Data Coordination Center for PDX Net

项目总结 患者来源的异种移植(PDX)是评估抗癌药物疗效的一个强大的模型系统 药物和了解耐药的分子机制。然而，来自个人的结果 由于缺乏标准化的PDX程序，缺乏规模，研究小组很难得到验证 用于动力充足的PDX研究，以及无法有效共享PDX标本。一个关键的贡献者 这一挑战是缺乏管理良好的资源来进行社区共享和大规模分析 来自PDX模型的集成标准化数据集。JAX-7桥接器PDX数据共享和 协调中心(PDCCC)寻求应对这一挑战，并团结各组成部分的数据- 生成(PDX开发和试验中心/PDTC)和PDX模型共享(NCI患者派生 模型存储库/PDMR)部分PDX开发和试验中心研究网络(PDXNet) 一个凝聚力强、跨网络的整体。使用创新的云计算和生物信息学方法，我们的 PDCCC将为PDXNet提供管理和计算基础设施，以启用PDX方法 标准化、模型共享、数据共享、海量数据分析。我们将建立一个数据存储， 将PDXNet数据与其他大型数据集和分析工作流协调一致的共享和分析平台 可在NCI癌症基因组学云中找到。同时，我们将管理计划会议、培训 活动和研究试点，以在PDXNet内建立协同作用，增强PDXNet的能力 根据PDX研究开发临床试验。我们的具体目标是：1)建立领导层和 管理和协调PDXNet内部活动的行政单位，包括年度会议， 定期召开电话会议、培训活动、跨网络试点项目和外联；2)开发云- 集成PDXnet Data Commons，将PDXnet数据与现有的基于云的数据分析相集成 平台-七桥癌症基因组学云(SB-CGC)；以及3)构建分析工作流程和数据 共享实践以优化PDXNet研究并使PDXNet数据能够促进临床试验设计。至 实现这些目标我们组建了一支在PDX、癌症治疗、基因组学方面拥有独特专业知识的团队 来自杰克逊实验室和七桥的分析、数据协调和项目管理。我们的 综合机构优势包括在PDX、数据资源、 分析和共识标准的制定和应用；PDX模型共享和应用方面的实用专业知识 社区协作努力；广泛的统计、生物信息和与软件相关的PDX资源； 在大型、基于云的生物医学数据项目(特别是SB-CGC)方面的领导专长；以及深入的 具有高性能数据库工程和开发经验。我们的目标是打造一个创新的、 系统地组织了PDCCC，这将促进PDXNet提高有效性和扩展的努力 使用-使用PDX系统作为精确肿瘤学的临床前平台。

PROJECT SUMMARY Patient-derived xenografts (PDXs) are a powerful model system for assessing drug efficacy of anti-cancer agents and understanding molecular mechanisms of drug resistance. However, results from individual research groups have been difficult to validate due to the lack of standardized PDX procedures, lack of scale for adequately powered PDX studies and the inability to efficiently share PDX specimens. A key contributor to this challenge is the lack of well-managed resources for community sharing and large-scale analysis of integrated, standardized datasets from PDX models. The JAX-Seven Bridges PDX Data Commons and Coordination Center (PDCCC) seeks to address this challenge and unite the efforts of the component data- generating (PDX Development and Trial Centers/PDTCs) and PDX model sharing (NCI’s Patient-Derived Model Repository/PDMR) parts of the PDX Development and Trials Centers Research Network (PDXNet) into a cohesive, trans-Network whole. Using innovative cloud computing and bioinformatic approaches, our PDCCC will provide administrative and computational infrastructure for PDXNet to enable PDX method standardization, model sharing, data sharing, and massive-scale data analysis. We will build a data storage, sharing, and analysis platform that harmonizes PDXNet data with other large datasets and analysis workflows available in the NCI Cancer Genomics Cloud. Simultaneously, we will administer planning meetings, training activities, and research pilots to build synergies within the PDXNet, enhancing the ability of the PDXNet to develop clinical trials from PDX studies. Our Specific Aims are to 1) establish a leadership and administration unit to manage and coordinate activities within PDXNet, including annual meetings, regular conference calls, training activities, trans-Network pilot projects, and outreach; 2) develop a cloud- integrated PDXnet Data Commons that integrates PDXNet data with the existing cloud-based data analysis platform - the Seven Bridges Cancer Genomics Cloud (SB-CGC); and 3) build analysis workflows and data sharing practices to optimize PDXNet research and enable PDXNet data to facilitate clinical trial design. To accomplish these Aims we have assembled a team with unique expertise in PDXs, cancer treatment, genomic analysis, data coordination, and project management from The Jackson Laboratory and Seven Bridges. Our combined institutional strengths include a history of leadership in (and commitment) to PDX, data resource, analytic and consensus standards development and application; practical expertise in PDX model sharing and collaborative community efforts; a broad array of statistical, bioinformatic, and software-related PDX resources; leadership expertise in large-scale, cloud-based biomedical data projects, notably the SB-CGC; and deep experience in high-performance database engineering and development. Our goal is to build an innovative, systematically organized PDCCC that will advance the efforts of PDXNet to improve the validity—and expand use—of the PDX system as a preclinical platform for precision oncology.