Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project Review

  

Authors:	Dekker, J.; Alber, F.; Aufmkolk, S.; Beliveau, B. J.; Bruneau, B. G.; Belmont, A. S.; Bintu, L.; Boettiger, A.; Calandrelli, R.; Disteche, C. M.; Gilbert, D. M.; Gregor, T.; Hansen, A. S.; Huang, B.; Huangfu, D.; Kalhor, R.; Leslie, C. S.; Li, W.; Li, Y.; Ma, J.; Noble, W. S.; Park, P. J.; Phillips-Cremins, J. E.; Pollard, K. S.; Rafelski, S. M.; Ren, B.; Ruan, Y.; Shav-Tal, Y.; Shen, Y.; Shendure, J.; Shu, X.; Strambio-De-Castillia, C.; Vertii, A.; Zhang, H.; Zhong, S.
Review Title:	Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project
Abstract:	The four-dimensional nucleome (4DN) consortium studies the architecture of the genome and the nucleus in space and time. We summarize progress by the consortium and highlight the development of technologies for (1) mapping genome folding and identifying roles of nuclear components and bodies, proteins, and RNA, (2) characterizing nuclear organization with time or single-cell resolution, and (3) imaging of nuclear organization. With these tools, the consortium has provided over 2,000 public datasets. Integrative computational models based on these data are starting to reveal connections between genome structure and function. We then present a forward-looking perspective and outline current aims to (1) delineate dynamics of nuclear architecture at different timescales, from minutes to weeks as cells differentiate, in populations and in single cells, (2) characterize cis-determinants and trans-modulators of genome organization, (3) test functional consequences of changes in cis- and trans-regulators, and (4) develop predictive models of genome structure and function. © 2023 Elsevier Inc.
Keywords:	controlled study; genetics; review; chromosome; metabolism; cell cycle; structure activity relation; disease model; genome analysis; chromatin; genomics; genome; development; cell nucleus; computer model; chromatin structure; imaging technologies; modeling; three-dimensional imaging; predictive model; nuclear organization; 4d nucleome; chromosome folding; genomics technologies
Journal Title:	Molecular Cell
Volume:	83
Issue:	15
ISSN:	1097-2765
Publisher:	Cell Press
Date Published:	2023-08-03
Start Page:	2624
End Page:	2640
Language:	English
DOI:	10.1016/j.molcel.2023.06.018
PUBMED:	37419111
PROVIDER:	scopus
DOI/URL:	https://www.scopus.com/inward/record.uri?eid=2-s2.0-85166624218&doi=10.1016%2fj.molcel.2023.06.018&partnerID=40&md5=ad8e165dde19fe75bf6eafeaf2c06fcd
Notes:	Source: Scopus

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