Literature DB >> 23508189

Target identification and mechanism of action in chemical biology and drug discovery.

Monica Schenone1, Vlado Dančík, Bridget K Wagner, Paul A Clemons.   

Abstract

Target-identification and mechanism-of-action studies have important roles in small-molecule probe and drug discovery. Biological and technological advances have resulted in the increasing use of cell-based assays to discover new biologically active small molecules. Such studies allow small-molecule action to be tested in a more disease-relevant setting at the outset, but they require follow-up studies to determine the precise protein target or targets responsible for the observed phenotype. Target identification can be approached by direct biochemical methods, genetic interactions or computational inference. In many cases, however, combinations of approaches may be required to fully characterize on-target and off-target effects and to understand mechanisms of small-molecule action.

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Year:  2013        PMID: 23508189      PMCID: PMC5543995          DOI: 10.1038/nchembio.1199

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN: 1552-4450            Impact factor:   15.040


  147 in total

1.  Development of a novel chemical probe for the selective enrichment of phosphorylated serine- and threonine-containing peptides.

Authors:  Pieter van der Veken; Eef H C Dirksen; Eelco Ruijter; Ronald C Elgersma; Albert J R Heck; Dirk T S Rijkers; Monique Slijper; Rob M J Liskamp
Journal:  Chembiochem       Date:  2005-12       Impact factor: 3.164

2.  Global mapping of pharmacological space.

Authors:  Gaia V Paolini; Richard H B Shapland; Willem P van Hoorn; Jonathan S Mason; Andrew L Hopkins
Journal:  Nat Biotechnol       Date:  2006-07       Impact factor: 54.908

3.  Cellular phenotype recognition for high-content RNA interference genome-wide screening.

Authors:  Jun Wang; Xiaobo Zhou; Pamela L Bradley; Shih-Fu Chang; Norbert Perrimon; Stephen T C Wong
Journal:  J Biomol Screen       Date:  2008-01

4.  Identifying the proteins to which small-molecule probes and drugs bind in cells.

Authors:  Shao-En Ong; Monica Schenone; Adam A Margolin; Xiaoyu Li; Kathy Do; Mary K Doud; D R Mani; Letian Kuai; Xiang Wang; John L Wood; Nicola J Tolliday; Angela N Koehler; Lisa A Marcaurelle; Todd R Golub; Robert J Gould; Stuart L Schreiber; Steven A Carr
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-02       Impact factor: 11.205

Review 5.  Old friends in new guise: repositioning of known drugs with structural bioinformatics.

Authors:  V Joachim Haupt; Michael Schroeder
Journal:  Brief Bioinform       Date:  2011-03-26       Impact factor: 11.622

6.  Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Authors:  Aravind Subramanian; Pablo Tamayo; Vamsi K Mootha; Sayan Mukherjee; Benjamin L Ebert; Michael A Gillette; Amanda Paulovich; Scott L Pomeroy; Todd R Golub; Eric S Lander; Jill P Mesirov
Journal:  Proc Natl Acad Sci U S A       Date:  2005-09-30       Impact factor: 11.205

7.  In silico activity profiling reveals the mechanism of action of antimalarials discovered in a high-throughput screen.

Authors:  David Plouffe; Achim Brinker; Case McNamara; Kerstin Henson; Nobutaka Kato; Kelli Kuhen; Advait Nagle; Francisco Adrián; Jason T Matzen; Paul Anderson; Tae-Gyu Nam; Nathanael S Gray; Arnab Chatterjee; Jeff Janes; S Frank Yan; Richard Trager; Jeremy S Caldwell; Peter G Schultz; Yingyao Zhou; Elizabeth A Winzeler
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-25       Impact factor: 11.205

8.  Inhibition of T cell signaling by immunophilin-ligand complexes correlates with loss of calcineurin phosphatase activity.

Authors:  J Liu; M W Albers; T J Wandless; S Luan; D G Alberg; P J Belshaw; P Cohen; C MacKintosh; C B Klee; S L Schreiber
Journal:  Biochemistry       Date:  1992-04-28       Impact factor: 3.162

9.  Identifying compound-target associations by combining bioactivity profile similarity search and public databases mining.

Authors:  Tiejun Cheng; Qingliang Li; Yanli Wang; Stephen H Bryant
Journal:  J Chem Inf Model       Date:  2011-08-18       Impact factor: 4.956

10.  Using transcriptome sequencing to identify mechanisms of drug action and resistance.

Authors:  Sarah A Wacker; Benjamin R Houghtaling; Olivier Elemento; Tarun M Kapoor
Journal:  Nat Chem Biol       Date:  2012-02-12       Impact factor: 15.040

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  239 in total

1.  Thermal proteome profiling for unbiased identification of direct and indirect drug targets using multiplexed quantitative mass spectrometry.

Authors:  Holger Franken; Toby Mathieson; Dorothee Childs; Gavain M A Sweetman; Thilo Werner; Ina Tögel; Carola Doce; Stephan Gade; Marcus Bantscheff; Gerard Drewes; Friedrich B M Reinhard; Wolfgang Huber; Mikhail M Savitski
Journal:  Nat Protoc       Date:  2015-09-17       Impact factor: 13.491

Review 2.  Functional genomics to uncover drug mechanism of action.

Authors:  Sebastian M B Nijman
Journal:  Nat Chem Biol       Date:  2015-11-17       Impact factor: 15.040

3.  Chemical probes: The many genes of drug mechanism.

Authors:  Adam C Palmer
Journal:  Nat Chem Biol       Date:  2016-02       Impact factor: 15.040

4.  Structure-Based Screening of Uncharted Chemical Space for Atypical Adenosine Receptor Agonists.

Authors:  David Rodríguez; Saibal Chakraborty; Eugene Warnick; Steven Crane; Zhan-Guo Gao; Robert O'Connor; Kenneth A Jacobson; Jens Carlsson
Journal:  ACS Chem Biol       Date:  2016-08-22       Impact factor: 5.100

5.  Discovery of Modulators of Adipocyte Physiology Using Fully Functionalized Fragments.

Authors:  Andrea Galmozzi; Christopher G Parker; Bernard P Kok; Benjamin F Cravatt; Enrique Saez
Journal:  Methods Mol Biol       Date:  2018

6.  Marine Natural Product Honaucin A Attenuates Inflammation by Activating the Nrf2-ARE Pathway.

Authors:  Samantha J Mascuch; Paul D Boudreau; Tristan M Carland; N Tessa Pierce; Joshua Olson; Mary E Hensler; Hyukjae Choi; Joseph Campanale; Amro Hamdoun; Victor Nizet; William H Gerwick; Teresa Gaasterland; Lena Gerwick
Journal:  J Nat Prod       Date:  2017-12-07       Impact factor: 4.050

7.  Improving inverse docking target identification with Z-score selection.

Authors:  Stephanie S Kim; Melanie L Aprahamian; Steffen Lindert
Journal:  Chem Biol Drug Des       Date:  2019-01-02       Impact factor: 2.817

8.  Discovery of a ZIP7 inhibitor from a Notch pathway screen.

Authors:  Erin Nolin; Sara Gans; Luis Llamas; Somnath Bandyopadhyay; Scott M Brittain; Paula Bernasconi-Elias; Kyle P Carter; Joseph J Loureiro; Jason R Thomas; Markus Schirle; Yi Yang; Ning Guo; Guglielmo Roma; Sven Schuierer; Martin Beibel; Alicia Lindeman; Frederic Sigoillot; Amy Chen; Kevin X Xie; Samuel Ho; John Reece-Hoyes; Wilhelm A Weihofen; Kayla Tyskiewicz; Dominic Hoepfner; Richard I McDonald; Nicolette Guthrie; Abhishek Dogra; Haibing Guo; Jian Shao; Jian Ding; Stephen M Canham; Geoff Boynton; Elizabeth L George; Zhao B Kang; Christophe Antczak; Jeffery A Porter; Owen Wallace; John A Tallarico; Amy E Palmer; Jeremy L Jenkins; Rishi K Jain; Simon M Bushell; Christy J Fryer
Journal:  Nat Chem Biol       Date:  2019-01-14       Impact factor: 15.040

9.  Phenotypic Screening of Chemical Libraries Enriched by Molecular Docking to Multiple Targets Selected from Glioblastoma Genomic Data.

Authors:  David Xu; Donghui Zhou; Khuchtumur Bum-Erdene; Barbara J Bailey; Kamakshi Sishtla; Sheng Liu; Jun Wan; Uma K Aryal; Jonathan A Lee; Clark D Wells; Melissa L Fishel; Timothy W Corson; Karen E Pollok; Samy O Meroueh
Journal:  ACS Chem Biol       Date:  2020-05-21       Impact factor: 5.100

10.  Glycogen Synthase Kinase 3β Promotes the Endocytosis of Transferrin in the African Trypanosome.

Authors:  Paul J Guyett; Shuangluo Xia; David C Swinney; Michael P Pollastri; Kojo Mensa-Wilmot
Journal:  ACS Infect Dis       Date:  2016-06-16       Impact factor: 5.084

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