Expanding access to Genomics Methods through Modern Focused Ultrasonication

通过现代聚焦超声扩大基因组学方法的应用

• 批准号: 10735363
• 负责人: Stuart S Levine
• 金额: $ 12.88万
• 依托单位: MASSACHUSETTS INSTITUTE OF TECHNOLOGY
• 依托单位国家: 美国
• 财政年份: 2023
• 资助国家: 美国
• 起止时间: 2023-07-01 至 2024-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10735363
• 关键词: Acoustics; Address; Area; Biological; Biological Assay; Biomedical Research; Cells; Chemistry; Chromatin; Complement; Complex; Coupled; Cytolysis; DNA; Deposition; Epigenetic Process; Equipment; Expenditure; Experimental Designs; Faculty; Funding; Future; Genomics; Genomics Shared Resource; Human Development; Laboratories; Libraries; Mechanics; Methodology; Methods; Modernization; Nucleic acid sequencing; Performance; Plastics; Preparation; Protocols documentation; RNA; RNA purification; Reproducibility; Research; Research Personnel; Research Project Grants; Resource Sharing; Resources; Sampling; Site; Sonication; Source; Technology; Tissues; Transducers; Update; Work; bioinformatics resource; biological research; data management; epigenomics; experimental study; genome resource; human disease; improved; instrument; instrumentation; novel; nucleic acid purification; prevent; success; timeline; transcriptome sequencing; transcriptomics

SUMMARY The MIT BioMicro Center serves as a centralized resource for MIT researchers to access genomic and bioinformatics resources as well as expertise in related methodologies. As an integrated resource, the BioMicro Center is able to support researchers over the entire timeline of their experiment with assistance available in experimental design, sample extraction and preparation, sequencing, analysis, and deposition and data management. The facility supports over 120 laboratories each year and approximately $4.2m of funds in total research expenditure. The large diversity of research projects supported by the BioMicro Center creates unique challenges for the shared resource. While many genomics shared resources specialize in specific assays or focus on a small number of species, no specific methodology represents a disproportionate fraction of the work supported by the center. Improvements in sequencing capacity and the success of the BioMicro Center in developing novel protocols to prepare nucleic acids for sequencing has exposed a number of critical barriers that are limiting researchers at MIT, preventing them from taking full advantage of new methods as well as constraining other areas of biological and biomedical research. Foremost among these is a lack of high-throughput processing of biological samples for extraction and purification of nucleic acids. Equipment requested in this proposal, a Covaris R230 Focused Ultrasonicator, will modernize the Center’s ability to isolate biomolecules from a broad spectrum of biological sources, and to prepare those molecules for genomic, transcriptomic, and epigenomic analysis using state-of-the-art sequencing technologies. The new equipment will do so by impacting the workflows in the BioMicro Center in three ways. First, it will enable high-throughput RNAseq of degraded samples. Second, it will enhance high-throughput preparation of diverse samples including FFPE tissue. Third, novel plastics used in the instrument will improve epigenetic assay access and performance. The Covaris R230 will complement the existing portfolio of instrumentation within the BioMicro Center, leveraging that equipment to enable faculty across several research centers at MIT to routinely ask highly powered questions to address challenging biological and biomedical problems. Access to high-throughput and updated sonication will expand and enhance the capabilities of the Center to support existing research projects, improving their rigor and reproducibility, while enabling future projects to leverage the instrumentation to ask broader questions due to the ability to easily handle a larger spectrum of biospecimens.

总结 麻省理工学院生物微中心是麻省理工学院研究人员访问的集中资源 基因组学和生物信息学资源以及相关方法学方面的专门知识。作为 作为一个综合资源，BioMicro中心能够在整个时间轴上为研究人员提供支持 在实验设计、样品提取和 制备、测序、分析和沉积以及数据管理。该设施支持 每年超过120个实验室，总研究资金约420万美元 支出BioMicro中心支持的研究项目的多样性创造了 共享资源的独特挑战。虽然许多基因组学共享资源专门 在特定的试验中或集中于少数物种，没有特定的方法代表 不成比例的工作由中心支持。测序方面的改进 能力和BioMicro中心在开发新的协议，以准备成功 用于测序的核酸暴露了许多限制性的关键障碍， 麻省理工学院的研究人员，阻止他们充分利用新方法， 限制了其他生物和生物医学研究领域。其中最重要的是缺乏 用于提取和纯化核酸的生物样品的高通量处理 acids.本提案中要求的设备Covaris R230聚焦超声仪将 现代化中心的能力，从广泛的生物分子分离生物分子 来源，并制备用于基因组学、转录组学和表观基因组学分析的那些分子 使用最先进的测序技术新设备将通过影响 BioMicro中心的工作流程有三种方式。首先，它将使高通量RNAseq 降解样品。第二，它将增强不同样品的高通量制备 包括FFPE组织。第三，仪器中使用的新型塑料将改善表观遗传分析 访问和性能。Covaris R230将补充现有的 BioMicro中心内的仪器，利用该设备，使教师跨越 麻省理工学院的几个研究中心经常提出一些强有力的问题， 挑战生物学和生物医学问题。访问高吞吐量和更新的 超声处理将扩大和提高中心的能力，以支持现有的研究 项目，提高其严谨性和可重复性，同时使未来的项目能够利用 由于能够轻松处理更大范围的 生物标本