Comparative proteomics reveals a significant bias toward alternative protein isoforms with conserved structure and function.

ABSTRACT: Advances in high-throughput mass spectrometry are making proteomics an increasingly important tool in genome annotation projects. Peptides detected in mass spectrometry experiments can be used to validate gene models and verify the translation of putative coding sequences (CDSs). Here, we have identified peptides that cover 35% of the genes annotated by the GENCODE consortium for the human genome as part of a comprehensive analysis of experimental spectra from two large publicly available mass spectrometry databases. We detected the translation to protein of "novel" and "putative" protein-coding transcripts as well as transcripts annotated as pseudogenes and nonsense-mediated decay targets. We provide a detailed overview of the population of alternatively spliced protein isoforms that are

SUBMITTER: Ezkurdia I 

PROVIDER: S-EPMC3424414 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature