e-learning
Evaluating and ranking a set of pathways based on multiple metrics
Abstract
Progress in synthetic biology is enabled by powerful bioinformatics tools such as those aimed to design metabolic pathways for the production of chemicals. These tools are available in SynBioCAD portal which is the first Galaxy set of tools for synthetic biology and metabolic engineering.
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- How to evaluate a set of heterologous pathways ?
Learning Objectives
- Calculate the production flux of the lycopene target molecule using Flux Balance Analysis tool.
- Compute thermodynamics values to optimize the yield of the reaction producing the lycopene using Thermo tool.
- Compute the global score for the previous annotated pathways.
- Rank the computed heterologous pathways depending on their score.
Licence: Creative Commons Attribution 4.0 International
Keywords: Synthetic Biology
Target audience: Students
Resource type: e-learning
Version: 7
Status: Active
Prerequisites:
Introduction to Galaxy Analyses
Learning objectives:
- Calculate the production flux of the lycopene target molecule using Flux Balance Analysis tool.
- Compute thermodynamics values to optimize the yield of the reaction producing the lycopene using Thermo tool.
- Compute the global score for the previous annotated pathways.
- Rank the computed heterologous pathways depending on their score.
Date modified: 2024-06-14
Date published: 2022-09-26
Contributors: Guillaume Gricourt, Ioana Popescu, Jean-Loup Faulon, Joan Hérisson, Kenza Bazi-Kabbaj, Thomas Duigou
Scientific topics: Synthetic biology
Activity log
