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种群遗传学的使用彻底改变了我们研究传染病，尤其是病原体多样性。这场革命已经由于第二代的爆炸性增加而促进了可用遗传数据的爆炸性增加测序。 treponema pallidum subsp。 Pallidum（TPA）遗传数据将在所有三个CRC项目的完成。确保这些数据的质量和鲁棒性项目，CRC将支持UNC/Masaryk大学遗传学和基因组学核心（GGC）。 GGC是由北卡罗来纳大学领导的多机构核心旨在使CRC应用最先进的下一代测序以及生物信息学工具分类TPA外膜蛋白（OMP）的序列多样性。这种多样性的分类对于开发广泛保护的全球有效性是必要的使用免疫原性作为疫苗抗原的梅毒疫苗。为了支持TPA疫苗开发，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）提供生物信息学处理和 CRC的数据管理，包括向所有CRC项目生成清洁数据分析并将这些数据传播给科学界，3）培训CRC调查人员基因组方法和促进交叉CRC培训，以及4）开发新的工具以推进TPA 基因组学。 GGC已经开发了：1）一项详细计划，以确保核心和CRC项目，2）确保数据的严格性和可重复性的过程，3）传播数据，生物信息学工具和实验室方法的计划社区。