CosMx™ Mouse Neuroscience Panel

Helping Your Research

Mouse Single-Cell Spatial RNA Analysis

The CosMx Mouse Neuroscience Panel is designed to provide robust cell typing, cell-cell interaction analysis, and more in mouse brain and other neuronal tissues.  Profile expression of 1000 highly curated targets at subcellular resolution and customize with up to 50 of your own targets.

How it Works

The CosMx Mouse Neuroscience Panel for the CosMx Spatial Molecular Imager provides robust spatial single-cell analysis of mouse neuronal tissues.  This iteratively optimized and fully validated assay has been demonstrated to enable identification of 42 distinct cell types in the mouse brain and offers curated target coverage for analysis of cell states and interactions, including neuropathology and inflammation.


Neuropathology targets covering AML, Huntington’s, Parkinson’s, and neurodegeneration


Comprehensive coverage of neurotransmission and neuromodulator genes


Regulatory signaling and ligand-receptor targets such as TGF-Beta, MAPK, Wnt, and Notch 


Glial activity, Inflammation, Cell Stress and Damage Response

Publications & Posters

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Characterizing Late-Onset AD Models Using Spatial Whole Transcriptome Analysis – AGBT 2021

Smarca4-deficient lung cancers display a metastatic-like cell state and a distinct cell-of-origin – AGBT 2021

Opposing immune and genetic mechanisms shape oncogenic programs in synovial sarcoma

Synovial sarcoma (SyS) is an aggressive neoplasm driven by the SS18-SSX fusion, and is characterized by low T cell infiltration. Here, we studied the cancer-immune interplay in SyS using an integrative approach that combines single-cell RNA sequencing (scRNA-seq), spatial profiling and genetic and pharmacological perturbations.

The spatial landscape of lung pathology during COVID-19 progression

Recent studies have provided insights into the pathology and immune response to coronavirus disease 2019 (COVID-19)1–8. However, thorough interrogation of the interplay between infected cells and the immune system at sites of infection is lacking.

Temporal and spatial heterogeneity of host response to SARS-CoV-2 pulmonary infection

The relationship of SARS-CoV-2 pulmonary infection and severity of disease is not fully understood. Here we show analysis of autopsy specimens from 24 patients who succumbed to SARS-CoV-2 infection using a combination of different RNA and protein analytical platforms to characterize inter-patient and intra-patient heterogeneity of pulmonary virus infection.

Related Resources

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Publication High-Plex Multiomic Analysis in FFPE Tissue at Single-Cellular and Subcellular Resolution by Spatial Molecular Imaging
Grant Support CosMx SMI Grant Package
AACR 2022 poster: Characterization of proteins in FFPE tumor biopsies
Blog Post Spatial Multiomics Single-Cell Imaging Platform to Explore FFPE Tissues with Spatial Context
Blog Post Spatial Transcriptomics at the Single-Cell Level

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