Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas.
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.
King
Nichole L
NL
Institute for Systems Biology, N 34th Street, Seattle, WA 98103, USA. nking@systemsbiology.org
Deutsch
Eric W
EW
Ranish
Jeffrey A
JA
Nesvizhskii
Alexey I
AI
Eddes
James S
JS
Mallick
Parag
P
Eng
Jimmy
J
Desiere
Frank
F
Flory
Mark
M
Martin
Daniel B
DB
Kim
Bong
B
Lee
Hookeun
H
Raught
Brian
B
Aebersold
Ruedi
R
D003062:Codon; D030562:Databases, Protein; D005800:Genes, Fungal; D057927:Hydrophobic and Hydrophilic Interactions; D013058:Mass Spectrometry; D008970:Molecular Weight; D016366:Open Reading Frames / Q000235:genetics; D010455:Peptides / Q000737:chemistry / Q000378:metabolism*; D020543:Proteome / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D012441:Saccharomyces cerevisiae / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D014584:User-Computer Interface
D003062:Codon; D010455:Peptides; D020543:Proteome; D029701:Saccharomyces cerevisiae Proteins