UHTS data storage at Stanford

斯坦福大学的 UHTS 数据存储

• 批准号: 7794626
• 负责人: CATHERINE A BALL
• 金额: $ 48.68万
• 依托单位: STANFORD UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2009
• 资助国家: 美国
• 起止时间: 2009-09-01 至 2010-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7794626
• 关键词: Affect; Area; Biological; Complement; Computer software; Computers; DNA Sequence; Data; Data Storage and Retrieval; Databases; Equipment; Funding; Image; Laboratories; Publications; Research; Research Personnel; Retrieval; System; Technology; base; density; experience; public health relevance; research study; tool

DESCRIPTION (provided by applicant): The Stanford Microarray Database (SMD; http://smd.stanford.edu/) stores microarray data and associated biological annotation, and provides interfaces for retrieval, quality assessment and analysis of those data. SMD is the largest academic research microarray database in the world, hosting data from more than 74,000 microarrays generated by researchers in 344 laboratories at Stanford and elsewhere. Data stored in SMD have served as the basis for more than 440 publications, averaging a publication per week for the last seven years, and SMD makes data from more than 17,000 microarrays publicly available. SMD is expanding its database to accommodate data from ultra-high-throughput sequencing (UHTS) technologies. Several major users are planning on complementing their microarray experiments with RNA-seq or ChIP-seq applications of UHTS technologies and have requested SMD to provide a set of tools that allow them to store, annotate, share, view and analyze their UHTS data in a manner similar to the tools we provide for microarray data. While the extensions to the database and software are ongoing with different funding, we do not have the storage capacity for UHTS data. This application seeks funding to expand SMD's data storage capacity to accommodate UHTS data. Given the size of the sequence files (not including images), SMD's current storage system only has room to support a few weeks' worth of UHTS data - the upgrade that we propose to purchase will provide storage for several years. We request an extension to our existing Storage Area Network (for the anticipated increase to our database) and 384 TB of high-density storage for the FASTQ, SRF and SAM/BAM files associated with UHTS experiments. SMD has strong institutional support, as well as continued funding for a strong, talented and experienced team. However, in the absence of funding to expand its current system, the storage of UHTS data will be impossible and the ongoing research of several laboratories at Stanford will be immediately affected. PUBLIC HEALTH RELEVANCE: We are requesting equipment to provide computer data storage for new and emerging ultra-high-throughput DNA sequencing technologies. The storage will be accessed as a part of the popular Stanford Microarray Database, allowing biomedical researchers to share, annotate, view and analyze ultra-high-throughput DNA sequencing data.

描述（由申请人提供）：Stanford微阵列数据库（SMD; http://smd.stanford.edu/）存储微阵列数据和相关的生物学注释，并提供了用于检索，质量评估和分析这些数据的接口。 SMD是世界上最大的学术研究微阵列数据库，它托管了来自斯坦福大学和其他地方的344个实验室研究人员产生的74,000多个微阵列的数据。 SMD中存储的数据已成为440多个出版物的基础，在过去的七年中，每周的出版物平均每周出版物，SMD从公开可用的17,000多个微阵列中获取数据。 SMD正在扩展其数据库，以适应超高通量测序（UHTS）技术的数据。几个主要用户正在计划使用UHTS技术的RNA-seq或ChIP-seq应用程序来补充其微阵列实验，并已要求SMD提供一组工具，使它们可以存储，注释，共享，查看，查看和分析其UHTS数据中的UHTS数据类似于我们为微阵列数据提供的工具类似的方式。尽管数据库和软件的扩展正在持续使用不同的资金，但我们没有UHTS数据的存储容量。 该应用程序寻求资金来扩大SMD的数据存储能力以适应UHTS数据。鉴于序列文件的大小（不包括图像），SMD的当前存储系统只有支持几周价值的UHTS数据的空间 - 我们建议购买的升级将提供数年的存储空间。我们请求与UHTS实验相关的FASTQ，SRF和SAM/BAM/BAM文件的现有存储区域网络（预期增加数据库的预期增加）和384 TB的高密度存储。 SMD拥有强大的机构支持，并继续为一支强大，才华横溢和经验丰富的团队提供资金。但是，在没有资金来扩展其当前系统的情况下，UHTS数据的存储将是不可能的，并且对斯坦福大学的几个实验室的持续研究将立即受到影响。 公共卫生相关性：我们要求设备为新的和新兴的超高通量DNA测序技术提供计算机数据存储。该存储将作为流行的Stanford微阵列数据库的一部分访问，从而允许生物医学研究人员共享，注释，查看和分析超高通量DNA测序数据。