FUNGAL KNOWLEDGE SYSTEMS FOR PATHOGEN GENOME ANALYSIS

我们已经创建了一个全面的蛋白质组数据库，其中包含人类病原体白色念珠菌(CalPD(TM))的现有序列信息和文献。CaIPD是我们完善的酵母蛋白质组数据库(YPD(TM))的补充，该数据库包含有关酿酒酵母6000种已知或预测蛋白质的最新知识。在这项提议中，我们计划通过收集主要真菌模式生物(人类的主要真菌病原体)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链接到一个统一的真菌知识系统(FKS)中。FKS将包括：a)真菌蛋白质报告的可搜索集合，每个报告包含关于来自一个物种的单个蛋白质的所有可用信息，通过基于相似性或生物学作用的广泛链接进行连接；b)更高层次的组织，例如将特定信息放在背景中所需的索引和一般信息的集合；以及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。它将向学术用户公开提供。这一努力的总和将不仅是数据汇编，而且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：该项目将导致创建一个数据库(真菌知识系统)，该数据库将被授权给从事抗真菌研究的制药、生物技术和农业企业公司。它将直接应用于已经开展真菌病原体和模式生物基因组研究的公司，特别是在应用于人类传染病方面。许多已经订阅了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.