Literature DB >> 34423264

DNA-Encoded Chemical Libraries: A Comprehensive Review with Succesful Stories and Future Challenges.

Adrián Gironda-Martínez1, Etienne J Donckele1, Florent Samain1, Dario Neri2,3.   

Abstract

DNA-encoded chemical libraries (DELs) represent a versatile and powerful technology platform for the discovery of small-molecule ligands to protein targets of biological and pharmaceutical interest. DELs are collections of molecules, individually coupled to distinctive DNA tags serving as amplifiable identification barcodes. Thanks to advances in DNA-compatible reactions, selection methodologies, next-generation sequencing, and data analysis, DEL technology allows the construction and screening of libraries of unprecedented size, which has led to the discovery of highly potent ligands, some of which have progressed to clinical trials. In this Review, we present an overview of diverse approaches for the generation and screening of DEL molecular repertoires. Recent success stories are described, detailing how novel ligands were isolated from DEL screening campaigns and were further optimized by medicinal chemistry. The goal of the Review is to capture some of the most recent developments in the field, while also elaborating on future challenges to further improve DEL technology as a therapeutic discovery platform.
© 2021 American Chemical Society.

Entities:  

Year:  2021        PMID: 34423264      PMCID: PMC8369695          DOI: 10.1021/acsptsci.1c00118

Source DB:  PubMed          Journal:  ACS Pharmacol Transl Sci        ISSN: 2575-9108


  131 in total

1.  Discovery of Potent and Selective Inhibitors for ADAMTS-4 through DNA-Encoded Library Technology (ELT).

Authors:  Yun Ding; Heather O'Keefe; Jennifer L DeLorey; David I Israel; Jeffrey A Messer; Cynthia H Chiu; Steven R Skinner; Rosalie E Matico; Monique F Murray-Thompson; Fan Li; Matthew A Clark; John W Cuozzo; Christopher Arico-Muendel; Barry A Morgan
Journal:  ACS Med Chem Lett       Date:  2015-07-07       Impact factor: 4.345

Review 2.  Integrating biophysics with HTS-driven drug discovery projects.

Authors:  Rutger H A Folmer
Journal:  Drug Discov Today       Date:  2016-01-28       Impact factor: 7.851

3.  Enzymatic synthesis of code regions for encoded combinatorial chemistry (ECC).

Authors:  Y Kinoshita; K Nishigaki
Journal:  Nucleic Acids Symp Ser       Date:  1995

4.  On-DNA Palladium-Catalyzed Hydrogenation-like Reaction Suitable for DNA-Encoded Library Synthesis.

Authors:  Julián Priego; Eduardo de Pedro Beato; Jesús Benavides; Adrián Gironda-Martínez; Fernando González; Jesús Blas; María Dolores Martín-Ortega; Ramón Rama-Garda; Jesús Ezquerra; Miguel A Toledo; Alicia Torrado
Journal:  Bioconjug Chem       Date:  2020-12-24       Impact factor: 4.774

5.  Impact of a Central Scaffold on the Binding Affinity of Fragment Pairs Isolated from DNA-Encoded Self-Assembling Chemical Libraries.

Authors:  Martina Bigatti; Alberto Dal Corso; Sara Vanetti; Samuele Cazzamalli; Ulrike Rieder; Jörg Scheuermann; Dario Neri; Filippo Sladojevich
Journal:  ChemMedChem       Date:  2017-10-20       Impact factor: 3.466

Review 6.  The enzymatic biotinylation of proteins: a post-translational modification of exceptional specificity.

Authors:  A Chapman-Smith; J E Cronan
Journal:  Trends Biochem Sci       Date:  1999-09       Impact factor: 13.807

7.  Discovering Drugs with DNA-Encoded Library Technology: From Concept to Clinic with an Inhibitor of Soluble Epoxide Hydrolase.

Authors:  Svetlana L Belyanskaya; Yun Ding; James F Callahan; Aili L Lazaar; David I Israel
Journal:  Chembiochem       Date:  2017-03-24       Impact factor: 3.164

8.  An Amphiphilic Polymer-Supported Strategy Enables Chemical Transformations under Anhydrous Conditions for DNA-Encoded Library Synthesis.

Authors:  Yves Ruff; Roberto Martinez; Xavier Pellé; Pierre Nimsgern; Pascale Fille; Maxim Ratnikov; Frédéric Berst
Journal:  ACS Comb Sci       Date:  2020-02-27       Impact factor: 3.784

9.  Universal strategies for the DNA-encoding of libraries of small molecules using the chemical ligation of oligonucleotide tags.

Authors:  Alexander Litovchick; Matthew A Clark; Anthony D Keefe
Journal:  Artif DNA PNA XNA       Date:  2014

10.  Small-Molecule Positive Allosteric Modulators of the β2-Adrenoceptor Isolated from DNA-Encoded Libraries.

Authors:  Seungkirl Ahn; Biswaranjan Pani; Alem W Kahsai; Eva K Olsen; Gitte Husemoen; Mikkel Vestergaard; Lei Jin; Shuai Zhao; Laura M Wingler; Paula K Rambarat; Rishabh K Simhal; Thomas T Xu; Lillian D Sun; Paul J Shim; Dean P Staus; Li-Yin Huang; Thomas Franch; Xin Chen; Robert J Lefkowitz
Journal:  Mol Pharmacol       Date:  2018-05-16       Impact factor: 4.436

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  13 in total

1.  Tunable Aziridinium Ylide Reactivity: Non-covalent Interactions Enable Divergent Product Outcomes.

Authors:  Kate A Nicastri; Soren Zappia; Jared C Pratt; Julia M Duncan; Ilia A Guzei; Israel Fernández; Jennifer M Schomaker
Journal:  ACS Catal       Date:  2022-01-11       Impact factor: 13.084

2.  Antibacterial Discovery via Phenotypic DNA-Encoded Library Screening.

Authors:  Wesley G Cochrane; Patrick R Fitzgerald; Brian M Paegel
Journal:  ACS Chem Biol       Date:  2021-11-20       Impact factor: 5.100

3.  Discovery and Structural Characterization of Small Molecule Binders of the Human CTLH E3 Ligase Subunit GID4.

Authors:  Chetan K Chana; Pierre Maisonneuve; Ganna Posternak; Nicolas G A Grinberg; Juline Poirson; Samara M Ona; Derek F Ceccarelli; Pavel Mader; Daniel J St-Cyr; Victor Pau; Igor Kurinov; Xiaojing Tang; Dongjing Deng; Weiren Cui; Wenji Su; Letian Kuai; Richard Soll; Mike Tyers; Hannes L Röst; Robert A Batey; Mikko Taipale; Anne-Claude Gingras; Frank Sicheri
Journal:  J Med Chem       Date:  2022-09-18       Impact factor: 8.039

4.  Investigations Into Chemically Stabilized Four-Letter DNA for DNA-Encoded Chemistry.

Authors:  Marco Potowski; Verena B K Kunig; Lukas Eberlein; Mateja Klika Škopić; Alexandros Vakalopoulos; Stefan M Kast; Andreas Brunschweiger
Journal:  Front Chem       Date:  2022-06-09       Impact factor: 5.545

Review 5.  Antiviral Drug Discovery for the Treatment of COVID-19 Infections.

Authors:  Teresa I Ng; Ivan Correia; Jane Seagal; David A DeGoey; Michael R Schrimpf; David J Hardee; Elizabeth L Noey; Warren M Kati
Journal:  Viruses       Date:  2022-05-04       Impact factor: 5.818

Review 6.  Methods for the Discovery and Identification of Small Molecules Targeting Oxidative Stress-Related Protein-Protein Interactions: An Update.

Authors:  Xuexuan Wu; Qiuyue Zhang; Yuqi Guo; Hengheng Zhang; Xiaoke Guo; Qidong You; Lei Wang
Journal:  Antioxidants (Basel)       Date:  2022-03-23

7.  Conjugation of oligonucleotides with activated carbamate reagents prepared by the Ugi reaction for oligonucleotide library synthesis.

Authors:  Ryosuke Kita; Takashi Osawa; Satoshi Obika
Journal:  RSC Chem Biol       Date:  2022-04-19

8.  Modular assembly and encoding strategies for dual-display DNA-encoded chemical libraries.

Authors:  Sebastian Oehler; Louise Plais; Gabriele Bassi; Dario Neri; Jörg Scheuermann
Journal:  Chem Commun (Camb)       Date:  2021-11-19       Impact factor: 6.222

9.  Converting Double-Stranded DNA-Encoded Libraries (DELs) to Single-Stranded Libraries for More Versatile Selections.

Authors:  Yuhan Gui; Clara Shania Wong; Guixian Zhao; Chao Xie; Rui Hou; Yizhou Li; Gang Li; Xiaoyu Li
Journal:  ACS Omega       Date:  2022-03-24

10.  Palladium-Mediated Hydroamination of DNA-Conjugated Aryl Alkenes.

Authors:  Kunliang Cai; Yuzhao Ran; Wenbo Sun; Sen Gao; Jin Li; Jinqiao Wan; Guansai Liu
Journal:  Front Chem       Date:  2022-04-11       Impact factor: 5.545

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