Journal article
Cameo: A Python Library for Computer Aided Metabolic Engineering and Optimization of Cell Factories
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark1
Global Econometric Modeling, Research Groups, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark2
Department of Biotechnology and Biomedicine, Technical University of Denmark3
iLoop, Translational Management, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark4
Department of Chemical and Biochemical Engineering, Technical University of Denmark5
Synthetic Biology Tools for Yeast, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark6
Research Groups, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark7
Computational systems biology methods enable rational design of cell factories on a genome-scale and thus accelerate the engineering of cells for the production of valuable chemicals and proteins. Unfortunately, for the majority of these methods' implementations are either not published, rely on proprietary software, or do not provide documented interfaces, which has precluded their mainstream adoption in the field.
In this work we present cameo, a platform-independent software that enables in silico design of cell factories and targets both experienced modelers as well as users new to the field. It is written in Python and implements state-of-the-art methods for enumerating and prioritizing knock-out, knock-in, over-expression, and down-regulation strategies and combinations thereof.
Cameo is an open source software project and is freely available under the Apache License 2.0. A dedicated website including documentation, examples, and installation instructions can be found at http://cameo.bio. Users can also give cameo a try at http://try.cameo.bio.
Language: | English |
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Publisher: | American Chemical Society |
Year: | 2018 |
Pages: | 1163-1166 |
ISSN: | 21615063 |
Types: | Journal article |
DOI: | 10.1021/acssynbio.7b00423 |
ORCIDs: | Sonnenschein, Nikolaus , Cardoso, Joao G.R. , Jensen, Kristian , Lieven, Christian , Hansen, Anne Sofie Lærke , Beber, Moritz , Özdemir, Emre , Herrgård, Markus J. and Redestig, Henning |