Non-Coding RNA Analytical Core

非编码 RNA 分析核心

• 批准号: 10089339
• 负责人: Kasey C Vickers
• 金额: $ 20.76万
• 依托单位: VANDERBILT UNIVERSITY MEDICAL CENTER
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-06-01 至 2025-12-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10089339
• 关键词: Academic Medical Centers; Area; Atherosclerosis; Award; Bioinformatics; Biometry; Biotechnology; ChIP-seq; Chromium; Chronic Kidney Failure; Collaborations; Communication; Complex; DNA Sequencing Facility; Data Analyses; Data Set; Equipment; Familial Hypercholesterolemia; Functional disorder; Funding; Genes; Genetic Transcription; Genomics; Goals; Grant; High Density Lipoproteins; High-Throughput Nucleotide Sequencing; High-Throughput RNA Sequencing; Human Resources; Individual; Informatics; Joints; Lead; Leadership; Libraries; Lipoproteins; Messenger RNA; Methods; Modification; Multiomic Data; Preparation; Proteins; Protocols documentation; Publications; Quality Control; RNA; RNA analysis; RNA immunoprecipitation sequencing; Recommendation; Recording of previous events; Research; Research Design; Research Personnel; Resources; Ribosomal RNA; Science; Services; Small RNA; System; Technology; Testing; Time; Training; Transfer RNA; Universities; Untranslated RNA; Work; analysis pipeline; base; data integration; data management; design; experience; experimental study; extracellular; human disease; laboratory experience; member; multiple omics; next generation; programs; service programs; single-cell RNA sequencing; skills; success; tool; transcriptome sequencing; transcriptomics

Summary The purpose of this program is to significantly advance our understanding of mechanisms of HDL Dysfunction in Projects (1) familial hypercholesterolemia (2) chronic kidney disease, (3) small RNAs, and (4) reactive dicarbonyl modification to HDL. The proposed research strategies are highly cross-disciplinary and require extensive next-generation RNA sequencing, data analysis, and data integration. An effective and dedicated non- coding RNA and bioinformatics core is essential for the success of the proposed studies in each project and the overall program. Specifically, the Non-Coding RNA and Bioinformatics Core is designed to handle the large volume of sequencing needs and data analyses for all 4 projects. We are highly trained, skilled, and experienced in generating sRNA-seq libraries, bulk total RNA-seq libraries, and 10X Chromium single cell RNA sequencing (scRNA-seq) preparations for high-throughput sequencing. We are proficient in performing quality control steps and completing the sequencing tasks. Furthermore, we have developed in-house sequencing analysis pipelines that will be implemented by computational biologists and biostatisticians under the guidance of an existing informatics team that has worked closely over the past 6 years. The purpose of the Non-Coding RNA and Bioinformatics Core is to use high-throughput RNA sequencing and informatics to analyze small and long RNA expression changes associated with HDL dysfunction and atherosclerosis treatments in a timely and efficiently manner with high-quality data management and integration into complex bioinformatics systems.

总结 该计划的目的是显着推进我们对HDL功能障碍机制的理解 在项目（1）家族性高胆固醇血症（2）慢性肾脏疾病，（3）小RNA，和（4）反应性 对HDL的二羰基修饰。拟议的研究战略是高度跨学科的，需要 广泛的下一代RNA测序、数据分析和数据集成。一个有效的和专门的非- 编码RNA和生物信息学核心对于每个项目中拟议研究的成功至关重要， 整体方案。具体而言，非编码RNA和生物信息学核心旨在处理大型 所有4个项目的测序需求和数据分析量。我们训练有素，技术精湛，经验丰富 在生成sRNA-seq文库、批量总RNA-seq文库和10 X Chromium单细胞RNA测序中， 用于高通量测序的scRNA-seq制备物。我们精通执行质量控制步骤 完成测序任务。此外，我们还开发了内部测序分析管道， 将由计算生物学家和生物统计学家在现有的 在过去的6年里，信息学团队密切合作。非编码RNA的目的和 生物信息学核心是利用高通量RNA测序和信息学分析小而长的RNA 表达变化与HDL功能障碍和动脉粥样硬化治疗及时有效 以高质量的数据管理和集成到复杂的生物信息学系统的方式。