Extracting Functional Modules from Biological Pathways

It has been proposed that functional modules are the fundamental units of cellular function. Methods to identify these modules have thus far relied on gene expression data or protein-protein interaction (PPI) data, but have a few limitations. We propose a new method, using biological pathway data to identify functional modules, that can potentially overcome these limitations. We also construct a network of these modules using functionally relevant PPI data. This network displays the flow and integration of information between modules and can be used to map cellular function

Fast ground-state cooling of mechanical resonator with time-dependent optical cavities

We propose a feasible scheme to cool down a mechanical resonator (MR) in a three-mirror cavity optomechanical system with controllable external optical drives. Under the Born-Oppenheimer (BO) approximation, the whole dynamics of the mechanical resonator and cavities is reduced to that of a time-dependent harmonic oscillator, whose effective frequency can be controlled through the optical driving fields. The fast cooling of the MR can be realized by controlling the amplitude of the optical drives. Significantly, we further show that the ground-state cooling may be achieved via the three-mirror cavity optomechanical system without the resolved sideband condition.Comment: Some references including our previous works on cooling of mechanical resonators are added, and some typos are corrected in this new version. Comments are welcom

Nondeterminstic ultrafast ground state cooling of a mechanical resonator

We present an ultrafast feasible scheme for ground state cooling of a mechanical resonator via repeated random time-interval measurements on an auxiliary flux qubit. We find that the ground state cooling can be achieved with \emph{several} such measurements. The cooling efficiency hardly depends on the time-intervals between any two consecutive measurements. The scheme is also robust against environmental noises.Comment: 4 pages, 3 figure

Production of large transverse momentum dileptons and photons in pppp, dAdA and AAAA collisions by photoproduction processes

The production of large $P_{T}$ dileptons and photons originating from photoproduction processes in $pp$, $dA$ and $AA$ collisions is calculated. We find that the contribution of dileptons and photons produced by photoproduction processes is not prominent at RHIC energies. However, the numerical results indicate that the modification of photoproduction processes becomes evident in the large $P_{T}$ region for $pp$, $dA$ and $AA$ collisions at LHC energies.Comment: 10 figure

Effects of laser fluence on silicon modification by four-beam laser interference

This paper discusses the effects of laser fluence on silicon modification by four-beam laser interference. In this work, four-beam laser interference was used to pattern single crystal silicon wafers for the fabrication of surface structures, and the number of laser pulses was applied to the process in air. By controlling the parameters of laser irradiation, different shapes of silicon structures were fabricated. The results were obtained with the single laser fluence of 354 mJ/cm, 495 mJ/cm, and 637 mJ/cm, the pulse repetition rate of 10 Hz, the laser exposure pulses of 30, 100, and 300, the laser wavelength of 1064 nm, and the pulse duration of 7-9 ns. The effects of the heat transfer and the radiation of laser interference plasma on silicon wafer surfaces were investigated. The equations of heat flow and radiation effects of laser plasma of interfering patterns in a four-beam laser interference distribution were proposed to describe their impacts on silicon wafer surfaces. The experimental results have shown that the laser fluence has to be properly selected for the fabrication of well-defined surface structures in a four-beam laser interference process. Laser interference patterns can directly fabricate different shape structures for their corresponding applications

Quantum criticality in a generalized Dicke model

We employ a generalized Dicke model to study theoretically the quantum criticality of an extended two-level atomic ensemble interacting with a single-mode quantized light field. Effective Hamiltonians are derived and diagonalized to investigate numerically their eigenfrequencies for different quantum phases in the system. Based on the analysis of the eigenfrequencies, an intriguing quantum-phase transition from a normal phase to a superradiant phase is revealed clearly, which is quite different from that observed with a standard Dicke model.Comment: 6 pages, 3 figure