The PeptideAtlas of the Domestic Laying Hen
datasetposted on 07.02.2017, 00:00 authored by James McCord, Zhi Sun, Eric W. Deutsch, Robert L. Moritz, David C. Muddiman
Proteomics-based biological research is greatly expanded by high-quality mass spectrometry studies, which are themselves enabled by access to quality mass spectrometry resources, such as high-quality curated proteome data repositories. We present a PeptideAtlas for the domestic chicken, containing an extensive and robust collection of chicken tissue and plasma samples with substantial value for the chicken proteomics community for protein validation and design of downstream targeted proteome quantitation. The chicken PeptideAtlas contains 6646 canonical proteins at a protein FDR of 1.3%, derived from ∼100 000 peptides at a peptide level FDR of 0.1%. The rich collection of readily accessible data is easily mined for the purposes of data validation and experimental planning, particularly in the realm of developing proteome quantitation workflows. Herein we demonstrate the use of the atlas to mine information on common chicken acute-phase proteins and biomarkers for cancer detection research, as well as their localization and polymorphisms. This wealth of information will support future proteome-based research using this highly important agricultural organism in pursuit of both chicken and human health outcomes.
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chicken PeptideAtlasmine informationprotein validationhealth outcomes6646 canonical proteinschicken proteomics communityHen Proteomics-basedquality mass spectrometry resourcesfuture proteome-based researchchicken tissueproteome quantitationcancer detection researchproteome quantitation workflowsmass spectrometry studiesprotein FDRdata validationpeptide level FDRcurated proteome data repositorieschicken acute-phase proteinsplasma samples