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

doi:10.1186/gb-2006-7-11-r106

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 journal › Article › peer-review

54 Scopus citations

Abstract

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 language	English (US)
Article number	R106
Journal	Genome biology
Volume	7
Issue number	11
DOIs	https://doi.org/10.1186/gb-2006-7-11-r106
State	Published - Nov 13 2006
Externally published	Yes

ASJC Scopus subject areas

Ecology, Evolution, Behavior and Systematics
Genetics
Cell Biology

Access to Document

10.1186/gb-2006-7-11-r106

Cite this

@article{30aa5fd372134c189681bff4bc7a59c6,

title = "Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas",

abstract = "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.",

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

year = "2006",

month = nov,

day = "13",

doi = "10.1186/gb-2006-7-11-r106",

language = "English (US)",

volume = "7",

journal = "Genome biology",

issn = "1474-7596",

publisher = "BioMed Central",

number = "11",

}

TY - JOUR

T1 - Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas

AU - King, Nichole L.

AU - Deutsch, Eric W.

AU - Ranish, Jeffrey A.

AU - Nesvizhskii, Alexey I.

AU - Eddes, James S.

AU - Mallick, Parag

AU - Eng, Jimmy

AU - Desiere, Frank

AU - Flory, Mark

AU - Martin, Daniel B.

AU - Kim, Bong

AU - Lee, Hookeun

AU - Raught, Brian

AU - Aebersold, Ruedi

PY - 2006/11/13

Y1 - 2006/11/13

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=33847699732&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33847699732&partnerID=8YFLogxK

U2 - 10.1186/gb-2006-7-11-r106

DO - 10.1186/gb-2006-7-11-r106

M3 - Article

C2 - 17101051

AN - SCOPUS:33847699732

SN - 1474-7596

VL - 7

JO - Genome biology

JF - Genome biology

IS - 11

M1 - R106

ER -

Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas

Abstract

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this