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Updated: Jun 5, 2026

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Mining Spatial Transcriptomics Datasets using DeepSpaceDB
Published on: September 5, 2025
Synaptic dysfunction-related gene expression spatially correlates with widespread cortical network atrophy in
Qin Zhou1, Lu Qin1, Shujun Su1
1Department of Neurology, The First Affiliated Hospital of Guangxi Medical University, Nanning, China.
Neurobiology of Disease
|June 3, 2026
Summary
Temporal lobe epilepsy (TLE) causes brain atrophy in networks beyond seizure origin. This study links gray matter loss to specific synaptic gene expression, offering targets for new treatments.
Area of Science:
- Neuroscience
- Epilepsy Research
- Brain Imaging
Background:
- Temporal lobe epilepsy (TLE) shows lateralized gray matter changes, but whole-brain network vulnerability independent of seizure side is unclear.
- Understanding the link between brain structure changes and molecular underpinnings is crucial for TLE mechanisms.
Purpose of the Study:
- To identify brain networks vulnerable in TLE regardless of seizure laterality.
- To explore the spatial relationship between brain atrophy and gene expression in TLE.
- To establish a structural-molecular framework for TLE pathology.
Main Methods:
- Voxel-based morphometry (VBM) and surface-based morphometry (SBM) for gray matter analysis in 69 TLE patients and 47 controls.
- Multivariate machine learning to validate structural features.
- Imaging-transcriptomics using the Allen Human Brain Atlas to correlate morphology with gene expression.
Main Results:
- Identified bilateral somatomotor and default mode networks, and the right ventral attention network as vulnerable, independent of seizure origin.
- Machine learning confirmed right somatomotor network atrophy as a key TLE signature.
- Found spatial correlations between cortical atrophy and synaptic genes (CTNNB1, NLGN1, GRM5 positively; SNAP25 inversely).
Conclusions:
- Delineated lateralization-independent vulnerability networks in TLE.
- Characterized the spatial-molecular architecture of these networks.
- Linked macroscopic atrophy to microscopic synaptic gene expression, suggesting targets for precision therapies.
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