Literature DB >> 19434897

Route Designer: a retrosynthetic analysis tool utilizing automated retrosynthetic rule generation.

James Law1, Zsolt Zsoldos, Aniko Simon, Darryl Reid, Yang Liu, Sing Yoong Khew, A Peter Johnson, Sarah Major, Robert A Wade, Howard Y Ando.   

Abstract

Route Designer, version 1.0, is a new retrosynthetic analysis package that generates complete synthetic routes for target molecules starting from readily available starting materials. Rules describing retrosynthetic transformations are automatically generated from reaction databases, which ensure that the rules can be easily updated to reflect the latest reaction literature. These rules are used to carry out an exhaustive retrosynthetic analysis of the target molecule, in which heuristics are used to mitigate the combinatorial explosion. Proposed routes are prioritized by an empirical rating algorithm to present a diverse profile of the most promising solutions. The program runs on a server with a web-based user interface. An overview of the system is presented together with examples that illustrate Route Designer's utility.

Year:  2009        PMID: 19434897     DOI: 10.1021/ci800228y

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


  30 in total

Review 1.  The Molecular Industrial Revolution: Automated Synthesis of Small Molecules.

Authors:  Melanie Trobe; Martin D Burke
Journal:  Angew Chem Int Ed Engl       Date:  2018-03-07       Impact factor: 15.336

2.  Planning chemical syntheses with deep neural networks and symbolic AI.

Authors:  Marwin H S Segler; Mike Preuss; Mark P Waller
Journal:  Nature       Date:  2018-03-28       Impact factor: 49.962

3.  No electron left behind: a rule-based expert system to predict chemical reactions and reaction mechanisms.

Authors:  Jonathan H Chen; Pierre Baldi
Journal:  J Chem Inf Model       Date:  2009-09       Impact factor: 4.956

4.  Eurekometrics: analyzing the nature of discovery.

Authors:  Samuel Arbesman; Nicholas A Christakis
Journal:  PLoS Comput Biol       Date:  2011-06-30       Impact factor: 4.475

5.  A retrosynthetic biology approach to metabolic pathway design for therapeutic production.

Authors:  Pablo Carbonell; Anne-Gaëlle Planson; Davide Fichera; Jean-Loup Faulon
Journal:  BMC Syst Biol       Date:  2011-08-05

6.  SCRIPDB: a portal for easy access to syntheses, chemicals and reactions in patents.

Authors:  Abraham Heifets; Igor Jurisica
Journal:  Nucleic Acids Res       Date:  2011-11-08       Impact factor: 16.971

7.  Design, Analysis, and Implementation of a Novel Biochemical Pathway for Ethylene Glycol Production in Clostridium autoethanogenum.

Authors:  Barbara Bourgade; Christopher M Humphreys; James Millard; Nigel P Minton; M Ahsanul Islam
Journal:  ACS Synth Biol       Date:  2022-05-11       Impact factor: 5.249

8.  Combining chemoinformatics with bioinformatics: in silico prediction of bacterial flavor-forming pathways by a chemical systems biology approach "reverse pathway engineering".

Authors:  Mengjin Liu; Bruno Bienfait; Oliver Sacher; Johann Gasteiger; Roland J Siezen; Arjen Nauta; Jan M W Geurts
Journal:  PLoS One       Date:  2014-01-08       Impact factor: 3.240

Review 9.  Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently.

Authors:  Andrew Currin; Neil Swainston; Philip J Day; Douglas B Kell
Journal:  Chem Soc Rev       Date:  2015-03-07       Impact factor: 54.564

10.  An automatic pipeline for the design of irreversible derivatives identifies a potent SARS-CoV-2 Mpro inhibitor.

Authors:  Daniel Zaidman; Paul Gehrtz; Mihajlo Filep; Daren Fearon; Ronen Gabizon; Alice Douangamath; Jaime Prilusky; Shirly Duberstein; Galit Cohen; C David Owen; Efrat Resnick; Claire Strain-Damerell; Petra Lukacik; Haim Barr; Martin A Walsh; Frank von Delft; Nir London
Journal:  Cell Chem Biol       Date:  2021-06-25       Impact factor: 8.116

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