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

2011

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.

Paper Citation

in Harvard Style

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

in Bibtex Style

@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},
}

in EndNote Style

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