Data Coordination Center for PDX Net

PDX Net 数据协调中心

• 批准号: 10261367
• 负责人: Jeffrey Hsu-Min Chuang
• 金额: $ 89.35万
• 依托单位: JACKSON LABORATORY
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-09-25 至 2023-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10261367
• 关键词: Address; Antineoplastic Agents; Benchmarking; Bioinformatics; Biological Models; Biomedical Research; Cancer Biology; Cancer Patient; Clinical Trials; Clinical Trials Design; Cloud Computing; Collaborations; Communities; Computer software; Consensus; Coordination and Collaboration; Credentialing; Data; Data Analyses; Data Commons; Data Coordinating Center; Data Discovery; Data Set; Data Storage and Retrieval; Databases; Development; Drug resistance; Engineering; Environment; Experimental Designs; Genomics; Goals; Individual; Laboratories; Leadership; Malignant Neoplasms; Methods; Modeling; Molecular; National Cancer Institute; Ontology; Patients; Performance; Pharmaceutical Preparations; Phenotype; Pilot Projects; Precision therapeutics; Public Health; Recording of previous events; Reproducibility; Research; Research Personnel; Resource Sharing; Resources; Risk; Secure; Specimen; Standardization; System; Technology; The Jackson Laboratory; Training Activity; United States National Institutes of Health; Work; Xenograft procedure; anticancer research; cancer genomics; cancer therapy; clinical practice; cloud based; cohesion; computer infrastructure; cost; data mining; data resource; data sharing; data standards; design; drug efficacy; experience; genomics cloud; improved; innovation; large datasets; large scale data; leadership development; meetings; outreach; patient derived xenograft model; pre-clinical; precision oncology; repository; response; symposium; synergism; tool

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.

项目摘要 患者来源的异种移植物（PDX）是用于评估抗癌药物疗效的强大模型系统。 药物和了解耐药性的分子机制。然而，个人的结果 由于缺乏标准化的PDX程序，缺乏规模， 充分把握度的PDX研究和无法有效共享PDX标本。的主要贡献者 这一挑战是缺乏管理良好的资源，用于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-Seven Bridges PDX Data Commons和 协调中心（PDCCC）旨在应对这一挑战，并联合各组成部分的数据- 生成（PDX开发和试验中心/PDTC）和PDX模型共享（NCI的患者衍生 PDX开发和试验中心研究网络（PDXNet）的模型库/PDMR）部分， 一个有凝聚力的跨网络整体。利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，以实现PDX方法 标准化、模型共享、数据共享和大规模数据分析。我们会建一个数据存储库， 共享和分析平台，使PDXNet数据与其他大型数据集和分析工作流协调一致 在NCI癌症基因组学云。同时，我们将管理规划会议，培训 活动和研究试点，以建立PDXNet内的协同作用，提高PDXNet的能力， 从PDX研究中开发临床试验。我们的具体目标是：（1）建立领导层， 管理和协调PDXNet内的活动，包括年度会议， 定期电话会议、培训活动、跨网络试点项目和外展; 2）开发云- 集成PDXnet Data Commons，将PDXNet数据与现有基于云的数据分析集成 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 分享实践以优化PDXNet研究，并使PDXNet数据能够促进临床试验设计。到 为了实现这些目标，我们组建了一支在PDX、癌症治疗、基因组学和生物医学领域拥有独特专长的团队。 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 综合机构优势包括在PDX，数据资源， 分析和共识标准的开发和应用; PDX模型共享方面的实用专业知识， 协作社区的努力;广泛的统计，生物信息学和软件相关的PDX资源; 在大规模、基于云的生物医学数据项目（特别是SB-CGC）方面的领导专业知识; 高性能数据库工程和开发经验。我们的目标是建立一个创新的， 系统地组织PDCCC，这将推动PDXNet的努力，以提高有效性，并扩大 使用PDX系统作为精确肿瘤学的临床前平台。