Carlo De Donno

This study benchmarks three codon language models for optimizing nucleic acid-based medicines, finding that while no single model excels across all tasks, they offer advantages in capturing translational context beyond codon frequency.

This paper introduces CompBioBench, a benchmark for evaluating agentic systems in computational biology, showing strong performance across diverse tasks.

This paper introduces scPoli, a deep learning model for integrating single-cell datasets, enabling multi-scale analysis of population-level data by linking sample and cell-level features.

The compositional perturbation autoencoder separates drug, dose and cell-type effects in single-cell transcriptomes, predicts unseen combinations, and generates 5,329 unmeasured genetic combinations in silico.