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A Wide Antimicrobial Peptides Search Method Using Fuzzy Modeling

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Advances in Bioinformatics and Computational Biology (BSB 2009)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 5676))

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Abstract

The search for novel antimicrobial peptides in free databases is a key element to design new antibiotics. Their amino acid physicochemical features impact into the antimicrobial peptides activities. The relationship between the amino acid physicochemical properties and the antimicrobial target might have a fuzzy behavior. This study proposes a sequence similarity and physicochemical search method followed by a fuzzy inference system to find the most appropriated antimicrobial peptides for each domain. The proposed system was tested with NCBI’s NR protein data file and the obtained peptide sub dataset will be tested in vitro.

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References

  1. Loose, C., Jensen, K., Rigoutsos, I., Stephanopoulos, G.: A Linguistic Model for the Rational Design of Antimicrobial Peptides. Nature 443, 867–869 (2006)

    Article  CAS  PubMed  Google Scholar 

  2. Tomita, Y., Kato, R., Okochi, M., Honda, H.: A Motif Detection and Classification Method for Peptide Sequences Using Genetic Programming. J. Bios. Bioeng. 106, 154–161 (2008)

    Article  CAS  Google Scholar 

  3. Brogden, A.K.: Antimicrobial Peptides: Pore Formers or Metabolic Inhibitors in Bacteria? Nature 3, 238–250 (2005)

    CAS  Google Scholar 

  4. National Center for Biotechnology Information, http://www.ncbi.nlm.nih.gov

  5. Yeaman, M.R., Yount, N.Y.: Mechanisms of Antimicrobial Peptide Action and Resistance. Pharmacol Rev 55, 27–55 (2003)

    Article  CAS  PubMed  Google Scholar 

  6. Mount, D.W.: Bioinformatics: Sequence and Genome Analysis. Cold Spring Harbor Laboratory Press, New York (2000)

    Google Scholar 

  7. Mathworks. MatLab (2003), http://www.mathworks.com

  8. Mandal, S.M., Dey, S., Mandal, M., Sarkar, S., Maria-Neto, S., Franco, O.L.: Identification and Structural Insights of Three Novel Antimicrobial Peptides Isolated from Green Coconut Water. Peptides 30, 633–637 (2008)

    Article  PubMed  Google Scholar 

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Authors and Affiliations

  1. Centro de Análises Proteômicas e Bioquímicas, Pós-Graduação em Ciências Genômicas e Biotecnologia, Universidade Católica de Brasília, Brasília - DF, Brazil, 70790-160

    Fabiano C. Fernandes, William F. Porto & Octavio L. Franco

Authors
  1. Fabiano C. Fernandes
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  2. William F. Porto
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  3. Octavio L. Franco
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Editor information

Editors and Affiliations

  1. Center of Informatics, Av. Prof. Luiz Freire, Federal University of Pernambuco, s/n, Cidade Universitária, PE 50740-540, Recife, Brazil

    Katia S. Guimarães

  2. National Library of Medicine, National Institutes of Health, National Center for Biotechnology Information, 8600 Rockville Pike, Building 38A 8S814, Bethesda, MD 20894, USA

    Anna Panchenko

  3. National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Building 38A 8S814, MD 20894,, Bethesda, USA

    Teresa M. Przytycka

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© 2009 Springer-Verlag Berlin Heidelberg

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Fernandes, F.C., Porto, W.F., Franco, O.L. (2009). A Wide Antimicrobial Peptides Search Method Using Fuzzy Modeling. In: Guimarães, K.S., Panchenko, A., Przytycka, T.M. (eds) Advances in Bioinformatics and Computational Biology. BSB 2009. Lecture Notes in Computer Science(), vol 5676. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-03223-3_14

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  • DOI: https://doi.org/10.1007/978-3-642-03223-3_14

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-03222-6

  • Online ISBN: 978-3-642-03223-3

  • eBook Packages: Computer ScienceComputer Science (R0)

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