Physics background, biomedical mission.
I'm a PhD researcher at the University of Bologna, where I develop computational methods to predict antimicrobial resistance, discover patient phenotypes, and make sense of high-dimensional omics data. My work spans MALDI-TOF mass spectrometry, multi-omics integration, and metagenomics, always with a focus on interpretability and clinical impact. Part of the Physics4MedicineLab group and the Multi-Omics and Health-Care Data Analytics Unit at Sant'Orsola Hospital.
| Area | Focus |
|---|---|
| ML in Biomedicine | Interpretable models, feature engineering, multi-omics integration |
| Mass Spectrometry | Predicting antimicrobial resistance from MALDI-TOF spectra |
| Metagenomics | Network-based microbial community modeling and pathogen detection |
| Genomics | APOBEC mutations, structural variants, CRISPR genome editing tools |
| Project | Description |
|---|---|
| phenocluster | Unsupervised clinical phenotype discovery with survival and multistate modeling |
| CATS | Automated Cas9 nuclease comparison with ClinVar integration |
| CAMISIM-BrokenStick | Broken stick model extension for metagenomic simulation |
| APOBECSeeker | APOBEC-style mutation identification from multiple sequence alignment |
| nestkit | Nested cross-validation with calibration, threshold optimization, and statistical tests |
For a complete list, see my Google Scholar profile.
-
Rocchi, E. et al. Combining mass spectrometry and machine learning models for predicting K. pneumoniae antimicrobial resistance. BMC Microbiology (2026).
-
Bonazzetti, C., Rocchi, E. et al. AI model to predict resistances in Gram-negative bloodstream infections. npj Digital Medicine 8, 319 (2025).
-
Rocchi, E. et al. CATS: automated Cas9 nucleases activity comparison in clinically relevant contexts. Frontiers in Genome Editing 7, 1571023 (2025).