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Full 2022-06 Build Summary
81experiments
60,908,873PSMs
485,199distinct peptides
5,194canonical proteins

About

The Yeast PeptideAtlas provides a compendium of results from uniformly reprocessed mass spectrometry proteomics datasets.

Available datasets of Saccharomyces cerevisiae were reprocessed from the raw files using the Trans-Proteomic Pipeline suite of tools.

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Publications

There is no publication for this build, but we would welcome a citation to the original yeast build and the original PeptideAtlas paper:

Download

Below are individual Yeast PeptideAtlas builds available for download in various flat file formats. Note that not all files contain all information from the build. A build subtitled "PSM FDR=0.002" denotes a PSM FDR threshold of 0.002 (0.2%) is applied to every sample in the build.

Yeast 2022-06 PSM FDR = 0.0008Latest Build
  • Biosequence Set in FASTA format [15MB]
  • Database tables exported as TSV dump file [234MB]
  • Database tables exported as mysql dump file [194MB]
  • Peptide CDS and chromosomal coordinates [115MB]
  • Peptide CDS coordinates [69MB]
  • Peptide sequences in FASTA format [13MB]
Yeast 2013-03 P > 0.9
  • Biosequence Set in FASTA format [14MB]
  • Database tables exported as an XML file [47MB]
  • Database tables exported as mysql dump file [24MB]
  • Peptide CDS and chromosomal coordinates [13MB]
  • Peptide CDS coordinates [7MB]
  • Peptide sequences in FASTA format [2MB]
Yeast 2011-12 P > 0.9
  • Biosequence Set in FASTA format [15MB]
  • Database tables exported as an XML file [55MB]
  • Database tables exported as mysql dump file [30MB]
  • Peptide CDS and chromosomal coordinates [9MB]
  • Peptide CDS coordinates [5MB]
  • Peptide sequences in FASTA format [1MB]
Yeast 2009-04 P > 0.9
  • Biosequence Set in FASTA format [17MB]
  • Database tables exported as an XML file [54MB]
  • Database tables exported as mysql dump file [33MB]
  • Peptide CDS and chromosomal coordinates [11MB]
  • Peptide CDS coordinates [7MB]
  • Peptide sequences in FASTA format [1MB]
Phosphosites
  • PTMeXchange final Gold, Silver, Bronze phosphosites [18MB]

Help

Complete description of each of the available download formats

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PeptideAtlas
© 2004-2026 Institute for Systems Biology, All Rights Reserved

PeptideAtlas data products are provided to the community under the CC-BY-NC 4.0 license.
When using these data for academic purposes, please acknowledge PeptideAtlas by citing one or more of our publications, as appropriate.
If you wish to use PeptideAtlas data products for commercial purposes, please contact Robert Moritz for details.