IDPicker 2.0: Improved protein assembly with high discrimination peptide identification filtering.

ABSTRACT: Tandem mass spectrometry-based shotgun proteomics has become a widespread technology for analyzing complex protein mixtures. A number of database searching algorithms have been developed to assign peptide sequences to tandem mass spectra. Assembling the peptide identifications to proteins, however, is a challenging issue because many peptides are shared among multiple proteins. IDPicker is an open-source protein assembly tool that derives a minimum protein list from peptide identifications filtered to a specified False Discovery Rate. Here, we update IDPicker to increase confident peptide identifications by combining multiple scores produced by database search tools. By segregating peptide identifications for thresholding using both the precursor charge state and the number of tryptic term

SUBMITTER: Ma ZQ 

PROVIDER: S-EPMC2810655 | biostudies-literature | 2009 Aug

REPOSITORIES: biostudies-literature