Automated Bio-Production Pipeline - Archive ouverte HAL Accéder directement au contenu
Poster De Conférence Année : 2024

Automated Bio-Production Pipeline

Résumé

There’s a substantial number of tools released around Synthetic Biology and Metabolic Engineering related questions and needs. This population of tools is difficult to comprehend and use together, main reasons being complexity and interoperability issues. Indeed, a high level of expertise could be required for installing codes, and execution for real life use cases could be computationally resource demanding. Additionally, some tools, although complementary, use different inputs and outputs which prevent easy chaining. The SynBioCAD-Galaxy (https://galaxy-synbiocad.org) portal is a growing toolshed for synthetic biology, metabolic engineering, and industrial biotechnology [1]. The tools and workflows currently shared on the portal enables one to build libraries of strains producing desired chemical targets covering an end-to-end metabolic pathway design and engineering process: from the selection of strains and targets, the design of DNA parts to be assembled, to the generation of scripts driving liquid handlers for plasmid assembly and strain transformations. The tools include several machine learning techniques including active learning and hybrid modeling [2] and can also be used to engineer biosensors [3] and to optimize cell-free productivity [4]. Tools are made available on GitHub, anaconda.org and the Galaxy Tool Shed, opening to the greatest number access and utilization throughout the SynBio community, and significant effort has been granted for adopting FAIR principles. The poster will give an overview of the SynBioCAD-Galaxy portal in the context of prediction and construction of E. coli lycopene-producing pathways.
Fichier non déposé

Dates et versions

hal-04408969 , version 1 (22-01-2024)

Licence

Domaine public

Identifiants

  • HAL Id : hal-04408969 , version 1

Citer

Joan Hérisson, Thomas Duigou, Guillaume Gricourt, Jean-Loup Faulon. Automated Bio-Production Pipeline. The Automated Scientist, Mar 2024, Copenhagen, Denmark. ⟨hal-04408969⟩
65 Consultations
0 Téléchargements

Partager

Gmail Facebook X LinkedIn More