ArticleFrontiers in immunology2023
Discovering hematoma-stimulated circuits for secondary brain injury after intraventricular hemorrhage by spatial transcriptome analysis.
Article in Frontiers in immunology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed.
- Transcriptomic Challenges We Faced with Animal Models for Neurological Disorders.Current issues in molecular biology · 2026Review
- The applications of single-cell and spatial transcriptomics in neuroscience and brain disorders.Neuroscience and biobehavioral reviews · 2026Review
- Applications of large-scale artificial intelligence models in bioinformatics.Quantitative biology (Beijing, China) · 2026Review
- Diffusion Model-Based Multi-Channel EEG Representation and Forecasting for Early Epileptic Seizure Warning.Interdisciplinary sciences, computational life sciences · 2026Article
- Locus-Specific Convergent Evolution and Interchromosomal Rearrangements Contribute to the Diversification of Amniote Type I Interferons.Evolutionary applications · 2026Article
- Network-informed deconvolution of bulk immune gene co-expression reveals single-cell programs and spatial organization.Frontiers in immunology · 2026Article
- DGHNN: a deep graph and hypergraph neural network for pan-cancer related gene prediction.Bioinformatics (Oxford, England) · 2025Article
- Developing a multiomics data-based mathematical model to predict colorectal cancer recurrence and metastasis.BMC medical informatics and decision making · 2025Article
- Ferroptosis-related genes participate in the microglia-induced neuroinflammation of spinal cord injury via NF-κB signaling: evidence from integrated single-cell and spatial transcriptomic analysis.Journal of translational medicine · 2025Article
- Developing a quantum computing model for sequence annotation of interferon protein.Computational and structural biotechnology journal · 2025Article
- Spatial transcriptomics at the brain-electrode interface in rat motor cortex and the relationship to recording quality.Journal of neural engineering · 2024Article
- CpG Island Definition and Methylation Mapping of the T2T-YAO Genome.Genomics, proteomics & bioinformatics · 2024Article
- A Review of the Application of Spatial Transcriptomics in Neuroscience.Interdisciplinary sciences, computational life sciences · 2024Review
- A comprehensive review of artificial intelligence for pharmacology research.Frontiers in genetics · 2024Review
- A promising self-nanoemulsifying adjuvant with plant-derived saponin D boosts immune response and exerts an anti-tumor effect.Frontiers in immunology · 2023Article
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12 authors.
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Abstract
Introduction: Central nervous system (CNS) diseases, such as neurodegenerative disorders and brain diseases caused by acute injuries, are important, yet challenging to study due to disease lesion locations and other complexities. Methods: Utilizing the powerful method of spatial transcriptome analysis together with novel algorithms we developed for the study, we report here for the first time a 3D trajectory map of gene expression changes in the brain following acute neural injury using a mouse model of intraventricular hemorrhage (IVH). IVH is a common and representative complication after various acute brain injuries with severe mortality and mobility implications. Results: Our data identified three main 3D global pseudospace-time trajectory bundles that represent the main neural circuits from the lateral ventricle to the hippocampus and primary cortex affected by experimental IVH stimulation. Further analysis indicated a rapid response in the primary cortex, as well as a direct and integrated effect on the hippocampus after IVH stimulation. Discussion: These results are informative for understanding the pathophysiological changes, including the spatial and temporal patterns of gene expression changes, in IVH patients after acute brain injury, strategizing more effective clinical management regimens, and developing novel bioinformatics strategies for the study of other CNS diseases. The algorithm strategies used in this study are searchable via a web service (www.combio-lezhang.online/3dstivh/home).
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