18	experiments
138	MS runs
21,764,269	searched spectra
13,716,253	PSMs
245,884	distinct peptides
10,264	proteins UniprotKB
6,423	canonical proteins

About

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

Available datasets of Canis familiaris samples were reprocessed from the raw files using the Trans-Proteomic Pipeline suite of tools.

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Chromosome Summary

Column descriptions ▲

Entries: Number of entries in each chromosome
Canonical: Proteins seen with 2 distinct, uniquely mapping peptides
Uncertain: Proteins with some evidence that is not sufficient for canonical status
Redundant: Proteins that have peptides that map to them, but not uniquely and thus not needed to explain the observed peptides
Not Observed: No detections at all in PeptideAtlas above our very stringent threshold

Publications

A Labrador PeptideAtlas and DIA spectral assay library - resources for proteomics research in dogs
Ulrike Kusebauch, Zhi Sun, Mukul K. Midha, Charu Kapil, Michal Maes, David H. Baxter, Seamus R. Morrone, Panga J. Reddy, Ciaran O’Flynn, Phillip Watson, Eric W. Deutsch, David Allaway, Robert L. Moritz
Scientific Data 13, 524 (2026)
DOI : 10.1038/s41597-026-06647-z

Download

Below are individual Canine 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.

Canis familiaris 2024-01 PSM FDR = 0.001Latest Build

Biosequence Set in FASTA format [96MB]
Database tables exported as TSV dump file [58MB]
Database tables exported as mysql dump file [58MB]
Peptide CDS and chromosomal coordinates [93MB]
Peptide CDS coordinates [44MB]
Peptide sequences in FASTA format [4MB]

Help

Complete description of each of the available download formats

Other Resources

SWATHAtlas

Acknowledgements

We gratefully acknowledge the support for the Canine PeptideAtlas in part by Mars Advanced Research Institute and Mars Petcare, both subsidiaries of Mars Inc., by the National Institutes of Health grants from the National Institute for General Medical Sciences (NIGMS) R01GM087221, the Office of the Director S10OD026936, and the National Science Foundation awards 1920268 and DBI-2324882.