• KH Kim, VS Yerramilli, K Choi, HM Sauro. Context-Dependent Genetic Regulation. BIORXIV/2017/173906 (2017) (under review)
• VS Yerramilli, KH Kim. Labeling RNAs in live cells using malachite green aptamer scaffolds as fluorescent probes. BIORXIV/2017/173898 (2017) (uner review)
• BA Bartley, KH Kim, JK Medley, HM Sauro. Synthetic Biology: Engineering Living Systems from Biophysical Principles. Biophysical Journal 112:1050-1058 (2017)
• KH Kim, K Choi, B Bartley, HM Sauro. Controlling gene expression noise in E. coli, IEEE Transactions On Biomedical Circuits And Systems, 9:497-504 (2015)
• KH Kim, HM Sauro. Stochastic Modular Analysis for Gene Circuits: Interplay Among Retroactivity, Nonlinearity, and Stochasticity. Computational Methods in Synthetic Biology, 287-297 (book chapter, 2014)
• P. Meyer, T. Cokelaer, D. Chandran, K. H. Kim, P.-R. Loh, G. Tucker, M. Lipson, B. Berger, C. Kreutz, A. Raue, B. Steiert, J. Timmer, E. Bilal, H. M. Sauro, G. Stolovitzky, J. Saez-Rodriguez. Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach. BMC Systems Biology 8:13 (2014)
• T Maarleveld, KNG Bennet, H Sauro, K Kim. In Silico Design of Self-Optimizing Integrated Metabolic and Gene Regulatory Networks. bioRxiv, 007658 (2014)
• K. H. Kim, H. Qian, and H. M. Sauro. Nonlinear Biochemical Signal Processing via Noise Propagation. Journal of Chemical Physics 139:144108 (2013)
• H. M. Sauro and K. H. Kim. It’s an analog world. Nature 497:572 (2013)
• K. H. Kim and H. M. Sauro. In Search of Noise-Induced Bimodality. BMC Biology 10:89 (2012)
• K. H. Kim and H. M. Sauro. Measuring the degree of modularity in gene regulatory networks from the relaxation of finite perturbations. Proc. IEEE Conf. on Decision and Control (Invited Paper) (2012)
• W. B. Copeland, D. Chandran, B. A. Bartley, M. Galdzicki, K. H. Kim, C. Maranas, S. C. Sleight, and H. M. Sauro. Computational Tools for Metabolic Engineering. Metabolic Engineering 14:270-280 (2012)
• K. H. Kim, and H. M. Sauro.  Adjusting Phenotypes by Noise Control. PLoS Computational Biology 8:e1002344 (2012)
• K. H. Kim, and H. M. Sauro. Measuring Retroactivity from Noise in Gene Regulatory Networks. Biophysical Journal 100:1167-1177 (2011)
• K. H. Kim, D. Chandran, and H.M. Sauro. Toward Modularity in Synthetic Biology: Design Patterns and Fan-out. In Heinz Koeppl, et al, Design and Analysis of Bio-molecular Circuits. Springer-Verlag. pp117-138 (book chapter, 2011)
• K. H. Kim, and H. M. Sauro. Fan-out in Gene Regulatory Networks. Journal of Biological Engineering 4:16 (2010)
• K. H. Kim, and H. M. Sauro. Sensitivity Summation Theorems for Stochastic Biochemical Reaction Systems. Mathematical Biosciences 226:109 (2010)
• K. H. Kim, and H. M. Sauro. Stochastic Control Analysis for Biochemical Reaction Systems. arXiv:0904.3124 [q-bio.QM] (2009)
• 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)

Ph.D. Thesis

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