ViralPack: Un pacchetto integrato di bioinformatica su Genius Alessandro Lombardo*, Annamaria Muoio, Gaetano Lanzalone, Marcello Iacono Manno *Consorzio COMETA-Università degli Studi di Catania Incontro finale con referee del progetto PI2S2 Palermo, 22.01.2010

Il problema scientifico Luogo, Evento, dd.mm.aaaa

Il problema scientifico CMV (Cucumber mosaic virus) TYLCV (Tomato yellow leaf curl virus) TYLCSV TSWV Tomato yellow leaf curl sardinia virus) (Tomato spotted wilt virus) CTV (Citrus tristeza virus) Luogo, Evento, dd.mm.aaaa

ViralPack workflow Luogo, Evento, dd.mm.aaaa

Porting Applications: ClustalW is an execution MPI job on the Grid of data analysis program for multiple alignments TOPALi and Splitstree programs run as interactive jobs on the Grid Knetfold application runs as a parametric job Luogo, Evento, dd.mm.aaaa

GENIUS CLUSTALW Luogo, Evento, dd.mm.aaaa

GENIUS KNETFOLD Luogo, Evento, dd.mm.aaaa

Vantaggi Sequences alignement time by ClustalW Elapsed time for the ClustalW-MPI results of 9 Citrus Tristeza Virus complete genome as a function of the number of processor. Luogo, Evento, dd.mm.aaaa

Vantaggi Luogo, Evento, dd.mm.aaaa

GriDock MPI master node Output files GriDock MPI master node Database Receptor VEGA AutoDock 4 Node 2 Node n Node loop MPI Node 1 Luogo, Evento, dd.mm.aaaa

Pubblicazioni C. M. Iacono-Manno, M. Fargetta, R. Barbera, A. Falzone, G. Andronico, S. Monforte, A. Muoio, R. Bruno, P. Di Primo, S. Orlando, E. Leggio, A. Lombardo, G. Passaro, G. De Francisci-Morales, S. Blandino The Sicilian Grid Infrastructure for High Performance Computing International Journal of Distributed Systems and Technologies (IJDST) , 1(1), 40-54, January-March 2010 A. Lombardo, G. Lanzalone, A. Muoio, M. Iacono-Manno Performance of ViralPack applications on PI2S2 Grid infrastructure Proceeding del workshop finale dei progetti Grid del PON “Ricerca” 2000-2006. Avviso 1575. Catania 10-12 febbraio 2009 A. Pedretti, A. Lombardo, G. Vistoli, E. Mastriani, F. Pappalardo, S. Motta Porting of a docking application on PI2S2 Grid infrastructure. M. Iacono-Manno, M. Fargetta, R. Barbera, G. Andronico, A. Falzone, S. Monforte, A. Muoio, P. Di Primo, S. Orlando, E. Leggio, A. Lombardo, G. Passaro, G. De Francisci-Morales, S. Blandino Sicilian Grid Infrastructures towards High Performance Computing Luogo, Evento, dd.mm.aaaa

Pubblicazioni A. Lombardo, G. Lanzalone, A. Muoio , M. Iacono-Manno GRID as a bio-informatic tool in plant virology investigation. Proceeding Grid open day-University of Palermo (2008) pag. 105 ISBN: 978-88-95892-00-9 M.G. Bellardi, S. Davino, A. Lombardo, M. Davino Biological and molecular characterization on the basis of the movement protein gene of Cucumber mosaic virus isolates from medicinal and aromatic plants in Italy. Physiological and Molecular Plant Pathology (2008) (submitted) G. Lanzalone, A. Lombardo A. Muoio , M. Iacono-Manno,. Porting of bioinformatic tools for plant virology on a computational grid. Proceedings of the Third Conference of the EELA Project (2007) pp. 83-89. R. Gavela, B. Marechal, R. Barbera et al. (Eds.) CIEMAT 2007. ISBN 978-84-7834-565-6 S. Davino, A. Lombardo, M.Davino, M.G. Bellardi Analysis of a natural population of Cucumber mosaic virus infecting medicinal plants. Journal of Plant Pathology (2009) in press. A. Lombardo, G. Lanzalone, A. Muoio, M. Iacono-Manno, R. Barbera ViralPack: un pacchetto software, basato sulla GRID, per indagini in virologia vegetale. Conferenza nazionale e-science 2008, 27-29 Maggio 2008, Napoli. A.Lombardo, S. Davino, M. Iacono Manno and A. Muoio A high computing bioinformatic approach based on GRID for detecting recombination in whole Citrus Tristeza Virus genomes. Journal of Plant Pathology (2007), 89 (3, supplement ) pag. 45. Luogo, Evento, dd.mm.aaaa