Integrative machine learning approach for forecasting lung cancer chemosensitivity: From algorithm to cell line
Jinghong Chen1, Yonglin Yi2, Chunqian Yang2
1Department of Oncology, Zhujiang Hospital, The Second School of Clinical Medicine, Southern Medical University; Donghai County People's Hospital (Affiliated Kangda College of Nanjing Medical University), Lianyungang 222000, China.
Background:
Chemotherapy remains the primary treatment modality for patients with lung cancer; however, substantial inter-patient variability exists in responses to chemotherapeutic agents. Therefore, predicting individual responses is critical for optimizing treatment outcomes and improving patient prognosis.
Methods:
This study developed a model to predict chemotherapy response in lung cancer patients by integrating multi-omics and clinical data from the Genomics of Drug Sensitivity in Cancer database, employing 45 machine learning algorithms. Data from the Gene Expression Omnibus database were utilized to validate the model. The impact of key genes on chemotherapy response was assessed in cell lines.
Results:
A model combining random forest and support vector machine algorithms exhibited superior performance in both the training and validation sets. Furthermore, patients in the sensitive group demonstrated longer overall survival compared to those in the resistant group. TMED4 and DYNLRB1 genes were identified as pivotal features in the model and exhibited higher expression levels in the chemotherapy-resistant group. SiRNA-mediated knockdown of gene expression enhanced the chemosensitivity of lung cancer cell lines to chemotherapeutic agents.
Conclusions:
This study successfully developed a high-performance machine learning model for predicting chemotherapy response in lung cancer and elucidated a strong correlation between TMED4 and DYNLRB1 gene expression and chemotherapy resistance. We further provide a user-friendly web server (available at https://smuonco.shinyapps.io/LC-DrugPortal/) to enable clinical utilization of our model, promoting personalized chemotherapy selection for lung cancer patients.
