University of Washington

Department of bioengineering

Kyung Hyuk Kim

 

Post-doc Senior Fellow

I am a post-doc working with Prof. Herbert Sauro. I have been investigating gene regulatory networks focusing on their stochastic nature. I am developing a theoretical analysis framework suited for the networks.

 

Especially, I am interested in synthetic biology. I aim to provide theoretical design principles for building gene circuits (gene regulatory networks) such as modularity, stochastic noise propagation, thermodynamic constraints, and so on. These are my focus areas of research for the next few years.

 

Here is a list of the topics that I am interested in:

 Stochastic extension of metabolic control analysis

 Stochastic modules for gene regulatory networks

 Noise propagation in stochastic reaction networks

 Non-equilibrium statistical physics: Jarzynski equality, fluctuation theorems, and one-dimension stochastic flow models

 

Kyung Hyuk Kim

Department of Bioengineering
William H. Foege Building
Box 355061
Seattle, WA 98195-5061

kkim@u.washington.edu

Publications

K. H. Kim, and H. M. Sauro. Stochastic Control Analysis for Biochemical Reaction Systems.
arXiv:0904.3124 [q-bio.QM] (2009)

 

K. H. Kim, H. Qian, and H. M. Sauro. Sensitivity Regulation based on Noise Propagation in Stochastic Reaction Networks.
arXiv:0805.4455v2 [q-bio.MN] (2008)

 

K. H. Kim and M. den Nijs. Dynamic Screening in a Two-species Asymmetric Exclusion Process. Phys. Rev. E 76, 021107 (2007)

K. H. Kim and H. Qian. Fluctuation Theorems of a Molecular Refrigerator. Phys. Rev. E 75, 022102 (2007)

K. H. Kim. Heat Dissipation from Brownian Particles under Hydrodynamic Interactions. cond-mat/0609636 (2006)

K. H. Kim and H. Qian. Entropy Production of Brownian Macromolecules with Inertia. Phys. Rev. Lett. 93, 120602 (2004)

 

Thesis:
Stochastic Driven Systems Far From Equilibrium (Advisors: Prof. Marcel den Nijs and Hong Qian)

Curriculum Vitae

2008-10

2008 BMES Annual Fall Meeting oral presentation on Systems and Synthetic Biology: A Match Made in Heaven

 

2008-8

NSF (Advancing Theory in Biology) has decided to fund my research on stochastic extension of metabolic control analysis (PI:Herbert).

 

2008-8

ICSB poster presentation on Noise Propagation and Sensitivity for Stochastic Reaction Networks