ACEGEN: Reinforcement Learning of Generative Chemical Agents for Drug Discovery.


Journal

Journal of chemical information and modeling
ISSN: 1549-960X
Titre abrégé: J Chem Inf Model
Pays: United States
ID NLM: 101230060

Informations de publication

Date de publication:
02 Aug 2024
Historique:
medline: 2 8 2024
pubmed: 2 8 2024
entrez: 2 8 2024
Statut: aheadofprint

Résumé

In recent years, reinforcement learning (RL) has emerged as a valuable tool in drug design, offering the potential to propose and optimize molecules with desired properties. However, striking a balance between capabilities, flexibility, reliability, and efficiency remains challenging due to the complexity of advanced RL algorithms and the significant reliance on specialized code. In this work, we introduce ACEGEN, a comprehensive and streamlined toolkit tailored for generative drug design, built using TorchRL, a modern RL library that offers thoroughly tested reusable components. We validate ACEGEN by benchmarking against other published generative modeling algorithms and show comparable or improved performance. We also show examples of ACEGEN applied in multiple drug discovery case studies. ACEGEN is accessible at https://github.com/acellera/acegen-open and available for use under the MIT license.

Identifiants

pubmed: 39092857
doi: 10.1021/acs.jcim.4c00895
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Auteurs

Albert Bou (A)

Computational Science Laboratory, Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB), C Dr. Aiguader 88, 08003 Barcelona, Spain.
Acellera Labs, C Dr. Trueta 183, 08005, Barcelona, Spain.

Morgan Thomas (M)

Computational Science Laboratory, Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB), C Dr. Aiguader 88, 08003 Barcelona, Spain.

Sebastian Dittert (S)

Computational Science Laboratory, Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB), C Dr. Aiguader 88, 08003 Barcelona, Spain.

Carles Navarro (C)

Acellera Labs, C Dr. Trueta 183, 08005, Barcelona, Spain.

Maciej Majewski (M)

Acellera Labs, C Dr. Trueta 183, 08005, Barcelona, Spain.

Ye Wang (Y)

Biogen Research and Development, 225 Binney Street, Cambridge, Massachusetts 02142, United States.

Shivam Patel (S)

Psivant Therapeutics, 451 D Street, Boston, Massachusetts 02210, United States.

Gary Tresadern (G)

In Silico Discovery, Janssen Research & Development, Janssen Pharmaceutica N. V., Turnhoutseweg 30, B-2340 Beerse, Belgium.

Mazen Ahmad (M)

In Silico Discovery, Janssen Research & Development, Janssen Pharmaceutica N. V., Turnhoutseweg 30, B-2340 Beerse, Belgium.

Vincent Moens (V)

PyTorch Team, Meta, 11-21 Canal Reach, London, N1C 4DB, United Kingdom.

Woody Sherman (W)

Psivant Therapeutics, 451 D Street, Boston, Massachusetts 02210, United States.

Simone Sciabola (S)

Biogen Research and Development, 225 Binney Street, Cambridge, Massachusetts 02142, United States.

Gianni De Fabritiis (G)

Computational Science Laboratory, Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB), C Dr. Aiguader 88, 08003 Barcelona, Spain.
Acellera Labs, C Dr. Trueta 183, 08005, Barcelona, Spain.
Institució Catalana de Recerca i Estudis Avançats (ICREA), Passeig Lluis Companys 23, 08010 Barcelona, Spain.

Classifications MeSH