High-Throughput DNA Sequencer

高通量 DNA 测序仪

• 批准号: 9075845
• 负责人: SUZANNE SANDMEYER
• 金额: $ 60万
• 依托单位: UNIVERSITY OF CALIFORNIA-IRVINE
• 依托单位国家: 美国
• 财政年份: 2016
• 资助国家: 美国
• 起止时间: 2016-03-15 至 2017-03-14
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9075845
• 关键词: Alcoholism; Amyotrophic Lateral Sclerosis; Bioinformatics; Biomedical Research; Cardiomyopathies; Cell Fractionation; Cell physiology; Cells; Colon Carcinoma; Communities; Core Facility; DNA; DNA Modification Process; DNA Sequence; Drug Addiction; Educational workshop; Emerging Technologies; Gene Expression; Genomics; Grant; Immune; Individual; Investigation; Libraries; Medical center; Memory; Mission; Mitochondria; Morphogenesis; Nervous system structure; Network-based; Neuronal Plasticity; Normal tissue morphology; Polyadenylation; Preparation; RNA; RNA Sequence Analysis; RNA Splicing; Research; Research Personnel; Research Support; Resources; Running; Sampling; Services; Skin; Stem cells; Technology; Time; Work; college; cost; digital; instrument; liver function; malignant breast neoplasm; melanoma; nano-string; next generation; programs; single molecule; skin regeneration; stem cell differentiation; symposium; transcriptome sequencing

 DESCRIPTION (provided by applicant) The UCI Genomics High-Throughput Facility (GHTF) requests Shared Instrument Grant Support for a HiSeq 3000 next generation DNA sequencer to supplement and replace the current HiSeq 2500. The HiSeq 3000 is a state-of-the-art, DNA sequencer for biomedical research genomics and gene expression studies. This sequencer generates 750 Gbases of sequence in 3.5 days with an error rate of ~0.1%. The GHTF is the sole genomics research Core Facility for the UCI campus and Medical Center. Its mission is to make available to the research community emergent and current technologies that exceed the resources of the individual investigator. In addition to the UCI community, it offers services to regional companies and colleges that lack sequencing facilities. It has existed for sixteen years and flourished through several technological transformations by consistently offering high quality assistance in emerging technologies to the research community. In addition to Illumina DNA sequencing the GHTF offers PacBioRS long-range, single-molecule DNA sequencing, Affymetrix microarrays, Nanostring digital RNA counting, and Fluidigm C1 single cell fractionation. Illumina DNA sequencing with diversifying applications is growing rapidly and is currently the major research support offered by the GHTF. The HiSeq 3000 is capable of generating more than twice as much sequence per run as the current GHTF HiSeq 2500 v3 DNA sequencer, in about one-third of the time-at roughly the same cost. Acquisition of the sequencer is therefore essential to the GHTF. Currently the GHTF supports about fifty UCI investigators in all aspects of sample preparation and DNA and RNA sequence analysis including ChIP-, methyl-, RNA-, and DNA-seq. This application describes projects of twenty-seven biomedical researchers including investigations into diseased and normal tissue: melanoma, breast and colon cancer, Lou Gehrig's Disease, cardiomyopathy, alcoholism effect on liver function, drug addiction, and normal tissue morphogenesis and stem cell function, memory, skin regeneration, mitochondrial function, stem cell differentiation, DNA modification and neuronal plasticity, RNA splicing and polyadenylation. Most recently, the GHTF acquired the capability to perform DNA and RNA sequencing of single cells and is pursuing this technology and is working with investigators to develop new programs in understanding immune, skin and nervous systems at the level of the individual cell. The GHTF is the RNA sequencing center for the Neuro Library of Integrated Network-based Cellular Signatures (LINCS) program which is developing a complete cellular profile for Amyotrophic lateral sclerosis/Lou Gehrig's Disease. The GHTF provides technical seminars and workshops by commercial venders, workshops in bioinformatics for campus researchers, bioinformatics service support, and campus symposia. The HiSeq 3000 is a critical instrument in support of these GHTF functions.

 描述（由申请人提供） UCI 基因组学高通量设施 (GHTF) 请求为 HiSeq 3000 下一代 DNA 测序仪提供共享仪器拨款支持，以补充和替换当前的 HiSeq 2500。HiSeq 3000 是用于生物医学研究的最先进的 DNA 测序仪该测序仪在 3.5 天内生成 750 GB 的序列，错误率为~0.1%。 GHTF 是 UCI 校园和医疗中心唯一的基因组学研究核心设施，其使命是向研究界提供超出 UCI 社区资源的新兴和当前技术。 GHTF 为缺乏测序设施的地区公司和大学提供服务，并通过多次技术变革不断为研究界提供高质量的帮助而蓬勃发展。 PacBioRS 长距离单分子 DNA 测序、Affymetrix 微阵列、Nanostring 数字 RNA 计数和 Fluidigm C1 单细胞分级分离等应用正在迅速增长，是目前 GHTF 提供的主要研究支持。每次运行能够生成比当前 GHTF HiSeq 2500 v3 DNA 测序仪多两倍多的序列，大约只需三分之一的时间因此，以大致相同的成本购买测序仪对于 GHTF 来说至关重要，目前 GHTF 在样品制备和 DNA 和 RNA 序列分析的各个方面为大约 50 名研究人员提供支持，包括 ChIP、甲基、RNA 和 DNA 序列分析。该应用程序描述了 27 名生物医学研究人员的项目，包括对患病组织和正常组织的研究：黑色素瘤、乳腺癌和结肠癌、卢伽雷氏病、心肌病、酗酒对肝功能的影响、药物成瘾、最近，GHTF 获得了对单细胞和细胞进行 DNA 和 RNA 测序的能力。 GHTF 正在研究这项技术，并与研究人员合作开发新程序，以了解单个细胞水平的免疫、皮肤和神经系统。GHTF 是基于集成网络的细胞特征神经库的 RNA 测序中心。 (LINCS) 计划正在开发肌萎缩侧索硬化症/卢伽雷氏病的完整细胞概况。GHTF 提供由商业供应商举办的技术研讨会和研讨会、为校园研究人员举办的生物信息学研讨会、生物信息学服务支持和校园研讨会。支持这些 GHTF 功能的关键工具。