L. Simonetti

Proteome-scale characterisation of motif-based interactome rewiring by disease mutations

The paper characterizes how disease mutations in intrinsically disordered regions modulate protein interactions mediated by short linear motifs, identifying both loss and gain of interactions.

Evaluation of affinity-purification coupled to mass spectrometry approaches for capture of short linear motif-based interactions

The paper evaluates biotinylated peptide pulldown and PRISMA coupled to mass spectrometry for capturing SLiM-based interactions, finding biotin-peptide pulldown more effective for validation.

Large-scale phage-based screening reveals extensive pan-viral mimicry of host short linear motifs

The paper uses phage-based screening to identify 1,712 virus-host interactions mimicking host short linear motifs, revealing therapeutic targets for broad-spectrum antivirals.

Large-scale identification of phospho-modulated motif-based protein-protein interactions

The paper identifies 252 phospho-modulated short linear motif-based protein-protein interactions using a proteomic peptide-phage display library and validates several through affinity measurements and structural analysis.

Large scale discovery of coronavirus-host factor protein interaction motifs reveals SARS-CoV-2 specific mechanisms and vulnerabilities

The paper identifies coronavirus-host protein interaction motifs, revealing SARS-CoV-2 specific mechanisms and a peptide-based inhibitor that blocks infection.

Proteome-scale amino-acid resolution footprinting of protein-binding sites in the intrinsically disordered regions of the human proteome

The paper introduces HD2, a proteome-scale method for identifying and characterizing SLiM-mediated protein interactions with amino acid resolution, and provides tools for analyzing the results.