title: Mass spectrometric protein identification using the global proteome machine.
abstract: Protein identification by mass spectrometry is widely used in biological research. Here, we describe how the global proteome machine (GPM) can be used for protein identification and for validation of the results. We cover identification by searching protein sequence collections and spectral libraries as well as validation of the results using expectation values, rho-diagrams, and spectrum databases.
authors.affiliation: The Rockefeller University, New York, NY, USA. fenyo@rockefeller.edu
authors.forename: David
authors.initials: D
authors.lastname: Fenyö
authors.forename: Jan
authors.initials: J
authors.lastname: Eriksson
authors.forename: Ronald
authors.initials: R
authors.lastname: Beavis
mesh_terms: D000595:Amino Acid Sequence; D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D013058:Mass Spectrometry / Q000379:methods*; D008969:Molecular Sequence Data; D010455:Peptides / Q000737:chemistry; D020543:Proteome / Q000032:analysis* / Q000737:chemistry; D015203:Reproducibility of Results; D012984:Software; D053719:Tandem Mass Spectrometry
chemical_list: D010455:Peptides; D020543:Proteome