Bacteria-Specific Feature Selection for Enhanced Antimicrobial Peptide Activity Predictions Using Machine-Learning Methods

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dc.citation.firstpage1723
dc.citation.issueNumber6
dc.citation.journalTitleJournal of Chemical Information and Modeling
dc.citation.lastpage1733
dc.citation.volumeNumber63
dc.contributor.authorTeimouri, Hamid
dc.contributor.authorMedvedeva, Angela
dc.contributor.authorKolomeisky, Anatoly B.
dc.contributor.orgCenter for Theoretical Biological Physics
dc.date.accessioned2023-05-02T18:37:01Z
dc.date.available2023-05-02T18:37:01Z
dc.date.issued2023
dc.description.abstractThere are several classes of short peptide molecules, known as antimicrobial peptides (AMPs), which are produced during the immune responses of living organisms against various infections. In recent years, substantial progress has been achieved in applying machine-learning methods to predict the activities of AMPs against bacteria. In most investigated cases, however, the outcome is not bacterium-specific since the specific features of bacteria, such as chemical composition and structure of membranes, are not considered. To overcome this problem, we developed a new computational approach that allowed us to train several supervised machine-learning models using a specific set of data associated with peptides targeting E. coli bacteria. LASSO regression and Support Vector Machine techniques have been utilized to select, among more than 1500 physicochemical descriptors, the most important features that can be used to classify a peptide as antimicrobial or ineffective against E. coli. We then performed the classification of active versus inactive AMPs using the Support Vector classifiers, Logistic Regression, and Random Forest methods. This computational study allows us to make recommendations of how to design more efficient antibacterial drug therapies.
dc.identifier.citationTeimouri, Hamid, Medvedeva, Angela and Kolomeisky, Anatoly B.. "Bacteria-Specific Feature Selection for Enhanced Antimicrobial Peptide Activity Predictions Using Machine-Learning Methods." <i>Journal of Chemical Information and Modeling,</i> 63, no. 6 (2023) American Chemical Society: 1723-1733. https://doi.org/10.1021/acs.jcim.2c01551.
dc.identifier.doihttps://doi.org/10.1021/acs.jcim.2c01551
dc.identifier.urihttps://hdl.handle.net/1911/114868
dc.language.isoeng
dc.publisherAmerican Chemical Society
dc.rightsThis is an author's peer-reviewed final manuscript, as accepted by the publisher. The published article is copyrighted by the American Chemical Society.
dc.titleBacteria-Specific Feature Selection for Enhanced Antimicrobial Peptide Activity Predictions Using Machine-Learning Methods
dc.typeJournal article
dc.type.dcmiText
dc.type.publicationpost-print
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