title: Dynamics and control of state-dependent networks for probing genomic organization.
abstract: 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.
authors.affiliation: Division of Basic Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, WA 98109, USA.
authors.forename: Indika
authors.initials: I
authors.lastname: Rajapakse
authors.forename: Mark
authors.initials: M
authors.lastname: Groudine
authors.forename: Mehran
authors.initials: M
authors.lastname: Mesbahi
mesh_terms: D000818:Animals; D002454:Cell Differentiation / Q000235:genetics* / Q000502:physiology; D025461:Feedback, Physiological; D050982:GATA1 Transcription Factor / Q000235:genetics / Q000378:metabolism; D053263:Gene Regulatory Networks; D006410:Hematopoiesis / Q000235:genetics / Q000502:physiology; D006801:Humans; D008954:Models, Biological; D008957:Models, Genetic; D017570:MyoD Protein / Q000235:genetics / Q000378:metabolism
chemical_list: D050982:GATA1 Transcription Factor; D017570:MyoD Protein