Genomic Analysis

基因组分析

• 批准号: 9330770
• 负责人: Herve S TETTELIN
• 金额: $ 51.98万
• 依托单位: UNIVERSITY OF MARYLAND BALTIMORE
• 依托单位国家: 美国
• 资助国家: 美国
• 起止时间: 至
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/9330770
• 关键词: Bacteria; Baltimore; Base Sequence; Bayesian Modeling; Bioinformatics; Catalogs; Cells; Chlamydia; Chlamydia trachomatis; Clinical; Collaborations; Communities; Complex; DNA; Data; Data Analyses; Data Science; Data Set; Disease; Ensure; Environment; Event; Gene Expression Profile; Genes; Genetic; Genital system; Genome; Genomic DNA; Genomics; Goals; Guidelines; High-Throughput Nucleotide Sequencing; Human; Human Resources; Immune response; Individual; Infection; Maps; Maryland; Messenger RNA; Metadata; MicroRNAs; Neisseria gonorrhoeae; Participant; Pathway interactions; Predisposition; Property; RNA; Research; Resistance; Resolution; Resources; Rest; Risk; Sampling; Serum; Sexually Transmitted Diseases; Statistical Data Interpretation; Structure; Systems Biology; Technology; Time; Tissues; United States National Institutes of Health; Universities; base; cost; cost effective; data resource; data sharing; experimental study; genital microbiome; genomic profiles; innovation; metagenome; metagenomic sequencing; microbial community; microbiome; open data; pathogen; predictive modeling; programs; tool; trait; transcriptome; transcriptome sequencing; transcriptomics; whole genome

PROJECT SUMMARY The Genomics Core, based at the University of Maryland, Baltimore (UMB), will perform genomic and transcriptomic sequencing and analysis in support of individual projects and the overall Program. The Core will be co-directed by Drs. Garry Myers and Jacques Ravel. The co-directors will be responsible for communicating with key personnel of the Clinical Core C and project PIs to facilitate data sharing, analysis and dissemination in coordination with the Program Manager. Over the duration of the Program and using the samples collected under Core C and provided by Projects 1-3, the Genomics Core will: (1) sequence and assemble whole genome sequences (and population genomes) of Chlamydia trachomatis and/or Neisseria gonorrhoeae; (2) sequence and map transcriptomes, including metatranscriptomes, miRNAseq transcriptomes of participants' serum and transcriptomes of both Chlamydia and the host cell using the innovative heterogenous RNA-Seq (hRNA-Seq) approach developed by the co-directors; (3) analyze sequence data acquired by the Genomics Core in close collaboration with individual project PIs using bioinformatics tools and systems biology approaches; (4) disseminate all data and resources generated by Projects 1-3 and Cores B-C through the Open Science Data Framework (OSDF), an innovative and scalable platform to store data of different types along with their metadata and create relationships between the different datasets.

项目摘要 位于巴尔的摩的马里兰州大学（UMB）的基因组学核心将进行基因组和 转录组测序和分析，以支持个别项目和整个计划。芯会 由加里·迈尔斯博士和雅克·拉威尔博士共同执导。联合董事将负责沟通 与临床核心C和项目PI的主要人员合作，以促进数据共享、分析和传播 与项目经理协调。在该计划的持续时间内，使用收集的样本 在核心C下，由项目1-3提供，基因组学核心将：（1）测序和组装整个 沙眼衣原体和/或淋病奈瑟菌的基因组序列（和群体基因组）;（2） 序列和图谱转录组，包括参与者的元转录组、miRNAseq转录组， 使用创新的异源RNA-Seq技术， （3）分析基因组学获得的序列数据; 核心与使用生物信息学工具和系统生物学的单个项目PI密切合作 （4）通过全球网络传播项目1-3和核心项目B-C产生的所有数据和资源， 开放科学数据框架（OSDF），一个创新和可扩展的平台，用于存储不同类型的数据 沿着它们的元数据，并在不同的数据集之间创建关系。