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Logo Ateneo
   
Merelli Ivan
Ivan Merelli

Ciclo: XXI

Indirizzo Mail: ivan.merelli@itb.cnr.it

Telefono: 02-50320909

Stanza: Laboratorio di Bioinformatica, Istituto di Tecnologie Biomediche - Consiglio Nazionale delle Ricerche, Polo LITA, via F.lli Cervi 93, Segrate Milano

Titolo ricerca:Image based surface matching oriented to macromolecular functionalannotation and interaction screening

Short CV: Ivan Merelli received the Master of Science in Biomedical Engineering from the Politecnico di Milano, with a thesis about molecular surface modelling and analysis. In February 2009 he received a PhD in Computer Science from the Università di Milano Bicocca with a research about surface matching for macromolecular docking. His research activities concern the development of software for sequence based genomics and for structural proteomics researches, with particular interest in protein-protein interactions. He works actively on the implementation of high performance bioinformatics software using cluster infrastructures and grid distributed platforms. He has been involved in the development of databases and computational solutions for projects of Integrative System Biology, gene expression analyses and drug discovery. Nowadays he is researcher at Institute of Biomedical Technology of National Research Council.

 

Main Research Topics:

- biosequence pattern identification and genome scale analysis

- analysis of protein-protein interactions through surface matching

- drug discovery by virtual screening of large library of ligands

- data integration, mathematical modeling for System Biology

- high performance computing (supercomputing and grid platforms)

 

Publications:

2005

Pattini L, Merelli I, Cerutti S, Milanesi L, 
Representation and modeling of protein surface determinants,
IEEE Transaction on Nanobioscience, 4(4):301-305, 2005.
Merelli I, Morra G, D'Agostino D, Clematis A, Milanesi L, 
High performance workflow implementation for protein surface characterization using grid technology,
BMC – Bioinformatics, 6(4):S19, 2005.

2006

Trombetti GA,  Merelli I, Milanesi L, 
High Performance cDNA Sequence Analysis Using Grid Technology,
Int. J. of Parallel and Distributed Computing, 66(12):1482-1488, 2006.
Lee HC, Salzemann J, Jacq N, Chen HY, Ho LY, Merelli I, Milanesi L, Breton V, Lin SC, Wu YT, 
Grid-enabled High-throughput in silico Screening against influenza A Neuraminidase,
IEEE Transaction on Nanobioscience, 5(4):288-295, 2006.
Merelli I, Milanesi L, 
High performance GRID based implementation for genomics and protein analysis,
Stud. Health Technol. Inform., 120:374-380, 2006.

2007

Merelli I, Morra G, Milanesi L, 
Evaluation of a Grid based Molecular Dynamics Approach for Polypeptide Simulations,
IEEE Transaction on NanoBioscience, 6(3) :229-234, 2007.
Caprera A, Lazzari B, Stella A, Merelli I, Caetano AR, Mariani P, 
GoSh: a web based database forgoat and sheep EST sequences,
Bioinformatics, 23:1043 – 1045, 2007.
Alfieri R, Merelli I, Mosca E, Milanesi L, 
A grid approach to Cell Cycle ODEs model solution oriented to parameter estimation,
Stud. Health Technol. Inform., 126:93-102, 2007.
Trombetti G, Merelli I, Orro A, Milanesi L, 
BGBlast: A BLAST Grid Implementation with Database Self-Updating and Adaptive Replication,
Stud. Health Technol. Inform., 126:23-30, 2007.
Viti F, Merelli I, D'Agostino D, Galizia A, Clematis A, Milanesi L, 
Tissue MicroArray: a distributed Grid approach for image analysis,
Stud. Health Technol. Inform., 126:291-298, 2007.
Alfieri R, Merelli I, Mosca E, Milanesi L, 
A Data Integration Approach for Cell Cycle Analysis oriented to Model Simulation in Systems Biology,
BMC – Systems Biology, 1:35, 2007.

2008

Merelli I, Orro A, D'Agostino D, Clematis A, Milanesi L, 
A Parallel Protein Surface Reconstruction System,
Int J. of Bioinformatics Research and Application, 4(3):221-39, 2008.
Caprera A, Lazzari B, Stella A, Merelli I, Caetano A, Mariani P, 
GoSh: a goat and sheep ESTs database, Int. J. of Animal Science, 6:60-62, 2008.
Alfieri R, Merelli I, Mosca E, Milanesi L, 
The Cell Cycle DB: a systems biology approach to cell cycle analysis,
Nucleic Acids Res, D641-645, 2008.
Lazzari B, Caprera A, Vecchietti A, Merelli I,  Barale F,  Milanesi L,  Stella A, Pozzi C, 
Version VI of the ESTree db: an improved tool for peach transcriptome analysis,
BMC - Bioinformatics, 9(2):S9, 2008.

Viti F, Merelli I, Caprera A, Lazzari B, Stella A, Milanesi L,
Ontology-based, Tissue MicroArray oriented, image centred tissue bank,
BMC - Bioinformatics, 9(4):S4, 2008

Lazzari B, Caprera A, Merelli I, Luciano L, Stella A, Panzitta F, Williams J,
Mining the Bovine Genome with the Bovine SNP Retriever, Journal of Heredity,
esn044, 2008.

2009

D'Ursi P, Chiappori F, Merelli I, Cozzi P, Rovida E, Milanesi L, 
Virtual screening pipeline and ligand modelling for H5N1 neuraminidase,
Biochem Biophys Res Commun. 2009 Apr 13.

Chiappori F, D'Ursi P, Merelli I, Salina M, Rovida E, Milanesi L,
In silico saturation mutagenesis in docking screening for the analysis of protein-ligand interaction: the Endothelial Protein C Receptor case study,
BMC – Bioinformatics, accepted.

Merelli I, Caprera A, Stella A, Milanesi L, Lazzari B,
The Human EST Ontology Explorer: a tissue-oriented visualisation system for ontologies distribution in human EST collections,
BMC – Bioinformatics, accepted.

Lazzari B, Caprera A, Cestaio A, Merelli I, Del Corvo M, Fontana P, Milanesi L, Velasco R, Stella A,
Ontology-oriented retrieval of putative microRNAs in Vitis vinifera via GrapeMiRNA: a web database of de novo predicted grape microRNAs,
BMC - Plant Biology, accepted.
Merelli I, Cozzi P, D’Agostino D, Clematis A, Milanesi L, 
Image Based Surface Matching Algorithm Oriented to Computational Structural Biology,
IEEE Transactions on Pattern Analysis and Machine Intelligence, submitted.

 

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