Literature DB >> 30817146

Advances and Challenges in Computational Target Prediction.

Dominique Sydow1, Lindsey Burggraaff2, Angelika Szengel1, Herman W T van Vlijmen2,3, Adriaan P IJzerman2, Gerard J P van Westen2, Andrea Volkamer1.   

Abstract

Target deconvolution is a vital initial step in preclinical drug development to determine research focus and strategy. In this respect, computational target prediction is used to identify the most probable targets of an orphan ligand or the most similar targets to a protein under investigation. Applications range from the fundamental analysis of the mode-of-action over polypharmacology or adverse effect predictions to drug repositioning. Here, we provide a review on published ligand- and target-based as well as hybrid approaches for computational target prediction, together with current limitations and future directions.

Year:  2019        PMID: 30817146     DOI: 10.1021/acs.jcim.8b00832

Source DB:  PubMed          Journal:  J Chem Inf Model        ISSN: 1549-9596            Impact factor:   4.956


  18 in total

Review 1.  Big Data and Artificial Intelligence Modeling for Drug Discovery.

Authors:  Hao Zhu
Journal:  Annu Rev Pharmacol Toxicol       Date:  2019-09-13       Impact factor: 13.820

2.  STarFish: A Stacked Ensemble Target Fishing Approach and its Application to Natural Products.

Authors:  Nicholas T Cockroft; Xiaolin Cheng; James R Fuchs
Journal:  J Chem Inf Model       Date:  2019-10-24       Impact factor: 4.956

3.  Similarity-Based Methods and Machine Learning Approaches for Target Prediction in Early Drug Discovery: Performance and Scope.

Authors:  Neann Mathai; Johannes Kirchmair
Journal:  Int J Mol Sci       Date:  2020-05-19       Impact factor: 5.923

4.  Scope of 3D Shape-Based Approaches in Predicting the Macromolecular Targets of Structurally Complex Small Molecules Including Natural Products and Macrocyclic Ligands.

Authors:  Ya Chen; Neann Mathai; Johannes Kirchmair
Journal:  J Chem Inf Model       Date:  2020-05-05       Impact factor: 4.956

5.  Industry-scale application and evaluation of deep learning for drug target prediction.

Authors:  Noé Sturm; Andreas Mayr; Thanh Le Van; Vladimir Chupakhin; Hugo Ceulemans; Joerg Wegner; Jose-Felipe Golib-Dzib; Nina Jeliazkova; Yves Vandriessche; Stanislav Böhm; Vojtech Cima; Jan Martinovic; Nigel Greene; Tom Vander Aa; Thomas J Ashby; Sepp Hochreiter; Ola Engkvist; Günter Klambauer; Hongming Chen
Journal:  J Cheminform       Date:  2020-04-19       Impact factor: 5.514

6.  Comprehensive computational target fishing approach to identify Xanthorrhizol putative targets.

Authors:  Muhammad Shahid; Ahmad Azfaralariff; Douglas Law; Ahmed Abdulkareem Najm; Siti Aisyah Sanusi; Seng Joe Lim; Yew Hoong Cheah; Shazrul Fazry
Journal:  Sci Rep       Date:  2021-01-15       Impact factor: 4.379

Review 7.  Resources and computational strategies to advance small molecule SARS-CoV-2 discovery: lessons from the pandemic and preparing for future health crises.

Authors:  Natesh Singh; Bruno O Villoutreix
Journal:  Comput Struct Biotechnol J       Date:  2021-04-26       Impact factor: 7.271

8.  Deciphering the enzymatic target of a new family of antischistosomal agents bearing a quinazoline scaffold using complementary computational tools.

Authors:  Victor Sebastian-Perez; Alfonso García-Rubia; Sayed H Seif El-Din; Abdel-Nasser A Sabra; Naglaa M El-Lakkany; Samia William; Tom L Blundell; Louis Maes; Ana Martinez; Nuria E Campillo; Sanaa S Botros; Carmen Gil
Journal:  J Enzyme Inhib Med Chem       Date:  2020-12       Impact factor: 5.051

9.  LigTMap: ligand and structure-based target identification and activity prediction for small molecular compounds.

Authors:  Faraz Shaikh; Hio Kuan Tai; Nirali Desai; Shirley W I Siu
Journal:  J Cheminform       Date:  2021-06-10       Impact factor: 5.514

10.  Finding New Molecular Targets of Familiar Natural Products Using In Silico Target Prediction.

Authors:  Fabian Mayr; Gabriele Möller; Ulrike Garscha; Jana Fischer; Patricia Rodríguez Castaño; Silvia G Inderbinen; Veronika Temml; Birgit Waltenberger; Stefan Schwaiger; Rolf W Hartmann; Christian Gege; Stefan Martens; Alex Odermatt; Amit V Pandey; Oliver Werz; Jerzy Adamski; Hermann Stuppner; Daniela Schuster
Journal:  Int J Mol Sci       Date:  2020-09-26       Impact factor: 5.923

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