Shared Resource 08: Genomics (GSR)

项目概要-基因组学共享资源（GSR） GSR的使命是支持OSUCCC成员和高影响力的癌症研究项目， 基因组学专业知识、仪器和集中资源来生成高质量的数据。总参谋部是一个州- 最先进的基因组学实验室，通过扩展到共享资源，大大提高了能力 在全国儿童医院GSR具有以下特定目的：1）DNA和RNA序列 使用下一代测序平台（即Ilumina HiSeq 4000和NovaSeq 6000）和 毛细管桑格测序和基因分型（通过ABI 3730 XL DNA分析仪）; 2）使用敏感的分子 检测和定量RNA转录物表达水平和结构的杂交方法， 和/或DNA拷贝数和变异，包括数字（NanoString）和微阵列（Affytron）平台; 和3）进行基于聚合酶链反应（PCR）的扩增以检测、定量和确认拷贝 数量变异、单核苷酸变异、基因表达和小插入/缺失多态性 包括定量PCR（QuantStudio 12 K flex）和高通量数字和定制PCR分析 （BiomarkHD和Juno）技术。2018年，GSR与基因组医学研究所（IGM）合作 在全国儿童医院（NCH）扩展我们的下一代测序（NGS）技术服务。 海矿资源公司的共同主任是阿曼达·托兰博士（海洋挑战中心）和理查德·威尔逊博士（海洋挑战中心）。GSR提供了必要的 基因组学的专业知识和仪器的所有五个程序的成员。在本供资周期内， 海矿资源为338份出版物（63份> 10影响因子）和所有五个方案成员提供的94笔赠款做出了贡献。 我们一直高度响应不断变化的技术和用户需求，因此，我们现在提供桑格 样品提取、细胞系验证和单细胞（sc）RNA测序。我们还定期举办科技活动- 为OSUCCC成员介绍新技术的研讨会或讲习班。与OSUCCC和 机构支持，我们扩大了我们的设施，以提高测序能力，并包括 用于SC测序的纳米流体液体处理器和文库制备系统 癌症生物学的解决方案和对治疗的反应。在下一个融资周期，GSR将支持 所有OSU战略优先事项的基因组学需求。鉴于OSUCCC的招聘、服务需求和 新技术将会增加。GSR将在产能达到之前扩大其员工、仪器和服务。 达到了正在开发的新服务包括分离循环肿瘤细胞用于下游培养 和基因组分析，购买仪器和开发空间转录组学的协议，购买 用于sc-DNA测序的仪器，以及用于其他sc-genomics和低输入NanoString的优化方案 应用.海矿资源公司的年度预算为2，634，443美元，而CCSG的要求为231，495美元。因此， GSR利用广泛的机构支持，仅寻求CCSG资金的8.8%支持。

PROJECT SUMMARY – GENOMICS SHARED RESOURCE (GSR) The mission of the GSR is to support OSUCCC members and high-impact cancer research projects with genomics expertise, instrumentation and centralized resources to generate high-quality data. The GSR is a state- of-the-art genomics laboratory that has substantially increased capacity through expansion to shared resources at Nationwide Children’s Hospital. The GSR has the following Specific Aims: 1) sequence DNA and RNA templates using both next generation sequencing platforms (i.e. Ilumina HiSeq4000 and NovaSeq6000) and capillary Sanger sequencing and genotyping (via ABI 3730XL DNA Analyzers); 2) use sensitive molecular hybridization methods to detect and quantify RNA transcript expression levels and structures such as splicing and/or DNA copy numbers and variation, including digital (NanoString) and microarray (Affymetrix) platforms; and 3) perform polymerase chain reaction (PCR)-based amplification to detect, quantify and confirm copy number variants, single nucleotide variants, gene expression, and small insertion/deletion polymorphisms including quantitative PCR (QuantStudio 12K flex) and high-throughput digital and custom PCR assay (BiomarkHD and Juno) technologies. In 2018, the GSR partnered with the Institute for Genomic Medicine (IGM) at Nationwide Children’s Hospital (NCH) to expand our next-generation sequencing (NGS) technology services. The GSR co-Directors are Drs. Amanda Toland (MCC) and Richard Wilson (CB). The GSR provides essential genomics expertise and instrumentation to members of all five programs. During the current funding cycle, the GSR contributed to 338 publications (63 > 10 impact factor) and 94 grants from members of all five programs. We have been highly responsive to changing technology and user needs and, as a result, we now offer Sanger sample pick-up, cell line verification, and single-cell (sc) RNA sequencing. We also regularly host technology- based seminars or workshops to introduce new technology to OSUCCC members. With OSUCCC and institutional support, we have expanded our facilities to improve sequencing capabilities and to include nanofluidics liquid handlers and library preparation systems for sc-sequencing to provide state-of-the-art resolution in cancer biology and response to therapy. In the next funding cycle, the GSR will support the genomics needs of all OSU strategic priorities. Given the robust OSUCCC recruitment, demand for services and new technologies will increase. The GSR will expand its staff, instrumentation and services before capacity is reached. New services under development include isolation of circulating tumor cells for down-stream culturing and genomic profiling, purchasing an instrument and developing protocols for spatial transcriptomics, purchasing an instrument for sc-DNA sequencing, and optimizing protocols for other sc-genomics and low-input NanoString applications. The annual budget of the GSR is $2,634,443, yet the CCSG request is $231,495. As such, the GSR leverages extensive institutional support and seeks only 8.8% support from CCSG funds.