Dynamics and control of state-dependent networks for probing genomic organization

Proc Natl Acad Sci U S A. 2011 Oct 18;108(42):17257-62. doi: 10.1073/pnas.1113249108. Epub 2011 Sep 12.


A state-dependent dynamic network is a collection of elements that interact through a network, whose geometry evolves as the state of the elements changes over time. The genome is an intriguing example of a state-dependent network, where chromosomal geometry directly relates to genomic activity, which in turn strongly correlates with geometry. Here we examine various aspects of a genomic state-dependent dynamic network. In particular, we elaborate on one of the important ramifications of viewing genomic networks as being state-dependent, namely, their controllability during processes of genomic reorganization such as in cell differentiation.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Animals
  • Cell Differentiation / genetics*
  • Cell Differentiation / physiology
  • Feedback, Physiological
  • GATA1 Transcription Factor / genetics
  • GATA1 Transcription Factor / metabolism
  • Gene Regulatory Networks*
  • Hematopoiesis / genetics
  • Hematopoiesis / physiology
  • Humans
  • Models, Biological
  • Models, Genetic*
  • MyoD Protein / genetics
  • MyoD Protein / metabolism


  • GATA1 Transcription Factor
  • MyoD Protein