title: iTRAQ analysis with Paul ion trap-obstacle solved.
abstract: Mass spectrometers equipped with ion trap analyzers have been significantly improved due to their high performance and wide application area accompanying the low costs of purchase. Despite several advantages, such as reasonable resolution at low cost, high sensitivity, and capability for multistage analysis, ion traps have an important drawback: low mass cutoff during tandem mass spectrometry analysis MS(n). Although the low mass cutoff associated with the ion trap does not seriously obstruct peptide identification, it may cause a serious problem in identification of small molecules (posttranslational modifications, e.g., glycan structures) and quantification of peptides with multiplexed isobaric tag reagents. The presented approach offers the possibility to use isobaric tags for relative and absolute quantification labeling (iTRAQ) for quantitative, proteomic analysis using typical, widely available ion trap devices and manufacturer's software. We have performed series of analyses of standard protein labeled with isobaric tags in various concentration ratios to prove quantitative capabilities of this approach.
authors.affiliation: Department of Biochemistry and Neurobiology, AGH University of Science and Technology , Mickiewicza 30 Ave, 30-059 Kraków, Poland.
authors.forename: Anna
authors.initials: A
authors.lastname: Drabik
authors.forename: Anna
authors.initials: A
authors.lastname: Bodzoń-Kułakowska
authors.forename: Piotr
authors.initials: P
authors.lastname: Suder
authors.forename: Paweł
authors.initials: P
authors.lastname: Ciborowski
authors.forename: Jerzy
authors.initials: J
authors.lastname: Silberring
mesh_terms: D000818:Animals; D002417:Cattle; D008970:Molecular Weight; D010446:Peptide Fragments / Q000737:chemistry; D059748:Proteolysis; D040901:Proteomics; D012015:Reference Standards; D012710:Serum Albumin, Bovine / Q000737:chemistry; D053719:Tandem Mass Spectrometry / Q000379:methods* / Q000592:standards; D014357:Trypsin / Q000737:chemistry
chemical_list: D010446:Peptide Fragments; D012710:Serum Albumin, Bovine; D014357:Trypsin