To facilitate development of CSC-targeting therapies, we analyzed publicly available breast cancer datasets to identify genes co-expressed with SOX10, a neural crest marker, and PROM1/CD133, a common CSC marker. The conserved SOX10/PROM1 gene signature that we characterized supports the existence in basal breast cancers of SOX10+/CD133+ cells with neural stem-like features exposing clinically relevant CSC markers and signaling networks.
Background
We previously characterized in salivary adenoid cystic carcinoma (ACC) a novel population of CSC marked by co-expression of two stemness genes, SOX10 and CD133. We also reported that in ACC and basal-like breast carcinoma (BBC), a triple-negative breast cancer subtype, expression of SOX10 similarly demarcates a highly conserved gene signature enriched with neural stem cell genes. Based on these findings, we hypothesized that BBC may be likewise driven by SOX10+/CD133+ cells with neural stem cell properties.
Methods
To validate our hypothesis on clinical data, we used a novel approach to meta-analysis that merges gene expression data from independent breast cancer studies and ranks genes by statistical significance of their co-expression with the gene of interest. Genes that showed strong association with both CD133/PROM1 and SOX10 were validated across different platforms and datasets and analyzed for enrichment with genes involved in neurogenesis.
Results
We identified in clinical breast cancer datasets a highly conserved SOX10/PROM1 gene signature that contains neural stem cell markers common for Schwann cells, ACC, BBC, and melanoma. Identification of TRIM2, TRIM29, MPZL2, KCNN4, and VTCN1/B7-H4 within this signature provides insight into molecular mechanisms of CSC maintenance.
Conclusion
Our results suggest that BBC is driven by SOX10+/CD133+ cells that express NSC-specific markers and share molecular similarities with CSC of neural crest origin. Our study provides clinically relevant information on possible drivers of these cells that may facilitate development of CSC-targeting therapies against this cancer distinguished with poor prognosis and resistance to conventional therapies.