Computational Biology Core

生物信息学工具、定制数据库、实验设计、数据获取/存档/访问方法和 数据分析/解释方法已经并将继续对RCE进展产生重大影响 并将成为生物信息学项目的成果。应该指出的是，新的生物信息学 技术预计将被开发，它们将是整合和分析许多 不同类型的数据，以及这些工具的想法将来自参与该项目的生物科学家 和核心以及我们核心中的生物信息学家，但生物信息学家将开发解决方案。我们也 利用现有的商业和非商业系统(工具、数据库、开发 环境)以加快生物信息学解决方案的开发，以实现最大的数据交换兼容性 问题，如安全性和健壮性。在之前的赠款期间，我们创建了许多工具和 拥有数万用户的数据库已经分析了超过25个基于阵列的大型数据集 并在13份出版物上报道了这项工作。这一核心的具体目标是：1)开发应用 计算生物学资源--编码、数据库和数据解释--以促进 对A-C类病原体的理解和表征，验证 协作或通过湿法实验室测试/检查结果抽样的代码/数据库，并提供 为项目调查人员提供计算支持；2)应用我们的计算机代码(新的和病原体 适应)预计算出A-C类病原体的各种数据，包括ORF扩增引物 (聚合酶链式反应，q聚合酶链式反应)，用于DNA芯片的寡核苷酸探针的重新测序和表达，基于文本的集合 文献及其摘录和相关生物医学对象：3)构建病原体特异性的互联网 可访问的、基于WWW的生物信息学工具集和公用事业数据仓库，并使其可用于 促进项目和核心人员以及其他机构内部和机构间的协作 Biothreat和新兴病原体研究社区；4)提供实验设计数据分析 和向RCE研究人员提供的口译协作服务，特别是在数据密集型研究中 如病原体或宿主表达、蛋白质组学或基因组学，以及5)继续扩增和维持 计算机服务器来支持这一努力。

Bioinformatics tools, custom databases, experimental designs, data acquisition/archival/access methods and data analysis/interpretation methods have had and will continue to have great impact on the RCE progress and will be the deliverables of a bioinformatics program. It should be noted that new bioinformatics technologies are anticipated to be developed and they will be necessary to integrate and analyze the many diverse types of data, and ideas for these tools will come from the biological scientists working in the projects and cores as well as bioinformaticists in our core, but bioinformaticists will develop the solution. We also leverage the existing commercial and non-commercial systems (tools, databases, development environments) to speed the bioinformatics solution development, for maximum data exchange compatibility issues, such as security, and for robustness. In the previous grant period, we created numerous tools and databases, which have had tens of thousands of users, have analyzed over 25 large array-based datasets and have reported this work in 13 publications. The Specific Aims for this core are: 1) To develop applied computational biology resources-codes databases and interpretations of data-to facilitate advances in the understanding and characterization of Category A-C pathogens, validate the performance of the codes/databases either collaboratively or via wet lab testing/checking a sampling of results and to provide computational support for project investigators; 2) To apply our computer codes (new and pathogen adapted) to pre-compute a variety of data for Category A-C pathogens, including ORF amplification primers (PCR, qPCR), DMA chip oligonucleotide probes for re-sequencing and expression, a collection of text-based literature and its extracted and associated biomedical objects: 3) To construct a pathogen-specific, internet accessible, www-based bioinformatics tool set and data warehouse of utilities and make them available to facilitate intra- and inter- institutional collaborations among project and core personnel and others in the biothreat and emerging pathogen research community; 4) To provide an experimental design data analysis and interpretation collaborative service to RCE researchers, especially as it appears to data intensive studies such as pathogen or host expression, proteomics or genomics, and 5) To continue to expand and maintain computer servers to support this effort.