Literature DB >> 31801986

Rethinking drug design in the artificial intelligence era.

Petra Schneider1, W Patrick Walters2, Alleyn T Plowright3, Norman Sieroka4, Jennifer Listgarten5, Robert A Goodnow6, Jasmin Fisher7,8, Johanna M Jansen9, José S Duca10, Thomas S Rush11, Matthias Zentgraf12, John Edward Hill13, Elizabeth Krutoholow14, Matthias Kohler15, Jeff Blaney16, Kimito Funatsu17,18, Chris Luebkemann1,19, Gisbert Schneider20.   

Abstract

Artificial intelligence (AI) tools are increasingly being applied in drug discovery. While some protagonists point to vast opportunities potentially offered by such tools, others remain sceptical, waiting for a clear impact to be shown in drug discovery projects. The reality is probably somewhere in-between these extremes, yet it is clear that AI is providing new challenges not only for the scientists involved but also for the biopharma industry and its established processes for discovering and developing new medicines. This article presents the views of a diverse group of international experts on the 'grand challenges' in small-molecule drug discovery with AI and the approaches to address them.

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Year:  2019        PMID: 31801986     DOI: 10.1038/s41573-019-0050-3

Source DB:  PubMed          Journal:  Nat Rev Drug Discov        ISSN: 1474-1776            Impact factor:   84.694


  133 in total

Review 1.  Why and how have drug discovery strategies in pharma changed? What are the new mindsets?

Authors:  Serge Mignani; Scot Huber; Helena Tomás; João Rodrigues; Jean-Pierre Majoral
Journal:  Drug Discov Today       Date:  2015-09-14       Impact factor: 7.851

Review 2.  Computer Aided Drug Design: Success and Limitations.

Authors:  Mohammad Hassan Baig; Khurshid Ahmad; Sudeep Roy; Jalaluddin Mohammad Ashraf; Mohd Adil; Mohammad Haris Siddiqui; Saif Khan; Mohammad Amjad Kamal; Ivo Provazník; Inho Choi
Journal:  Curr Pharm Des       Date:  2016       Impact factor: 3.116

Review 3.  Computer-assisted rational drug design.

Authors:  Y C Martin
Journal:  Methods Enzymol       Date:  1991       Impact factor: 1.600

4.  Concepts of Artificial Intelligence for Computer-Assisted Drug Discovery.

Authors:  Xin Yang; Yifei Wang; Ryan Byrne; Gisbert Schneider; Shengyong Yang
Journal:  Chem Rev       Date:  2019-07-11       Impact factor: 60.622

5.  2018 FDA drug approvals.

Authors:  Asher Mullard
Journal:  Nat Rev Drug Discov       Date:  2019-02       Impact factor: 84.694

Review 6.  Computer-assisted drug design.

Authors:  A J Hopfinger
Journal:  J Med Chem       Date:  1985-09       Impact factor: 7.446

7.  Artificial Intelligence in Drug Design-The Storm Before the Calm?

Authors:  Allan M Jordan
Journal:  ACS Med Chem Lett       Date:  2018-11-02       Impact factor: 4.345

8.  Trends in clinical success rates.

Authors:  Katarzyna Smietana; Marcin Siatkowski; Martin Møller
Journal:  Nat Rev Drug Discov       Date:  2016-05-20       Impact factor: 84.694

9.  Computer-Aided Drug Design Methods.

Authors:  Wenbo Yu; Alexander D MacKerell
Journal:  Methods Mol Biol       Date:  2017

Review 10.  Opportunities and obstacles for deep learning in biology and medicine.

Authors:  Travers Ching; Daniel S Himmelstein; Brett K Beaulieu-Jones; Alexandr A Kalinin; Brian T Do; Gregory P Way; Enrico Ferrero; Paul-Michael Agapow; Michael Zietz; Michael M Hoffman; Wei Xie; Gail L Rosen; Benjamin J Lengerich; Johnny Israeli; Jack Lanchantin; Stephen Woloszynek; Anne E Carpenter; Avanti Shrikumar; Jinbo Xu; Evan M Cofer; Christopher A Lavender; Srinivas C Turaga; Amr M Alexandari; Zhiyong Lu; David J Harris; Dave DeCaprio; Yanjun Qi; Anshul Kundaje; Yifan Peng; Laura K Wiley; Marwin H S Segler; Simina M Boca; S Joshua Swamidass; Austin Huang; Anthony Gitter; Casey S Greene
Journal:  J R Soc Interface       Date:  2018-04       Impact factor: 4.293

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  73 in total

Review 1.  Advancing computer-aided drug discovery (CADD) by big data and data-driven machine learning modeling.

Authors:  Linlin Zhao; Heather L Ciallella; Lauren M Aleksunes; Hao Zhu
Journal:  Drug Discov Today       Date:  2020-07-11       Impact factor: 7.851

2.  Novel Development of Predictive Feature Fingerprints to Identify Chemistry-Based Features for the Effective Drug Design of SARS-CoV-2 Target Antagonists and Inhibitors Using Machine Learning.

Authors:  Kelvin Cooper; Christopher Baddeley; Bernie French; Katherine Gibson; James Golden; Thiam Lee; Sadrach Pierre; Brent Weiss; Jason Yang
Journal:  ACS Omega       Date:  2021-02-05

3.  Derivatization Design of Synthetically Accessible Space for Optimization: In Silico Synthesis vs Deep Generative Design.

Authors:  Gergely M Makara; László Kovács; István Szabó; Gábor Pőcze
Journal:  ACS Med Chem Lett       Date:  2021-01-07       Impact factor: 4.345

Review 4.  A property-response perspective on modern toxicity assessment and drug toxicity index (DTI).

Authors:  Vaibhav A Dixit; Pragati Singh
Journal:  In Silico Pharmacol       Date:  2021-05-15

5.  Crowdsourced mapping of unexplored target space of kinase inhibitors.

Authors:  Anna Cichońska; Balaguru Ravikumar; Robert J Allaway; Fangping Wan; Sungjoon Park; Olexandr Isayev; Shuya Li; Michael Mason; Andrew Lamb; Ziaurrehman Tanoli; Minji Jeon; Sunkyu Kim; Mariya Popova; Stephen Capuzzi; Jianyang Zeng; Kristen Dang; Gregory Koytiger; Jaewoo Kang; Carrow I Wells; Timothy M Willson; Tudor I Oprea; Avner Schlessinger; David H Drewry; Gustavo Stolovitzky; Krister Wennerberg; Justin Guinney; Tero Aittokallio
Journal:  Nat Commun       Date:  2021-06-03       Impact factor: 14.919

6.  Machine Learning Prediction of Allosteric Drug Activity from Molecular Dynamics.

Authors:  Filippo Marchetti; Elisabetta Moroni; Alessandro Pandini; Giorgio Colombo
Journal:  J Phys Chem Lett       Date:  2021-04-12       Impact factor: 6.475

Review 7.  Artificial intelligence in molecular imaging.

Authors:  Edward H Herskovits
Journal:  Ann Transl Med       Date:  2021-05

Review 8.  Translational precision medicine: an industry perspective.

Authors:  Dominik Hartl; Valeria de Luca; Anna Kostikova; Jason Laramie; Scott Kennedy; Enrico Ferrero; Richard Siegel; Martin Fink; Sohail Ahmed; John Millholland; Alexander Schuhmacher; Markus Hinder; Luca Piali; Adrian Roth
Journal:  J Transl Med       Date:  2021-06-05       Impact factor: 5.531

9.  Illuminating elite patches of chemical space.

Authors:  Jonas Verhellen; Jeriek Van den Abeele
Journal:  Chem Sci       Date:  2020-09-17       Impact factor: 9.825

Review 10.  Alkaloids in Contemporary Drug Discovery to Meet Global Disease Needs.

Authors:  Sharna-Kay Daley; Geoffrey A Cordell
Journal:  Molecules       Date:  2021-06-22       Impact factor: 4.411

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