Providing Peptide Atlas Based Services through the caGRID infrastructure

描述（由申请人提供）：该资助建议使用最先进的软件集成平台向科学界提供最前沿的蛋白质组学研究。研究人员和临床医生使用PeptideAtlas来探索使用当前一代质谱仪可用的蛋白质组。这种探索允许发现候选诊断生物标志物，特别是那些涉及翻译后修饰的生物标志物。在未来，随着蛋白质组学向寻找特定蛋白质亚群的靶向方法发展，PeptideAtlas的重要性将会增加，对此类先前实验的理解将成为所有分析的基础。随着这些丰富的信息变得越来越重要，科学界必须随时能够获得这些信息。为了使这些信息和相关工具可供研究人员和临床医生使用，需要一个框架来支持：一种描述蛋白质组学所需的丰富语义的方法；高水平的互操作性，支持与众多工具和流程的集成；支持动态发现的分布式系统，使研究人员可以随时获得最新的信息。caGRID提供了这样一个分布式和可互操作的框架，因此肽图谱的自然发展是利用这项技术来确保其被更广泛的研究和临床社区使用。公共卫生相关性：通过质谱分析的蛋白质组学已经成为我们理解由我们的基因组驱动的复杂系统如何在各个层面上起作用的重要工具。因此，蛋白质组学信息对于疾病和治疗性生物标志物的发现和验证至关重要。这项拨款将为研究和临床社区提供最大的质谱衍生蛋白质组学信息库。该项目将向社会提供大量医学相关物种的蛋白质组知识。这些信息将提供直接访问PeptideAtlas和相关工具的途径，并代表了从五年多的大规模串联质谱实验中获得的信息。肽图谱中的信息质量高，注释清晰，组织有序。

DESCRIPTION (provided by applicant): This grant proposes using a state of the art software integration platform to deliver cutting edge proteomics research to the scientific community. The PeptideAtlas is used by researchers and clinicians to explore the proteomes that are available using the current generation of mass spectrometers. Such exploration allows for the discovery of candidate diagnostic biomarkers, in particular those that involve post-translation modifications. In the future the importance of PeptideAtlas will grow, as proteomics evolves towards targeted approaches where specific subsets of proteins are searched for, and understanding of such prior experiments will become fundamental to all analyses. As this wealth of information becomes increasingly important, it must be readily accessible to the scientific community. To make this information, and associated tools, available to the researchers and clinicians requires a framework which supports: a means to portray the rich semantics required for proteomics; a high level of interoperability to support integration with numerous tools and processes; and a distributed system that support dynamic discovery so that the latest information is always available to the researcher. The caGRID offers such a distributed and interoperable framework, and so a natural progression for the Peptide Atlas is to exploit this technology to ensure its usage by the wider research and clinical community. PUBLIC HEALTH RELEVANCE: Proteomics via mass spectrometry has become an important tool in our understanding of how the complex system, driven by our genome, functions at all levels. Thus, proteomics information is critical to the discovery and validation of disease and therapeutic biomarkers. This grant will make available to the research and clinical communities the single largest repository of mass spectrometry derived proteomics information. This project will deliver to the community knowledge about the proteomes from a large number of medically relevant species. This information will give direct access to the PeptideAtlas, and associated tools, and represents information gained from over five years of large scale tandem MS experiments. The information within the PeptideAtlas is of a high quality, is well annotated and is well organized.