Cecilia Wieder

The paper establishes a human microglial ferroptosis model using HMC3 cells and identifies dysregulated lipid species and metabolic pathways associated with ferroptosis.

This study simulates metabolic profiles to evaluate pathway analysis methods, revealing biases when applied to metabolomics data.

PathIntegrate integrates multi-omics data using pathway-based modeling to identify important pathways and molecules contributing to outcomes, demonstrated on COPD and COVID-19 datasets.

The paper introduces SAMBA, a computational method that predicts metabolite changes under metabolic perturbations using genome-scale metabolic network modeling and compares predictions with experimental data.

This paper evaluates single-sample pathway analysis methods for metabolomics, finding that clustering-based methods offer higher precision while GSEA-based methods have better recall, and introduces two new methods with a software package.

This paper evaluates over-representation analysis (ORA) in metabolomics, showing how different parameters and datasets affect results and offering best practices for its use.