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 Genomics高通量设施（GHTF）请求共享仪器拨款支持HiSeq 3000下一代DNA测序仪，以补充和取代当前的HiSeq 2500。HiSeq 3000是最先进的DNA测序仪，用于生物医学研究基因组学和基因表达研究。该测序仪在3.5天内生成750 G碱基的序列，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。它的使命是向研究界提供超越个人研究者资源的新兴和当前技术。除了UCI社区，它还为缺乏测序设施的地区公司和大学提供服务。它已经存在了16年，并通过不断提供高质量的援助，在新兴技术的研究界通过几次技术改造蓬勃发展。除了Illumina DNA测序之外，GHTF还提供PacBioRS远程单分子DNA测序、Affytron微阵列、Nanostring数字RNA计数和Fluidigm C1单细胞分级分离。Illumina DNA测序的多样化应用正在迅速发展，目前是GHTF提供的主要研究支持。HiSeq 3000每次运行生成的序列数量是目前GHTF HiSeq 2500 v3 DNA测序仪的两倍多，时间约为三分之一，成本大致相同。因此，获得测序仪对GHTF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支持大约50名UCI研究人员，包括ChIP-，甲基-，RNA-和DNA-seq。该申请描述了27名生物医学研究人员的项目，包括对患病和正常组织的调查：黑色素瘤，乳腺癌和结肠癌，Lou Gehrig病，心肌病，酒精中毒对肝功能的影响，药物成瘾，正常组织形态发生和干细胞功能，记忆，皮肤再生，线粒体功能，干细胞分化，DNA修饰和神经元可塑性，RNA剪接和聚腺苷酸化。最近，GHTF获得了对单细胞进行DNA和RNA测序的能力，并正在研究这项技术，并与研究人员合作开发新的项目，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（LINCS）计划的RNA测序中心，该计划正在开发肌萎缩侧索硬化症/Lou Gehrig病的完整细胞图谱。GHTF提供商业供应商的技术研讨会和研讨会，校园研究人员的生物信息学研讨会，生物信息学服务支持和校园研讨会。HiSeq 3000是支持这些GHTF功能的关键仪器。