TY - JOUR
T1 - Spatial and temporal organization of the genome
T2 - Current state and future aims of the 4D nucleome project
AU - Dekker, Job
AU - Alber, Frank
AU - Aufmkolk, Sarah
AU - Beliveau, Brian J.
AU - Bruneau, Benoit G.
AU - Belmont, Andrew S.
AU - Bintu, Lacramioara
AU - Boettiger, Alistair
AU - Calandrelli, Riccardo
AU - Disteche, Christine M.
AU - Gilbert, David M.
AU - Gregor, Thomas
AU - Hansen, Anders S.
AU - Huang, Bo
AU - Huangfu, Danwei
AU - Kalhor, Reza
AU - Leslie, Christina S.
AU - Li, Wenbo
AU - Li, Yun
AU - Ma, Jian
AU - Noble, William S.
AU - Park, Peter J.
AU - Phillips-Cremins, Jennifer E.
AU - Pollard, Katherine S.
AU - Rafelski, Susanne M.
AU - Ren, Bing
AU - Ruan, Yijun
AU - Shav-Tal, Yaron
AU - Shen, Yin
AU - Shendure, Jay
AU - Shu, Xiaokun
AU - Strambio-De-Castillia, Caterina
AU - Vertii, Anastassiia
AU - Zhang, Huaiying
AU - Zhong, Sheng
N1 - Publisher Copyright:
© 2023 Elsevier Inc.
PY - 2023/8/3
Y1 - 2023/8/3
N2 - 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.
AB - 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.
KW - 4D nucleome
KW - cell cycle
KW - chromosome folding
KW - development
KW - disease model
KW - genomics technologies
KW - imaging technologies
KW - modeling
KW - nuclear organization
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U2 - 10.1016/j.molcel.2023.06.018
DO - 10.1016/j.molcel.2023.06.018
M3 - Review article
C2 - 37419111
AN - SCOPUS:85166624218
SN - 1097-2765
VL - 83
SP - 2624
EP - 2640
JO - Molecular cell
JF - Molecular cell
IS - 15
ER -