The Equine PeptideAtlas: A resource for developing proteomics-based veterinary research

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  • Louise Bundgaard, Univ Copenhagen, University of Copenhagen, Dept Large Anim Sci, Fac Med & Hlth Sci, Denmark
  • Stine Jacobsen, Univ Copenhagen, University of Copenhagen, Dept Large Anim Sci, Fac Med & Hlth Sci, Denmark
  • Mette A. Sorensen, Univ Copenhagen, University of Copenhagen, Dept Large Anim Sci, Fac Med & Hlth Sci, Unknown
  • Zhi Sun, Inst Syst Biol, Institute for Systems Biology (ISB), United States
  • Eric W. Deutsch, Inst Syst Biol, Institute for Systems Biology (ISB), United States
  • Robert L. Moritz, Inst Syst Biol, Institute for Systems Biology (ISB), United States
  • Emoke Bendixen

Progress in MS-based methods for veterinary research and diagnostics is lagging behind compared to the human research, and proteome data of domestic animals is still not well represented in open source data repositories. This is particularly true for the equine species. Here we present a first Equine PeptideAtlas encompassing high-resolution tandem MS analyses of 51 samples representing a selection of equine tissues and body fluids from healthy and diseased animals. The raw data were processed through the Trans-Proteomic Pipeline to yield high quality identification of proteins and peptides. The current release comprises 24131 distinct peptides representing 2636 canonical proteins observed at false discovery rates of 0.2% at the peptide level and 1.4% at the protein level. Data from the Equine PeptideAtlas are available for experimental planning, validation of new datasets, and as a proteomic data mining resource. The advantages of the Equine PeptideAtlas are demonstrated by examples of mining the contents for information on potential and well-known equine acute phase proteins, which have extensive general interest in the veterinary clinic. The extracted information will support further analyses, and emphasizes the value of the Equine PeptideAtlas as a resource for the design of targeted quantitative proteomic studies.

Original languageEnglish
JournalProteomics
Volume14
Issue6
Pages (from-to)763-773
Number of pages11
ISSN1615-9853
DOIs
Publication statusPublished - Mar 2014

    Research areas

  • Acute phase proteins, Animal proteomics, Equine, PeptideAtlas, Proteotypic peptides, SERUM-AMYLOID-A, ACUTE-PHASE PROTEINS, TANDEM MASS-SPECTRA, SYNOVIAL-FLUID, EXTRAHEPATIC EXPRESSION, INFLAMMATORY RESPONSE, FOLLICULAR-FLUID, PLASMA-PROTEINS, HEALTHY HORSES, FIBRINOGEN

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