Biotechnology and Bioinformatics Core

生物技术和生物信息学核心

• 批准号: 8588223
• 负责人: Robert J. Coffey
• 金额: $ 17.22万
• 依托单位: VANDERBILT UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2013
• 资助国家: 美国
• 起止时间: 2013-09-01 至 2018-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8588223
• 关键词: Address; Architecture; Bioconductor; Biogenesis; Bioinformatics; Biometry; Biotechnology; Clinical Markers; Collaborations; Communication; Communities; DNA Sequence; Data; Data Analyses; Data Set; Data Storage and Retrieval; Ensure; Equipment; Experimental Designs; Generations; Genes; Goals; High Performance Computing; Human Resources; Institutes; Institution; Joints; Maps; Performance; Publications; Quality Control; RNA; Recording of previous events; Research Infrastructure; Research Personnel; Research Project Grants; Resources; Scheme; Services; System; Technology; Testing; Transcript; Universities; Variant; Work; base; computer infrastructure; computerized data processing; computerized tools; data sharing; infancy; instrument; interest; member; research study; transcriptome sequencing

(Core Leader: Bing Zhang) The Biotechnology and Bioinformatics Core provides service in RNA-Seq data generation, analysis, Interpretation, and sharing. These services are powered by cutting edge experimental and computational infrastructures at the HudsonAlpha Institute of Technology (where the RNA-Seq data generation and low-level data analysis will be performed) and the Vanderbilt University (where high-level RNA-Seq data analysis, data interpretation and sharing will be performed). The HudsonAlpha Institute has ten Illumina HiSeq sequencing instruments, and its capacity for next-gen sequencing on the Illumina systems is more than 3,200 lanes per year. It also has a centralized computational infrastructure that includes a 256- core cluster with 640TB of available space in fast disk storage in RAID5 format (over 1PB of total storage). The Vanderbilt computational infrastructure includes a high performance computing cluster that has about 3,000 processor cores and has a theoretical peak performance of 12 TeraFLOPS. The file system provides over 200TB of disk space, 144GB of disk cache, and can sustain 60Gb/s of disk bandwidth to the cluster. Both HudsonAlpha and Vanderbilt are members of the Internet2 advanced technology community, allowing extremely rapid transfer of the very large datasets that will be generated in the proposed projects between the institutions. Bioinformatics and Computational tools such as Perl, BioPeri, R, BioConductor, MySQL, BioMart, FASTX-Toolkit, SAMtools, the

(Core生物技术和生物信息学核心提供RNA-Seq数据生成、分析、解释和共享服务。这些服务由尖端的实验和 HudsonAlpha技术研究所的计算基础设施（其中RNA-Seq数据 生成和低水平的数据分析将被执行）和范德比尔特大学（其中高水平的 将进行RNA-Seq数据分析、数据解释和共享）。HudsonAlpha研究所 10台Illumina HiSeq测序仪器及其在Illumina系统上进行下一代测序的能力 每年超过3,200条车道。它还有一个集中的计算基础设施，包括一个256- 核心群集，RAID 5格式的快速磁盘存储中有640 TB的可用空间（总存储量超过1 PB）。 范德比尔特计算基础设施包括一个高性能计算集群， 3，000个处理器内核，理论峰值性能为12 TeraFLOPS。文件系统提供 超过200 TB的磁盘空间，144 GB的磁盘缓存，并可为群集提供60 Gb/s的磁盘带宽。 HudsonAlpha和范德比尔特都是Internet 2高级技术社区的成员， 在拟议项目中生成的非常大的数据集之间进行极其快速的传输 机构。生物信息学和计算工具，如Perl，BioPeri，R，BioConductor，MySQL， BioMart、FASTX工具包、SAMtools、