Simona E. Rombo

Publications

Chapters in Books

1. Simona E. Rombo, Filippo Utro and Raffaele Giancarlo. Basic Statistical Indices for SeqAn. In Biological Sequence Analysis using the SeqAn C++ Library (Knut Reinert et al.), Ch. XVI, 2009.

2. Clara Pizzuti and Simona E. Rombo. Discovering Protein Complexes in Protein Interaction Networks. In Biological Data Mining in Protein Interaction Networks (X.-L. Li and S.-K. Ng Eds.), IDEA GROUP, 2009.

3. Erika De Francesco, Giuliana Di Santo, Luigi Palopoli and Simona E. Rombo. A summary of genomic databases: overview and discussion. In Biomedical Data and Applications (Amandeep S. Sidhu, Tharam S. Dillon and Elizabeth Chang Eds.), SPRINGER, 2009.

4. Simona E. Rombo and Luigi Palopoli. Pattern Discovery In Biosequences: From Simple To Complex Patterns. In Data Mining Patterns: New Methods and Applications (Florent Masseglia, Pascal Poncelet and Maguelonne Teisseire Eds.), IDEA GROUP, 2008.

Journals

5. Francesco Bruno, Luigi Palopoli and Simona E. Rombo. New trends in graph mining: Structural and Node-colored network motifs. Accepted for publication for the International Journal of Knowledge Discovery in Bioinformatics. In press.

6. Simona E. Rombo: Optimal extraction of motif patterns in 2D. Information Processing Letters, 109(17) 1015-1020, 2009.

7. Valeria Fionda, Simona Panni, Luigi Palopoli and Simona E. Rombo. A technique to search functional similarities in protein-protein interaction networks. Data Mining and Bioinformatics. 1. 3(4), 431-453, 2009.

8. Luigi Palopoli, Simona E. Rombo, Giorgio Terracina, Giuseppe Tradigo and P. Veltri. Improving protein secondary structure predictions by prediction fusion. Information Fusion, Special Issue on Natural Computing in Bioinformatics. 1. 10(3), 217-232, 2009.

9. Alberto Apostolico, Laxmi Parida, Simona E. Rombo, Motif patterns in 2D, Theoretical Computer Science. 390(1): 40-55 (2008).
Draft, DOI, BibTex

Conferences

10. Valeria Fionda, Simona Panni, Luigi Palopoli and Simona E. Rombo. Extracting similar sub-graphs across PPI Networks. In Proceedings of ISCIS 2009, Cipro, 2009.

11. Luca Miceli, Luigi Palopoli, Simona E. Rombo, Giorgio Terracina, Giuseppe Tradigo and P. Veltri. Experimental evaluation of protein secondary structure predictors. In Proceedings of the International Conference on Computational Science 2009, USA, (ICCS'09).

12. Clara Pizzuti, Simona E. Rombo: Multi-functional Protein Clustering in PPI Networks . BIRD 2008: 318-330. Draft, DOI, BibTex

13. Valeria Fionda, Luigi Palopoli, Simona Panni, Simona E. Rombo: Protein-Protein Interaction Network Querying by a "Focus and Zoom" Approach. BIRD 2008: 331-346.

14. Valeria Fionda, Luigi Palopoli, Simona Panni, Simona E. Rombo: Singling out functional similarities in graph databases. Atti del Convegno Nazionale su Sistemi Evoluti per Basi di Dati (SEBD'08), 271-278, 2008.

15. Clara Pizzuti, Simona E. Rombo: Discovering meaningful protein-protein interaction modules by a co-clustering based approach. In Atti del Convegno Nazionale su Sistemi Evoluti per Basi di Dati (SEBD'08), 294-301, 2008.

16. Fabrizio Angiulli, Valeria Fionda and Simona E. Rombo. Protein Data Condensation for Effective Quaternary Structure Classification. In Proceedings of the 8-th International Conference on Intelligent Data Engineering and Automated Learning (IDEAL'07), Birmingham, UK, 16th- 19th December, 2007.

17. Clara Pizzuti and Simona E. Rombo. PINCoC: a Co-Clustering based Method to Analyze Protein-Protein Interaction Networks. In Proceedings of the 8-th International Conference on Intelligent Data Engineering and Automated Learning (IDEAL'07), Birmingham, UK, 16th-19th December, 2007.

18. Valeria Fionda, Simona Panni, Luigi Palopoli and Simona E. Rombo. Bi-GRAPPIN: Bi-partite graph based protein-protein interaction networks similarity search. In Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM'07), Silicon Valley, USA, 2007.

19. Luigi Palopoli, Simona E. Rombo, Giorgio Terracina, Giuseppe Tradigo and P. Veltri. JSSPrediction: a Framework to Predict Protein Secondary Structures Using Integration. In Proceedings of the 19-th IEEE Symposium on Computer-Based Medical Systems (CBMS 2006), Salt Lake City, Utah, June 2006. Draft, DOI, BibTex

20. Luigi Palopoli, Simona E. Rombo, Giorgio Terracina, Giuseppe Tradigo and P. Veltri. Protein Secondary Structure Prediction: How to Improve Accuracy by Integration. In Proceedings of the Third International Meeting of Bioinformatics and Biostatistic (CIBB 2006), Genova, Italy, August 2006.

21. Luigi Palopoli, Simona Rombo and Giorgio Terracina: Flexible Pattern Discovery with (Ex- tended) Disjunctive Logic Programming. In Proceedings of the International Syposium on Methodologies for Intelligent Systems (ISMIS 2005), 504-513, Saratoga Springs, New York, USA, 2005. Draft, DOI, BibTex

22. Simona E. Rombo and Giorgio Terracina, Discovering Representative Models in Large Time Series Databases. In Proceedings of the International Conference On Flexible Query Answering Systems (FQAS 2004) , 84-97, Lyon, France, 2004. Draft, DOI, BibTex

23. Pasquale Grimaldi, Simona E. Rombo, Giorgio Terracina e Luigi Palopoli. Derivazione Efficiente di Pattern Strutturati Frequenti da Database di Natura Biologica. In Atti del Convegno Nazionale su Sistemi Evoluti per Basi di Dati (SEBD'04), 106-117, S. Margherita di Pula, Cagliari, Italy, 2004. Draft, BibTex

24. Francesco Buccafurri, Gianluca Lax e Simona E. Rombo. Riduzione del Traffico nei Sistemi P2P: un Approccio Semantico. In Atti del Convegno Nazionale su Sistemi Evoluti per Basi di Dati (SEBD' 04), 370-381, S. Margherita di Pula, Cagliari, Italy, 2004. Draft, BibTex