Pathway分析相互作用与网络分析.ppt

* * * SOAP: Simple Object Access Protocol 简单对象访问协议是在分散或分布式的环境中交换信息的简单的协议 WDSL:Web 服务描述语言 * 转录只以某一条单链的某一区段进行，将双链DNA中作为转录模板的那条DNA链称为模板链、转录链、反义链；它没有遗传信息。与转录模板链互补的那条DNA链称为非模板链、有义链、编码链（遗传信息就存在这条链上）。 * 蛋白质相互作用的三种概念 A) 直接的物理相互作用 比如蛋白质结合、蛋白质 修饰、蛋白质剪切等。B) 转录调控作用 在基因表达过程中，一个蛋白质通过调控另 一个蛋白质的表达，间接的同该蛋白质发生相互作用。C) 代谢通路中的蛋白质相互作 用 酶促反应中, 两个酶可通过连续的化学反应发生间接的相互作用。 * HPRD contains annotations pertaining to human proteins based on experimental evidence from the literature [6,7]. This includes PPIs as well as information about post-translational modifications, subcellular localization, protein domain architecture, tissue expression and association with human diseases. In addition to interactions of proteins with other proteins, HPRD also reports interactions of proteins with nucleic acids and small molecules. The PPI data is sub classified as binary or complex interactions based on topology and the number of participants. Binary PPIs are direct interactions between two proteins while complexes represent interactions with more than 2 participants and the topology of interaction is unknown. Relevant publications are cited for each interaction. The type of experiment is also indicated as in vivo (e.g. coimmunoprecipitation), in vitro (e.g. GST pull-down assays) or yeast two-hybrid. Information about post-translational modifications includes the residue of modification, type of experiment and the upstream enzyme. These modifications can be viewed alongside the protein domain architecture. Each protein is linked to a genome browser, GenProt Viewer [8], which allows protein and transcript information to be visualized in the context of the relevant gene. HPRD is also linked to a compendium of signal transduction pathways, NetPath [9], which is freely available in several different formats. This database includes a tool called PhosphoMotif Finder, which reports the presence of any of over 320 phosphorylation-based motifs curated from the literature in a protein of interest. HPRD also incorpor