title: Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry.
abstract: Systematic approaches to studying cellular signaling require phosphoproteomic techniques that reproducibly measure the same phosphopeptides across multiple replicates, conditions, and time points. Here we present a method to mine information from large-scale, heterogeneous phosphoproteomics data sets to rapidly generate robust targeted mass spectrometry (MS) assays. We demonstrate the performance of our method by interrogating the IGF-1/AKT signaling pathway, showing that even rarely observed phosphorylation events can be consistently detected and precisely quantified.
authors.affiliation: Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
authors.forename: Robert T
authors.initials: RT
authors.lastname: Lawrence
authors.affiliation: Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
authors.forename: Brian C
authors.initials: BC
authors.lastname: Searle
authors.affiliation: Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
authors.forename: Ariadna
authors.initials: A
authors.lastname: Llovet
authors.affiliation: Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
authors.forename: Judit
authors.identifier: 0000-0002-1005-1739
authors.initials: J
authors.lastname: Villén
mesh_terms: D018929:Cell Culture Techniques; D057225:Data Mining; D030541:Databases, Genetic; D057166:High-Throughput Screening Assays; D006801:Humans; D007334:Insulin-Like Growth Factor I / Q000378:metabolism* / Q000494:pharmacology; D061986:MCF-7 Cells; D010748:Phosphopeptides / Q000378:metabolism*; D010766:Phosphorylation; D040901:Proteomics / Q000379:methods*; D051057:Proto-Oncogene Proteins c-akt / Q000378:metabolism*; D015398:Signal Transduction; D049490:Systems Biology / Q000379:methods*; D053719:Tandem Mass Spectrometry
chemical_list: D010748:Phosphopeptides; D007334:Insulin-Like Growth Factor I; D051057:Proto-Oncogene Proteins c-akt