Castrense Savojardo

Ph.D. in Computer Science

Post-doctoral research fellow

BiGeA - Department of Biological, Geological and Environmental Sciences

Member of the Bologna Biocomputing Group

savojard AT biocomp.unibo.it

About me

I'm postdoc researcher at the Biocomputing Group, University of Bologna. My background is in Computer Science (BSc, MSc and PhD).

Education and academic positions

Apr 2013 - present
Postdoctoral research fellow, Biocomputing Group, Department of Biological, Geological and Environmental Sciences (BiGeA), University of Bologna, Italy.
Jan 2010 - Apr 2013
PhD in Computer Science, Department of Computer Science and Engineering (DISI), University of Bologna, Italy.
Jan 2009 - Jun 2009
Research Assistant, Biocomputing Group, Department of Biological, Geological and Environmental Sciences (BiGeA) University of Bologna, Italy.
Mar 2005 - Dec 2008
MSc in Computer Science, Department of Computer Science and Engineering (DISI), University of Bologna, Italy.
Sep 2000 - Mar 2005
BSc in Computer Science, Department of Computer Science and Engineering (DISI), University of Bologna, Italy.

My research interest

Software and Web Servers

Publications on Journals

  1. Savojardo C., Fariselli P., Martelli P.L., Casadio R. ISPRED4: Interaction Sites PREDiction in protein structures with a refining grammar model, Bioinformatics (2017) 33(11): 1656-1663.
  2. Savojardo C., Martelli P.L., Fariselli P., Casadio R. SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments, Bioinformatics (2017) 33 (3): 347-353.
  3. Martelli P.L., Fariselli P., Savojardo C., Babbi G., Aggazio F. Casadio R. Large scale analysis of protein stability in OMIM disease related human protein variants, BMC Genomics (2016) 17(Suppl 2)(397): 239-247.
  4. Savojardo C., Fariselli P., Martelli P.L., Casadio R. INPS-MD: a web server to predict stability of protein variants from sequence and structure, Bioinformatics (2016) 32(16): 2542-2544.
  5. Savojardo C., Martelli P.L., Fariselli P., Casadio R. "TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in Eukaryotic proteins", Bioinformatics (2015) 31 (20): 3269-3275
  6. Fariselli P., Martelli P.L., Savojardo C., Casadio R. "INPS: predicting the impact of non-synonymous variations on protein stability from sequence", Bioinformatics (2015) 31 (17): 2816-2821.
  7. Savojardo C., Martelli P.L., Fariselli P., Casadio R. "TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs", Bioinformatics (2014) 30(20): 2973-2974.
  8. Savojardo C., Fariselli P., Martelli P.L., Casadio R. "BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming", Bioinformatics (2013) 29(24): 3151-3157.
  9. Indio V., Martelli P.L., Savojardo C., Fariselli P., Casadio R. The prediction of organelle targeting peptides in eukaryotic proteins with Grammatical Restrained Hidden Conditional Random Fields, Bioinformatics (2013) 29(8): 981-988.
  10. Savojardo C., Fariselli P., Casadio R., "BETAWARE: a machine-learning tool to detect and predict trans-membrane β-barrel proteins in Prokaryotes", Bioinformatics (2013) 29(4): 504-505.
  11. Savojardo C., Fariselli P., Martelli P.L., Casadio R., "Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations", BMC Bioinformatics (2013) 14(Suppl 1):S10.
  12. Savojardo C., Fariselli P., Casadio R., "Improving the detection of transmembrane β-barrel chains with N-to-1 Extreme Learning Machines", Bioinformatics (2011) 27 (22): 3123-3128.
  13. Savojardo C., Fariselli P., Alhamdoosh, M., Martelli P.L., Pierleoni A., Casadio R., "Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization", Bioinformatics (2011) 27 (16): 2224-2230.
  14. Pierleoni A., Indio V., Savojardo C., Fariselli P., Martelli P.L., Casadio R., "MemPype: a pipeline for the annotation of eukaryotic membrane proteins", Nucleic Acids Research (2011) 39 (suppl 2): W375-W380.
  15. Fariselli P., Savojardo C., Martelli P.L., Casadio R., "Grammatical-Restrained Hidden Conditional Random Fields for Bioinformatics Applications", Algorithms for Molecular Biology 2009, 4:13.

Conferences

  1. Savojardo C., Fariselli P., Piovesan D., Martelli P.L., Casadio R., "Machine-learning Methods to Predict Protein Interaction Sites in Folded Proteins", in E. Biganzoli et al.(Eds.): Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2011), LNBI 7548, pp. 127-135, Springer-Verlag Berlin Heidelberg, 2012.
  2. Savojardo C., Fariselli P., Martelli P.L., Shukla P., Casadio R., "Prediction of the bonding state of cysteine residues in proteins with machine-learning methods", in R. Rizzo and P.J.G. Lisboa (Eds.): Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2010), LNBI 6685, pp. 98-111, Springer-Verlag Berlin Heidelberg, 2011.
  3. Alhamdoosh, M., Savojardo, C., Fariselli, P., Casadio, R., "Disulfide Connectivity Prediction with Extreme Learning Machines", in Marco Pellegrini, Ana L. N. Fred, Joaquim Filipe, Hugo Gamboa (Eds.): BIOINFORMATICS 2011 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms, Rome, Italy, 26-29 January, 2011, pp. 5-14, SciTePress 2011.

Book chapters

  1. Pier Luigi Martelli, Castrense Savojardo, Piero Fariselli, Gianluca Tasco and Rita Casadio, "Computer-based prediction of mitochondrial-targeting peptides", in Mitochondrial Medicine, Methods in Molecular Biology(1264), Springer New York, 2015 (978-1-4939-2256-7).