Quantitative Biology

, Volume 4, Issue 4, pp 302–309 | Cite as

Computational inference of physical spatial organization of eukaryotic genomes

  • Bingxiang Xu
  • Zhihua Zhang



Chromosomes are packed in the cell’s nucleus, and chromosomal conformation is critical to nearly all intranuclear biological reactions, including gene transcription and DNA replication. Nevertheless, chromosomal conformation is largely a mystery in terms of its formation and the regulatory machinery that accesses it.


Thanks to recent technological developments, we can now probe chromatin interaction in substantial detail, boosting research interest in modeling genome spatial organization. Here, we review the current computational models that simulate chromosome dynamics, and explain the physical and topological properties of chromosomal conformation, as inferred from these newly generated data.


Novel models shall be developed to address questions beyond averaged structure in the near further.


3D genome models simulation 


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Copyright information

© Higher Education Press and Springer-Verlag GmbH 2016

Authors and Affiliations

  1. 1.CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of GenomicsChinese Academy of SciencesBeijingChina

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