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Updated: Aug 5, 2026
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Spatially Resolved, Integrated Single-Cell Multiomic Profiling of the Transcriptome and Epigenomic Targets in Frozen Tissue Sections
Published on: June 12, 2026
Brain Spatial Genomics Atlases
Alexander Hindeleh1, Wei Xiong2, Charles Wang3,4
1Department of Pharmaceutical Sciences, School of Pharmacy and Pharmaceutical Sciences, University of California-Irvine, Irvine, CA 92697, USA.
Genes
|July 28, 2026
Summary
Spatial genomics technologies map gene expression within intact tissues, complementing single-cell RNA sequencing (scRNA-seq). These advancements create brain atlases crucial for understanding development, function, and neurological disorders.
Area of Science:
- Neuroscience
- Genomics
- Biomedical Research
Background:
- Single-cell RNA sequencing (scRNA-seq) identifies genes and cell types but lacks spatial context.
- Understanding gene expression's anatomic location is vital for brain research.
Purpose of the Study:
- To review emerging spatial genomics technologies and their application in creating brain atlases.
- To highlight the integration of spatial genomics with scRNA-seq for high-resolution brain mapping.
Main Methods:
- Utilizing spatial genomics technologies (e.g., MERFISH, CosMx, Stereo-seq, Visium) for transcriptomic and epigenomic profiling.
- Integrating spatial genomics data with scRNA-seq data.
Main Results:
- Spatial genomics enables gene expression mapping within intact tissue architecture at cellular resolution.
- Construction of brain spatial genomics atlases across multiple species (mouse, human, non-human primate, zebrafish).
- Identification of cellular heterogeneity and spatial organization of neuronal circuits.
Conclusions:
- Spatial genomics atlases are powerful resources for studying brain development, function, and disease.
- These atlases reveal region-specific molecular signatures relevant to neurological disorders.
- Integration of spatial genomics and scRNA-seq revolutionizes neuroscience research.
