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Authors: Anna Marabotti 1 ; Corrado Cirielli 2 ; Daniela Agnese D’Arcangelo 2 ; Claudia Giampietri 3 ; Francesco Facchiano 4 ; Antonio Facchiano 2 and Angelo M. Facchiano 5

Affiliations: 1 Istituto di Tecnologie Biomediche, CNR; Istituto di Scienze dell’Alimentazione and CNR, Italy ; 2 Istituto Dermopatico dell’Immacolata and IDI-IRCCS, Italy ; 3 “Sapienza” University of Rome, Italy ; 4 Istituto Superiore di Sanità, Italy ; 5 Istituto di Scienze dell’Alimentazione and CNR, Italy

ISBN: 978-989-8425-36-2

Keyword(s): Proteome comparison, Molecular mimicry, Autoimmunity, Local similarity.

Related Ontology Subjects/Areas/Topics: Bioinformatics ; Biomedical Engineering ; Sequence Analysis ; Structural Bioinformatics

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 sim ilarities among virus and human proteomes, useful to further investigate pathogenic mechanisms underlying infectious and non-infectious diseases. (More)

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Paper citation in several formats:
Marabotti, A.; Cirielli, C.; Agnese D’Arcangelo, D.; Giampietri, C.; Facchiano, F.; Facchiano, A. and M. Facchiano, A. (2011). A COMPUTATIONAL STRATEGY TO INVESTIGATE RELEVANT SIMILARITIES BETWEEN VIRUS AND HUMAN PROTEINS - Local High Similarities between Herpes and Human Proteins.In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011) ISBN 978-989-8425-36-2, pages 183-188. DOI: 10.5220/0003156801830188

@conference{bioinformatics11,
author={Anna Marabotti. and Corrado Cirielli. and Daniela Agnese D’Arcangelo. and Claudia Giampietri. and Francesco Facchiano. and Antonio Facchiano. and Angelo M. Facchiano.},
title={A COMPUTATIONAL STRATEGY TO INVESTIGATE RELEVANT SIMILARITIES BETWEEN VIRUS AND HUMAN PROTEINS - Local High Similarities between Herpes and Human Proteins},
booktitle={Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011)},
year={2011},
pages={183-188},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0003156801830188},
isbn={978-989-8425-36-2},
}

TY - CONF

JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011)
TI - A COMPUTATIONAL STRATEGY TO INVESTIGATE RELEVANT SIMILARITIES BETWEEN VIRUS AND HUMAN PROTEINS - Local High Similarities between Herpes and Human Proteins
SN - 978-989-8425-36-2
AU - Marabotti, A.
AU - Cirielli, C.
AU - Agnese D’Arcangelo, D.
AU - Giampietri, C.
AU - Facchiano, F.
AU - Facchiano, A.
AU - M. Facchiano, A.
PY - 2011
SP - 183
EP - 188
DO - 10.5220/0003156801830188

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