Flavio C. Lombardo, PhD
Computational Cancer Biologist · Multi-omics tools for translational medicine and precision oncology
“Turning genomic complexity into clinical clarity.”
Building new tools to solve personalized and precision medicine challenges, does it click with you? Contact me.
Research
Multi-omics biomarker discovery in cancer
Open Source
R, Rust & Python tools on CRAN & Bioconda
Instructor
SIB & Physalia courses on cancer genomics
Industry
Data science at Novartis (Phase III trials)
About Me
I’m a Computational Cancer Biologist applying multi-omics data and machine learning within translational medicine, supporting precision oncology programs that turn bench findings into clinical decisions. Until June 2026 I developed this work at the Department of Biomedicine, University of Basel and University Hospital Basel.
- Biomarker discovery in gynecological cancers, combining whole-genome sequencing (including PacBio HiFi long reads), single-cell RNA-seq, spatial transcriptomics, proteomics, and imaging data, with machine learning for patient stratification and personalized treatment
- Open-source tools: drugsens (R/CRAN) and vcf-reformatter (Rust/Bioconda, 90% faster VCF preprocessing)
- Teaching: R and cancer genomics, with recent courses for SIB and Physalia
Community
I started and organise BioData Basel, a community for people working with biological data in and around Basel: meetups, talks, and a place to share ideas across academia and industry.
Key Achievements
Cancer Diagnostics Breakthrough
ATR-FTIR spectra discriminating healthy vs. cancer patients from urine with >90% accuracy (2025)
Software Engineering
Published CRAN packages and Rust CLI tools, reducing data analysis and VCF preprocessing time by over 90%
Skills & Expertise
R (Expert) Python (Expert) Bash (Advanced) Rust (Intermediate) SQL MariaDB/PostgreSQL/MongoDB HPC Linux Single-cell Analysis Multi-omics Integration Proteomics Imaging Analysis PacBio HiFi Sequencing Machine Learning Nextflow/Snakemake Docker/Singularity LLM Fine-tuning AI-assisted Data Workflows Agentic pipelines Spatial Transcriptomics Translational Medicine Precision Medicine Precision Oncology
Languages
- English: C2 Professional
- Italian: Native
- Portuguese: B2
- German: B1
- Spanish: B1
I’m always glad to talk precision-oncology projects, research collaborations, or a role where multi-omics and machine learning make a clinical difference. Reach me at fl@flaviolombardo.site or on LinkedIn.