Yucheng Hu

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Recently Anderson and Mattingly [Comm. Math. Sci. 9, 301 (2011)] proposed a method which can solve chemical Langevin equations with weak second order accuracy. We extend their work to the discrete chemical jump processes. With slight modification, the method can also solve discrete chemical kinetic systems with weak second order accuracy in the large volume(More)
MOTIVATION Cancer is well known to be the end result of somatic mutations that disrupt normal cell division. The number of such mutations that have to be accumulated in a cell before cancer develops depends on the type of cancer. The waiting time T(m) until the appearance of m mutations in a cell is thus an important quantity in population genetics models(More)
We aim to construct higher order tau-leaping methods for numerically simulating stochastic chemical kinetic systems in this paper. By adding a random correction to the primitive tau-leaping scheme in each time step, we greatly improve the accuracy of the tau-leaping approximations. This gain in accuracy actually comes from the reduction in the local(More)
The photon number statistics for attenuated faint laser pulses is quantitatively studied. It confirms that, even for a non-Poissonian laser source, after being attenuated into faint laser with ultra-low mean photon number, the photon number distribution would approximately be a Poisson distribution. The error of such an approximation is estimated, and(More)
Stabilized or Chebyshev explicit methods have been widely used in the past to solve stiff ordinary differential equations. Making use of special properties of Chebyshev-like poly-nomials, these methods have favorable stability properties compared to standard explicit methods while remaining explicit. A new class of such methods, called ROCK, introduced in(More)
The complex structures of all proteins in nature are outcomes of a random walk driven by mutation and selection. Reconstructing the fitness landscape staging this process based on first-principle physical rules or experimental measurements is difficult. In this article we turn the popular Sudoku game into an artificial fitness landscape and use it as a(More)
City traffic is a dynamic system of enormous complexity. Modeling and predicting city traffic flow remains to be a challenge task and the main difficulties are how to specify the supply and demands and how to parameterize the model. In this paper we attempt to solve these problems with the help of large amount of floating car data. We propose a(More)
The dynamics of gene transcription is tightly regulated in eukaryotes. Recent experiments have revealed various kinds of transcriptional dynamics, such as RNA polymerase II pausing, that involves regulation at the transcription initiation stage, and the choice of different regulation pattern is closely related to the physiological functions of the target(More)