title: YPED: a proteomics database for protein expression analysis.
abstract: We have developed the Yale Protein Expression Database (YPED) to address the storage, retrieval, and integrated analysis of proteomics data generated by Yale's Keck Protein Chemistry and Mass Spectrometry Facility. YPED is Web-accessible and currently handles sample requisition, result reporting and sample comparison for ICAT, DIGE and MUDPIT samples. Sample descriptions are compatible with the evolving MIAPE standards. Peptides and proteins identified using Sequest or Mascot are validated with the Trans-Proteomic Pipeline developed at the Institute of Systems Biology and data from the resulting XML file are stored in the database. Researchers can view, subset and download their data through a secure Web interface.
authors.affiliation: Center for Medical Informatics, Yale University, New Haven, CT, USA.
authors.forename: Mark A
authors.initials: MA
authors.lastname: Shifman
authors.forename: Kexin
authors.initials: K
authors.lastname: Sun
authors.forename: Christopher M
authors.initials: CM
authors.lastname: Colangelo
authors.forename: Kei-Hoi
authors.initials: KH
authors.lastname: Cheung
authors.forename: Perry
authors.initials: P
authors.lastname: Miller
authors.forename: Kenneth
authors.initials: K
authors.lastname: Williams
mesh_terms: D030562:Databases, Protein; D006801:Humans; D016247:Information Storage and Retrieval; D011506:Proteins; D020543:Proteome; D040901:Proteomics / Q000379:methods
chemical_list: D011506:Proteins; D020543:Proteome