Using genetic programming to predict and optimize protein function
Created by W.Langdon from
gp-bibliography.bib Revision:1.7954
- @Article{Miralavy:2022:PeerJ,
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author = "Iliya Miralavy and Alexander R. Bricco and
Assaf A. Gilad and Wolfgang Banzhaf",
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title = "Using genetic programming to predict and optimize
protein function",
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journal = "PeerJ Physical Chemistry",
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year = "2022",
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month = sep # " 21",
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keywords = "genetic algorithms, genetic programming, POET,
Theoretical and Computational Chemistry, Biophysical
Chemistry, Protein optimization, Directed evolution,
MRI contrast agents,Evolutionary computation",
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ISSN = "2689-7733",
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URL = "https://peerj.com/articles/pchem-24.pdf",
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DOI = "doi:10.7717/peerj-pchem.24",
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code_url = "https://dfzljdn9uc3pi.cloudfront.net/2022/pchem-24/1/POET_Python_Code.zip",
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data_url = "https://dfzljdn9uc3pi.cloudfront.net/2022/pchem-24/1/Dataset_with_sources_revised.csv",
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size = "29 pages",
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abstract = "Protein engineers conventionally use tools such as
Directed Evolution to find new proteins with better
functionalities and traits. More recently,
computational techniques and especially machine
learning approaches have been recruited to assist
Directed Evolution, showing promising results. In this
article, we propose POET, a computational Genetic
Programming tool based on evolutionary computation
methods to enhance screening and mutagenesis in
Directed Evolution and help protein engineers to find
proteins that have better functionality. As a
proof-of-concept, we use peptides that generate MRI
contrast detected by the Chemical Exchange Saturation
Transfer contrast mechanism. The evolutionary methods
used in POET are described, and the performance of POET
in different epochs of our experiments with Chemical
Exchange Saturation Transfer contrast are studied. Our
results indicate that a computational modeling tool
like POET can help to find peptides with 400% better
functionality than used before.",
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notes = "AI-driven chemistry for drug design",
- }
Genetic Programming entries for
Iliya Miralavy
Alexander R Bricco
Assaf A Gilad
Wolfgang Banzhaf
Citations