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Full 2024-12 Build Summary
4datasets
4experiments
106MS runs
611,563PSMs
57,276distinct phosphopeptides
2,166canonical proteins

About

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

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

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Publications

A publication describing the Maize Phospho PeptideAtlas build is in progress.

For now, please just reference this URL, and check back later for a citation.

Download

Below are individual Maize 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.

Maize Phospho 2024-12 PSM FDR = 0.00001Latest Build
  • Biosequence Set in FASTA format [56MB]
  • Peptide CDS and chromosomal coordinates [2MB]
  • Peptide CDS coordinates [1MB]
  • Peptide sequences in FASTA format [495KB]
Phosphosites
  • PTMeXchange final Gold, Silver, Bronze phosphosites [6.5MB]

Help

Complete description of each of the available download formats

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Acknowledgements

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