@article{ Chen.2015.PNAS.4DN,
  abstract = {The 4D organization of the interphase nucleus, or the 4D Nucleome (4DN), reflects a dynamical interaction between 3D genome structure and function and its relationship to phenotype. We present initial analyses of the human 4DN, capturing genome-wide structure using chromosome conformation capture and 3D imaging, and function using RNA-sequencing. We introduce a quantitative index that measures underlying topological stability of a genomic region. Our results show that structural features of genomic regions correlate with function with surprising persistence over time. Furthermore, constructing genome-wide gene-level contact maps aided in identi- fying gene pairs with high potential for coregulation and colocaliza- tion in a manner consistent with expression via transcription factories. We additionally use 2D phase planes to visualize patterns in 4DN data. Finally, we evaluated gene pairs within a circadian gene module using 3D imaging, and found periodicity in the movement of clock circadian regulator and period circadian clock 2 relative to each other that followed a circadian rhythm and entrained with their expression.},
  author = {Chen, H. and Chen, J. and Muir, L. and Ronquist, S. and Meixner, W. and Ljungman, M. and Ried, T. Smale, S. and Rajapakse, I.},
  date-added = {2015-08-22 15:40:02 +0000},
  date-modified = {2015-08-23 01:32:16 +0000},
  journal = {Proceedings of National Academy of Sciences (PNAS)},
  month = {Jun.},
  number = {26},
  pages = {8002--8007},
  title = {Functional organization of the human {4D} Nucleome},
  volume = {112},
  year = {2015}
}

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