Smith Bryan E, Hill James A, Gjukich Mark A, Andrews Philip C
Departments of Biological Chemistry, Bioinformatics and Chemistry, University of Michigan, Ann Arbor, MI, USA.
Methods Mol Biol. 2011;696:123-45. doi: 10.1007/978-1-60761-987-1_8.
Tranche is a distributed repository designed to redundantly store and disseminate data sets for the proteomics community. It has several important features for researchers, including support for large data files, prepublication access controls, licensing options, and ensuring both data provenance and integrity. Tranche tightly integrates with ProteomeCommons.org, an online community resource that offers a variety of useful tools for proteomics researchers, including project management and data annotation. In this chapter, we discuss the development of Tranche and ProteomeCommons.org, paying particular attention to why it is desirable that data be publicly available and unrestricted as well as the challenges facing data archiving and open access. We then provide a technical overview of Tranche and ProteomeCommons.org as well as step-by-step instructions for using these resources, including the graphical user interface (GUI ), command-line tools, and Application Programmer Interface (API). We end with a brief discussion of current and future development efforts and collaborations.
Tranche是一个分布式存储库，旨在为蛋白质组学社区冗余存储和传播数据集。它对研究人员具有几个重要特性，包括对大型数据文件的支持、预发布访问控制、许可选项，以及确保数据来源和完整性。Tranche与ProteomeCommons.org紧密集成，ProteomeCommons.org是一个在线社区资源，为蛋白质组学研究人员提供各种有用工具，包括项目管理和数据注释。在本章中，我们将讨论Tranche和ProteomeCommons.org的开发，特别关注数据为何应公开可用且不受限制，以及数据存档和开放获取所面临的挑战。然后，我们将提供Tranche和ProteomeCommons.org的技术概述，以及使用这些资源的逐步说明，包括图形用户界面（GUI）、命令行工具和应用程序编程接口（API）。最后，我们将简要讨论当前和未来的开发工作及合作。
