brain.
Insights Gained from MERSCOPE Data
Cellular Mapping of the Brain
MERSCOPE’s high sensitivity allows us to map gene expression by cell type and see the variation in the gene expression pattern of receptors within the mouse brain.
Detect lowly expressing genes
We successfully detected multiple lowly expressed GPCRs including Oxtr, Tshr, and Insr that could be missed by other spatial transcriptomic platforms.
MERSCOPE is capable of a high 100nm resolution that enables users to see where RNA transcripts are located within a large 1cm2 tissue section and inside each cell.
Highly reproducible MERFISH measurements
MERSCOPE generates highly reproducible MERFISH measurements between brain section replicates, resulting in high confidence in the data.
The MERSCOPE® Platform is a leading tool for building a whole brain atlas because it produces true spatial transcriptomic data for whole tissue sections down to the subcellular level. MERSCOPE enables researchers to harness the power of MERFISH technology for cellular mapping of the brain, functional mapping of the brain, and gaining deeper insights into neurological diseases.
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The visual signal processing in the retina requires the precise organization of diverse neuronal types working in concert. We performed spatial transcriptomic profiling of over 100,000 cells from the mouse retina, uncovering the spatial...