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Full 2024-08 Build Summary
8datasets
63experiments
1,857MS runs
9,612,024PSMs
549,527distinct phosphopeptides
3,212canonical proteins

About

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

Available datasets of phosphopeptide enrichment yeast samples were reprocessed from the raw files using the Trans-Proteomic Pipeline suite of tools.

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Publications

A publication describing the Yeast Phospho PeptideAtlas build is in progress. For now, please just reference this URL, and check back later for a citation.

Download

Below are individual Yeast Phospho 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 Phospho 2024-08 PSM FDR = 0.0001Latest Build
  • Biosequence Set in FASTA format [6MB]
  • Database tables exported as TSV dump file [52MB]
  • Database tables exported as mysql dump file [44MB]
  • Peptide CDS and chromosomal coordinates [3MB]
  • Peptide CDS coordinates [2MB]
  • Peptide sequences in FASTA format [1MB]
Phosphosites
  • PTMeXchange final Gold, Silver, Bronze phosphosites [4MB]

Help

Complete description of each of the available download formats

Other Resources

Acknowledgements

We gratefully acknowledge the support for the Yeast Phospho PeptideAtlas from the National Science Foundation grant DBI-1933311 “PTMexchange: Globally harmonized re-analysis and sharing of data on post-translational modifications” .