Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas

Nichole L. King, Eric W. Deutsch, Jeffrey A. Ranish, Alexey I. Nesvizhskii, James S. Eddes, Parag Mallick, Jimmy Eng, Frank Desiere, Mark Flory, Daniel B. Martin, Bong Kim, Hookeun Lee, Brian Raught, Ruedi Aebersold

Research output: Contribution to journalArticlepeer-review

54 Scopus citations


We present the Saccharomyces cerevisiae PeptideAtlas composed from 47 diverse experiments and 4.9 million tandem mass spectra. The observed peptides align to 61% of Saccharomyces Genome Database (SGD) open reading frames (ORFs), 49% of the uncharacterized SGD ORFs, 54% of S. cerevisiae ORFs with a Gene Ontology annotation of 'molecular function unknown', and 76% of ORFs with Gene names. We highlight the use of this resource for data mining, construction of high quality lists for targeted proteomics, validation of proteins, and software development.

Original languageEnglish (US)
Article numberR106
JournalGenome biology
Issue number11
StatePublished - Nov 13 2006
Externally publishedYes

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology


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