Reconstruction of the temporal signaling network in Salmonella -infected human cells

• DOI: 10.7490/f1000research.1110034.1
• Publication Date: 2015-07-21
• Authors: Güngör Budak; Oyku Eren Ozsoy; Yeşim Aydın Son; Tolga Can; Nurcan Tunçbağ
• Keywords: Interactome; CDC42; Phosphoproteomics

Salmonella enterica is a bacterial pathogen that usually infects its host through food sources. Translocation of the proteins into cells leads to changes in signaling mechanism either by activating or inhibiting proteins. Using high-throughput ‘omic’ technologies, components can be quantified at different levels; however, experimental hits are incomplete represent whole system as some driver stay hidden within data. Given infection modifies response network host, more coherent view underlying biological processes and networks obtained using modeling approach based on reverse engineering principles which confident region from protein interactome found inferring omic experiments. In this work, we have used published temporal phosphoproteomic dataset Salmonella-infected human reconstructed integrating datasets. We combined two well-established frameworks, Prize-collecting Steiner Forest (PCSF) Integer Linear Programming (ILP) edge inference approach. The resulting conserves information temporality, direction interactions, while revealing entities signaling, such SNARE binding, mTOR immune response, cytoskeleton organization, apoptosis pathways. Targets effectors CDC42, RHOA, 14-3-3δ, Syntaxin family, Oxysterol-binding were included although they not present initial believe integrated approaches high potential for identification clinical targets infectious diseases, especially infections.