A computational strategy to investigate relevant similarities between virus and human proteins: Local high similarities between herpes and human proteins

Anna Marabotti, Corrado Cirielli, Daniela Agnese D'Arcangelo, Claudia Giampietri, Francesco Facchiano, Antonio Facchiano, Angelo M. Facchiano

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Investigating primary sequence and structural features of viral proteins/genes has revealed molecular mimicry and evolutionary relationship linking viruses to eukaryotes. The continuous improvement in sequencing-techniques makes available almost daily the whole genome/proteome of several microorganisms, making now possible systematic analyses of evolutionary correlations and accurate phylogeny investigations. In the present study we set up a methodology to identify significant and relevant similarities between viral and human proteomes. To this aim, the following steps were applied: i) identification of local similarity corresponding to continuous identity over at least 8-residues long fragments; ii) filtering results for statistical significance of the identified similarities, according to BLAST parameters for short sequences; iii) additional filters applied to the BLAST outputs, to select specific viruses. The present study indicates a novel accurate methodology to find relevant similarities among virus and human proteomes, useful to further investigate pathogenic mechanisms underlying infectious and non-infectious diseases.

Original languageEnglish
Title of host publicationBIOINFORMATICS 2011 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms
Pages183-188
Number of pages6
Publication statusPublished - 2011
EventInternational Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011 - Rome, Italy
Duration: Jan 26 2011Jan 29 2011

Other

OtherInternational Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011
CountryItaly
CityRome
Period1/26/111/29/11

Keywords

  • Autoimmunity
  • Local similarity
  • Molecular mimicry
  • Proteome comparison

ASJC Scopus subject areas

  • Information Systems
  • Applied Mathematics

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    Marabotti, A., Cirielli, C., D'Arcangelo, D. A., Giampietri, C., Facchiano, F., Facchiano, A., & Facchiano, A. M. (2011). A computational strategy to investigate relevant similarities between virus and human proteins: Local high similarities between herpes and human proteins. In BIOINFORMATICS 2011 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms (pp. 183-188)