title: PARPs database: a LIMS systems for protein-protein interaction data mining or laboratory information management system.
abstract: BACKGROUND
  In the "post-genome" era, mass spectrometry (MS) has become an important method for the analysis of proteins and the rapid advancement of this technique, in combination with other proteomics methods, results in an increasing amount of proteome data. This data must be archived and analysed using specialized bioinformatics tools.
  
  
  METHODS
  We herein describe "PARPs database," a data analysis and management pipeline for liquid chromatography tandem mass spectrometry (LC-MS/MS) proteomics. PARPs database is a web-based tool whose features include experiment annotation, protein database searching, protein sequence management, as well as data-mining of the peptides and proteins identified.
  
  
  CONCLUSIONS
  Using this pipeline, we have successfully identified several interactions of biological significance between PARP-1 and other proteins, namely RFC-1, 2, 3, 4 and 5.
authors: Health and Environment Unit, Laval University Medical research Center, CHUQ, Québec, Canada. arnaud.droit@gmail.com
authors: Arnaud
authors: A
authors: Droit
authors: Joanna M
authors: JM
authors: Hunter
authors: Michèle
authors: M
authors: Rouleau
authors: Chantal
authors: C
authors: Ethier
authors: Aude
authors: A
authors: Picard-Cloutier
authors: David
authors: D
authors: Bourgais
authors: Guy G
authors: GG
authors: Poirier
mesh_terms: D001665:Binding Sites; D002851:Chromatography, High Pressure Liquid / Q000379:methods*; D019295:Computational Biology / Q000379:methods; D003628:Database Management Systems; D030562:Databases, Protein; D016247:Information Storage and Retrieval / Q000379:methods; D013058:Mass Spectrometry / Q000379:methods*; D000071137:Poly (ADP-Ribose) Polymerase-1; D011065:Poly(ADP-ribose) Polymerases / Q000737:chemistry* / Q000378:metabolism*; D011485:Protein Binding; D025941:Protein Interaction Mapping / Q000379:methods*
chemical_list: C499320:PARP1 protein, human; D000071137:Poly (ADP-Ribose) Polymerase-1; D011065:Poly(ADP-ribose) Polymerases