Literature DB >> 33437151

Artificial Intelligence in Drug Discovery: A Comprehensive Review of Data-driven and Machine Learning Approaches.

Hyunho Kim1, Eunyoung Kim1, Ingoo Lee1, Bongsung Bae1, Minsu Park1, Hojung Nam1.   

Abstract

As expenditure on drug development increases exponentially, the overall drug discovery process requires a sustainable revolution. Since artificial intelligence (AI) is leading the fourth industrial revolution, AI can be considered as a viable solution for unstable drug research and development. Generally, AI is applied to fields with sufficient data such as computer vision and natural language processing, but there are many efforts to revolutionize the existing drug discovery process by applying AI. This review provides a comprehensive, organized summary of the recent research trends in AI-guided drug discovery process including target identification, hit identification, ADMET prediction, lead optimization, and drug repositioning. The main data sources in each field are also summarized in this review. In addition, an in-depth analysis of the remaining challenges and limitations will be provided, and proposals for promising future directions in each of the aforementioned areas. © The Korean Society for Biotechnology and Bioengineering and Springer 2020.

Entities:  

Keywords:  artificial intelligence; data-driven; drug discovery; machine learning

Year:  2021        PMID: 33437151      PMCID: PMC7790479          DOI: 10.1007/s12257-020-0049-y

Source DB:  PubMed          Journal:  Biotechnol Bioprocess Eng        ISSN: 1226-8372            Impact factor:   3.386


  304 in total

1.  DrugNet: network-based drug-disease prioritization by integrating heterogeneous data.

Authors:  Víctor Martínez; Carmen Navarro; Carlos Cano; Waldo Fajardo; Armando Blanco
Journal:  Artif Intell Med       Date:  2015-01-13       Impact factor: 5.326

2.  Boosted feature selectors: a case study on prediction P-gp inhibitors and substrates.

Authors:  Gonzalo Cerruela García; Nicolás García-Pedrajas
Journal:  J Comput Aided Mol Des       Date:  2018-10-26       Impact factor: 3.686

3.  Enumeration of 166 billion organic small molecules in the chemical universe database GDB-17.

Authors:  Lars Ruddigkeit; Ruud van Deursen; Lorenz C Blum; Jean-Louis Reymond
Journal:  J Chem Inf Model       Date:  2012-11-01       Impact factor: 4.956

4.  Effect of Structural Descriptors on the Design of Cyclin Dependent Kinase Inhibitors Using Similarity-based Molecular Evolution.

Authors:  Kentaro Kawai; Yukiko Karuo; Atsushi Tarui; Kazuyuki Sato; Masaaki Omote
Journal:  Mol Inform       Date:  2020-01-23       Impact factor: 3.353

5.  Expression-based genome-wide association study links the receptor CD44 in adipose tissue with type 2 diabetes.

Authors:  Keiichi Kodama; Momoko Horikoshi; Kyoko Toda; Satoru Yamada; Kazuo Hara; Junichiro Irie; Marina Sirota; Alexander A Morgan; Rong Chen; Hiroshi Ohtsu; Shiro Maeda; Takashi Kadowaki; Atul J Butte
Journal:  Proc Natl Acad Sci U S A       Date:  2012-04-12       Impact factor: 11.205

6.  Next-generation characterization of the Cancer Cell Line Encyclopedia.

Authors:  Mahmoud Ghandi; Franklin W Huang; Judit Jané-Valbuena; Gregory V Kryukov; Christopher C Lo; E Robert McDonald; Jordi Barretina; Ellen T Gelfand; Craig M Bielski; Haoxin Li; Kevin Hu; Alexander Y Andreev-Drakhlin; Jaegil Kim; Julian M Hess; Brian J Haas; François Aguet; Barbara A Weir; Michael V Rothberg; Brenton R Paolella; Michael S Lawrence; Rehan Akbani; Yiling Lu; Hong L Tiv; Prafulla C Gokhale; Antoine de Weck; Ali Amin Mansour; Coyin Oh; Juliann Shih; Kevin Hadi; Yanay Rosen; Jonathan Bistline; Kavitha Venkatesan; Anupama Reddy; Dmitriy Sonkin; Manway Liu; Joseph Lehar; Joshua M Korn; Dale A Porter; Michael D Jones; Javad Golji; Giordano Caponigro; Jordan E Taylor; Caitlin M Dunning; Amanda L Creech; Allison C Warren; James M McFarland; Mahdi Zamanighomi; Audrey Kauffmann; Nicolas Stransky; Marcin Imielinski; Yosef E Maruvka; Andrew D Cherniack; Aviad Tsherniak; Francisca Vazquez; Jacob D Jaffe; Andrew A Lane; David M Weinstock; Cory M Johannessen; Michael P Morrissey; Frank Stegmeier; Robert Schlegel; William C Hahn; Gad Getz; Gordon B Mills; Jesse S Boehm; Todd R Golub; Levi A Garraway; William R Sellers
Journal:  Nature       Date:  2019-05-08       Impact factor: 49.962

7.  PREDICT: a method for inferring novel drug indications with application to personalized medicine.

Authors:  Assaf Gottlieb; Gideon Y Stein; Eytan Ruppin; Roded Sharan
Journal:  Mol Syst Biol       Date:  2011-06-07       Impact factor: 11.429

8.  PubChem Substance and Compound databases.

Authors:  Sunghwan Kim; Paul A Thiessen; Evan E Bolton; Jie Chen; Gang Fu; Asta Gindulyte; Lianyi Han; Jane He; Siqian He; Benjamin A Shoemaker; Jiyao Wang; Bo Yu; Jian Zhang; Stephen H Bryant
Journal:  Nucleic Acids Res       Date:  2015-09-22       Impact factor: 16.971

9.  A two-tiered unsupervised clustering approach for drug repositioning through heterogeneous data integration.

Authors:  Pathima Nusrath Hameed; Karin Verspoor; Snezana Kusljic; Saman Halgamuge
Journal:  BMC Bioinformatics       Date:  2018-04-11       Impact factor: 3.169

10.  PubChem 2019 update: improved access to chemical data.

Authors:  Sunghwan Kim; Jie Chen; Tiejun Cheng; Asta Gindulyte; Jia He; Siqian He; Qingliang Li; Benjamin A Shoemaker; Paul A Thiessen; Bo Yu; Leonid Zaslavsky; Jian Zhang; Evan E Bolton
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

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  3 in total

1.  Topological Distance-Based Electron Interaction Tensor to Apply a Convolutional Neural Network on Drug-like Compounds.

Authors:  Hyun Kil Shin
Journal:  ACS Omega       Date:  2021-12-15

Review 2.  m6A modification: recent advances, anticancer targeted drug discovery and beyond.

Authors:  Li-Juan Deng; Wei-Qing Deng; Shu-Ran Fan; Min-Feng Chen; Ming Qi; Wen-Yu Lyu; Qi Qi; Amit K Tiwari; Jia-Xu Chen; Dong-Mei Zhang; Zhe-Sheng Chen
Journal:  Mol Cancer       Date:  2022-02-14       Impact factor: 27.401

Review 3.  Prediction of antischistosomal small molecules using machine learning in the era of big data.

Authors:  Samuel K Kwofie; Kwasi Agyenkwa-Mawuli; Emmanuel Broni; Whelton A Miller Iii; Michael D Wilson
Journal:  Mol Divers       Date:  2021-08-05       Impact factor: 2.943

  3 in total

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