Identification of CTSC-driven progression in ESCC by single-cell sequencing and experimental validation

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Background The progression of cancer cells is influenced by the tumor microenvironment (TME); however, the molecular mechanisms driving the progression of esophageal squamous cell carcinoma (ESCC) remain unclear. Therefore, we aimed to investigate the TME of ESCC and construct a risk signature based on apoptosis-related genes to identify prognosis-related genes in ESCC. Methods We integrated a total of 92,714 cells from 18 samples across three single-cell datasets to analyze the differences in cellular landscapes between primary tumor tissues and adjacent normal tissues. Subsequently, univariate COX regression analysis was employed to construct an apoptosis-related prognostic risk model. The expression of key risk genes was elucidated using immunohistochemistry (IHC). Additionally, the effects of CTSC knockdown on ESCC cell behavior were validated through in vitro and in vivo experiments. Results We identified three malignant cell subtypes (Malig1, Malig2, and Malig4) associated with worse prognosis, which were enriched in apoptosis-related pathways. Pseudotime analysis revealed that the expression scores of apoptosis-related pathways increased along the inferred pseudotime, indicating that apoptosis plays a critical regulatory role in the differentiation of malignant epithelial cells. Furthermore, analysis of the TME demonstrated that immune cells and cancer-associated fibroblasts (CAFs) were significantly more abundant in tumor tissues compared to non-tumor tissues. Additionally, we identified eight apoptosis-related genes associated with prognosis, among which the expression of CTSC was closely correlated with resistance outcomes in patients receiving neoadjuvant immunotherapy. In vitro experiments showed that knockdown of CTSC inhibited the proliferation, migration, and other processes of ESCC cells. In vitro experiments showed that knockdown of CTSC inhibited tumor growth and expression of fibroblast markers. Conclusions CTSC plays a crucial role in driving TME remodeling and the progression of drug resistance in ESCC, making it a potential target for clinical therapy.

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