title: The complete peptide dictionary--a meta-proteomics resource.
abstract: Recent developments in MS-based proteomics have increased the emphasis on peptides as a primary observable. While peptides are identified by tandem mass spectra, the link between peptide and protein remains implicit given the bottom-up nature of the experiment in which proteins are enzymatically digested prior to sequencing. It is therefore useful to provide a fast lookup from peptide to protein in order to systematically establish the broadest possible protein basis for the observed peptides. Here, we describe Pep2Pro, a fast web-service providing protein lookup by peptides covering the entire protein space comprising ∼10 million UniRef100 sequences. We demonstrate the usefulness of the service by reanalyzing peptides from two recent meta-proteomic data sets and identifying taxon-specific peptides, thereby implicating individual species as being present in these complex samples. The Pep2Pro web service can be accessed at http://www.pep2pro.org.
authors.affiliation: Department of Biological Chemistry, The Hebrew University of Jerusalem, Israel.
authors.forename: Manor
authors.initials: M
authors.lastname: Askenazi
authors.forename: Jarrod A
authors.initials: JA
authors.lastname: Marto
authors.forename: Michal
authors.initials: M
authors.lastname: Linial
mesh_terms: D030562:Databases, Protein; D004015:Dictionaries, Chemical as Topic; D006801:Humans; D020407:Internet; D010455:Peptides / Q000737:chemistry; D011506:Proteins / Q000737:chemistry; D040901:Proteomics / Q000379:methods*
chemical_list: D010455:Peptides; D011506:Proteins