ArticleActa pharmaceutica Sinica. B2026
PhenoModel: A multimodal phenotypic drug design foundation model for discovering novel potential inhibitors of multiple cancer cells.
Article in Acta pharmaceutica Sinica. B, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Review
- Editorial of special column on machine learning in drug discovery.Acta pharmaceutica Sinica. B · 2026Article
- Retrieval-Based Evaluation of Cell Painting Feature Spaces Reveals Differences in the Preservation of Biologically Meaningful Phenotypic Similarity.International journal of molecular sciences · 2026Article
- Dual inhibition of KDM4B and KDM5A disassembles the PAX3-FOXO1 transcriptional program in fusion-positive rhabdomyosarcoma.Biology direct · 2026Article
- Learned Conformational Space and Pharmacophore Into Molecular Foundational Model.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
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Authors and funding
15 authors.
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Abstract
Phenotypic drug discovery (PDD) focuses on the observable traits or phenotype of cells or organisms in response to drug treatment, rather than relying primarily on specific molecular targets. Drugs discovered through this approach may have better therapeutic relevance, as they are tested in conditions that closely mimic human disease. In this study, we present PhenoModel, a multimodal molecular foundation model developed using our unique dual-space contrastive learning framework. This model effectively connects molecular structures with phenotypic information. PhenoModel is applicable to a range of downstream drug discovery tasks, including molecular property prediction and active molecule screening based on targets, phenotypes, and ligands. Our results demonstrate that PhenoModel outperforms baseline methods in these areas. Building from this model, PhenoScreen is developed to successfully identify several phenotypically bioactive compounds against osteosarcoma and rhabdomyosarcoma cell lines. These findings highlight the versatility of PhenoModel and its potential to accelerate drug discovery by uncovering novel therapeutic pathways and expanding the diversity of viable drug candidates.
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Registered trials
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