Literature DB >> 29328784

DNA-Encoded Chemical Libraries: A Selection System Based on Endowing Organic Compounds with Amplifiable Information.

Dario Neri1, Richard A Lerner2.   

Abstract

The discovery of organic ligands that bind specifically to proteins is a central problem in chemistry, biology, and the biomedical sciences. The encoding of individual organic molecules with distinctive DNA tags, serving as amplifiable identification bar codes, allows the construction and screening of combinatorial libraries of unprecedented size, thus facilitating the discovery of ligands to many different protein targets. Fundamentally, one links powers of genetics and chemical synthesis. After the initial description of DNA-encoded chemical libraries in 1992, several experimental embodiments of the technology have been reduced to practice. This review provides a historical account of important milestones in the development of DNA-encoded chemical libraries, a survey of relevant ongoing research activities, and a glimpse into the future.

Entities:  

Keywords:  DNA-encoded chemical libraries; combinatorial chemistry; drug discovery

Mesh:

Substances:

Year:  2018        PMID: 29328784      PMCID: PMC6080696          DOI: 10.1146/annurev-biochem-062917-012550

Source DB:  PubMed          Journal:  Annu Rev Biochem        ISSN: 0066-4154            Impact factor:   23.643


  91 in total

Review 1.  Using label-free screening technology to improve efficiency in drug discovery.

Authors:  Reena Halai; Matthew A Cooper
Journal:  Expert Opin Drug Discov       Date:  2012-01-04       Impact factor: 6.098

2.  Isolation of potent and specific trypsin inhibitors from a DNA-encoded chemical library.

Authors:  Luca Mannocci; Samu Melkko; Fabian Buller; Ilona Molnàr; Jean-Paul Gapian Bianké; Christoph E Dumelin; Jörg Scheuermann; Dario Neri
Journal:  Bioconjug Chem       Date:  2010-10-20       Impact factor: 4.774

Review 3.  Selecting chemicals: the emerging utility of DNA-encoded libraries.

Authors:  Matthew A Clark
Journal:  Curr Opin Chem Biol       Date:  2010-03-26       Impact factor: 8.822

Review 4.  Application of NMR and molecular docking in structure-based drug discovery.

Authors:  Jaime L Stark; Robert Powers
Journal:  Top Curr Chem       Date:  2012

Review 5.  Advancing Biological Understanding and Therapeutics Discovery with Small-Molecule Probes.

Authors:  Stuart L Schreiber; Joanne D Kotz; Min Li; Jeffrey Aubé; Christopher P Austin; John C Reed; Hugh Rosen; E Lucile White; Larry A Sklar; Craig W Lindsley; Benjamin R Alexander; Joshua A Bittker; Paul A Clemons; Andrea de Souza; Michael A Foley; Michelle Palmer; Alykhan F Shamji; Mathias J Wawer; Owen McManus; Meng Wu; Beiyan Zou; Haibo Yu; Jennifer E Golden; Frank J Schoenen; Anton Simeonov; Ajit Jadhav; Michael R Jackson; Anthony B Pinkerton; Thomas D Y Chung; Patrick R Griffin; Benjamin F Cravatt; Peter S Hodder; William R Roush; Edward Roberts; Dong-Hoon Chung; Colleen B Jonsson; James W Noah; William E Severson; Subramaniam Ananthan; Bruce Edwards; Tudor I Oprea; P Jeffrey Conn; Corey R Hopkins; Michael R Wood; Shaun R Stauffer; Kyle A Emmitte
Journal:  Cell       Date:  2015-06-04       Impact factor: 41.582

Review 6.  Small-molecule discovery from DNA-encoded chemical libraries.

Authors:  Ralph E Kleiner; Christoph E Dumelin; David R Liu
Journal:  Chem Soc Rev       Date:  2011-06-14       Impact factor: 54.564

7.  "Cap-and-Catch" Purification for Enhancing the Quality of Libraries of DNA Conjugates.

Authors:  Raphael M Franzini; Stefan Biendl; Gediminas Mikutis; Florent Samain; Jörg Scheuermann; Dario Neri
Journal:  ACS Comb Sci       Date:  2015-06-17       Impact factor: 3.784

8.  DNA display III. Solid-phase organic synthesis on unprotected DNA.

Authors:  David R Halpin; Juanghae A Lee; S Jarrett Wrenn; Pehr B Harbury
Journal:  PLoS Biol       Date:  2004-06-22       Impact factor: 8.029

9.  DNA display I. Sequence-encoded routing of DNA populations.

Authors:  David R Halpin; Pehr B Harbury
Journal:  PLoS Biol       Date:  2004-06-22       Impact factor: 8.029

10.  DNA display II. Genetic manipulation of combinatorial chemistry libraries for small-molecule evolution.

Authors:  David R Halpin; Pehr B Harbury
Journal:  PLoS Biol       Date:  2004-06-22       Impact factor: 8.029

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  62 in total

1.  Multistep Synthesis of 1,2,4-Oxadiazoles via DNA-Conjugated Aryl Nitrile Substrates.

Authors:  Huang-Chi Du; Madison C Bangs; Nicholas Simmons; Martin M Matzuk
Journal:  Bioconjug Chem       Date:  2019-04-10       Impact factor: 4.774

2.  Expanding Reactivity in DNA-Encoded Library Synthesis via Reversible Binding of DNA to an Inert Quaternary Ammonium Support.

Authors:  Dillon T Flood; Shota Asai; Xuejing Zhang; Jie Wang; Leonard Yoon; Zoë C Adams; Blythe C Dillingham; Brittany B Sanchez; Julien C Vantourout; Mark E Flanagan; David W Piotrowski; Paul Richardson; Samantha A Green; Ryan A Shenvi; Jason S Chen; Phil S Baran; Philip E Dawson
Journal:  J Am Chem Soc       Date:  2019-06-12       Impact factor: 15.419

Review 3.  QSAR without borders.

Authors:  Eugene N Muratov; Jürgen Bajorath; Robert P Sheridan; Igor V Tetko; Dmitry Filimonov; Vladimir Poroikov; Tudor I Oprea; Igor I Baskin; Alexandre Varnek; Adrian Roitberg; Olexandr Isayev; Stefano Curtarolo; Denis Fourches; Yoram Cohen; Alan Aspuru-Guzik; David A Winkler; Dimitris Agrafiotis; Artem Cherkasov; Alexander Tropsha
Journal:  Chem Soc Rev       Date:  2020-05-01       Impact factor: 54.564

4.  Selection of DNA-Encoded Libraries to Protein Targets within and on Living Cells.

Authors:  Bo Cai; Dongwook Kim; Saeed Akhand; Yixing Sun; Robert J Cassell; Aktan Alpsoy; Emily C Dykhuizen; Richard M Van Rijn; Michael K Wendt; Casey J Krusemark
Journal:  J Am Chem Soc       Date:  2019-10-22       Impact factor: 15.419

Review 5.  Advances in targeting 'undruggable' transcription factors with small molecules.

Authors:  Matthew J Henley; Angela N Koehler
Journal:  Nat Rev Drug Discov       Date:  2021-05-18       Impact factor: 84.694

6.  Kinetically guided radical-based synthesis of C(sp3)-C(sp3) linkages on DNA.

Authors:  Jie Wang; Helena Lundberg; Shota Asai; Pedro Martín-Acosta; Jason S Chen; Stephen Brown; William Farrell; Russell G Dushin; Christopher J O'Donnell; Anokha S Ratnayake; Paul Richardson; Zhiqing Liu; Tian Qin; Donna G Blackmond; Phil S Baran
Journal:  Proc Natl Acad Sci U S A       Date:  2018-06-26       Impact factor: 11.205

7.  Antibody selection using clonal cocultivation of Escherichia coli and eukaryotic cells in miniecosystems.

Authors:  Tianqing Zheng; Jia Xie; Zhuo Yang; Pingdong Tao; Bingbing Shi; Lacey Douthit; Peng Wu; Richard A Lerner
Journal:  Proc Natl Acad Sci U S A       Date:  2018-06-18       Impact factor: 11.205

8.  DNA-Compatible [3 + 2] Nitrone-Olefin Cycloaddition Suitable for DEL Syntheses.

Authors:  Christopher J Gerry; Zhenhua Yang; Michele Stasi; Stuart L Schreiber
Journal:  Org Lett       Date:  2019-02-14       Impact factor: 6.005

9.  Comparative evaluation of DNA-encoded chemical selections performed using DNA in single-stranded or double-stranded format.

Authors:  Gabriele Bassi; Nicholas Favalli; Sebastian Oehler; Adriano Martinelli; Marco Catalano; Jörg Scheuermann; Dario Neri
Journal:  Biochem Biophys Res Commun       Date:  2020-05-05       Impact factor: 3.575

Review 10.  Chemical tools for membrane protein structural biology.

Authors:  Qinghai Zhang; Vadim Cherezov
Journal:  Curr Opin Struct Biol       Date:  2019-07-05       Impact factor: 6.809

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