TextToKnowledgeGraph: generation of molecular interaction knowledge graphs using large language models for exploration in Cytoscape.

ABSTRACT:

Motivation

Knowledge graphs (KGs) are powerful tools for structuring and analyzing biological information due to their ability to represent data and improve queries across heterogeneous datasets. However, constructing KGs from unstructured literature remains challenging due to the cost and expertise required for manual curation. Prior works have explored text-mining techniques to automate this process, but have limitations that impact their ability to capture complex relationships fully. Traditional text-mining methods struggle with understanding context across sentences. Additionally, these methods lack expert-level background knowledge, making it difficult to infer relationships that require awareness of concepts indirectly described in the text. Large Language Models (LLMs) pres

SUBMITTER: James F 

PROVIDER: S-EPMC12916169 | biostudies-literature | 2026 Feb

REPOSITORIES: biostudies-literature