Integrating genomic, transcriptomic, and interactome data to improve Peptide and protein identification in shotgun proteomics.

ABSTRACT: Mass spectrometry (MS)-based shotgun proteomics is an effective technology for global proteome profiling. The ultimate goal is to assign tandem MS spectra to peptides and subsequently infer proteins and their abundance. In addition to database searching and protein assembly algorithms, computational approaches have been developed to integrate genomic, transcriptomic, and interactome information to improve peptide and protein identification. Earlier efforts focus primarily on making databases more comprehensive using publicly available genomic and transcriptomic data. More recently, with the increasing affordability of the Next Generation Sequencing (NGS) technologies, personalized protein databases derived from sample-specific genomic and transcriptomic data have emerged as an attractive s

SUBMITTER: Wang X 

PROVIDER: S-EPMC4059263 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature