Mutation Maker, An Open Source Oligo Design Platform for Protein Engineering
Language English Country United States Media print-electronic
Document type Journal Article, Research Support, Non-U.S. Gov't
- Keywords
- PCR-based accurate synthesis, directed evolution, gene synthesis, multi site-directed mutagenesis, protein design, protein engineering, site-scanning saturation mutagenesis, synthetic biology,
- MeSH
- Algorithms MeSH
- Escherichia coli genetics MeSH
- Gene Library MeSH
- Codon genetics MeSH
- Mutation * MeSH
- Mutagenesis, Site-Directed methods MeSH
- Mutagenesis * MeSH
- Mutant Proteins MeSH
- Oligonucleotides genetics MeSH
- Computer Simulation MeSH
- Proteins genetics MeSH
- Directed Molecular Evolution methods MeSH
- Software * MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
- Names of Substances
- Codon MeSH
- Mutant Proteins MeSH
- Oligonucleotides MeSH
- Proteins MeSH
Protein engineering is the discipline of developing useful proteins for applications in research, therapeutic, and industrial processes by modification of naturally occurring proteins or by invention of de novo proteins. Modern protein engineering relies on the ability to rapidly generate and screen diverse libraries of mutant proteins. However, design of mutant libraries is typically hampered by scale and complexity, necessitating development of advanced automation and optimization tools that can improve efficiency and accuracy. At present, automated library design tools are functionally limited or not freely available. To address these issues, we developed Mutation Maker, an open source mutagenic oligo design software for large-scale protein engineering experiments. Mutation Maker is not only specifically tailored to multisite random and directed mutagenesis protocols, but also pioneers bespoke mutagenic oligo design for de novo gene synthesis workflows. Enabled by a novel bundle of orchestrated heuristics, optimization, constraint-satisfaction and backtracking algorithms, Mutation Maker offers a versatile toolbox for gene diversification design at industrial scale. Supported by in silico simulations and compelling experimental validation data, Mutation Maker oligos produce diverse gene libraries at high success rates irrespective of genes or vectors used. Finally, Mutation Maker was created as an extensible platform on the notion that directed evolution techniques will continue to evolve and revolutionize current and future-oriented applications.
AI and Big Data Analytics MSD Czech Republic s r o 150 00 Prague Czech Republic
Protein Engineering MRL Merck and Co Inc Rahway New Jersey 07065 United States
R and D Informatics Solutions MSD Czech Republic s r o 150 00 Prague Czech Republic
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