Core C: Immune bioinformatics and biostatistics

核心C：免疫生物信息学和生物统计学

• 批准号: 10360422
• 负责人: Katherine L. Nathanson
• 金额: $ 28.81万
• 依托单位: UNIVERSITY OF PENNSYLVANIA
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-08-01 至 2024-01-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10360422
• 关键词: Bioinformatics; Biological Assay; Biometry; Biostatistics Core; Biostatistics Shared Resource; Chromatin; Clinical; Clinical Data; Clinical Research; Clinical Trials; Consult; DNA; DNA analysis; Data; Data Analyses; Databases; Generations; Genetic; Goals; Graph; Human; Immune; Immunologics; Immunotherapy; Infrastructure; Knowledge; Libraries; Link; Machine Learning; Malignant Neoplasms; Manuscripts; Massive Parallel Sequencing; Mus; Patients; Performance; Play; Preparation; Productivity; Progress Reports; RNA; Radiation; Radiation therapy; Recording of previous events; Relapse; Research; Research Design; Research Personnel; Research Project Grants; Resistance; Resource Sharing; Resources; Role; Safety; Sample Size; Sampling; Schools; Services; T-Cell Receptor; T-Lymphocyte; Techniques; Transposase; Tumor-Infiltrating Lymphocytes; Universities; Work; base; biomarker evaluation; clinical biomarkers; clinical trial analysis; data integration; data sharing; database design; design; exome; exosome; experience; feature selection; genomic data; immune checkpoint blockade; insight; knowledge base; medical schools; member; multiple data types; neoantigens; pre-clinical; preclinical study; relational database; response; tumor

SUMMARY The Immune Bioinformatics and Biostatistics (Core C) will provide critical infrastructure and shared resources of biostatistic and bioinformatic expertise for the design, conduct and analyses of the Research Projects within the P01 - “Radiation and Checkpoint Blockade for Cancer Immune Therapy.” Core C will provide services to P01 projects at every stage of research. Core members will: 1) consult with investigators on selection of study designs; 2) develop a relational database to store clinical trial patient correlative data for analysis; 3) generate DNA and RNA-based massively parallel sequencing data from tumors, exosomes, PMBCs (T cells), and tumor infiltrating lymphocytes; 4) conduct efficient and robust data analyses, utilizing both bioinformatics and biostatistics; 5) perform higher level secondary and integrative analyses using multiple pre-clinical and clinical data types; 6) create graphs and tables, assist investigators with the preparation of progress reports, presentations and manuscripts; 7) consult on the design of subsequent research; and 8) be responsible for the implementation of the Shared Resources Plan in regards to Genomic Data Sharing. These goals will be implemented through the following specific aims – Aim 1) To provide biostatistical expertise in design and analysis for the proposed projects; Aim 2) To provide support for the generation and initial analysis of DNA- and RNA-based massively parallel sequencing data; and Aim 3) To perform secondary and integrative analyses across platforms and data types. A major theme of the P01 is studying the effect of checkpoint blockade and radiation therapy in humans through clinical trials, and concurrently performing linked pre-clinical studies in mice. Core C members will play a vital role in facilitating the comparison between the two groups, as they will be involved in the same analyses on human and mouse samples providing a conduit of knowledge between Projects. Core members have extensive experience in clinical trials biostatistics, database design and implementation, performance of massively parallel sequencing, bioinformatics analysis, and the utilization of analytical techniques for integration of the multiple data types generated from the Projects. The Immune Bioinformatics and Biostatistics Core will serve as an essential resource for the P01, providing specialized expertise to allow investigators to complete their research in a robust and efficient fashion. Members of Core C will work in a synergistic and cooperative fashion with Project investigators to determine the safety, efficacy and mechanism of the combination of local radiation therapy and immune checkpoint blockade and to understand the immunologic and genetic features of pre-clinical and clinical samples that are determinants of response, resistance, and relapse.

总结 免疫生物信息学和生物统计学（核心C）将提供关键基础设施和共享资源 生物统计学和生物信息学专业知识，用于设计，实施和分析研究项目， P01 -“癌症免疫治疗的放射和检查点封锁”。核心C将提供服务， P01项目在研究的每个阶段。核心成员将：1）与研究者就研究选择进行协商 设计; 2）开发关系数据库以存储临床试验患者相关数据以供分析; 3）生成 来自肿瘤、外来体、PMBC（T细胞）和肿瘤的基于DNA和RNA的大规模平行测序数据 浸润淋巴细胞; 4）利用生物信息学和 生物统计学; 5）使用多项临床前和临床试验进行更高水平的次要和综合分析 数据类型; 6）创建图表，协助调查人员编写进度报告， 演讲和手稿; 7）为后续研究的设计提供咨询; 8）负责 实施关于基因组数据共享的共享资源计划。这些目标将是 通过以下具体目标实施-目标1）提供设计和 目标2）为DNA的生成和初步分析提供支持- 和基于RNA的大规模平行测序数据;和目的3）进行二级和整合 跨平台和数据类型的分析。P01的一个主要主题是研究检查点的影响 通过临床试验在人体中进行阻断和放射治疗，并同时进行相关的临床前 在老鼠身上的研究核心C成员将在促进两组之间的比较方面发挥至关重要的作用，因为 他们将参与对人类和小鼠样本的相同分析， 项目之间。核心成员在临床试验生物统计学、数据库设计方面具有丰富的经验 大规模并行测序的性能，生物信息学分析， 分析技术，用于整合项目生成的多种数据类型。免疫 生物信息学和生物统计学核心将作为P01的重要资源，提供专业的 专业知识，使研究人员能够以强大而有效的方式完成研究。核心成员 C将与项目研究者协同合作，确定安全性、有效性 以及局部放射治疗和免疫检查点阻断的组合的机制， 了解临床前和临床样本的免疫学和遗传学特征，这些特征是 反应、抵抗和复发。