Kuntz, Steven Gregory (2011) hlh-1 and the C. elegans body wall muscle transcriptional differentiation network. Dissertation (Ph.D.), California Institute of Technology. http://resolver.caltech.edu/CaltechTHESIS:10212010-102536869
To understand the structure and function of gene regulatory networks, it is important to first catalogue the components. Measurable constituents of networks include cis-regulatory elements, identified by their conservation and ability to drive expression; transcription factor binding motifs, identified by protein binding; transcription factors, identified by their necessity in network function; and target genes, identified by their conditional expression. The heart of a regulatory network is the transcription factor, which is dedicated to its role in the network. Transcription factors must be activated and regulate downstream targets in a discrete and reproducible fashion. Any deviation in network function may result in the collapse of the network and death of the animal. Thus, a network must be robust enough to function under a variety of biological conditions. However, network redundancies are inefficient in terms of fitness and lost during the course of evolution. The network structure and function reflects these evolutionary realities: strong sequence conservation of cis-regulatory elements coupled with widespread stochastic transcription factor binding, and ancient transcription factor conservation coupled with overlapping activation of targets. The evolution of functional transcription factor networks therefore must be a balance between conservation and flexibility.
|Item Type:||Thesis (Dissertation (Ph.D.))|
|Subject Keywords:||hlh-1; lin-39; ceh-13; Hox cluster; sequence conservation; transcription; muscle differentiation; C. elegans; gene regulatory network; unc-120; RNA-seq; ChIP-seq|
|Degree Grantor:||California Institute of Technology|
|Major Option:||Biochemistry and Molecular Biophysics|
|Thesis Availability:||Public (worldwide access)|
|Defense Date:||7 September 2010|
|Non-Caltech Author Email:||kuntz (AT) caltech.edu|
|Default Usage Policy:||No commercial reproduction, distribution, display or performance rights in this work are provided.|
|Deposited By:||Steven Kuntz|
|Deposited On:||02 Apr 2012 19:17|
|Last Modified:||22 Aug 2016 21:21|
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