Core 2: Biostatistics and Bioinformatics

核心2：生物统计学和生物信息学

基本信息

批准号：
10263347
负责人：
Terry HYSLOP
金额：
$ 13.24万
依托单位：
DUKE UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2020
资助国家：
美国
起止时间：
2020-09-14 至 2023-08-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10263347
关键词：
Address Adherence Adopted Area Awareness Bioinformatics Bioinformatics Shared Resource Biological Biological Markers Biometry Catchment Area Clinical Cloud Computing Code Communities Complex Computer software Computing Methodologies Consult Custom Data Data Collection Data Provenance Data Science Databases Deposition Development Doctor of Philosophy Documentation Education Ensure Environment Environmental Exposure Environmental Health Event Experimental Designs Foundations Funding Future Genomics Goals Health Health system Human Resources Infrastructure Institutes Joints Leadership Licensing Life Style Machine Learning Malignant Neoplasms Manuscripts Methodology Methods Minority Groups Mission Modeling Pathology Performance Phenotype Policies Population Practice Management Preparation Procedures Quality Control RNA Splicing Reporting Reproducibility Reproducibility of Results Research Research Design Research Personnel Research Support Resources Security Services Source Code Statistical Data Interpretation Statistical Methods Technical Expertise Therapeutic Intervention Translational Research United States National Institutes of Health Validation Work analysis pipeline anticancer research cancer health disparity career computerized tools cost effective data integrity data management data quality data sharing design food desert improved literate novel posters programs psychosocial recruit scientific computing social sound tool transcriptome sequencing

项目摘要

ABSTRACT – Biostatistics and Bioinformatics Core (Core 2) The mission of the Biostatistics and Bioinformatics Core is to provide biostatistics and bioinformatics expertise in support of cancer health disparities research in the Duke Cancer Health Disparities (DCHD) P20 SPORE program. The Core will serve as a centralized resource for expertise in applied and theoretical cancer biostatistics and bioinformatics, data science, machine learning, and scientific computing. The Core will be co-led by Terry Hyslop, PhD, and Kouros Owzar, PhD, who have a combined 35 years of cancer biostatistics and bioinformatics technical expertise and leadership, along with their joint research expertise in development of statistical methodologies for analysis of admixed populations. The Core mission will be accomplished within the framework of sound data provenance and statistical principles, literate programming, and reproducible analysis. The code to reproduce analyses will be tracked using source code management software and disseminated publicly. Any software extended or developed de novo by this Core in support of the proposed research will be disseminated to the cancer research community with adequate documentation and under a free public license. Core 2 will provide basic, clinical, and translational cancer biostatistics and bioinformatics support (Aim 1); evaluate statistical and computational methods and tools (Aim 2); and provide consulting and education to support current and future DCHD P20 projects (Aim 3). The Core will provide cancer biostatistics and bioinformatics expertise in support of the research proposed by Project 1 and Project 2. This will ensure that the projects have clearly stated quantitative objectives, comprehensive data quality control plans, and clearly defined interim and final analysis plans using appropriate statistical and computational methodology, and computing infrastructure. Core personnel will produce interim and final reports, programmatic data checks and validation, and contribute to abstract, poster, and manuscript preparation. For Project 1, the Core will provide RNA sequencing analysis support from initial quality control assessment of raw reads and pre-processing, to downstream statistical analysis and annotation. Core personnel will actively collaborate with the proposed Biospecimen/Pathology Core in the sequencing design. For Project 2, the Core has provided the statistical design and analysis plan for the proposed studies and will provide statistical and data management support from the recruitment to the final analysis stage. Core leaders will actively consult with and educate program investigators, as well as Developmental Research Program (DRP) and pre Career Enhancement Program (pre-CEP) awardees. This will help investigators to more deeply understand their projects’ quantitative results, including both the limitations in making inferences from a particular experimental design, and also in proper interpretation of their findings. The Biostatistics and Bioinformatics Core serves all Projects, consults and works with DRP & pre-CEP awardees, is represented on the Executive Committee, and works closely with the Biospecimen/Pathology Core and the Administrative Core. Our services are crucial to achieving the shared goals of the DCHD P20 SPORE.

摘要 – 生物统计学和生物信息学核心（核心 2）生物统计学和生物信息学核心的使命是提供生物统计学和生物信息学专业知识支持杜克癌症健康差异 (DCHD) P20 SPORE 的癌症健康差异研究该核心项目将作为应用和理论癌症生物统计学专业知识的集中资源。生物信息学、数据科学、机器学习和科学计算将由 Terry 共同领导。 Hyslop 博士和 Kouros Owzar 博士拥有总计 35 年的癌症生物统计学和生物信息学经验技术专长和领导力，以及统计开发方面的联合研究专长混合群体分析的方法学核心任务将在该框架内完成。可靠的数据来源和统计原理、文学编程和可重复的分析。重现分析将使用源代码管理软件进行跟踪并公开传播。由该核心扩展或重新开发的支持拟议研究的软件将被传播并在免费的公共许可下向癌症研究界提供足够的文件。提供基础、临床和转化癌症生物统计学和生物信息学支持（目标 1）；统计和计算方法和工具（目标 2）；并提供咨询和教育以支持当前的以及未来的 DCHD P20 项目（目标 3）。支持项目 1 和项目 2 提出的研究。这将确保项目有明确的明确的目标、全面的数据质量控制计划以及明确的中期和最终结果使用适当的统计和计算方法以及计算基础设施进行分析计划。人员将制作中期和最终报告、程序化数据检查和验证，并为对于项目 1，核心将提供 RNA 测序分析。从原始读数和预处理的初始质量控制评估到下游统计的支持分析和注释。核心人员将积极配合拟议的生物样本/病理学。对于项目2的测序设计，核心提供了统计设计和分析方案。拟议的研究并将提供从招募到最终的统计和数据管理支持分析阶段，核心领导者将积极与项目调查人员以及项目调查人员进行协商和教育。发展研究计划 (DRP) 和预职业提升计划 (pre-CEP) 获奖者。将帮助研究人员更深入地了解其项目的定量结果，包括局限性从特定的实验设计中做出推论，并正确解释他们的发现。生物统计和生物信息学核心为所有项目提供服务，为 DRP 和预 CEP 获奖者提供咨询和合作，是执行委员会的代表，并与生物样本/病理学核心和管理核心。我们的服务对于实现 DCHD P20 SPORE 的共同目标至关重要。