Comprehensive proteomic data sets for studying adipocyte-macrophage cell-cell communication.

Cellularcommunicationisafundamentalprocessinbiology.Theinteractionofadipocyteswith macrophagesisakeyeventinthedevelopmentofcommondiseases suchastype2diabetes. We appliedanestablished bilayercellcoculturesystem andcomprehensiveMSdetectiontoanalyse on a proteome-wide scale the paracrine interaction of murine adipocytes and macrophages. Altogether,weidentified4486proteinswithatleasttwouniquepeptides,ofwhich2392proteins wereinformativefor3T3-L1adipocytesand2957proteinsforRAW264.7macrophages.Further, we observed over 12 000 phosphorylation sites, of which we could assign 3200 informative phosphopeptides with a single phosphosite for adipocytes and 4514 for macrophages. Using protein set enrichment and phosphosite analyses, we deciphered regulatory protein pathways involved in cellular stress and inflammation, which can contribute to metabolic impairment of cells including insulin resistance and other disorders. The generated datasets provide a holistic, molecular pathway-centric view on the interplay of adipocytes and macrophages in disease processes and a resource for further studies.