Ignacio Ortea

A generalizable normalization framework to decouple protocol and instrument effects: Application to high-sensitivity proteomics multicentric study (PME13)

This paper introduces a normalization framework to decouple protocol and instrument effects in multicenter proteomics studies, demonstrating its application to the PME13 dataset.

Accessible and fast single-cell proteomics by DIA integrating Tecan UNO cell dispensing platform, Vanquish Neo LC and Exploris 480 MS

This study presents an optimized single-cell proteomics workflow using automated platforms and MS systems to improve reproducibility and identifications in human primary cells.

Comparison of TIMS-PASEF quantitative proteomics data-analysis workflows using FragPipe, DIA-NN, and Spectronaut from a user's perspective

The paper compares proteomics analysis workflows for diaPASEF data using FragPipe, DIA-NN, and Spectronaut, showing library-free methods now perform as well as library-based ones.

Re-analysis of SARS-CoV-2 infected host cell proteomics time-course data by impact pathway analysis and network analysis. A potential link with inflammatory response.

The paper re-analyzes SARS-CoV-2 infected host cell proteomics data to identify pathways and networks associated with inflammatory response and mitosis.