You can find below a selection of relevant publications in the computational domain. Here you can find the complete list, and here you can find it as a Google Scholar entry.
Focus on biomarkers analysis
Exploration of the optimal way to detect biomarkers from high throughput screenings, leveraging the power of combinations of single cell markers.
- [Code] combiroc package, development version and stable CRAN version.
- [web application] CombiROC, guided and interactive generation of multimarker panels
- [in press] Refinement of single-cell RNA-seq gene expression signatures with combiroc. In: S., Barciszewski, J. (eds), Systems Biology II. RNA Technologies (2024), Springer
- [preprint] Combiroc: when ‘less is more’ in bulk and single cell marker signatures. bioRxiv (2022)
- Computation and Selection of Optimal Biomarker Combinations by Integrative ROC Analysis Using CombiROC. In: Brun V., Couté Y. (eds) Proteomics for Biomarker Discovery. Methods in Molecular Biology (2019), Humana Press, New York, NY
- CombiROC: an interactive web tool for selecting accurate marker combinations of omics data. Scientific Reports (2017) 7, 45477.
- Two of Them Do It Better: Novel Serum Biomarkers Improve Autoimmune Hepatitis Diagnosis. PLoS One (2015); 10(9): e0137927.
Other
Incursions in other computational territories and topics.
- Phad et al. Clonal structure, stability and dynamics of human memory B cells and circulating plasmablasts. Nature Immunology (2022)
- Hagos et al. DeepMIF: Deep Learning Based Cell Profiling for Multispectral Immunofluorescence Images with Graphical User Interface. In: Wang, L., Dou, Q., Fletcher, P.T., Speidel, S., Li, S. (eds) Medical Image Computing and Computer Assisted Intervention – MICCAI 2022. Lecture Notes in Computer Science, vol 13434. Springer, Cham
- Fortuna et al. e-Rum2020: how we turned a physical conference into a successful virtual event. The R Journal (2020)
- Rossi and Grifantini. Big data: challenge and opportunity for translational and industrial research. Frontiers in Digital Humanities (2018) 5:13.
- Marabita et al.. Normalization of circulating microRNA expression data obtained by quantitative real-time RT-PCR. Briefings in Bioinformatics (2016)
- Bonnal, Rossi et al. mRiadne: a web tool for consistent integration of miRNA nomenclature. Nucleic Acids Research (2015)
ricrossi.net 