title: Shotgun proteomics in neuroscience.
abstract: Mass spectrometry-based proteomics is increasingly used to address basic and clinical questions in biomedical research through studies of differential protein expression, protein-protein interactions, and posttranslational modifications. The complex structural and functional organization of the human brain warrants the application of high-throughput, systematic approaches to understand the functional alterations under normal physiological conditions and the perturbations of neurological diseases. This primer focuses on shotgun-proteomics-based tandem mass spectrometry for the identification of proteins in a complex mixture. It describes the basic concepts of protein differential expression analysis and posttranslational modification analysis and discusses several strategies to improve the coverage of the proteome.
authors.affiliation: Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
authors.forename: Lujian
authors.initials: L
authors.lastname: Liao
authors.forename: Daniel B
authors.initials: DB
authors.lastname: McClatchy
authors.forename: John R
authors.initials: JR
authors.lastname: Yates
mesh_terms: D000818:Animals; D001921:Brain / Q000378:metabolism*; D030562:Databases, Protein; D006801:Humans; D013058:Mass Spectrometry / Q000379:methods; D009488:Neurosciences / Q000379:methods*; D025941:Protein Interaction Mapping; D020543:Proteome / Q000235:genetics / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*
chemical_list: D020543:Proteome