Marzia Di Filippo

INTEGRATE integrates metabolomics and transcriptomics data to identify metabolic flux regulation at the enzyme expression and metabolic levels in cancer cell lines.

GPRuler automatically reconstructs gene-protein-reaction rules for metabolic networks using biological databases, achieving high accuracy in both small-scale and genome-scale models.

The paper reconstructs the first genome-scale metabolic model for Zygosaccharomyces parabailii, demonstrating its potential for metabolic engineering and industrial applications.

This paper integrates single-cell RNA-seq data into metabolic models to characterize tumour cell populations and identifies metabolic heterogeneity and interactions.

MaREA identifies metabolic reactions significantly up-/down-regulated in cancer subgroups using RNAseq data and visualizes results on metabolic maps.