Research
The CBIO develops algorithmic approaches to model, interpret, and predict complex biological phenomena. At the intersection of bioinformatics, artificial intelligence, and systems biology, research projects aim to address major challenges in health, fundamental biology, and drug design.
The work is based on the analysis of large-scale data from various sources: genomics, transcriptomics, imaging, clinical data, etc. It draws on recognized expertise in statistical learning, deep learning, and modeling.
Research areas
Computational biology and statistical modeling
Development of machine learning methods to understand biological systems from multi-omic data:
- Modeling of the cell cycle, gene expression profiles, and post-transcriptional regulation
- Study of molecular evolution and genomic structures (transposable elements, horizontal transfers, mutations)
- Classification of cell lines or tumor types
- Integration of heterogeneous data (RNA-seq, ATAC-seq, methylation, etc.)
Biomedical imaging and spatial bioinformatics
Application of computer vision techniques to analyze complex biological images:
- Detection and classification of cellular or tissue structures
- Segmentation of images from spatial transcriptomics
- Morphological analysis in computational pathology
- Development of deep learning models on whole histological slides
Personalized and predictive medicine
Development of predictive models to anticipate treatment responses, detect biomarkers, and guide clinical decisions:
- Analysis of multi-modal clinical and genomic data
- Prediction of survival or therapeutic benefit (e.g., bladder cancer)
- Early diagnosis strategies (e.g., lung cancer, Alzheimer’s disease)
- Automated detection of complex phenotypes in patient cohorts
AI-assisted drug design
Use of machine learning and molecular docking for the rational design of active compounds:
- Large-scale prediction of protein-ligand interactions (e.g., Komet algorithm)
- Exploration of chemical space and therapeutic targets
- Structural analysis of proteins and RNA with geometric deep learning
- Virtual screening for the discovery of therapeutic molecules
Research projects
The CBIO is conducting several major projects funded by national and European institutions, often in partnership with other research centers or clinical stakeholders.
