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.
Show 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.
Matching journals
The top 9 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Spatial Effects of Infiltrating T cells on Neighbouring Cancer Cells and Prognosis in Stage III CRC patients 94%
- CRISPR-induced exon skipping of β-catenin reveals tumorigenic mutants driving distinct subtypes of liver cancer 93%
- Oronasal mucosal melanoma is defined by two transcriptional subtypes in humans and dogs with implications for diagnosis and therapy 92%
Similar papers in this journal
- Spatial transcriptomics analysis of neoadjuvant cabozantinib and nivolumab in advanced hepatocellular carcinoma identifies independent mechanisms of resistance and recurrence 98%
- Spatial transcriptomic analysis of Sonic Hedgehog Medulloblastoma identifies that the loss of heterogeneity and promotion of differentiation underlies the response to CDK4/6 inhibition 94%
- Retroelement co-option disrupts the cancer transcriptional programme 94%
Similar papers in this journal
- GATA4 and GATA6 loss-of-expression is associated with extinction of the classical programme and poor outcome in pancreatic ductal adenocarcinoma 95%
- Distinct Single-cell Immune Ecosystems Distinguish True and De Novo HBV-related Hepatocellular Carcinoma Recurrences 92%
- CXCR2 inhibition enables NASH-HCC immunotherapy 92%
Similar papers in this journal
- Angiogenic and Immune Predictors of Neoadjuvant Axitinib Response in Renal Cell Carcinoma with Venous Tumour Thrombus 93%
- Self-Supervised Learning Reveals Clinically Relevant Histomorphological Patterns for Therapeutic Strategies in Colon Cancer 93%
- Integrative spatial omics reveals distinct tumor-promoting multicellular niches and immunosuppressive mechanisms in Black American and White American patients with TNBC 93%
Similar papers in this journal
- Prognosis-related molecular subtypes and immune features associated with hepatocellular carcinoma 93%
- The Epithelial and Stromal Immune Microenvironment in Gastric Cancer: A Comprehensive Analysis Reveals Prognostic Factors with Digital Cytometry 93%
- Use of high-plex data reveals novel insights into the tumour microenvironment of clear cell renal cell carcinoma 93%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.