泛研网

公众版 查看说明
全球科研项目数据库2026版

Mapping the 3D Genome Landscape

项目来源

美国卫生和人类服务部基金(HHS)

项目主持人

BLONDEL, OLIVIER

项目受资助机构

UNIVERSITY OF SOUTHERN CALIFORNIA

项目编号

5U54DK107981-05

立项年度

2019

立项时间

未公开

项目级别

国家级

研究期限

未知 / 未知

受资助金额

716482.00美元

学科

未公开

学科代码

未公开

基金类别

RESEARCH CENTERS

关键词

未公开

参与者

ALBER, FRANK ; CHEN, LIN

参与机构

NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES

项目标书摘要：? DESCRIPTION: The 3D structural organization of the genome plays a key role in nuclear functions such as gene expression and DNA replication. One of the next grand challenges of biology is to determine the detailed 3D genome architecture and elucidate its functional implications. In this proposal, we aim to develop a suite of novel technologies for comprehensive structural and dynamic analyses of genomes, in two aspects: (1) the spatial interactions and higher-order organization of genomic DNA and (2) the functional organization of protein complexes driving the 3D folding of genomes. The new computational and experimental methods proposed herein integrate multiple experimental inputs and generate physical higher-order models of the 3D nuclear genome organization. Analysis of these models will yield new insights into the principles and structure/functions relationships of the genome's 3D organization in space and time. We have the following aims: (1) Develop technologies for mapping the relative spatial positions of genomic DNA in the nucleus: our focus will be on the three major technical barriers faced by all current mapping technologies, namely inefficient and potentially biased data acquisition, lack of temporal resolution, and missing higher-order contact information. (2) Develop technologies for deciphering the Protein Code of 3D genome organizations: we will employ a proven pipeline for the isolation of native protein complexes, but extensively optimized for the purpose of reading out the chromatin interactome surrounding each particular chromatin interacting region. (3) Develop technologies for modeling and analysis of 3D genome structures: we will develop an integrated platform for population-based modeling of 3D genome structures, and develop a series of computational tools to perform structure-function mapping on the 3D genomes. (4) Develop sold validation techniques for guiding the above technology innovations: we will develop a set of simple-to-implement and easy-to-interpret techniques to validate our novel technologies, and this techniques can be generally adopted by the community for similar validation purposes.

  • 排序方式：
  • 1
  • /

  • 1.Principles for Integrative Structural Biology Studies

    • 关键词：
    • NUCLEAR-PORE COMPLEX; ANGLE X-RAY; CROSS-LINKING/MASS SPECTROMETRY;MOLECULAR ARCHITECTURE; MASS-SPECTROMETRY; ELECTRON-MICROSCOPY; PROTEINSTRUCTURES; ATOMIC STRUCTURES; INNER RING; NMR DATA

    Integrative structure determination is a powerful approach to modeling the structures of biological systems based on data produced by multiple experimental and theoretical methods, with implications for our understanding of cellular biology and drug discovery. This Primer introduces theory and methods of integrative approaches, emphasizing the kinds of data that can be effectively included in developing models and using the nuclear pore complex as an example to illustrate the practice and challenges involved. These guidelines are intended to aid the researcher in understanding and applying integrative structural methods to systems of their interest and thus take advantage of this rapidly evolving field.

    ...
  • 排序方式：
  • 1
  • /