title: A new insight into the impact of different proteases on SILAC quantitative proteome of the mouse liver.
abstract: In this study, we examined the use of multiple proteases (trypsin, LysC, tandem LysC/trypsin) on both protein identification and quantification in the Lys-labeled SILAC mouse liver. Our results show that trypsin and tandem LysC/trypsin digestion are superior to LysC in peptides and protein identification while LysC shows advantages in quantification of Lys-labeled proteins. Combination of experimental results from different proteases (LysC and trypsin) enabled a significant increase in the number of identified protein and protein can be quantified. Thus, taking advantage of the complementation of different protease should be a good strategy to improve both qualitative and quantitative proteomics research.
authors.affiliation: State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing, P. R. China.
authors.forename: Jie
authors.initials: J
authors.lastname: Ma
authors.forename: Wenbo
authors.initials: W
authors.lastname: Li
authors.forename: Yongzhuang
authors.initials: Y
authors.lastname: Lv
authors.forename: Cheng
authors.initials: C
authors.lastname: Chang
authors.forename: Songfeng
authors.initials: S
authors.lastname: Wu
authors.forename: Lei
authors.initials: L
authors.lastname: Song
authors.forename: Chen
authors.initials: C
authors.lastname: Ding
authors.forename: Handong
authors.initials: H
authors.lastname: Wei
authors.forename: Fuchu
authors.initials: F
authors.lastname: He
authors.forename: Ying
authors.initials: Y
authors.lastname: Jiang
authors.forename: Yunping
authors.initials: Y
authors.lastname: Zhu
mesh_terms: D000818:Animals; D007553:Isotope Labeling / Q000379:methods*; D008099:Liver / Q000737:chemistry* / Q000378:metabolism; D008666:Metalloendopeptidases / Q000378:metabolism*; D051379:Mice; D010446:Peptide Fragments / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D011506:Proteins / Q000032:analysis / Q000737:chemistry / Q000378:metabolism; D020543:Proteome / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D040901:Proteomics / Q000379:methods; D053719:Tandem Mass Spectrometry; D014357:Trypsin / Q000378:metabolism*
chemical_list: D010446:Peptide Fragments; D011506:Proteins; D020543:Proteome; D014357:Trypsin; D008666:Metalloendopeptidases; C039830:peptidyl-Lys metalloendopeptidase
keywords: LysC; Quantification; SILAC mouse liver; Technology; Trypsin