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MolVision: Molecular Property Prediction with Vision Language Models

About

Molecular property prediction is a fundamental task in computational chemistry with critical applications in drug discovery and materials science. While recent works have explored Large Language Models (LLMs) for this task, they primarily rely on textual molecular representations such as SMILES/SELFIES, which can be ambiguous and structurally less informative. In this work, we introduce MolVision, a novel approach that leverages Vision-Language Models (VLMs) by integrating both molecular structure as images and textual descriptions to enhance property prediction. We construct a benchmark spanning ten diverse datasets, covering classification, regression and description tasks. Evaluating nine different VLMs in zero-shot, few-shot, and fine-tuned settings, we find that visual information improves prediction performance, particularly when combined with efficient fine-tuning strategies such as LoRA. Our results reveal that while visual information alone is insufficient, multimodal fusion significantly enhances generalization across molecular properties. Adaptation of vision encoder for molecular images in conjunction with LoRA further improves the performance. The code and data is available at : $\href{https://molvision.github.io/MolVision/}{https://molvision.github.io/MolVision/}$.

Deepan Adak, Yogesh Singh Rawat, Shruti Vyas• 2025

Related benchmarks

TaskDatasetResultRank
Molecular Property Prediction (Regression)ESOL
RMSE1.07
44
Quantum Property PredictionQM9
HOMO-LUMO Gap (Delta_epsilon)4.92
42
Toxicity Property PredictionLD50
MAE0.49
11
Graph-level molecular classificationBACE--
10
Drug discovery classificationClinTox--
7
Drug discovery classificationBBBP
Accuracy@0.593
6
Drug discovery classificationTox21
Accuracy @ 0.599
6
Drug discovery classificationHIV
Accuracy@0.592
6
Quantum Property PredictionPCQM
MAE1.99
6
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