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）：斯坦福大学微阵列数据库（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，托管来自斯坦福大学和其他地方344个实验室的研究人员生成的74，000多个微阵列的数据。存储在SMD中的数据已成为440多篇出版物的基础，在过去的七年中，平均每周发表一篇出版物，SMD使来自17，000多个微阵列的数据公开可用。SMD正在扩展其数据库，以容纳来自超高通量测序（UHTS）技术的数据。几个主要用户正在计划用UHTS技术的RNA-seq或ChIP-seq应用补充他们的微阵列实验，并要求SMD提供一套工具，允许他们以类似于我们为微阵列数据提供的工具的方式存储，注释，共享，查看和分析他们的UHTS数据。虽然数据库和软件的扩展正在进行中，但我们没有UHTS数据的存储容量。 该申请寻求资金，以扩大SMD的数据存储容量，以容纳UHTS数据。鉴于序列文件的大小（不包括图像），SMD目前的存储系统只能支持几周的UHTS数据-我们建议购买的升级将提供几年的存储。我们要求扩展现有的存储区域网络（用于我们数据库的预期增长）和384 TB的高密度存储，用于与UHTS实验相关的FASTQ、SRF和SAM/BAM文件。 SMD拥有强大的机构支持，以及对强大，有才华和经验的团队的持续资助。然而，在没有资金来扩大其现有系统的情况下，UHTS数据的存储将是不可能的，斯坦福大学几个实验室正在进行的研究将立即受到影响。 公共卫生相关性：我们正在申请设备，以便为新的和正在出现的超高通量DNA测序技术提供计算机数据存储。存储将作为流行的斯坦福大学微阵列数据库的一部分访问，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。