Claudia Martelli

The paper introduces a multi-omics framework to analyze protein activity in context-specific networks, demonstrating its utility in linking molecular profiles to phenotypic outcomes using HeLa and Kyoto cell lines.

The paper benchmarks dia-PASEF with timsTOF HT for high-throughput proteome analysis in a multi-center study, showing consistent protein and peptide identification across laboratories.

The paper presents a rapid workflow combining experimental and computational methods to profile protein complex re-organization in cellular states, showing distinct changes during differentiation and macrophage stimulation.

SECAT quantifies differential protein-protein interaction states across cellular states by analyzing PPI networks, showing improved scalability and effectiveness over previous methods.