Turing Instability in Reaction-Diffusion Systems with a Single Diffuser: Characterization Based on Root Locus

Cooperative behaviors arising from bacterial cell-to-cell communication can be modeled by reaction-diffusion equations having only a single diffusible component. This paper presents the following three contributions for the systematic analysis of Turing instability in such reaction-diffusion systems. (i) We first introduce a unified framework to formulate the reaction-diffusion system as an interconnected multi-agent dynamical system. (ii) Then, we mathematically classify biologically plausible and implausible Turing instabilities and characterize them by the root locus of each agent's dynamics, or the local reaction dynamics. (iii) Using this characterization, we derive analytic conditions for biologically plausible Turing instability, which provide useful guidance for the design and the analysis of biological networks. These results are demonstrated on an extended Gray-Scott model with a single diffuser

Endogenous Information Acquisition and Partial Announcement Policy

January 2014. Revised April 201

Nanoplatform Based on Vertical Nanographene

Self-organized graphite sheet nanostructures composed of graphene have been studied intensively. Carbon nanowalls and related sheet nanostructures are layered graphenes with open boundaries. The sheets form a self-supported network of wall structures with thicknesses in the range from a few nanometers to a few tens of nanometers, and with a high aspect ratio. The large surface area and sharp edges of carbon nanowalls could prove useful for a number of different applications. Fabrication techniques of carbon nanowalls and possible applications using carbon nanowalls as nanoplatform in the area of electrochemistry and tissue engineering have been described. Radical injection technique was successfully applied to fabricate straight and large-size monolithic carbon nanosheet. The structure of carbon nanowalls was controlled by changing the total pressure and input power. In addition, the structure of carbon nanowalls was modified by O2 plasma etching and H2O2 treatment. Using carbon nanowalls as platform would be the most promising and important application. Carbon nanowalls were used as electrode to detect several biomolecules. In addition, carbon nanowalls were oxidized by the surface treatment using atmospheric pressure plasma, and proteins such as bovine serum albumin were immobilized on these surface. Moreover, carbon nanowalls were used as scaffold for cell culturing. The dependence of the cell culturing rates and morphological changes of HeLa cells on carbon nanowall scaffolds with different densities and wettability were systematically investigated. Nanoplatform based on vertical nanographene offers great promise for providing a new class of nanostructured electrodes for electrochemical sensing, biosensing and energy conversion applications

Numerical analysis of a baryon and its dilatation modes in holographic QCD

We investigate a baryon and its dilatation modes in holographic QCD based on the Sakai-Sugimoto model, which is expressed as a 1+4 dimensional U($N_f$) gauge theory in the flavor space. For spatially rotational symmetric systems, we apply a generalized version of the Witten Ansatz, and reduce 1+4 dimensional holographic QCD into a 1+2 dimensional Abelian Higgs theory in a curved space. In the reduced theory, the holographic baryon is described as a two-dimensional topological object of an Abrikosov vortex. We numerically calculate the baryon solution of holographic QCD using a fine and large lattice with spacing of 0.04 fm and size of 10 fm. Using the relation between the baryon size and the zero-point location of the Higgs field in the description with the Witten Ansatz, we investigate a various-size baryon through this vortex description. As time-dependent size-oscillation modes (dilatation modes) of a baryon, we numerically obtain the lowest excitation energy of 577 MeV and deduce the dilatational excitation of a nucleon to be the Roper resonance N$^*$(1440).Comment: 22 pages, 14 figure

Coordinated Spatial Pattern Formation in Biomolecular Communication Networks

This paper proposes a control theoretic framework to model and analyze the self-organized pattern formation of molecular concentrations in biomolecular communication networks, emerging applications in synthetic biology. In biomolecular communication networks, bio-nanomachines, or biological cells, communicate with each other using a cell-to-cell communication mechanism mediated by a diffusible signaling molecule, thereby the dynamics of molecular concentrations are approximately modeled as a reaction-diffusion system with a single diffuser. We first introduce a feedback model representation of the reaction-diffusion system and provide a systematic local stability/instability analysis tool using the root locus of the feedback system. The instability analysis then allows us to analytically derive the conditions for the self-organized spatial pattern formation, or Turing pattern formation, of the bionanomachines. We propose a novel synthetic biocircuit motif called activator-repressor-diffuser system and show that it is one of the minimum biomolecular circuits that admit self-organized patterns over cell population