Proteomics research papers of note, September 2010
Journal: Journal of Hypertension, Sept. 1 [Epub ahead of print]
Title: Urinary proteomic diagnosis of coronary artery disease: identification and clinical validation in 623 individuals
Authors: Delles C; Schiffer E; von Zur Muhlen C; Peter K; Rossing P; Parving HH; Dymott JA; Neisius U; Zimmerli LU; Snell-Bergeon JK; Maahs DM; Schmieder RE; Mischak H; Dominiczak AF.
The study examined the urinary proteome in 623 individuals with and without coronary artery disease, identifying a pattern of 238 CAD-specific polypeptides that the authors said could be useful in diagnosing CAD and in monitoring the effects of therapeutic treatments.
Journal: Proteomics, Sept. 2 [Epub ahead of print]
Title: Proteomic analysis of human gastric juice: A shotgun approach
Authors: Liang CR; Tan S; Tan HT; Lin Q; Lim TK; Liu Y; Yeoh KG; So J; Chung MC.
The researchers profiled the protein components of gastric fluids from chronic gastritis patients using a shotgun proteomics approach, compiling what they said is the first report of the proteome of human gastric juice in gastritis patients. Because gastric juice is the most proximal fluid surrounding the stomach tissue, the researchers believe an analysis of this fluid will provide the most accurate pathophysiology of the stomach.
Journal: Journal of Proteomics, Sept. 8 [Epub ahead of print]
Title: Noah's nectar: The proteome content of a glass of red wine
Authors: D'Amato A; Kravchuk AV; Bachi A; Righetti PG.
The researchers examined the protein content of red and white wines with a particular emphasis on measuring levels of bovine casein, which is typically added for the removal of organic compounds to improve clarity and taste. In several wines, the authors found far lower than expected levels of casein, which they suggested should be taken into consideration by winemakers and regulators.
Journal: Molecular & Cellular Proteomics, Sept. 9
Title: Quantitative proteomics and metabolomics analysis of normal human cerebrospinal fluid samples.
Authors: Stoop MP; Coulier L; Rosenling T; Shi S; Smolinska AM; Buydens L; Ampt K; Stingl C; Dane A; Muilwijk B; Luitwieler RL; Smitt PA; Hintzen RQ; Bischoff R; Wijmenga SS; Hankemeier T; van Gool AJ; Luider TM.
The study examined variation in protein and metabolite levels in cerebrospinal fluid taken from healthy subjects, discovering that a baseline was lacking for a large number of CSF compounds. Considerable variation was found between subjects in both the metabolome and the proteome, suggesting, the authors said, that candidate biomarkers for CNS disorders should be assessed with caution due to large amount of naturally occurring variation between individuals.
Journal: Journal of Chemical and Information and Modeling, Sept. 20 [Epub ahead of print]
Title: Comprehensive structural and functional characterization of the human kinome by protein structure modeling and ligand virtual screening
Authors: Brylinski M; Skolnick J.
The authors used the FINDSITE/Q-Dock ligand homology modeling approach to characterize the human kinome. With this technique they constructed structure models for human kinases, which they screened virtually against a library of more than 2 million compounds, predicting a number of kinase-ligand interactions that they said could be of use in developing new inhibitors.
Journal: Microbiology, Sept. 23 [Epub ahead of print]
Title: Mass spectrometric quantitation of the adaptations in the wall proteome of Candida albicans in response to ambient pH
Authors: Sosinska GJ; de Koning LJ; de Groot PW; Manders EM; Dekker HL; Hellingwerf KJ; de Koster CG; Klis FM.
The researchers used tandem mass spectrometry to quantitate the wall proteins of the pathogenic fungus Candida albicans in varying levels of ambient pH. Their results demonstrated that the organism's wall proteome is highly responsive to pH, suggesting potential avenues for vaccine development.
Journal: Proceedings of the National Academy of Sciences, Sept. 27 [Epub ahead of print]
Title: Proteome of mouse oocytes at different developmental stages
Authors: Wang S; Kou Z; Jing Z; Zhang Y; Guo X; Dong M; Wilmut I; Gao S.
The study examined the proteins present in 7,000 mouse oocytes at different developmental stages, identifying different protein compositions correlated with the different stages of development. The authors said the results should provide insight into the molecular processes of early development and could aid in the generation of induced pluripotent stem cells.
Journal: Cell Communication and Signaling, Sept. 28 [Epub ahead of print]
Title: Quantitative phosphoproteomic analysis of prion-infected neuronal cells
Authors: Wagner W; Ajuh P; Lower J; Wessler S.
Using SILAC analysis, the authors identified 105 proteins in neuronal cells that showed differentially regulated phosphorylation upon abnormal prion protein infection, which is associated with prion diseases. These observations could lead to the development of protein biomarkers for abnormal prion protein infection and novel drug therapies, the researchers said.