title: PEDRo: a database for storing, searching and disseminating experimental proteomics data.
abstract: BACKGROUND
  Proteomics is rapidly evolving into a high-throughput technology, in which substantial and systematic studies are conducted on samples from a wide range of physiological, developmental, or pathological conditions. Reference maps from 2D gels are widely circulated. However, there is, as yet, no formally accepted standard representation to support the sharing of proteomics data, and little systematic dissemination of comprehensive proteomic data sets.
  
  
  RESULTS
  This paper describes the design, implementation and use of a Proteome Experimental Data Repository (PEDRo), which makes comprehensive proteomics data sets available for browsing, searching and downloading. It is also serves to extend the debate on the level of detail at which proteomics data should be captured, the sorts of facilities that should be provided by proteome data management systems, and the techniques by which such facilities can be made available.
  
  
  CONCLUSIONS
  The PEDRo database provides access to a collection of comprehensive descriptions of experimental data sets in proteomics. Not only are these data sets interesting in and of themselves, they also provide a useful early validation of the PEDRo data model, which has served as a starting point for the ongoing standardisation activity through the Proteome Standards Initiative of the Human Proteome Organisation.
authors.affiliation: Department of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK. garwood@cs.man.ac.uk
authors.forename: Kevin
authors.initials: K
authors.lastname: Garwood
authors.forename: Thomas
authors.initials: T
authors.lastname: McLaughlin
authors.forename: Chris
authors.initials: C
authors.lastname: Garwood
authors.forename: Scott
authors.initials: S
authors.lastname: Joens
authors.forename: Norman
authors.initials: N
authors.lastname: Morrison
authors.forename: Christopher F
authors.initials: CF
authors.lastname: Taylor
authors.forename: Kathleen
authors.initials: K
authors.lastname: Carroll
authors.forename: Caroline
authors.initials: C
authors.lastname: Evans
authors.forename: Anthony D
authors.initials: AD
authors.lastname: Whetton
authors.forename: Sarah
authors.initials: S
authors.lastname: Hart
authors.forename: David
authors.initials: D
authors.lastname: Stead
authors.forename: Zhikang
authors.initials: Z
authors.lastname: Yin
authors.forename: Alistair J P
authors.initials: AJ
authors.lastname: Brown
authors.forename: Andrew
authors.initials: A
authors.lastname: Hesketh
authors.forename: Keith
authors.initials: K
authors.lastname: Chater
authors.forename: Lena
authors.initials: L
authors.lastname: Hansson
authors.forename: Muriel
authors.initials: M
authors.lastname: Mewissen
authors.forename: Peter
authors.initials: P
authors.lastname: Ghazal
authors.forename: Julie
authors.initials: J
authors.lastname: Howard
authors.forename: Kathryn S
authors.initials: KS
authors.lastname: Lilley
authors.forename: Simon J
authors.initials: SJ
authors.lastname: Gaskell
authors.forename: Andy
authors.initials: A
authors.lastname: Brass
authors.forename: Simon J
authors.initials: SJ
authors.lastname: Hubbard
authors.forename: Stephen G
authors.initials: SG
authors.lastname: Oliver
authors.forename: Norman W
authors.initials: NW
authors.lastname: Paton
mesh_terms: D000818:Animals; D029681:Arabidopsis Proteins / Q000737:chemistry; D001426:Bacterial Proteins / Q000737:chemistry; D002176:Candida albicans / Q000737:chemistry / Q000472:pathogenicity; D041221:Candida glabrata / Q000737:chemistry / Q000472:pathogenicity; D019295:Computational Biology / Q000379:methods; D003628:Database Management Systems / Q000639:trends*; D030562:Databases, Protein / Q000639:trends*; D005656:Fungal Proteins / Q000737:chemistry; D015801:Helminth Proteins / Q000737:chemistry; D007579:Jejunal Diseases / Q000469:parasitology; D051379:Mice; D011506:Proteins / Q000737:chemistry; D040901:Proteomics; D029701:Saccharomyces cerevisiae Proteins / Q000737:chemistry; D012985:Software Design; D048372:Streptomyces coelicolor / Q000737:chemistry; D017160:Trichinella spiralis / Q000472:pathogenicity; D014235:Trichinellosis / Q000473:pathology
chemical_list: D029681:Arabidopsis Proteins; D001426:Bacterial Proteins; D005656:Fungal Proteins; D015801:Helminth Proteins; D011506:Proteins; D029701:Saccharomyces cerevisiae Proteins