Predicting Rectal Cancer Patient Survival with Dutch Radiology Reports using Natural Language Processing (NLP): The Role of Pretrained Language Models
Authors
Affiliations (1)
Affiliations (1)
- Netherlands Cancer Institute
Abstract
The use of Electronic Health Records (EHRs) has increased significantly in recent years. However, a substantial portion of the clinical data remains in unstructured text formats, especially in the context of radiology. This limits the application of EHRs for automated analysis in oncology research. Pretrained language models have been utilized to extract feature embeddings from these reports for downstream clinical applications, such as treatment response and survival prediction. However, a thorough investigation into which pretrained models produce the most effective features for rectal cancer survival prediction has not yet been done. This study explores the performance of five Dutch pretrained language models, including two publicly available models (RobBERT and MedRoBERTa.nl) and three developed in-house for the purpose of this study (RecRoBERT, BRecRoBERT, and BRec2RoBERT) with training on distinct Dutch-only corpora, in predicting overall survival and disease-free survival outcomes in rectal cancer patients. Our results showed that our in-house developed BRecRoBERT, a RoBERTa-based language model trained from scratch on a combination of Dutch breast and rectal cancer corpora, delivered the best predictive performance for both survival tasks, achieving a C-index of 0.65 (0.57, 0.73) for overall survival and 0.71 (0.64, 0.78) for disease-free survival. It outperformed models trained on general Dutch corpora (RobBERT) or Dutch hospital clinical notes (MedRoBERTa.nl). BRecRoBERT demonstrated the potential capability to predict survival in rectal cancer patients using Dutch radiology reports at diagnosis. This study highlights the value of pretrained language models that incorporate domain-specific knowledge for downstream clinical applications. Furthermore, it proves that utilizing data from related domains can improve the quality of feature embeddings for certain clinical tasks, particularly in situations where domain-specific data is scarce.