Machine understanding surgical actions from intervention procedure textbooks

The automatic extraction of procedural surgical knowledge from surgery manuals, academic papers or other high-quality textual resources, is of the utmost importance to develop knowledge-based clinical decision support systems, to automatically execute some procedure's step or to summarize the procedural information, spread throughout the texts, in a structured form usable as a study resource by medical students. In this work, we propose a first benchmark on extracting detailed surgical actions from available intervention procedure textbooks and papers. We frame the problem as a Semantic Role Labeling task. Exploiting a manually annotated dataset, we apply different Transformer-based information extraction methods. Starting from RoBERTA and BioMEDRoBERTA pre-trained language models, we first investigate a zero-shot scenario and compare the obtained results with a full fine-tuning setting. We then introduce a new ad-hoc surgical language model, named SuRGicBERTA, pre-trained on a large collection of surgical materials, and we compare it with the previous ones. In the assessment, we explore different dataset splits (one in-domain and two out-of-domain) and we investigate also the effectiveness of the approach in a few-shot learning scenario. Performance is evaluated on three correlated sub-tasks: predicate disambiguation, semantic argument disambiguation and predicate-argument disambiguation. Results show that the fine-tuning of a pre-trained domain-specific language model achieves the highest performance on all splits and on all sub-tasks. All models are publicly released.

Automated summary

In this work, a benchmark is proposed for extracting detailed surgical actions from available intervention procedure textbooks and papers. Different Transformer-based information extraction methods, including pre-trained language models, are explored and evaluated. The results show that fine-tuning a pre-trained domain-specific language model achieves the highest performance on all splits and sub-tasks. All models are publicly released.