Flavio C. Lombardo, PhD
Computational Cancer Biologist · Multi-omics tools for translational medicine and precision oncology
“Turning genomic complexity into clinical clarity.”
Building precision-oncology tools · open to new roles
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 Spatial Transcriptomics Translational 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.