Multi-region spatial transcriptome analysis reveals cellular networks and pathways associated with hepatocellular carcinoma recurrence

Aiderus, A.; Seshachalam, P. V.; Idzham, K.; Caldez, M.; Shanmugam, R.; Sari, I. N.; Ying, D. H. H.; Chong, S. L.; Sekar, K.; Chew, S. C.; Chen, G. B.; Chung, A. Y.-F.; Cheow, P. C.; Kam, J. H.; Koh, A. W.-C.; Ganpathi, I. S.; Loong, S.; Leow, W.-Q.; Chen, K.; Chanwat, R.; de Villa, V. H.; Koh, P. S.; Bonney, G. K.; Goh, B. K. P.; Tam, W. L.; Tergaonkar, V.; Chow, P. K. H.

doi:10.1101/2023.07.26.549242

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bioRxiv · 10.1101/2023.07.26.549242

Multi-region spatial transcriptome analysis reveals cellular networks and pathways associated with hepatocellular carcinoma recurrence

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Abstract

Hepatocellular carcinomas (HCC) are driven by various etiologies and molecular diversity at presentation. Patient prognosis post-surgery is generally dismal, and the majority respond poorly to adjuvant targeted and/or immuno-therapies. Tumours are an ecosystem comprised of organization and interaction between different cell types that may contribute to clinically significant outcomes, such as disease recurrence. To better understand this phenomenon, we leveraged on a local cohort of patients with or without recurrence to generate spatial transcriptome profiles from multiple sectors from each tumour. We identified widespread gene expression intra- and inter tumour heterogeneity observed across the tumour sectors. Our analysis also revealed the cell type enrichment and localization, and ligand-receptor interactions identify a specific subset of endothelial cell enriched in primary tumours of patients with recurrence. Altogether, this study describes the spatial gene expression landscape in HCC patients associated with disease recurrence.

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Aiderus, A., Seshachalam, P. V., Idzham, K., Caldez, M., Shanmugam, R., Sari, I. N., Ying, D. H. H., Chong, S. L., Sekar, K., Chew, S. C., Chen, G. B., Chung, A. Y.-F., Cheow, P. C., Kam, J. H., Koh, A. W.-C., Ganpathi, I. S., Loong, S., Leow, W.-Q., Chen, K., Chanwat, R., de Villa, V. H., Koh, P. S., Bonney, G. K., Goh, B. K. P., Tam, W. L., Tergaonkar, V., Chow, P. K. H.. 2023-07-26. Multi-region spatial transcriptome analysis reveals cellular networks and pathways associated with hepatocellular carcinoma recurrence. https://doi.org/10.1101/2023.07.26.549242

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