Stefano de Pretis

PatHoST reconstructs pathogen spatial distributions from host transcriptomes using weakly supervised learning, showing improved detection in both experimental and human SARS-CoV-2 data.

The paper identifies early endothelial activation at the blood-nerve barrier as a key feature of ALS, occurring before CNS vascular changes and motor neuron damage.

The paper demonstrates the use of dual host-bacterial gene expression analysis in FFPE tissues to study pathogenesis and virulence factor regulation during respiratory infections.

This paper describes advances in statistical analysis and modeling of scGET-seq data, focusing on dimensionality reduction, statistical modeling, and trajectory analysis.

The paper shows that translation is required for miRNA-dependent transcript decay, as non-translated lncRNAs are minimally affected by miRNA loss, while translated transcripts are destabilized.

The paper introduces INSPEcT-, a computational method to infer RNA synthesis, processing, and degradation dynamics from total RNA data without metabolic labeling, and applies it to study post-transcriptional regulation in various conditions.

The paper classifies human coding and non-coding genes based on RNA metabolism profiles, revealing distinct metabolic patterns and functional subsets of lncRNAs.