FUNGAL KNOWLEDGE SYSTEMS FOR PATHOGEN GENOME ANALYSIS

我们已经建立了一个全面的蛋白质组数据库，包含了人类病原体白色念珠菌（CalPD(TM)）的可用序列信息和文献。CaIPD补充了我们完善的酵母蛋白质组数据库（YPD(TM)），该数据库包含了目前关于6000种已知或预测的酿酒酵母蛋白质的知识。在本提案中，我们计划通过整理主要真菌模式生物、人类主要真菌病原体和其他特征真菌的研究文献和序列信息来扩展这项工作，将许多不同生物的信息连接到一个统一的真菌知识系统（FKS）中。FKS将包括：a)一个可搜索的真菌蛋白报告集合，每个报告包含来自一个物种的单个蛋白质的所有可用信息；共同的：由基于相似性或生物角色的广泛联系联系在一起的；B)更高层次的组织，例如将特定信息置于上下文中所需的一般信息的索引和集合；c)整合这些信息并利用其对新测序的基因组进行注释所需的软件工具和方法。它将对学术用户公开开放。这一努力的总和将不仅仅是数据的汇编，而是一个有组织的知识系统，具有有效搜索和展示的工具。拟议的商业应用：该项目将创建一个数据库（真菌知识系统），该数据库将授权给从事抗真菌研究的制药、生物技术和农业综合企业。它将直接适用于已经开展真菌病原体和模式生物基因组研究的公司，特别是应用于人类传染病的公司。许多已经订阅酵母蛋白质组数据库（YPD）的公司将成为真菌知识系统的订户。

We have created a comprehensive proteome database encompassing the available sequence information and literature for the human pathogen Candida albicans(CalPD(TM)) CaIPD complements our well-established Yeast Proteome Database (YPD(TM)), which encompasses current knowledge about the 6000 known or predicted proteins of Saccharomyces cerevisiae. In this proposals we plan to extend this work by curating research literature and sequence information for the major fungal model organisms the major fungal pathogens of humans, and other characterized fungi, linking information about many disparate organisms into a unified Fungal Knowledge System (FKS). The FKS will consist of: a) a searchable collection of Fungal Protein Reports, each containing all available information about an individual protein from one species,.connected by extensive links based on similarities or biological roles; b) higher levels of organization such as indices and collections of general information needed to put the specific information in context; and c) software tools and methods needed to integrate this information and exploit it for the annotation of newly sequenced genomes. It will be publicly available to academic users. The sum total of this effort will be not merely a compilation of data, but an organized system of knowledge with tools for effective search and presentation. PROPOSED COMMERCIAL APPLICATIONS: This project will lead to the creation of a database (the Fungal knowledge system) that will be licensed to pharmaceutical, biotechnology, and agribusiness companies who engage in antifungal research. It will have direct application for companies who already carry out genomic studies of fungal pathogens and model organisms, especially, with applications to human infectious disease. Many of the companies who already subscribe to the Yeast Proteome Database (YPD) will become subscribers to the Fungal Knowledge System.