Research

My research interests lie in the field of Data Mining and Data Querying, with special emphasis to the analysis of networks, and applications to Bioinformatics and Social Science. 

The increasing availability of network data in several domains, exhibits the necessity to have tools able to analyze and extract useful information from them. Real-world networks are often large and time-evolving in essence. Therefore, representing and analyzing them is a challenge. In many real-world processes, an important role is played by the synergy among several kinds of network. For example, the cellular machinery is described by a complex web of interactions that comprises protein-protein interaction networks, regulatory networks, signaling networks and metabolic networks. Social networks, information networks and communication networks are also strongly interrelated.  

My research focus on identifying novel, efficient and effective approaches for large network querying and mining. An important part of my research aims to design specific approaches for multi-modal and time-evolving networks. It includes the identification of specific properties (e.g. trust, information flow etc.), the aggregation of them and the analysis of their dynamics. A crucial role is played by the design of efficient and scalable algorithms, that make use of graph theory, indexing systems and approximation techniques. The developed techniques have applications in several fields that include Bioinformatics, Social Networks and Semantic Web. 


Awards

Best Paper. A Set-cover-based Approach for Inexact Graph Matching. 8th Annual International Conference on Computational Systems Bioinformatics (CSB) 2009.

  

Program Committee Member

International Conference on Knowledge Discovery and Information Retrieval 2013. 

DyNetMM 2013 : First SIGMOD/PODS Workshop on Dynamic Networks Management and Mining.

International Conference on Knowledge Discovery and Information Retrieval 2012. 

International Conference on Knowledge Discovery and Information Retrieval 2011. 


Serving Reviews

TCBB 2014

Journal of Bioinformatics 2013.

TKDE 2013

FEBS Letters 2013

ISMB/ECCB 2013

IEEE Journal on Selected Areas in Communications 2012

Conference on Research in Computational Molecular Biology (RECOMB) 2012

IEEE International Conference on Data Mining (ICDM) 2012

Journal of Bioinformatics and Computational Biology 2012

Journal of Data Mining and Knowledge Discovery (DAMI) 2012

Transaction on Database Systems (TODS) 2012

Transaction on Knowledge Discovery in Data (TKDD) 2012

International Workshop on Large Scale Network Analysis (LSNA, in conjunction with WWW) 2012. 
 
IEEE International Conference on Data Mining (ICDM) 2011. 
 
Very Large Data Bases 2011. 
 
International Workshop on Graph Data Management: Techniques and Applications (GDM, in conjunction with ICDE) 2011. 
 
Journal of Bioinformatics 2010. 
 
Conference on Research in Computational Molecular Biology (RECOMB) 2010. 
 
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) 2009. 
 
Conference on Research in Computational Molecular Biology (RECOMB) 2010. 
 
International Workshop on Similarity Search and Applications (SISAP) 2009. 
 
ACM SIGMOD International Conference on Management of Data 2008.


Seminars and presentations

Mining significant patterns on dynamic networks. Information Science Institute. University of Southern California. August 20, 2012.

Mining and Managing Large Networks. Institute for Genomics and Multiscale Biology. Mount Sinai School of Medicine. August 17, 2012. 

Efficient multicasting for delay tolerant networks using graph indexing. IEEE Infocom. Orlando FL. March 2012.

Modeling mobility and uncertainty. NS-CTA EDIN meeting. Cambridge, MA. March 2011.

Network Analysis for Reputation and Trust. NS-CTA Trust meeting. Cambridge, MA. March 14-16, 2011.

Finding significant substructures in time-varying networks. INARC I2.2 teleconference meeting. UCSB. February 10, 2011.

Mobility-aware information management in Intermittently Connected Mobile Networks. NS-CTA project meeting. UCSB. February 8, 2011.

Mobility-aware information management in Intermittently Connected Mobile Networks. InfoNet seminar. UCSB. February 4, 2011.

Network Querying and Alignment. INARC Annual Meeting. CUNY. New York. October 4-5, 2010. 

Network Comparison. Lipari International Summer School on Complex Systems - Social Networks. July 3-10, 2010.

Global Network Alignment. Tel Aviv University. April 15, 2010.

Global Network Alignment. University of Catania. January 26, 2010.

A Set-cover based approach for inexact graph matching. Computational Biology Center. Memorial Sloan Kettering Cancer Center. September 29, 2009

A Set-cover based approach for inexact graph matching. Courant Institute of Mathematical Sciences. New York University. April 6, 2009

A Set-cover-based Approach for Inexact Graph Matching. 8th Annual International Conference on Computational Systems Bioinformatics (CSB2009). Stanford University, CA, USA. August 10-12, 2009.

Distributed Randomized Algorithms for Low-Support Data Mining. The 10th IEEE Workshop on Parallel and Distributed Scientific and Engineering Computing (IPDPS-PDSEC-09). May 25-29, 2009.

NetMatch: a Cytoscape Plugin for Searching Biological Networks. Center for Genomics and Systems Biology. Department of Biology. New York University. September 2008

Distributed Clustering and Closest-Match Motion Planning Algorithms for Wireless Ad-Hoc Networks with Movable Base Stations. The IFIP Fifth Annual Mediterranean Ad Hoc Networking Workshop. Lipari, Italy, June 14-17, 2006.

Scale-free and hierarchical models for graphs: algorithms and applications (in Italian). Department of Mathematics and Computer Science. University of Catania. March 3, 2006.

Biological Networks (in Italian). Department of Biological Science. University of Catania. November 11, 2005.

Scalable Lookup protocols for Peer-To-Peer network (in Italian). Department of Mathematics and Computer Science. University of Catania. December 22, 2004.

Probabilistic Apriori and Episode Mining Technique for Intelligent Management of Water Supply Networks. 6th International Conference on Hydroinformatics. Singapore, June 21-24, 2004.

Data Mining for the analysis of industrial plants (in Italian). Department of Mathematics and Computer Science. University of Catania. April 23, 2004. 


Participation to International Conferences and Schools

INFOCOM 2012, The 31st Annual IEEE International Conference on Computer Communications. Orlando FL. March 25-30, 2012

ICDM 2011 IEEE International Conference on Data Mining. Vancouver, Canada. December 11-14, 2011

The 17th ACM/SIGKDD Conference on Knowledge Discovery and Data Mining (KDD). San Diego CA. August 21-24, 2011

Lipari School on BioInformatics and Computational Biology - Biological Sequence Analysis and High Throughput Technologies. Lipari, Italy. July 2-9, 2011

The 13th Israeli Bioinformatics Symposium. Technion Istrael Institute of Technology. Haifa, Israel. April 6, 2010.

Lipari International Summer School on Complex Systems - Social Networks. Lipari, Italy. July 3-10, 2010.

8th Annual International Conference on Computational Systems Bioinformatics (CSB2009). Stanford University, CA, USA. August 10-12, 2009 

6th Lipari International Summer School on BioInformatics and Computational Biology on RNAs : structure, function and therapy. Lipari, Italy. June 13-20, 2009

The IEEE 10th Workshop on Parallel and Distributed Scientific and Engineering Computing (IPDPS-PDSEC-09)Rome, Italy. May 25-29 2009.

5th Lipari International Summer School on BioInformatics and Computational Biology on Biological Networks: Evolution, Interaction and Computation. Lipari, Italy. June 14-21 2008

20th International School for Computer Science Researchers on Algorithms: Science and Engineering. Lipari, Italy. July 13-26 2008

19th International School for Computer Science researchers on: Advances in Software Engineering. Lipari, July 15-21, 2007

Lipari International Summer School on Bioinformatics and Computational Biology on Advanced Computational Proteomics: Structure, Imaging and Control. Lipari, June 16-23, 2007

18th International School for Computer Science Researchers on Proteomes and Proteins. Lipari, July 9-22, 2006

The IFIP Fifth Annual Mediterranean Ad Hoc Networking WorkshopItaly, June 14-17, 2006

17th International School for Computer Science Researchers on Formal Methods: Theory And Practice. Lipari, July 10-23, 2005

International School of Advanced BioMedicine and BioInformatics on Molecular BioMedicine, Medical Genomics and BioInformatics. Pantelleria, June 18-25, 2005

6th International Conference on Hydroinformatics. Singapore, June 21-24, 2004.


Projects

UCSB Part of Army's Information Network Research Center (INARC). Funded by Army. 2010 - 2012. 

“Research and development of a suite of programs for biological analysis named BIOWARE” (in Italian: “Ricerca e Sviluppo suite di programmi per l’analisi biologica, denominata: BIOWARE”) (POR 3.14). 2008 - 2009.

"POKER", leaded by Prof. Giovanni Russo. 2008 - 2009

"Datamining, clustering and pattern discovery in Bioinformatics with applications to Biomedicine" (in Italian: "Datamining, clustering e pattern discovery in Bioinformatica con applicazioni alla Biomedicina") (PRA 2007), leaded by Prof. Alfredo Ferro. 2008.

“HAZARDOUS - Floods Early Warning System” proposed by Proteo S.p.A., C.R.E.S., Università di Palermo. Since October 2005 to March 2007.

"PECOSS: PErvasive COmputing Supervisory System" proposed by Proteo S.p.A., co-funded by the Italian ministry MiUR. Responsible of the objective: OR2 concerning “Research and development of the logical model of a technological platform with n-tier architecture for supervision and control of the industrial system responsible for integrate water management”. Since August 2003 to June 2005.

“SUSHI-PLAT: SUperviSory HIerarchical PLATform for the intelligent management of complex industrial systems” proposed by Proteo S.p.A., co-funded by the Italian ministry “Ministero delle Attività Produttive”. Responsible of the objective: OR2 concerning “Research and development of a software platform for transforming row data in useful knowledge for the strategic decisional process”. Since August 2003 to May 2005.

Advanced models for the control and management of fluid networks by genetic programming techniques” (in Italian: “Modelli avanzati per il controllo e la gestione di reti di fluidi mediante tecniche di programmazione genetiche”). proposed by Proteo S.p.A., co-funded by the Italian ministry MURST (Ministero dell’Università e della Ricerca Scientifica e Tecnologica). Design and development of a framework in C++ based on the Standard Template Library for the development of Genetic Algorithms. Since April 1999 - December 2001. 
Comments