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The Mechanical Genome in Regulation and Infection


Chen, Yi-Ju (2015) The Mechanical Genome in Regulation and Infection. Dissertation (Ph.D.), California Institute of Technology. doi:10.7907/Z9PC308X.


Biological information storage and retrieval is a dynamic process that requires the genome to undergo dramatic structural rearrangements. Recent advances in single-molecule techniques have allowed precise quantification of the nano-mechanical properties of DNA [1, 2], and direct in vivo observation of molecules in action [3]. In this work, we will examine elasticity in protein-mediated DNA looping, whose structural rearrangement is essential for transcriptional regulation in both prokaryotes and eukaryotes. We will look at hydrodynamics in the process of viral DNA ejection, which mediates information transfer and exchange and has prominent implications in evolution. As in the case of Kepler's laws of planetary motion leading to Newton's gravitational theory, and the allometric scaling laws in biology revealing the organizing principles of complex networks [4], experimental data collapse in these biological phenomena has guided much of our studies and urged us to find the underlying physical principles.

Item Type:Thesis (Dissertation (Ph.D.))
Subject Keywords:protein-mediated DNA looping, viral DNA ejection
Degree Grantor:California Institute of Technology
Division:Physics, Mathematics and Astronomy
Major Option:Physics
Thesis Availability:Public (worldwide access)
Research Advisor(s):
  • Phillips, Robert B.
Thesis Committee:
  • Politzer, Hugh David (chair)
  • Roukes, Michael Lee
  • Cai, Long
  • Phillips, Robert B.
Defense Date:5 May 2015
Non-Caltech Author Email:NaomiChen137 (AT)
Record Number:CaltechTHESIS:05072015-162723691
Persistent URL:
Related URLs:
URLURL TypeDescription adapted for ch. 2-3 adapted for ch. 2-3 adapted for ch. 4
Default Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:8850
Deposited By: Yi Ju Chen
Deposited On:19 May 2015 16:25
Last Modified:08 Nov 2023 00:41

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