Ludovic C. J. Gillet

Weak interactions drive selective proteome demixing and tune the differential response to environmental perturbations

This study introduces QuPID-MS to measure protein phase separation in cells, showing weak interactions drive proteome demixing and influence environmental response.

In-source fragmentation in mass spectrometry-based proteomics: prevalence, impact, and strategies for mitigation

The paper identifies and quantifies in-source fragmentation (ISF) in proteomics data, showing its prevalence and impact, and proposes an open-source method to detect and remove ISF peptides.

Rv1985c-Driven Transcriptional Network Rewiring Underlies Lineage-Specific Phenotypes in Mycobacterium tuberculosis

This study identifies lineage-specific transcriptional network rewiring in Mtb by analyzing proteomic and transcriptomic data from L1 and L2 strains, revealing key regulators like Rv1985c that drive phenotypic differences.

Systematic structural and functional analysis of metal-binding sites in native proteomes

This study systematically maps metal-binding sites in E. coli using Metal-LiP, identifies 424 candidate metal-binding proteins, and suggests functional roles for metal binding.

PKA regulates stress granule maturation to allow timely recovery after prolonged starvation

This paper shows that PKA-dependent phosphorylation drives stress granule maturation during prolonged starvation, delaying disassembly and promoting cell survival.

Large-scale changes of molecular network states explain complex traits

The paper identifies a central state transition in yeast molecular networks linked to PKA and TOR signaling, showing how genetic variants can cause global or local molecular changes affecting multiple cellular traits.

Nα-terminal acetylation of proteins by NatA and NatB serves distinct physiological roles in Saccharomyces cerevisiae

The paper investigates the distinct physiological roles of NatA and NatB in S. cerevisiae through transcriptome, translatome, and proteome profiling of mutants, revealing specific effects on gene expression and protein folding.

Integration of transcriptome, proteome and phosphoproteome data elucidates the genetic control of molecular networks

This study integrates transcriptome, proteome, and phosphoproteome data from yeast to show how genetic variation affects molecular networks and cellular growth traits, with phosphorylation playing a key role.

Rapid proteotyping reveals cancer biology and drug response determinants in the NCI-60 cells

This study rapidly generates proteomic data for NCI-60 cancer cell lines and identifies drug response determinants by integrating proteomic, genetic, and transcriptomic data.

Ultra-sensitive proteome profiling of FACS-isolated cell populations by data-independent acquisition-MS: Application to human hematopoietic stem and progenitor cells

The paper describes an ultra-sensitive mass spectrometry method for proteomic analysis of FACS-isolated human hematopoietic stem and progenitor cells, revealing unique proteomic signatures and stemness-related biochemical processes.