Detection of selective cationic amphipatic antibacterial peptides by Hidden Markov models

• Autorzy: Polanco C. , Samaniego J.L.
• Języki publikacji: EN

Abstrakty

EN

Antibacterial peptides are researched mainly for the potential benefit they have in a variety of socially relevant diseases, used by the host to protect itself from different types of pathogenic bacteria. We used the mathematical-computational method known as Hidden Markov models (HMMs) in targeting a subset of antibacterial peptides named Selective Cationic Amphipatic Antibacterial Peptides (SCAAPs). The main difference in the implementation of HMMs was focused on the detection of SCAAP using principally five physical-chemical properties for each candidate SCAAPs, instead of using the statistical information about the amino acids which form a peptide. By this method a cluster of antibacterial peptides was detected and as a result the following were found: 9 SCAAPs, 6 synthetic antibacterial peptides that belong to a subregion of Cecropin A and Magainin 2, and 19 peptides from the Cecropin A family. A scoring function was developed using HMMs as its core, uniquely employing information accessible from the databases.

Słowa kluczowe

EN

detection; new drug; Hidden Markov model; antibacterial peptide; selective cationic amphipatic antibacterial peptide

• Wydawca: -
• Czasopismo: Acta Biochimica Polonica
• Rocznik: 2009
• Tom: 56
• Numer: 1
• Opis fizyczny: p.167-176,ref.

Twórcy

autor

Polanco C.

• Universidad Nacional Autonoma de Mexico, Circuito Exterior s/n Ciudad Universitaria Delegacion Coyoacan CP 04510, D.F., Mexico

autor

Samaniego J.L.

Bibliografia

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