title: An FD-LC-MS/MS proteomic strategy for revealing cellular protein networks: a conditional superoxide dismutase 1 knockout cells.
abstract: Systems biology aims to understand biological phenomena in terms of complex biological and molecular interactions, and thus proteomics plays an important role in elucidating protein networks. However, many proteomic methods have suffered from their high variability, resulting in only showing altered protein names. Here, we propose a strategy for elucidating cellular protein networks based on an FD-LC-MS/MS proteomic method. The strategy permits reproducible relative quantitation of differences in protein levels between different cell populations and allows for integration of the data with those obtained through other methods. We demonstrate the validity of the approach through a comparison of differential protein expression in normal and conditional superoxide dismutase 1 gene knockout cells and believe that beginning with an FD-LC-MS/MS proteomic approach will enable researchers to elucidate protein networks more easily and comprehensively.
authors.affiliation: Research Institute of Pharmaceutical Sciences, Musashino University, Tokyo, Japan.
authors.forename: Tomoko
authors.initials: T
authors.lastname: Ichibangase
authors.forename: Yasuhiro
authors.initials: Y
authors.lastname: Sugawara
authors.forename: Akio
authors.initials: A
authors.lastname: Yamabe
authors.forename: Akiyo
authors.initials: A
authors.lastname: Koshiyama
authors.forename: Akari
authors.initials: A
authors.lastname: Yoshimura
authors.forename: Takemi
authors.initials: T
authors.lastname: Enomoto
authors.forename: Kazuhiro
authors.initials: K
authors.lastname: Imai
mesh_terms: D000818:Animals; D002460:Cell Line; D002645:Chickens; D002851:Chromatography, High Pressure Liquid / Q000379:methods; D055785:Gene Knockdown Techniques; D013058:Mass Spectrometry / Q000379:methods; D025941:Protein Interaction Mapping / Q000379:methods*; D060066:Protein Interaction Maps; D011506:Proteins / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D013482:Superoxide Dismutase / Q000235:genetics* / Q000378:metabolism; D000072105:Superoxide Dismutase-1
chemical_list: D011506:Proteins; D013482:Superoxide Dismutase; D000072105:Superoxide Dismutase-1