CAP - Consortium to Alleviate PTSD- STVHCS Biomarkers & Genomics Core

CAP - 减轻 PTSD-STVHCS 生物标志物联盟

• 批准号: 8915495
• 负责人: DOUGLAS E WILLIAMSON
• 金额: --
• 依托单位: DURHAM VA MEDICAL CENTER
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-09-01 至 2019-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8915495
• 关键词: Alcohol or Other Drugs use; Automation; Autopsy; Biological; Biological Markers; Blood Specimen Collection; Blood specimen; Brain; Cataloging; Catalogs; Characteristics; Clinical Data; Collection; DNA; Data; Data Set; Databases; Diagnosis; Diagnostic; Ensure; Epidemiology; Etiology; Exposure to; Funding; Future; Genomics; Goals; Headache; Housing; Human; Institutes; Institution; Link; Mental Depression; Mental Health; Methods; Methylation; MicroRNAs; Monitor; Neurobiology; Notification; Pain; Personal Satisfaction; Persons; Physiological; Plasma; Population; Post-Traumatic Stress Disorders; Prevention; Prevention strategy; Preventive treatment; Procedures; Process; Proteins; Proteomics; RNA; Rehabilitation therapy; Research; Research Infrastructure; Research Personnel; Resources; Sampling; Secure; Services; Sleep disturbances; South Texas; Specimen; Stress; Suicide; System; Systems Biology; Technology; Temperature; Text; Time; Tissues; Translations; Universities; Veterans; Work; base; behavioral health; biobank; biomarker discovery; clinical biomarkers; combat; genomic biomarker; improved; member; multidisciplinary; neuroimaging; next generation sequencing; novel; outcome forecast; physical conditioning; post-traumatic stress; prevent; prognostic; repository; research facility; square foot; statistics; success; targeted sequencing; virtual

Biomarkers and Genomics Core The primary objectives of the Biomarkers and Genomics Core are to (1) support the efforts of STRONG STAR- CAP studies with biomarker or genomic components involving the collection and analysis of biological and physiological specimens; (2) to centralize the collection, processing, storage, and analysis of samples; and (3) to maintain a biospecimen repository linkable with clinical data through the overall Consortium data repository; (4) facilitate the collection of human postmortem tissue in order to accelerate PTSD biomarker discovery; and (5) link with expertise to facilitate the translation of biomarker discovery into diagnostic and prognostic panels (e.g., Lee Hood and the Institute for Systems Biology). The Biomarkers and Genomics Core will make use of an extensive infrastructure developed as part of STRONG STAR over the last four years for accelerating biomarker studies of PTSD. In addition, through our partnering arrangement with the NCPTSD, we have expanded to include the resources and expertise available at Yale University as directed by Dr. Gelertner. The Biomarkers and Genomics Core has developed extensive standardized procedures for collecting blood specimens for use in DNA, RNA, and plasma base protein and microRNA research. Standard operating procedures have been developed for PAXgene-based DNA/RNA collection and automated extraction procedures to optimize the quantity and quality of the sample yields for downstream applications. In addition, we have refined the methods for plasma collection for downstream proteomic and microRNA applications that will facilitate the proposed work by Drs. K. Young and L. Hood (see Project 3). The Core is housed in 200,000 square feet of a state-of-the-art research facility, the South Texas Research Facility, located at UTHSCSA. Core analytic infrastructure includes Illumina iScan with Tecan automation (microarray), Illumina MiSeq (small- scale NextGen sequencing), Illumina HiSeq (large-scale NextGen sequencing), Fluidigm Biomark HD (real- time PCR), Qiagen Pyromark Q96 MD (targeted sequencing/methylation), and Luminex FlexMap 3D (multiplex analyte analysis). In addition to state-of-the-art translational technologies for downstream analyses, the Biomarkers and Genomics Core also houses the STRONG STAR-CAP biorepository. The biorepository has the capacity for housing 24 freezers (-80/-130) in a secure card-accessed room. All freezers are monitored real- time on the UTHSCSA network with temperature notifications delivered via text message, e-mail, and by phone and 1-minute epoch freezer logs maintained on a virtual server. All samples are extensively catalogued using Freezerworks to track samples from their origin through their associated derivatives. Working with the Data, Statistics, and Repository Core, we are currently developing systems integrating the biorepository information in Freezerworks with the repository dataset to facilitate linking clinical and biomarker data with sample availability. In STRONG STAR-CAP, we have partnered with the Southwest Brain Bank at UTHSCSA (P. Thompson & D. Cruz) to add to the collection of human postmortem tissue (currently 180 brains overall and 10 brains from persons with PTSD) to significantly expand the availability of PTSD brains (by targeting the large VA population in San Antonio) to support the proposed biomarker discovery in Project 3 (Williamson & Hood) as well as for future studies supported by the Consortium. In addition, the Biomarkers and Genomics Core will also facilitate the collection of blood specimens in VA studies (~400/year) being collected by Dr. Acierno and colleagues.

生物标志物和基因组学核心 生物标志物和基因组学核心的主要目标是 (1) 支持 STRONG STAR- CAP 研究涉及生物标志物或基因组成分的收集和分析 生理标本； （二）集中采集、处理、储存、分析样品； (3) 至 通过整个联盟数据存储库维护可与临床数据链接的生物样本存储库； (4) 促进人类死后组织的收集，以加速 PTSD 生物标志物的发现；和 (5) 与专业知识联系，以促进将生物标志物发现转化为诊断和预后组合 （例如，Lee Hood 和系统生物学研究所）。生物标志物和基因组学核心将利用 作为 STRONG STAR 的一部分，在过去四年中开发了广泛的基础设施，以加速 PTSD 的生物标志物研究。此外，通过与 NCPTSD 的合作安排，我们 在 Gelertner 博士的指导下，该项目的范围扩大到了耶鲁大学现有的资源和专业知识。 生物标志物和基因组学核心开发了广泛的采血标准化程序 用于 DNA、RNA、血浆基础蛋白和 microRNA 研究的样本。标准操作 已开发出用于基于 PAXgene 的 DNA/RNA 采集和自动提取的程序 优化下游应用样品产量的数量和质量的程序。此外， 我们改进了下游蛋白质组学和 microRNA 应用的血浆采集方法， 将促进博士提议的工作。 K. Young 和 L. Hood（参见项目 3）。核心位于 200,000 位于 UTHSCSA 的南德克萨斯研究设施占地 1 平方英尺，是最先进的研究设施。核 分析基础设施包括 Illumina iScan 和 Tecan 自动化（微阵列）、Illumina MiSeq（小型芯片） 大规模 NextGen 测序）、Illumina HiSeq（大规模 NextGen 测序）、Fluidigm Biomark HD（实时 time PCR）、Qiagen Pyromark Q96 MD（靶向测序/甲基化）和 Luminex FlexMap 3D （多重分析物分析）。除了用于下游分析的最先进的转化技术之外， 生物标志物和基因组学核心还拥有 STRONG STAR-CAP 生物存储库。生物样本库有 安全的刷卡房间可容纳 24 个冰柜 (-80/-130)。所有冰柜均受到实时监控 UTHSCSA 网络上的时间，通过短信、电子邮件和电话发送温度通知 以及在虚拟服务器上维护的 1 分钟纪元冻结日志。所有样本均使用广泛编目 Freezerworks 通过相关衍生物追踪样品的来源。处理数据， 统计和存储库核心，我们目前正在开发集成生物存储库信息的系统 在 Freezerworks 中使用存储库数据集，以方便将临床和生物标志物数据与样本链接起来 可用性。 在 STRONG STAR-CAP 项目中，我们与 UTHSCSA 的西南脑库 (P. Thompson & D. Cruz）将添加到人类死后组织的收集中（目前总共有 180 个大脑，其中 10 个大脑来自 患有 PTSD 的人）显着扩大 PTSD 大脑的可用性（通过针对大 VA 圣安东尼奥的人口）以支持项目 3（Williamson & Hood）中提议的生物标志物发现： 以及联盟支持的未来研究。此外，生物标志物和基因组学核心将 还有助于收集由 Acierno 博士收集的 VA 研究（约 400 份/年）的血液样本 同事。