The PeptideAtlas of the Domestic Laying Hen

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.

基于蛋白质组学的生物学研究得益于高质量的质谱学分析，而高质量质谱学资源的获取，如高质量精选的蛋白质组数据仓库，则进一步推动了这一领域的发展。本研究向您呈现了针对家鸡的PeptideAtlas，其中包含丰富且坚实的鸡组织与血浆样本集合，对鸡蛋白质组学社群在蛋白质验证及后续靶向蛋白质组定量设计方面具有重要价值。该鸡PeptideAtlas包含6646个标准蛋白质，蛋白质假阳性率（FDR）为1.3%，由约10万个肽段组成，肽段水平FDR为0.1%。这一易于获取的数据宝库便于进行数据验证和实验规划，尤其在构建蛋白质组定量分析流程方面具有重要意义。在本研究中，我们展示了如何利用该图谱挖掘关于常见鸡急性期蛋白质和用于癌症检测的生物标志物信息，及其定位和突变情况。这些丰富的信息将为利用这一具有重要农业价值的生物体进行的蛋白质组学研究提供支持，旨在促进鸡和人类健康成果的研究。