- Chemical event chain model of coupled genetic oscillators. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032409
- We introduce a stochastic model of coupled genetic oscillators in which chains of chemical events involved in gene regulation and expression are represented as sequences of Poisson processes. We char...

- Master stability functions reveal diffusion-driven pattern formation in networks. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032307
- We study diffusion-driven pattern formation in networks of networks, a class of multilayer systems, where different layers have the same topology, but different internal dynamics. Agents are assumed ...

- Engineering single-polymer micelle shape using nonuniform spontaneous surface curvature. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032505
- Conventional micelles, composed of simple amphiphiles, exhibit only a few standard morphologies, each characterized by its mean surface curvature set by the amphiphiles. Here we demonstrate a rationa...

- Slowdown of surface diffusion during early stages of bacterial colonization. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032407
- We study the surface diffusion of the model cyanobacterium Synechocystis sp. PCC6803 during the incipient stages of cell contact with a glass surface in the dilute regime. We observe a twitching moti...

- Optimal stabilization of Boolean networks through collective influence. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032305
- Boolean networks have attracted much attention due to their wide applications in describing dynamics of biological systems. During past decades, much effort has been invested in unveiling how network...

- Local box-counting dimensions of discrete quantum eigenvalue spectra: Analytical connection to quantum spectral statistics. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):030202
- Two decades ago, Wang and Ong, [Phys. Rev. A 55, 1522 (1997)]10.1103/PhysRevA.55.1522 hypothesized that the local box-counting dimension of a discrete quantum spectrum should depend exclusively on th...

- Sensitivity of electrospray molecular dynamics simulations to long-range Coulomb interaction models. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):033306
- Molecular dynamics (MD) electrospray simulations of 1-ethyl-3-methylimidazolium tetrafluoroborate (EMIM-BF_{4}) ion liquid were performed with the goal of evaluating the influence of long-range Coulo...

- Geometric evolution of complex networks with degree correlations. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032309
- We present a general class of geometric network growth mechanisms by homogeneous attachment in which the links created at a given time t are distributed homogeneously between a new node and the exist...

- Rare behavior of growth processes via umbrella sampling of trajectories. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032123
- We compute probability distributions of trajectory observables for reversible and irreversible growth processes. These results reveal a correspondence between reversible and irreversible processes, a...

- Sampling rare fluctuations of discrete-time Markov chains. [Journal Article]
- PRPhys Rev E 2018; 97(3-1):032122
- We describe a simple method that can be used to sample the rare fluctuations of discrete-time Markov chains. We focus on the case of Markov chains with well-defined steady-state measures, and derive ...