Database search is the dominant approach in high-throughput proteomic analysis. However, the interpretation rate of MS/MS spectra is very low in such a restricted mode, which is mainly due to unexpected modifications and irregular digestion types. In this study, we developed a new algorithm called Alioth, to be integrated into the search engine of pFind, for fast and accurate unrestricted database search on high-resolution MS/MS data.
View Article and Find Full Text PDFDatabase search is the dominant approach in high-throughput proteomic analysis. However, the interpretation rate of MS/MS spectra is very low in such a restricted mode, which is mainly due to unexpected modifications and irregular digestion types. In this study, we developed a new algorithm called Alioth, to be integrated into the search engine of pFind, for fast and accurate unrestricted database search on high-resolution MS/MS data.
View Article and Find Full Text PDFTo determine the impact of carbohydrates on the metabolic pathway in alkaliphiles, proteomes were obtained from cultures containing different carbohydrates and were resolved on two-dimensional gel electrophoresis (2-DE). The proteomes were compared to determine differentially expressed proteins. A novel alkaliphilic bacterium (alkaliphilic Bacillus sp.
View Article and Find Full Text PDFThe research on the membrane proteins expressed in alkaliphiles at different pH media will be benefit to understand the molecular mechanisms how they survive from such harsh alkaline environment. A preliminary investigation to the differential membrane proteomes from Alkalimonas amylolytica N10 (N10), a novel alkaliphilic bacterium, is reported herein. Upon the growth curves of N10 at different pH environment, three pH media, 8.
View Article and Find Full Text PDF