Build A More Accurate and Complete Molecular Atlas with MERSCOPE™
Accurately characterizing every individual cell within the brain is challenging due to the low expression of many functionally important genes. MERSCOPE’s high detection efficiency, sensitivity and single molecule resolution allow users to build a more accurate and complete molecular atlas.
MERFISH Mouse Brain Receptor Map
To demonstrate the power of MERSCOPE, 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 ageing 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 the Data
Using our interactive single-cell spatial visualizer tool, you can toggle between UMAP and Spatial view of the MERFISH Mouse Brain Receptor Map. Select a gene of interest from the drop-down list, click to add cells to highlight clusters.
- List of all detected transcripts and their spatial locations in three dimensions (CSV)
- The DAPI and Poly T mosaic images (TIFF)
- Output from the cell segmentation analysis: the transcripts per cell matrix (CSV), the cell metadata (CSV) and the cell boundaries (HDF5)
Insights Gained from MERSCOPE Data
Detect 70X More Transcripts
MERSCOPE detected 70x more transcripts per gene than an array-based platform for a more accurate map of the cellular organization of our selected mouse brain receptors:
Detect Lowly Expressing Genes
Our experiment 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 us to see where RNA transcripts are located not only within a large 1cm2 tissue section, but inside each single cell.
Map Gene Expression by Cell Type
MERSCOPE’s high sensitivity allows us to map gene expression by cell type, as well as see the variation in the gene expression pattern of receptors within the mouse brain.
Highly Reproducible MERFISH Measurements
MERSCOPE generates highly reproducible measurements between brain slice replicates, resulting in high confidence in the data.