Publications
The best place to find an up to date list of my publications is on my Google scholar profile. Here I'll collect those that gave me more satisfaction which are not necessary those with high impact.
[2022] [2021] [2020] [2015-2019] [2010-2014] [Software Engineering period]
2022
- Simeone I. et al. Prediction and pan-cancer analysis of mammalian transcripts involved in target directed miRNA degradation. Nucleic acids research 50 (4) (2022) [open access]
- Cerulo L. and Pagnotta S.M. massiveGST: A Mann-Whitney-Wilcoxon Gene-Set Test Tool That Gives Meaning to Gene-Set Enrichment Analysis. Entropy 24 (5) (2022) [open access]
2021
- De Falco et al. Adaptive one-class Gaussian processes allow accurate prioritization of oncology drug targets. Bioinformatics 37 (10) (2021) [open access]
- Caruso et al. A review of COVID-19 biomarkers and drug targets: resources and tools. Briefings in Bioinformatics 22 (2), (2021) [open access]
- Noviello M.R. et al. Deep learning predicts short non-coding RNA functions from only raw sequence data. PLoS computational biology 16 (11), (2021) [open access]
2015-2019
- Noviello M.R. et al. Detection of long non-coding RNA homology, a comparative study on alignment and alignment-free metrics. BMC Bioinformatics 19.407 (2018) [open access]
- Mall R. et al. RGBM: regularized gradient boosting machines for identification of the transcriptional regulators of discrete glioma subtypes. Nucleic Acids Research, 46.7 (2018) [open access]
- Frattini V. et al. A metabolic function of FGFR3-TACC3gene fusions in cancer. Nature 553.7687 (2018) [article]
- Ventola M.G. et al. Identification of long non-coding transcripts with feature selection: a comparative study. BMC Bioinformatics 18.1 (2017) [open access]
- Mall R. et al. Detection of statistically significant network changes in complex biological networks. BMC System Biology 11.1 (2017) [open access]
2010-2014
- Ceccarelli M. et al. De novo reconstruction of gene regulatory networks from time series data, an approach based on formal methods. Methods 69.3 (2014) [open access]
- Cerulo L. et al. A negative selection heuristic to predict new transcriptional targets. BMC Bioinformatics 14.SUPPL.1 (2013) [open access]
- Morganella S. et al. VEGA: Variational segmentation for copy number detection. Bioinformatics 26.24 (2010) [open access]
- Cerulo L. et al. Learning gene regulatory networks from only positive and unlabeled data. BMC Bioinformatics 11 (2010) [open access]
Software Engineering period (2003-2014)
- Canfora G. et al. How changes affect software entropy: An empirical study. Empirical Software Engineering 19.1 (2014)
- Canfora G. et al. Achievements and challenges in software reverse engineering. Communications of the ACM 54.4 (2011)
- Thummalapenta S. et al. An empirical study on the maintenance of source code clones. Empirical Software Engineering 15.1 (2010)
- Canfora G. et al. Tracking your changes: A language-independent approach. IEEE Software 26.1 (2009)
- Canfora G. et al. Using multivariate time series and association rules to detect logical change coupling: An empirical study. In Proceedings of the 26th International Conference on Software Maintenance, ICSM, 2010
- Di Penta M. et al. The evolution and decay of statically detected source code vulnerabilities. In Proceedings of the 8th International Working Conference on Source Code Analysis and Manipulation, SCAM, 2008
- Aversano L. et al. An empirical study on the evolution of design patterns. In Proceedings of the 6th Joint Meeting of the European Software Engineering Conference and the ACM SIGSOFT Symposium on the Foundations of Software Engineering, ESEC/FSE, 2007
- Canfora G. et al. Identifying changed source code lines from version repositories. In Proceedings of the 4th International Workshop on Mining Software Repositories, MSR, 2007
- Canfora G. and Cerulo L. Supporting change request assignment in open source development. In Proceedings of the Proceedings of the ACM Symposium on Applied Computing, SAC, 2006
- Canfora G. and Cerulo L. Impact analysis by mining software and change request repositories. In Proceedings of the 11th International Software Metrics Symposium, METRICS, 2005
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