Reading papers: Extraction of molecular interaction networks with large language models
Published in BioRxiv, 2025
In this work, we use open-source LLMs to mine an annotated corpus of molecular interactions. We focus on the extraction of entity relations between proteins, as exemplified in protein-protein interaction networks, and transcription factor to target gene relations, as exemplified in gene regulatory networks.
Recommended citation: Reading papers: Extraction of molecular interaction networks with large language models, Enio Gjerga, Philipp Wiesenbach, Christoph Dieterich bioRxiv 2025.07.21.665999; doi: https://doi.org/10.1101/2025.07.21.665999