A framework for intelligent data acquisition and real-time database searching for shotgun proteomics.

ABSTRACT: In the analysis of complex peptide mixtures by MS-based proteomics, many more peptides elute at any given time than can be identified and quantified by the mass spectrometer. This makes it desirable to optimally allocate peptide sequencing and narrow mass range quantification events. In computer science, intelligent agents are frequently used to make autonomous decisions in complex environments. Here we develop and describe a framework for intelligent data acquisition and real-time database searching and showcase selected examples. The intelligent agent is implemented in the MaxQuant computational proteomics environment, termed MaxQuant Real-Time. It analyzes data as it is acquired on the mass spectrometer, constructs isotope patterns and SILAC pair information as well as controls MS and t

SUBMITTER: Graumann J 

PROVIDER: S-EPMC3316723 | biostudies-literature | 2012 Mar

REPOSITORIES: biostudies-literature