State Key Laboratory of Reproductive Medicine, Department of Histology and Embryology, Nanjing Medical University, Nanjing, China.
Asian J Androl. 2013 Sep;15(5):594-602. doi: 10.1038/aja.2013.67. Epub 2013 Jul 15.
Proteomics strategies have been widely used in the field of male reproduction, both in basic and clinical research. Bioinformatics methods are indispensable in proteomics-based studies and are used for data presentation, database construction and functional annotation. In the present review, we focus on the functional annotation of gene lists obtained through qualitative or quantitative methods, summarizing the common and male reproduction specialized proteomics databases. We introduce several integrated tools used to find the hidden biological significance from the data obtained. We further describe in detail the information on male reproduction derived from Gene Ontology analyses, pathway analyses and biomedical analyses. We provide an overview of bioinformatics annotations in spermatogenesis, from gene function to biological function and from biological function to clinical application. On the basis of recently published proteomics studies and associated data, we show that bioinformatics methods help us to discover drug targets for sperm motility and to scan for cancer-testis genes. In addition, we summarize the online resources relevant to male reproduction research for the exploration of the regulation of spermatogenesis.
蛋白质组学策略在男性生殖领域的基础和临床研究中都得到了广泛应用。生物信息学方法在基于蛋白质组学的研究中是不可或缺的，用于数据呈现、数据库构建和功能注释。在本综述中，我们专注于通过定性或定量方法获得的基因列表的功能注释，总结了常见的和专门针对男性生殖的蛋白质组学数据库。我们介绍了几个用于从获得的数据中发现隐藏的生物学意义的综合工具。我们进一步详细描述了从基因功能到生物学功能，再到临床应用的与男性生殖相关的信息。我们概述了精子发生中的生物信息学注释，从基因功能到生物学功能，再到临床应用。基于最近发表的蛋白质组学研究和相关数据，我们表明生物信息学方法有助于我们发现精子运动的药物靶点，并寻找癌症睾丸基因。此外，我们总结了与男性生殖研究相关的在线资源，以探索精子发生的调控。
