TOMG-Bench: Evaluating LLMs on Text-based Open Molecule Generation
Authors: name: Jiatong Li; name: Junxian Li; name: Yunqing Liu; name: Dongzhan Zhou; name: Qing Li
Published: 2024-12-19 08:51:16

Abstract: In this paper, we propose Text-based Open Molecule Generation Benchmark
(TOMG-Bench), the first benchmark to evaluate the open-domain molecule
generation capability of LLMs. TOMG-Bench encompasses a dataset of three major
tasks: molecule editing (MolEdit), molecule optimization (MolOpt), and
customized molecule generation (MolCustom). Each task further contains three
subtasks, with each subtask comprising 5,000 test samples. Given the inherent
complexity of open molecule generation, we have also developed an automated
evaluation system that helps measure both the quality and the accuracy of the
generated molecules. Our comprehensive benchmarking of 25 LLMs reveals the
current limitations and potential areas for improvement in text-guided molecule
discovery. Furthermore, with the assistance of OpenMolIns, a specialized
instruction tuning dataset proposed for solving challenges raised by
TOMG-Bench, Llama3.1-8B could outperform all the open-source general LLMs, even
surpassing GPT-3.5-turbo by 46.5\% on TOMG-Bench. Our codes and datasets are
available through https://github.com/phenixace/TOMG-Bench.