Providing Peptide Atlas Based Services through the caGRID infrastructure

描述(由申请者提供)：这项资助建议使用最先进的软件集成平台向科学界提供尖端的蛋白质组学研究。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。这样的探索可以发现候选的诊断生物标记物，特别是那些涉及翻译后修饰的标记物。在未来，随着蛋白质组学朝着寻找特定蛋白质子集的定向方法发展，多肽图谱的重要性将会增加，理解这些先前的实验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，科学界必须随时可以获取这些信息。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：描述蛋白质组学所需的丰富语义的手段；支持与众多工具和过程集成的高度互操作性；以及支持动态发现的分布式系统，以便研究人员始终可以获得最新的信息。CAGRID提供了这样一个分布式和可互操作的框架，因此，多肽图谱的一个自然发展是利用这项技术，以确保它被更广泛的研究和临床社区使用。与公共健康相关：通过质谱学进行蛋白质组学研究，已经成为我们理解这个由我们的基因组驱动的复杂系统如何在各个水平上发挥作用的重要工具。因此，蛋白质组学信息对于疾病和治疗性生物标记物的发现和验证至关重要。这笔赠款将向研究和临床社区提供单一最大的质谱学来源的蛋白质组学信息。这个项目将向社区提供有关大量医学相关物种的蛋白质组的知识。这些信息将直接访问PeptideAtlas和相关工具，并代表了从五年多的大规模串联MS实验中获得的信息。PeptideAtlas中的信息质量很高，注释很好，组织得很好。

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.