Search Results (2)

As climate change transforms our environment and human intrusion into natural ecosystems escalates, there is a growing demand for disease spread models to forecast and plan for the next zoonotic disease outbreak. Accurate parametrization of these models requires data from diverse sources, including the scientific literature. Despite the abundance of scientific publications, the manual extraction of these data via systematic literature reviews remains a significant bottleneck, requiring extensive time and resources, and is susceptible to human error. This study examines the application of a large language model (LLM) as an assessor for screening prioritisation in climate-sensitive zoonotic disease research. By framing the selection criteria of articles as a question–answer task and utilising zero-shot chain-of-thought prompting, the proposed method achieves a saving of at least 70% work effort compared to manual screening at a recall level of 95% (NWSS@95%). This was validated across four datasets containing four distinct zoonotic diseases and a critical climate variable (rainfall). The approach additionally produces explainable AI rationales for each ranked article. The effectiveness of the approach across multiple diseases demonstrates the potential for broad application in systematic literature reviews. The substantial reduction in screening effort, along with the provision of explainable AI rationales, marks an important step toward automated parameter extraction from the scientific literature. Full article

In the assembly of biological networks it is important to provide reliable interactions in an effort to have the most possible accurate representation of real-life systems. Commonly, the data used to build a network comes from diverse high-throughput essays, however most of the interaction data is available through scientific literature. This has become a challenge with the notable increase in scientific literature being published, as it is hard for human curators to track all recent discoveries without using efficient tools to help them identify these interactions in an automatic way. This can be surpassed by using text mining approaches which are capable of extracting knowledge from scientific documents. One of the most important tasks in text mining for biological network building is relation extraction, which identifies relations between the entities of interest. Many interaction databases already use text mining systems, and the development of these tools will lead to more reliable networks, as well as the possibility to personalize the networks by selecting the desired relations. This review will focus on different approaches of automatic information extraction from biomedical text that can be used to enhance existing networks or create new ones, such as deep learning state-of-the-art approaches, focusing on cancer disease as a case-study. Full article