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Alternating Evolutionary Pressure in a Genetic Algorithm Facilitates Protein Model Selection by Marc N Offman; Alexander L Tournier; Paul A Bates is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

What is Alternating Evolutionary Pressure in a Genetic Algorithm Facilitates Protein Model Selection about?

## Background Automatic protein modelling pipelines are becoming ever more accurate; this has come hand in hand with an increasingly complicated interplay between all components involved. Nevertheless, there are still potential improvements to be made in template selection, refinement and protein model selection. ## Results In the context of an automatic modelling pipeline, we analysed each step separately, revealing several non-intuitive trends and explored a new strategy for protein conformation sampling using Genetic Algorithms (GA). We apply the concept of alternating evolutionary pressure (AEP), i.e. intermediate rounds within the GA runs where unrestrained, linear growth of the model populations is allowed. ## Conclusion This approach improves the overall performance of the GA by allowing models to overcome local energy barriers. AEP enabled the selection of the best models in 40% of all targets; compared to 25% for a normal GA.

Who reads Alternating Evolutionary Pressure in a Genetic Algorithm Facilitates Protein Model Selection?

Author

Marc N Offman; Alexander L Tournier; Paul A Bates

Publisher

BioMed Central; Springer (Biomed Central Ltd.); London: BioMed Central, 2001-; Springer Science and Business Media LLC (ISSN 1472-6807)

Published

2008

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)