Spatial transcriptomics analysis identifies therapeutic targets in diffuse high-grade gliomas Article Swipe
Yongtao Yang
,
Yingzhou Hong
,
Kai Zhao
,
Minhao Huang
,
Wenhu Li
,
Kui Zhang
,
Ninghui Zhao
·
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3389/fnmol.2024.1466302
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3389/fnmol.2024.1466302
Introduction Diffuse high-grade gliomas are the most common malignant adult neuroepithelial tumors in humans and a leading cause of cancer-related death worldwide. The advancement of high throughput transcriptome sequencing technology enables rapid and comprehensive acquisition of transcriptome data from target cells or tissues. This technology aids researchers in understanding and identifying critical therapeutic targets for the prognosis and treatment of diffuse high-grade glioma. Methods Spatial transcriptomics was conducted on two cases of isocitrate dehydrogenase (IDH) wild-type diffuse high-grade glioma (Glio-IDH-wt) and two cases of IDH-mutant diffuse high-grade glioma (Glio-IDH-mut). Gene set enrichment analysis and clustering analysis were employed to pinpoint differentially expressed genes (DEGs) involved in the progression of diffuse high-grade gliomas. The spatial distribution of DEGs in the spatially defined regions of human glioma tissues was overlaid in the t-distributed stochastic neighbor embedding (t-SNE) plots. Results We identified a total of 10,693 DEGs, with 5,677 upregulated and 5,016 downregulated, in spatially defined regions of diffuse high-grade gliomas. Specifically, SPP1 , IGFBP2 , CALD1 , and TMSB4X exhibited high expression in carcinoma regions of both Glio-IDH-wt and Glio-IDH-mut, and 3 upregulated DEGs ( SMOC1 , APOE , and HIPK2 ) and 4 upregulated DEGs ( PPP1CB , UBA52 , S100A6 , and CTSB ) were only identified in tumor regions of Glio-IDH-wt and Glio-IDH-mut, respectively. Moreover, Kyoto Encyclopedia of Genes and Genomes (KEGG) and gene ontology (GO) enrichment analyses revealed that upregulated DEGs were closely related to PI3K/Akt signaling pathway, virus infection, and cytokine-cytokine receptor interaction. Importantly, the expression of these DEGs was validated using GEPIA databases. Furthermore, the study identified spatial expression patterns of key regulatory genes, including those involved in protein post-translational modification and RNA binding protein-encoding genes, with spatially defined regions of diffuse high-grade glioma. Discussion Spatial transcriptome analysis is one of the breakthroughs in the field of medical biotechnology as this can map the analytes such as RNA information in their physical location in tissue sections. Our findings illuminate previously unexplored spatial expression profiles of key biomarkers in diffuse high-grade glioma, offering novel insight for the development of therapeutic strategies in glioma.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.3389/fnmol.2024.1466302
- https://www.frontiersin.org/journals/molecular-neuroscience/articles/10.3389/fnmol.2024.1466302/pdf
- OA Status
- gold
- Cited By
- 4
- References
- 82
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4403828453
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4403828453Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.3389/fnmol.2024.1466302Digital Object Identifier
- Title
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Spatial transcriptomics analysis identifies therapeutic targets in diffuse high-grade gliomasWork title
- Type
-
articleOpenAlex work type
- Language
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enPrimary language
- Publication year
-
2024Year of publication
- Publication date
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2024-10-24Full publication date if available
- Authors
-
Yongtao Yang, Yingzhou Hong, Kai Zhao, Minhao Huang, Wenhu Li, Kui Zhang, Ninghui ZhaoList of authors in order
- Landing page
-
https://doi.org/10.3389/fnmol.2024.1466302Publisher landing page
- PDF URL
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https://www.frontiersin.org/journals/molecular-neuroscience/articles/10.3389/fnmol.2024.1466302/pdfDirect link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://www.frontiersin.org/journals/molecular-neuroscience/articles/10.3389/fnmol.2024.1466302/pdfDirect OA link when available
- Concepts
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Transcriptome, Glioma, KEGG, Isocitrate dehydrogenase, Biology, Downregulation and upregulation, Cancer research, Gene, Computational biology, Gene expression, Genetics, Biochemistry, EnzymeTop concepts (fields/topics) attached by OpenAlex
- Cited by
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4Total citation count in OpenAlex
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2025: 4Per-year citation counts (last 5 years)
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82Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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