The DOI matches its Crossref record; 106 of the 106 references it cites were found in a registry or an index.
Spatial transcriptomics reveals distinct and conserved tumor core and edge architectures that predict survival and targeted therapy response
Open accessAbstract
The spatial organization of the tumor microenvironment has a profound impact on biology and therapy response. Here, we perform an integrative single-cell and spatial transcriptomic analysis on HPV-negative oral squamous cell carcinoma (OSCC) to comprehensively characterize malignant cells in tumor core (TC) and leading edge (LE) transcriptional architectures. We show that the TC and LE are characterized by unique transcriptional profiles, neighboring cellular compositions, and ligand-receptor interactions. We demonstrate that the gene expression profile associated with the LE is conserved across different cancers while the TC is tissue specific, highlighting common mechanisms underlying tumor progression and invasion. Additionally, we find our LE gene signature is associated with worse clinical outcomes while TC gene signature is associated with improved prognosis across multiple cancer types. Finally, using an in silico modeling approach, we describe spatially-regulated patterns of cell development in OSCC that are predictably associated with drug response. Our work provides pan-cancer insights into TC and LE biology and interactive spatial atlases ( http://www.pboselab.ca/spatial_OSCC/ ; http://www.pboselab.ca/dynamo_OSCC/ ) that can be foundational for developing novel targeted therapies.
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1 retracted
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limma powers differential expression analyses for RNA-sequencing and microarray studies
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Integrated analysis of multimodal single-cell data
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The Molecular Signatures Database Hallmark Gene Set Collection
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Fast, sensitive and accurate integration of single-cell data with Harmony
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Complex heatmaps reveal patterns and correlations in multidimensional genomic data
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Inference and analysis of cell-cell communication using CellChat
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Cited by
From Omics to Multi-Omics: A Review of Advantages and Tradeoffs
Hayes, C. N., Nakahara, H., Ono, A., Tsuge, M., & Oka, S. (2024) · Genes · doi:10.3390/genes15121551 · Cited by 119
From tissue architecture to clinical insights: Spatial transcriptomics in solid tumor studies
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Metadata
- Authors
- Arora, R., Cao, C., Kumar, M., Sinha, S., Chanda, A., McNeil, R., Samuel, D., Arora, R. K., Matthews, T. W., Chandarana, S., Hart, R., Dort, J. C., Biernaskie, J., Neri, P., Hyrcza, M. D., & Bose, P.
- Venue
- Nature Communications
- Published
- 2023-08-18
- Volume
- 14
- Issue
- 1
- Pages
- 5029-5029
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W4385987383
- Cited by
- 325
- References
- 106
- FWCI
- 24.36
- Type
- journal article
- Language
- en
- Open access
- gold
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- The paper
- Arora, R., Cao, C., Kumar, M., Sinha, S., Chanda, A., McNeil, R., Samuel, D., Arora, R. K., Matthews, T. W., Chandarana, S., Hart, R., Dort, J. C., Biernaskie, J., Neri, P., Hyrcza, M. D., & Bose, P. (2023). Spatial transcriptomics reveals distinct and conserved tumor core and edge architectures that predict survival and targeted therapy response. Nature Communications. https://doi.org/10.1038/s41467-023-40271-4
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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