title: Prequips--an extensible software platform for integration, visualization and analysis of LC-MS/MS proteomics data.
abstract: CONCLUSIONS
  We describe an integrative software platform, Prequips, for comparative proteomics-based systems biology analysis that: (i) integrates all information generated from mass spectrometry (MS)-based proteomics as well as from basic proteomics data analysis tools, (ii) visualizes such information for various proteomic analyses via graphical interfaces and (iii) links peptide and protein abundances to external tools often used in systems biology studies.
  
  
  BACKGROUND
  http://prequips.sourceforge.net
authors.affiliation: Institute for Systems Biology, Seattle, USA.
authors.forename: Nils
authors.initials: N
authors.lastname: Gehlenborg
authors.forename: Wei
authors.initials: W
authors.lastname: Yan
authors.forename: Inyoul Y
authors.initials: IY
authors.lastname: Lee
authors.forename: Hyuntae
authors.initials: H
authors.lastname: Yoo
authors.forename: Kay
authors.initials: K
authors.lastname: Nieselt
authors.forename: Daehee
authors.initials: D
authors.lastname: Hwang
authors.forename: Ruedi
authors.initials: R
authors.lastname: Aebersold
authors.forename: Leroy
authors.initials: L
authors.lastname: Hood
mesh_terms: D002853:Chromatography, Liquid / Q000379:methods*; D019295:Computational Biology / Q000379:methods; D003196:Computer Graphics; D030562:Databases, Protein; D020407:Internet; D011506:Proteins / Q000737:chemistry; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods*; D012984:Software; D049490:Systems Biology / Q000379:methods; D053719:Tandem Mass Spectrometry / Q000379:methods*; D014584:User-Computer Interface
chemical_list: D011506:Proteins; D020543:Proteome