title: Computational Proteomics Analysis System (CPAS): an extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments.
abstract: The open-source Computational Proteomics Analysis System (CPAS) contains an entire data analysis and management pipeline for Liquid Chromatography Tandem Mass Spectrometry (LC-MS/MS) proteomics, including experiment annotation, protein database searching and sequence management, and mining LC-MS/MS peptide and protein identifications. CPAS architecture and features, such as a general experiment annotation component, installation software, and data security management, make it useful for collaborative projects across geographical locations and for proteomics laboratories without substantial computational support.
authors.affiliation: Fred Hutchinson Cancer Research Center, Seattle, Washington, LabKey Software, Seattle, Washington 98109-1024, USA.
authors.forename: Adam
authors.initials: A
authors.lastname: Rauch
authors.forename: Matthew
authors.initials: M
authors.lastname: Bellew
authors.forename: Jimmy
authors.initials: J
authors.lastname: Eng
authors.forename: Matthew
authors.initials: M
authors.lastname: Fitzgibbon
authors.forename: Ted
authors.initials: T
authors.lastname: Holzman
authors.forename: Peter
authors.initials: P
authors.lastname: Hussey
authors.forename: Mark
authors.initials: M
authors.lastname: Igra
authors.forename: Brendan
authors.initials: B
authors.lastname: Maclean
authors.forename: Chen Wei
authors.initials: CW
authors.lastname: Lin
authors.forename: Andrea
authors.initials: A
authors.lastname: Detter
authors.forename: Ruihua
authors.initials: R
authors.lastname: Fang
authors.forename: Vitor
authors.initials: V
authors.lastname: Faca
authors.forename: Phil
authors.initials: P
authors.lastname: Gafken
authors.forename: Heidi
authors.initials: H
authors.lastname: Zhang
authors.forename: Jeffrey
authors.initials: J
authors.lastname: Whiteaker
authors.forename: Jeffrey
authors.initials: J
authors.lastname: Whitaker
authors.forename: David
authors.initials: D
authors.lastname: States
authors.forename: Sam
authors.initials: S
authors.lastname: Hanash
authors.forename: Amanda
authors.initials: A
authors.lastname: Paulovich
authors.forename: Martin W
authors.initials: MW
authors.lastname: McIntosh
mesh_terms: D019295:Computational Biology / Q000379:methods*; D003628:Database Management Systems; D040901:Proteomics / Q000379:methods*