Genetics and Genomics Core

遗传学和基因组学核心

基本信息

批准号：
10618187
负责人：
Jonathan Boyd Parr
金额：
$ 26.86万
依托单位：
UNIVERSITY OF CONNECTICUT SCH OF MED/DNT
依托单位国家：
美国
项目类别：
财政年份：
2019
资助国家：
美国
起止时间：
2019-05-01 至 2025-04-30
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10618187
关键词：
Animals Bioinformatics Catalogs Categories China Clinical Collaborations Collection Communicable Diseases Communities Czech Republic DNA Data Dedications Development Ensure European Fostering Generations Genetic Genetic study Genomics Genotype Goals Human Hybrids Immune Infection Institution Laboratories Malawi Membrane Proteins Methods Minority Molecular Epidemiology Monoclonal Antibodies North Carolina Order Spirochaetales Oryctolagus cuniculus Pathway interactions Patients Play Population Genetics Process Reproducibility Research Research Personnel Research Project Grants Role Sampling Scientist Site Specimen Syphilis Techniques Training Treponema pallidum Treponema pallidum subspecies pallidum Universities Vaccine Antigen Vaccine Design Vaccines Variant bioinformatics pipeline bioinformatics tool clinical research site computerized data processing cost efficient data cleaning data dissemination data management deep sequencing design experience genetic analysis genome sequencing genomic data immunogenic improved innovation laboratory facility next generation sequencing novel pathogen population genetic structure pre-clinical public database sample archive syphilis vaccine tool vaccine candidate vaccine development whole genome

项目摘要

ABSTRACT The use of molecular epidemiology and population genetics has revolutionized the ways in which we study infectious diseases and, in particular, pathogen diversity. This revolution has been facilitated by the explosive increase in available genetic data, primarily due to second-generation sequencing. Treponema pallidum subsp. pallidum (TPA) genetic data will play an integral role in the completion of all three CRC Projects. To ensure the quality and robustness of this data across projects, the CRC will support the UNC/Masaryk University Genetics and Genomics Core (GGC). The GGC is a multi-institution core, led by the University of North Carolina, that is designed to enable the CRC to apply state-of-the-art, next-generation sequencing, and bioinformatic tools to catalog the sequence diversity of TPA outer membrane proteins (OMPs). Categorization of this diversity is necessary for developing a broadly protective, globally effective syphilis vaccine using immunogenic OMPs as vaccine antigens. In order to support TPA vaccine development, the GGC will: 1) provide laboratory support for genetic analysis of clinical isolates in order to define the diversity of the TPA “OMPeome”, 2) provide bioinformatic processing and data management for the CRC, including generating cleaned data to all the CRC Projects for analysis and disseminating this data to the scientific community, 3) train CRC investigators in genomic methods and facilitate cross-CRC training, and 4) develop novel tools to advance TPA genomics. The GGC has developed: 1) a detailed plan to ensure efficient collaboration between the core and CRC Projects, 2) processes to ensure the rigor and reproducibility of the data, and 3) plans for the dissemination of data, bioinformatic tools and laboratory methods to the scientific community.

抽象的分子流行病学和群体遗传学的应用彻底改变了流行病学的方式我们研究传染病，特别是病原体多样性。可用遗传数据的爆炸式增长促进了这一点，这主要是由于第二代梅毒螺旋体 (TPA) 遗传数据将在其中发挥不可或缺的作用。完成所有三个 CRC 项目，以确保这些数据的质量和稳健性。项目，CRC 将支持北卡罗来纳大学/马萨里克大学遗传学和基因组学核心 GGC 是一个多机构核心，由北卡罗来纳大学领导，即旨在使 CRC 能够应用最先进的下一代测序，以及用于对 TPA 外膜蛋白 (OMP) 序列多样性进行分类的生物信息工具。对这种多样性进行分类对于制定广泛保护的、全球有效的梅毒疫苗使用免疫原性 OMP 作为疫苗抗原，以支持 TPA 疫苗。开发过程中，GGC 将： 1) 为临床分离株的遗传分析提供实验室支持为了定义 TPA“OMPeome”的多样性，2）提供生物信息处理和 CRC 的数据管理，包括为所有 CRC 项目生成经过清理的数据分析这些数据并将其传播给科学界，3) 培训 CRC 研究人员基因组方法并促进跨 CRC 训练，4) 开发新工具来推进 TPA GGC 制定了：1) 一项详细的计划，以确保之间的有效合作。核心项目和 CRC 项目，2) 确保数据严谨性和可重复性的流程，以及 3) 向科学界传播数据、生物信息工具和实验室方法的计划社区。