CAREER: Analysis, Construction and Visualization of 3D Genome Structures

职业：3D 基因组结构的分析、构建和可视化

• 批准号: 1149224
• 负责人: Jianlin Cheng
• 金额: $ 63.42万
• 依托单位: University of Missouri-Columbia
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2012
• 资助国家: 美国
• 起止时间: 2012-06-01 至 2019-05-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1149224&HistoricalAwards=false
• 关键词: CAREER; Analysis; Construction; Visualization; 3D

This project will investigate the three-dimensional (3D) structures of genomes. A 3D genome structure is critical for studying genome folding, genome function, and spatial gene regulation, but it has not been well studied in comparison with a one-dimensional (1D) linear genome. The main goal of this CAREER project is to design and develop contact-based computational methods to analyze, construct, and visualize 3D structures of genomes using chromosomal contact (interaction) data generated by genome conformation capturing techniques and next-generation DNA sequencing. The research data, methods and tools will provide materials to develop two new bioinformatics courses, integrating computational optimization, molecular structure modeling, genome sequencing, and genome annotation. The successful completion of this project will produce a set of novel computational methods and bioinformatics tools to analyze, construct, and visualize 3D genome structures. The methods and tools will boost the study of genome structure, function, and gene regulation in the spatial context, which will have broad applications in almost every aspect of modern biological sciences in the post-genomic era. The research component will generate a rich set of new data and methods to train K1-12, undergraduate, graduate and postdoctoral students. The wide dissemination of the two new bioinformatics courses will enrich the curriculum of bioinformatics, computational biology, computer science, large-scale constrained optimization, and molecular structure modeling. More information about the project is available at: http://www.cs.missouri.edu/~chengji/nsf_career.html.

这个项目将研究基因组的三维（3D）结构。三维基因组结构对于研究基因组折叠、基因组功能和空间基因调控至关重要，但与一维线性基因组相比，三维基因组结构尚未得到很好的研究。这个CAREER项目的主要目标是设计和开发基于接触的计算方法，利用基因组构象捕获技术和下一代DNA测序产生的染色体接触（相互作用）数据来分析、构建和可视化基因组的3D结构。研究数据、方法和工具将为开发两门新的生物信息学课程提供材料，整合计算优化、分子结构建模、基因组测序和基因组注释。这个项目的成功完成将产生一套新的计算方法和生物信息学工具来分析、构建和可视化三维基因组结构。这些方法和工具将推动基因组结构、功能和基因调控在空间背景下的研究，将在后基因组时代的现代生物科学的几乎所有方面具有广泛的应用。研究部分将产生一套丰富的新数据和方法来培养K1-12，本科生，研究生和博士后。这两门新的生物信息学课程的广泛传播将丰富生物信息学、计算生物学、计算机科学、大规模约束优化和分子结构建模的课程。有关该项目的更多信息请访问：http://www.cs.missouri.edu/~chengji/nsf_career.html。