ShEEP Request for High-throughput Single Cell Genomics Instrumentation

在退伍军人事务部共享装备评估计划(SHEEP)应用程序中，我们是 请求用于高通量单细胞基因组学的仪器(Fluidigm C1单细胞自动制备 BioMark和Illumina NextSeq 550测序系统)以评估细胞特异性基因组， 与退伍军人事务部任务高度相关的疾病中的表观遗传和转录变异。这台仪器 将极大地增强退伍军人事务部(VA)和非退伍军人事务部调查人员调查 疾病在单细胞水平上的进展。尽管在过去的一年中取得了巨大的进步 十年来，我们在大量细胞群体中处理DNA和RNA并对其进行排序的能力，直到最近我们的 在单细胞水平上理解基因组和转录组信息的显著差异 都是有限的。例如，对基本生物过程的主要见解，如正常 单个细胞的致癌潜能导致的发育和肿瘤演变只能从 详细了解单细胞水平上的基因组、表观基因组和转录变异。此外, 某些致病细胞是如此罕见，以至于单细胞方法成为鉴定它们和 人物刻画。 我们的基因组核心是正在进行的合作的一部分，以增强学术和管理 诺斯波特退伍军人事务医学中心(NVAMC)与其附属的石溪大学之间的联系 医学院(SBUSM)。这一新仪器将安装在NVAMC和这个战略位置 允许退伍军人管理局和SBUSM调查人员轻松获取仪器。这个核心的位置将 鼓励诺斯波特的退伍军人事务部调查人员与他们在斯通大学的同事进一步合作 布鲁克。技术支持通过基因组学核心以收费服务的方式提供，以支持两个VA 研究人员和他们的合作者。此外，我们还组建了一支生物信息学专家团队 支持。退伍军人管理局的许多调查人员包括马利帕图、林、麦金农、罗哈吉、米勒、阿瓦尼安、德尔 Poeta和Obeid，他们的研究得到了功绩评审奖的支持，并将从 高通量单细胞基因组学仪器的获得和利用。训练有素 核心的人员可以操作仪器并提供技术支持，我们已经概述了一项计划，以 购买维护仪器的服务合同。 在这种用于高通量单细胞基因组仪器的绵羊应用中，我们还在 详细说明工具的细节、需求的理由、展示要支持的技术专长 设备的使用、主要用户和次要用户的说明以及组织计划 仪器设备的利用率。这种单细胞分析仪器的长期影响是，它将 增强影响力，并进一步发展我们目前资助的退伍军人事务部功绩审查奖。此外，还取得了成果 将产生新的假说，并为未来的研究提供新的途径 与退伍军人管理局任务高度相关的疾病。

In this Veterans Affairs ORD Shared Equipment Evaluation Program (ShEEP) application, we are requesting instrumentation for high throughput single-cell genomics (Fluidigm C1 Single-Cell Auto Prep System, BioMark, and Illumina NextSeq 550 Sequencing System) to evaluate cell-specific genomic, epigenetic, and transcriptomic variations in diseases of high relevance to the VA mission. This instrumentation will dramatically enhance Veterans Affairs (VA) and non-VA investigators to investigate mechanisms of disease progression at the level of single cells. Although dramatic advances have been made in the last decade in our ability to process and sequence DNA and RNA in bulk populations of cells, until recently our understanding of significant variations in genomic and transcriptomic information at the level of the single cell has been limited. For instance, major insights into fundamental biological processes such as normal development and tumor evolution secondary to oncogenic potential of single cells can only be garnered from a detailed understanding of genomic, epigenomic, and transcriptional variation at the single-cell level. In addition, certain pathogenic cells are so rare that single-cell approaches become essential to their identification and characterization. Our Genomics Core is part of an ongoing collaboration to enhance the academic and administrative ties between the Northport Veterans Affairs Medical Center (NVAMC) and its affiliated Stony Brook University School of Medicine (SBUSM). This new instrumentation will be housed in NVAMC and this strategic location allows easy access to the instruments for both VA and SBUSM investigators. The location of this Core will encourage further collaboration between VA investigators at Northport and their University colleagues at Stony Brook. Technical support is available through the Genomics Core on a fee-for-service basis to support both VA researchers and their collaborators. In addition, we have assembled a team of experts for bioinfomatics support. Many of the VA investigators including Drs. Mallipattu, Lin, McKinnon, Rohatgi, Miller, Arvanian, Del Poeta, and Obeid, whose research are supported by Merit Review Awards, and would significantly benefit from the acquisition and utilization of this instrumentation for high throughput single-cell genomics. Trained personnel in the Core can operate the instrument and provide technical support and we have outlined a plan to purchase service contracts to maintain the instrument. In this ShEEP application for high-throughput single cell genomics instrumentation, we also describe in detail the specifics of the instrumentation, justification of need, demonstrate the technical expertise to support the usage of the equipment, descriptions of the major and minor users, and the organizational plan for the utilization of the instrumentation. The long-term impact of this single-cell analysis instrumentation is that it will enhance the impact and further our currently funded VA Merit Review Awards. In addition, results acquired from single-cell genomics will generate new hypothesis and provide new avenues for future investigations in diseases that are highly relevant to the VA mission.