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

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

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Publications

• Meta-Analysis of Rice Phosphoproteomics Data to Understand Variation in Cell Signaling Across the Rice Pan-Genome
  Kerry A. Ramsbottom, Ananth Prakash, Yasset Perez-Riverol, Oscar Martin Camacho, Zhi Sun, Deepti J. Kundu, Emily Bowler-Barnett, Maria Martin, Jun Fan, Dmytro Chebotarov, Kenneth L. McNally, Eric W. Deutsch, Juan Antonio Vizcaíno, and Andrew R. Jones
  J. Proteome Res. 2024, 23, 7, 2518–2531
  doi: 10.1021/acs.jproteome.4c00187

Download

Below are individual Rice 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.

Help

Complete description of each of the available download formats

Other Resources

• Rice proteome at Uniprot
• Rice (full) PeptideAtlas
• PTMeXchange

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” .