Core-005

摘要 芝加哥大学医学综合癌症中心(UCCCC)基因组核心设施(GCF)是 负责为芝加哥大学的教职员工提供最先进的基因组数据生成服务 按服务收费模式。UCCCC会员的费用由癌症中心支持补助金(CCSG)通过 一种自付机制。目前，GCF的主要服务是下一代测序、DNA微阵列 分析和桑格测序。GCF还为其客户和合作伙伴提供数据存储服务 用于基因组数据分析的生物信息学核心设施(BiCF)。GCF被组织成两个子核， 下一代测序和微阵列亚核，DNA测序和基因分型亚核，以及 自2009年以来一直位于克纳普生物医学发现中心(KCBD)的一楼。全球合作框架 由人类遗传学教授Yoav Gilad博士科学指导，Pieter Faber操作， 博士，在William Buikema博士的协助下，担任DNA测序和 亚核基因分型。除了领导外，GCF还雇用了9名技术人员(6名在下一代测序和微阵列分核心，3名在DNA测序和基因分型 子核)。本供资期间的核心发展包括更加重视下一代 测序(NGS)服务，以满足该领域的需求和进步。的主要手术器械 该设施包括应用生物系统3730xl DNA分析仪(DNA测序和基因分型亚核)、 Illumina HiScan和Affymetrix GeneScan3000微阵列扫描系统，以及三台Illumina下一代测序仪(HiSEQ4000、HiSEQ2500和NextSeq500；下一代 测序和微阵列亚核)。GCF有效地服务于用户的需求，提供的服务 使用这些仪器占用了可用仪器和/或人员时间的80%-90%，这表明 人员配置和仪器设备的运作和维持在适当的水平。UCCCC会员收到 优先，并根据样品接收日期和项目紧迫性确定项目的优先顺序。来指挥行动， 吉拉德博士和费伯博士每两周会面一次，讨论任何业务问题，以及短期和 长期战略。此外，Gilad博士和Faber博士定期与GCF教务监督部门会面 委员会(FOC)从基因组学领域的专家用户那里获得建设性的反馈。为客户提供最佳服务 用户需求和衡量用户满意度，芝加哥大学共享研究设施办公室在 DVM乔治·兰根的领导层每年都会进行校园用户调查。最新的调查 从2016年8月开始显示高支持率(约80%)，99%的受访者预测 今后继续使用该设施。将根据需要添加新服务(例如，设施打算 将单细胞RNA-SEQ添加到其曲目(DROP-SEQ协议)中)。

ABSTRACT The University of Chicago Medicine Comprehensive Cancer Center (UCCCC) Genomics Core Facility (GCF) is tasked with providing state-of-the-art genomics data generation services to University of Chicago faculty in a fee-for-service model. UCCCC members’ fees are subsidized by the Cancer Center Support Grant (CCSG) via a co-pay mechanism. At present, the GCF main services are next-generation sequencing, DNA microarray analysis, and Sanger sequencing. The GCF also provides data storage services to its clients and partners with the Bioinformatics Core Facility (BiCF) for genomic data analysis. The GCF is organized into two Subcores, Next-Generation Sequencing and Microarrays Subcore, and DNA Sequencing and Genotyping Subcore, and has been located on the first floor of the Knapp Center for Biomedical Discovery (KCBD) since 2009. The GCF is directed scientifically by Yoav Gilad, PhD, Professor of Human Genetics, and operationally by Pieter Faber, PhD, with the assistance of William Buikema, PhD, as Technical Director of the DNA Sequencing and Genotyping Subcore. In addition to the leadership, the GCF employs nine technologists (six in the NextGeneration Sequencing and Microarrays Subcore, and three in the DNA Sequencing and Genotyping Subcore). Core developments in the current funding period include increased emphasis on next-generation sequencing (NGS) services to meet demand and advancements in the field. The main operating instruments of the Facility include Applied Biosystems 3730xl DNA analyzers (DNA Sequencing and Genotyping Subcore), an Illumina HiScan, and an Affymetrix GeneScan3000 microarray scan system, as well as three Illumina nextgeneration sequencing instruments (HiSEQ4000, HiSEQ2500, and a NextSeq500; Next-Generation Sequencing and Microarrays Subcore). The GCF effectively serves users’ needs, and the services provided using these instruments occupy 80-90% of the available instrument and/or personnel time, indicating that staffing and instrumentation are operating and maintained at an appropriate level. UCCCC members receive priority, and projects are prioritized based on sample reception date and project urgency. To direct operations, Drs. Gilad and Faber meet on a biweekly basis, discussing any operational issues, as well as short-term and long-term strategies. Additionally, Drs. Gilad and Faber meet regularly with the GCF Faculty Oversight Committee (FOC) to receive constructive feedback from expert users in the genomics field. To best serve users’ needs and gauge user satisfaction, the University of Chicago Office of Shared Research Facilities under the leadership of George Langan, DVM, conducts annual on-campus user surveys. The most recent survey from August 2016 showed a high approval rating (approximately 80%), with 99% of responders predicting continued use of the Facility in the future. New services will be added as needed (e.g., the Facility intends to add single cell RNA-SEQ to its repertoire (DROP-SEQ protocol) in 2017).