bioRxiv preprint doi: https://doi.org/10.1101/141721; this version posted June 29, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. RetroPath2.0: a retrosynthesis workflow for metabolic engineers Baudoin Delépine1,2,3,§, Thomas Duigou3,§, Pablo Carbonell4, Jean-Loup Faulon3,1,2,4,* 1 CNRS-UMR8030 / Laboratoire iSSB, Université Paris-Saclay, Évry 91000, France 2 CEA, DRF, IG, Genoscope, Évry 91000, France 3 Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France 4 SYNBIOCHEM Centre, Manchester Institute of Biotechnology, University of Manchester, Manchester, UK §: These authors contributed equally to this work. *: Corresponding author at: Micalis, Institut National de la Recherche Agronomique, Domaine de Vilvert, 78352 JOUY-EN-JOSAS, FRANCE; E-mail address:
[email protected] Highlights • State-of-the-art Computer-Aided Design retrosynthesis solutions lack open source and ease of use • We propose RetroPath2.0 a modular and open-source workflow to perform retrosynthesis • RetroPath2.0 computes reaction network between Source and Sink sets of compounds • RetroPath2.0 is distributed as a KNIME workflow for desktop computers • RetroPath2.0 is ready-for-use and distributed with reaction rules Funding This work was supported by the French National Research Agency [ANR-15-CE1-0008], the Biotechnology and Biological Sciences Research Council, Centre for synthetic biology of fine and speciality chemicals [BB/M017702/1]; Synthetic Biology Applications for Protective Materials [EP/N025504/1], and GIP Genopole.