Samuel Kou, Sunney Xie and Jun Liu (2005).
Bayesian analysis of
single-molecule experimental data (with discussion).
J. Roy. Statist.
Soc., C, 54, 469-506.
Download the experimental data sets: DNAhairpinData.zip
 Samuel Kou and Sunney Xie (2004). Generalized Langevin equation with fractional Gaussian noise: subdiffusion within a single protein molecule. Physical Review Letters, 93, 180603(1)-180603(4).
 Wei Min, Guobin Luo, Binny Cherayil, Samuel Kou and Sunney Xie (2005). Observation of a power law memory kernel for fluctuations within a single protein molecule . Physical Review Letters, 94, 198302(1)-198302(4).
 Samuel Kou, Binny Cherayil, Wei Min, Brian
English and Sunney Xie (2005). Single-molecule Michaelis-Menten equations
Journal of Physical Chemistry, B, 109, 19068-19081.
The article is featured on the journal cover page.
 Wei Min, Brian English, Guobin Luo, Binny Cherayil, Samuel Kou and Sunney Xie (2005). Fluctuating enzymes: lessons from single-molecule studies. Accounts of Chemical Research, 38, 923-931.
 Wei Min, Liang Jiang, Ji Yu, Samuel Kou, Hong Qian and Sunney Xie (2005). Nonequilibrium steady state of a nanometric biochemical system: determining the thermodynamic driving force from single enzyme turnover time traces. Nano Letters, 5, 2373-2378.
 B. English, W. Min, A. M. van Oijen, K. T. Lee, G. Luo,
H. Sun, B. J. Cherayil, S. C. Kou, X. S. Xie (2006). Ever-fluctuating single enzyme molecules: Michaelis-Menten equation
revisited. Nature Chemical Biology, 2, 87-94.
The article is featured on the journal cover page.
Read a news report by N. Walter featuring the article.
 W. Min, I. V. Gopich, B. English, S. C. Kou, X. S. Xie and A. Szabo (2006). When does the Michaelis-Menten equation hold for fluctuating enzymes? Journal of Physical Chemistry, B, 110, 20093-20097.
 Srabanti Chaudhury, Samuel Kou and Binny Cherayil (2007). Model of fluorescence intermittency in single enzymes. Journal of Physical Chemistry, B, 111, 2377-2384.
 Samuel Kou (2008). Stochastic modeling in nanoscale biophysics: subdiffusion within proteins. Annals of Applied Statistics, 2, 501-535.
 Samuel Kou (2008). Stochastic networks in nanoscale biophysics: modeling enzymatic reaction of a single protein. J. Amer. Statist. Assoc., 103, 961-975.
 Samuel Kou (2009). A selective view of stochastic inference and modeling problems in nanoscale biophysics. Science in China, A, 52, 1181-1211.
 P. C. Blainey, G. Luo, S. C. Kou, W. F. Mangel, G. L. Verdine, B. Bagchi and X. S. Xie (2009). Nonspecifically bound proteins spin while diffusing along DNA. Nature Structural & Molecular Biology, 16, 1224-1229.
 Chao Du and Samuel Kou (2012). Correlation analysis of enzymatic reaction of a single protein molecule. Annals of Applied Statistics, 6, 950-976.
 Samuel Kou, Qing Zhou and Wing Wong (2006). Equi-energy sampler with applications in statistical inference and statistical mechanics (with discussion). Ann. Statist., 34, 1581-1652.
 Xia Hua and Samuel Kou (2011). Convergence of the equi-energy sampler and its application to the Ising model. Statistica Sinica, 21, 1687-1711.
 Samuel Kou, Jason Oh and Wing Wong (2006). A study of density of states and ground states in HP protein folding models by equi-energy sampling. Journal of Chemical Physics, 124, 244903(1)-244903(11).
 Jinfeng Zhang, Samuel Kou and Jun Liu (2007). Biopolymer structure simulation and optimization via fragment re-growth Monte Carlo. Journal of Chemical Physics, 126, 225101(1)-225101(7).
 Samuel Kou and Peter McCullagh (2009).
Approximating the alpha-permanent.
Biometrika, 96, 635-644.
Supplementary material: matrices used in the paper .
 Samuel Kou, Benjamin Olding, Martin Lysy and Jun Liu (2012). A multiresolution method for parameter estimation of diffusion processes. J. Amer. Statist. Assoc., 107, 1558-1574.
 Samuel Kou and Bradley Efron (2002). Smoothers and the Cp, GML and EE criteria: a geometric approach. J. Amer. Statist. Assoc., 97, 766-782.
 Samuel Kou (2003). On the efficiency of selection criteria in spline regression. Probab. Theory Relat. Fields, 127, 153-176.
 Samuel Kou (2003). Is Cp an empirical Bayes method for smoothing parameter choice? Statist. Probab. Lett., 65, 139-146.
 Samuel Kou (2004). From finite sample to asymptotics: a geometric bridge for selection criteria in spline regression. Ann. Statist., 32, 2444-2468.
 Tingting Zhang and Samuel Kou (2010).
Nonparametric inference of doubly stochastic Poisson process data via the kernel
Annals of Applied Statistics, 4, 1913-1941.
Supplementary material: proofs of theoretical results.
 Xianchao Xie, Samuel Kou and Lawrence D. Brown (2012). SURE estimates for a heteroscedastic hierarchical model. J. Amer. Statist. Assoc., 107, 1465-1479.
 Samuel Kou and Steve Kou (2003). Modeling growth stocks via birth-death processes. Advances in Applied Probability, 35, 641-664.
 Samuel Kou and Steve Kou (2004). A diffusion model for growth stocks. Mathematics of Operations Research, 29, 191-212.
 Samuel Kou and Steve Kou (2007). A tale of two growths: stochastic endogenous growth and growth stocks. Preprint.
 Samuel Kou, Sunney Xie and Jun Liu (2003). Markov chain Monte Carlo in the analysis of single-molecule experimental data. The Monte Carlo Method in the Physical Sciences, (edited by J. E. Gubernatis), 123-133, AIP Press, Melville, New York.
 Samuel Kou and Steve Kou (2001). Modeling growth stocks. RISK, S34-S37, December 2001.
 Samuel Kou and Steve Kou (2002). Modeling growth stocks (II). Proceedings of the 2002 Winter Simulation Conference, 1524-1529, IEEE Press, New York.