State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Institute of Biomedical Sciences, Human Phenome Institute, Fudan University, Shanghai, P.R. China.
State Key Laboratory of Cell Differentiation and Regulation, Henan International Joint Laboratory of Pulmonary Fibrosis, Henan Center for Outstanding Overseas Scientists of Pulmonary Fibrosis, College of Life Science, Institute of Biomedical Science, Henan Normal University, Xinxiang, P.R. China.
Cancer Genomics Proteomics. 2021 Jul-Aug;18(4):549-568. doi: 10.21873/cgp.20280.
BACKGROUND/AIM: Body fluids are considered to be a rich source of disease biomarkers. Proteins in many body fluids have potential clinical applications for disease diagnostic and prognostic purposes. The aim of this study was to establish an in-depth multi-body fluid proteome.
Ten body fluids associated with 8 types of cancers collected from 23 patients involved in 19 common diseases underwent liquid chromatography tandem mass spectrometry (MS) analysis after gel-based protein separation (SDS-PAGE) or peptide-based fractionations. Bioinformatic analysis, including principal component analysis (PCA), consensus clustering, and hierarchical clustering analysis were also performed. The biological function was determined using the Database for Annotation, Visualization and Integrated Discovery (DAVID).
We profiled the proteome of ten body fluids, including ascites, bile, cerebrospinal fluid (CSF), hydrothorax, knee joint fluid (KJF), plasma, saliva, serum, tears, and urine. A total of 3,396 nonredundant proteins were identified, of which 304 were shared among ten body fluids, with common functions in focal adhesion and complement/coagulation cascades. A total of 41.5% (1,409) of the proteins were detected in only one body fluid and were closely related to their adjacent tissues by function. The functional analysis of the remaining 1,683 proteins showed that similar functions might be shared among different body fluids, which further highlighted the close connection of body fluids in the human body.
A deep proteome of multi-body fluids originated from patients diagnosed with 19 common diseases provides a valuable data resource, and might indicate the potential application of body fluids for biomarker discovery.
背景/目的：体液被认为是疾病生物标志物的丰富来源。许多体液中的蛋白质具有用于疾病诊断和预后目的的潜在临床应用。本研究的目的是建立一个深入的多体液蛋白质组。
从 23 名患有 19 种常见疾病的患者中收集了与 8 种癌症相关的 10 种体液，并在基于凝胶的蛋白质分离（SDS-PAGE）或基于肽的分级分离后进行液相色谱串联质谱（MS）分析。还进行了生物信息学分析，包括主成分分析（PCA）、共识聚类和层次聚类分析。使用数据库进行注释、可视化和综合发现（DAVID）确定生物学功能。
我们对包括腹水、胆汁、脑脊液（CSF）、胸腔积液、膝关节液（KJF）、血浆、唾液、血清、眼泪和尿液在内的十种体液的蛋白质组进行了分析。共鉴定出 3396 个非冗余蛋白，其中 304 个在十种体液中共有，具有焦点粘附和补体/凝血级联的共同功能。共有 41.5%（1409 个）的蛋白质仅在一种体液中检测到，通过功能与相邻组织密切相关。其余 1683 种蛋白质的功能分析表明，不同体液之间可能具有相似的功能，这进一步强调了人体体液之间的密切联系。
来自诊断为 19 种常见疾病的患者的多种体液的深度蛋白质组提供了有价值的数据资源，并且可能表明体液在生物标志物发现方面的潜在应用。
