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Artificial intelligence for natural product drug discovery.
Mullowney, Michael W; Duncan, Katherine R; Elsayed, Somayah S; Garg, Neha; van der Hooft, Justin J J; Martin, Nathaniel I; Meijer, David; Terlouw, Barbara R; Biermann, Friederike; Blin, Kai; Durairaj, Janani; Gorostiola González, Marina; Helfrich, Eric J N; Huber, Florian; Leopold-Messer, Stefan; Rajan, Kohulan; de Rond, Tristan; van Santen, Jeffrey A; Sorokina, Maria; Balunas, Marcy J; Beniddir, Mehdi A; van Bergeijk, Doris A; Carroll, Laura M; Clark, Chase M; Clevert, Djork-Arné; Dejong, Chris A; Du, Chao; Ferrinho, Scarlet; Grisoni, Francesca; Hofstetter, Albert; Jespers, Willem; Kalinina, Olga V; Kautsar, Satria A; Kim, Hyunwoo; Leao, Tiago F; Masschelein, Joleen; Rees, Evan R; Reher, Raphael; Reker, Daniel; Schwaller, Philippe; Segler, Marwin; Skinnider, Michael A; Walker, Allison S; Willighagen, Egon L; Zdrazil, Barbara; Ziemert, Nadine; Goss, Rebecca J M; Guyomard, Pierre; Volkamer, Andrea; Gerwick, William H.
Affiliation
  • Mullowney MW; Duchossois Family Institute, The University of Chicago, Chicago, IL, USA.
  • Duncan KR; Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK.
  • Elsayed SS; Department of Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands.
  • Garg N; School of Chemistry and Biochemistry, Center for Microbial Dynamics and Infection, Georgia Institute of Technology, Atlanta, GA, USA.
  • van der Hooft JJJ; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands.
  • Martin NI; Department of Biochemistry, University of Johannesburg, Johannesburg, South Africa.
  • Meijer D; Biological Chemistry Group, Institute of Biology, Leiden University, Leiden, The Netherlands.
  • Terlouw BR; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands.
  • Biermann F; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands.
  • Blin K; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands.
  • Durairaj J; Institute of Molecular Bio Science, Goethe-University Frankfurt, Frankfurt am Main, Germany.
  • Gorostiola González M; LOEWE Center for Translational Biodiversity Genomics (TBG), Frankfurt am Main, Germany.
  • Helfrich EJN; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kongens Lyngby, Denmark.
  • Huber F; Biozentrum, University of Basel, Basel, Switzerland.
  • Leopold-Messer S; Drug Discovery and Safety, Leiden Academic Centre for Drug Research, Leiden, The Netherlands.
  • Rajan K; ONCODE institute, Leiden, The Netherlands.
  • de Rond T; Institute of Molecular Bio Science, Goethe-University Frankfurt, Frankfurt am Main, Germany.
  • van Santen JA; LOEWE Center for Translational Biodiversity Genomics (TBG), Frankfurt am Main, Germany.
  • Sorokina M; Center for Digitalization and Digitality, Hochschule Düsseldorf, Düsseldorf, Germany.
  • Balunas MJ; Institut für Mikrobiologie, Eidgenössische Technische Hochschule (ETH) Zürich, Zürich, Switzerland.
  • Beniddir MA; Institute for Inorganic and Analytical Chemistry, Friedrich-Schiller-University Jena, Jena, Germany.
  • van Bergeijk DA; School of Chemical Sciences, University of Auckland, Auckland, New Zealand.
  • Carroll LM; Department of Chemistry, Simon Fraser University, Burnaby, British Columbia, Canada.
  • Clark CM; Institute for Inorganic and Analytical Chemistry, Friedrich-Schiller University, Jena, Germany.
  • Clevert DA; Pharmaceuticals R&D, Bayer AG, Berlin, Germany.
  • Dejong CA; Department of Microbiology and Immunology, University of Michigan, Ann Arbor, MI, USA.
  • Du C; Department of Medicinal Chemistry, University of Michigan, Ann Arbor, MI, USA.
  • Ferrinho S; Équipe "Chimie des Substances Naturelles", Université Paris-Saclay, CNRS, BioCIS, Orsay, France.
  • Grisoni F; Department of Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands.
  • Hofstetter A; Structural and Computational Biology Unit, EMBL, Heidelberg, Germany.
  • Jespers W; Division of Pharmaceutical Sciences, School of Pharmacy, University of Wisconsin-Madison, Madison, WI, USA.
  • Kalinina OV; WRDM - Machine Learning Research, Pfizer, Berlin, Germany.
  • Kautsar SA; Adapsyn Bioscience, Hamilton, Ontario, Canada.
  • Kim H; Department of Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands.
  • Leao TF; Chemistry Department, University of St Andrews, St Andrews, UK.
  • Masschelein J; Institute for Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands.
  • Rees ER; Centre for Living Technologies, Alliance TU/e, WUR, UU, UMC Utrecht, Utrecht, The Netherlands.
  • Reher R; Laboratory of Physical Chemistry, ETH Zürich, Zürich, Switzerland.
  • Reker D; Drug Discovery and Safety, Leiden Academic Centre for Drug Research, Leiden, The Netherlands.
  • Schwaller P; Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarbrücken, Germany.
  • Segler M; Drug Bioinformatics, Medical Faculty, Saarland University, Homburg, Germany.
  • Skinnider MA; Center for Bioinformatics, Saarland University, Saarbrücken, Germany.
  • Walker AS; Department of Chemistry, Scripps Research, FL, USA.
  • Willighagen EL; College of Pharmacy and Integrated Research Institute for Drug Development, Dongguk University Seoul, Goyang-si, Republic of Korea.
  • Zdrazil B; Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil.
  • Ziemert N; Center for Microbiology, VIB-KU Leuven, Heverlee, Belgium.
  • Goss RJM; Department of Biology, KU Leuven, Heverlee, Belgium.
  • Guyomard P; Division of Pharmaceutical Sciences, School of Pharmacy, University of Wisconsin-Madison, Madison, WI, USA.
  • Volkamer A; Institute of Pharmaceutical Biology and Biotechnology, University of Marburg, Marburg, Germany.
  • Gerwick WH; Institute of Pharmacy, Martin-Luther-University Halle-Wittenberg, Halle (Saale), Germany.
Nat Rev Drug Discov ; 22(11): 895-916, 2023 11.
Article in En | MEDLINE | ID: mdl-37697042
ABSTRACT
Developments in computational omics technologies have provided new means to access the hidden diversity of natural products, unearthing new potential for drug discovery. In parallel, artificial intelligence approaches such as machine learning have led to exciting developments in the computational drug design field, facilitating biological activity prediction and de novo drug design for molecular targets of interest. Here, we describe current and future synergies between these developments to effectively identify drug candidates from the plethora of molecules produced by nature. We also discuss how to address key challenges in realizing the potential of these synergies, such as the need for high-quality datasets to train deep learning algorithms and appropriate strategies for algorithm validation.
Subject(s)

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Biological Products / Artificial Intelligence Limits: Humans Language: En Journal: Nat Rev Drug Discov Journal subject: FARMACOLOGIA / TERAPIA POR MEDICAMENTOS Year: 2023 Document type: Article Affiliation country:

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Biological Products / Artificial Intelligence Limits: Humans Language: En Journal: Nat Rev Drug Discov Journal subject: FARMACOLOGIA / TERAPIA POR MEDICAMENTOS Year: 2023 Document type: Article Affiliation country:
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