UMass Chan Medical School Faculty Publications

UMMS Affiliation

Program in Systems Biology; Department of Biochemistry and Molecular Pharmacology; Program in Molecular Medicine; RNA Therapeutics Institute; Department of Molecular, Cell and Cancer Biology

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Article Preprint


Amino Acids, Peptides, and Proteins | Biochemistry | Genetic Phenomena | Genomics | Molecular Biology | Structural Biology


The spatial organization of the genome and its dynamics contribute to gene expression and cellular function in normal development as well as in disease. Although we are increasingly well equipped to determine a genome's sequence and linear chromatin composition, studying the three-dimensional organization of the genome with high spatial and temporal resolution remains challenging. The 4D Nucleome Network aims to develop and apply approaches to map the structure and dynamics of the human and mouse genomes in space and time with the long term goal of gaining deeper mechanistic understanding of how the nucleus is organized. The project will develop and benchmark experimental and computational approaches for measuring genome conformation and nuclear organization, and investigate how these contribute to gene regulation and other genome functions. Further efforts will be directed at applying validated experimental approaches combined with biophysical modeling to generate integrated maps and quantitative models of spatial genome organization in different biological states, both in cell populations and in single cells.


genomics, 4D Nucleome Network, gene expression, cellular function

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The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It is made available under a CC-BY-NC-ND 4.0 International license.

DOI of Published Version



bioRxiv 103499; doi: Link to preprint on bioRxiv service.


Members of the 4D Nucleome Network from UMass Medical School who collaborated on this project include Krishna M. Parsi, Rene Maehr, Erik J. Sontheimer, David Grunwald, Paul D. Kaufman, and Lihua (Julie) Zhu.

Related Resources

Now published in Nature doi: 10.1038/nature23884.

Journal/Book/Conference Title


Creative Commons License

Creative Commons Attribution-Noncommercial-No Derivative Works 4.0 License
This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 4.0 License.