Molecular Dynamics simulations of track formation at different ensembles

A series of Molecular Dynamics simulations of thermal spikes has been run in zircon. For two different ensembles: microcanonical one and a combination of microcanonical one acting on the simulation core with Langevin one on the side walls of simulation. Depending on the used ensemble, different track-formation threshold energies were found. When the combined ensemble is carried out, the total energy of the simulations varies with the temperature which can influence how annealing fission-track models should deal with the lattice recovery. A fission-track annealing model is tested with the simulation results. © 2012 Elsevier Ltd. All rights reserved.

Mathematical analysis and simulations involving chemotherapy and surgery on large human tumours under a suitable cell-kill functional response

Dosage and frequency of treatment schedules are important for successful chemotherapy. However, in this work we argue that cell-kill response and tumoral growth should not be seen as separate and therefore are essential in a mathematical cancer model. This paper presents a mathematical model for sequencing of cancer chemotherapy and surgery. Our purpose is to investigate treatments for large human tumours considering a suitable cell-kill dynamics. We use some biological and pharmacological data in a numerical approach, where drug administration occurs in cycles (periodic infusion) and surgery is performed instantaneously. Moreover, we also present an analysis of stability for a chemotherapeutic model with continuous drug administration. According to Norton & Simon [22], our results indicate that chemotherapy is less eficient in treating tumours that have reached a plateau level of growing and that a combination with surgical treatment can provide better outcomes.

Thermal phase transition for some spin-boson models

In this work we study two different spin-boson models. Such models are generalizations of the Dicke model, it means they describe systems of N identical two-level atoms coupled to a single-mode quantized bosonic field, assuming the rotating wave approximation. In the first model, we consider the wavelength of the bosonic field to be of the order of the linear dimension of the material composed of the atoms, therefore we consider the spatial sinusoidal form of the bosonic field. The second model is the Thompson model, where we consider the presence of phonons in the material composed of the atoms. We study finite temperature properties of the models using the path integral approach and functional methods. In the thermodynamic limit, N→∞, the systems exhibit phase transitions from normal to superradiant phase at some critical values of temperature and coupling constant. We find the asymptotic behavior of the partition functions and the collective spectrums of the systems in the normal and the superradiant phases. We observe that the collective spectrums have zero energy values in the superradiant phases, corresponding to the Goldstone mode associated to the continuous symmetry breaking of the models. Our analysis and results are valid in the limit of zero temperature β→∞, where the models exhibit quantum phase transitions. © 2013 Elsevier B.V. All rights reserved.

Assembling a xylanase-lichenase chimera through all-atom molecular dynamics simulations

Multifunctional enzyme engineering can improve enzyme cocktails for emerging biofuel technology. Molecular dynamics through structure-based models (SB) is an effective tool for assessing the tridimensional arrangement of chimeric enzymes as well as for inferring the functional practicability before experimental validation. This study describes the computational design of a bifunctional xylanase-lichenase chimera (XylLich) using the xynA and bglS genes from Bacillus subtilis. In silico analysis of the average solvent accessible surface area (SAS) and the root mean square fluctuation (RMSF) predicted a fully functional chimera, with minor fluctuations and variations along the polypeptide chains. Afterwards, the chimeric enzyme was built by fusing the xynA and bglS genes. XylLich was evaluated through small-angle X-ray scattering (SAXS) experiments, resulting in scattering curves with a very accurate fit to the theoretical protein model. The chimera preserved the biochemical characteristics of the parental enzymes, with the exception of a slight variation in the temperature of operation and the catalytic efficiency (k cat/Km). The absence of substantial shifts in the catalytic mode of operation was also verified. Furthermore, the production of chimeric enzymes could be more profitable than producing a single enzyme separately, based on comparing the recombinant protein production yield and the hydrolytic activity achieved for XylLich with that of the parental enzymes. © 2013 Elsevier B.V. All rights reserved.

Micro-inverter for integrated grid-tie photovoltaic module using resonant controller

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Inferring a weighted elastic network from partial unfolding with coarse-grained simulations

A number of studies have demonstrated that simple elastic network models can reproduce experimental B-factors, providing insights into the structure-function properties of proteins. Here, we report a study on how to improve an elastic network model and explore its performance by predicting the experimental B-factors. Elastic network models are built on the experimental C coordinates, and they only take the pairs of C atoms within a given cutoff distance r(c) into account. These models describe the interactions by elastic springs with the same force constant. We have developed a method based on numerical simulations with a simple coarse-grained force field, to attribute weights to these spring constants. This method considers the time that two C atoms remain connected in the network during partial unfolding, establishing a means of measuring the strength of each link. We examined two different coarse-grained force fields and explored the computation of these weights by unfolding the native structures. Proteins 2014; 82:119-129. (c) 2013 Wiley Periodicals, Inc.

Finite-time synchronization of tunnel-diode-based chaotic oscillators

This paper addresses the problem of finite-time synchronization of tunnel diode based chaotic oscillators. After a brief investigation of its chaotic dynamics, we propose an active adaptive feedback coupling which accomplishes the synchronization of tunnel-diode-based chaotic systems with and without the presence of delay(s), basing ourselves on Lyapunov and on Krasovskii-Lyapunov stability theories. This feedback coupling could be applied to many other chaotic systems. A finite horizon can be arbitrarily established by ensuring that chaos synchronization is achieved at a pre-established time. An advantage of the proposed feedback coupling is that it is simple and easy to implement. Both mathematical investigations and numerical simulations followed by PSPICE experiment are presented to show the feasibility of the proposed method.

Measuring Quantum Capacitance in Energetically Addressable Molecular Layers

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Light-emitting diode effects on combined decellularization of tracheae. A novel approach to obtain biological scaffolds

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

CCDM model from quantum particle creation: constraints on dark matter mass

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Entropy effect in quantum computing and information: an open-source environment simulation

The technologies are rapidly developing, but some of them present in the computers, as for instance their processing capacity, are reaching their physical limits. It is up to quantum computation offer solutions to these limitations and issues that may arise. In the field of information security, encryption is of paramount importance, being then the development of quantum methods instead of the classics, given the computational power offered by quantum computing. In the quantum world, the physical states are interrelated, thus occurring phenomenon called entanglement. This study presents both a theoretical essay on the merits of quantum mechanics, computing, information, cryptography and quantum entropy, and some simulations, implementing in C language the effects of entropy of entanglement of photons in a data transmission, using Von Neumann entropy and Tsallis entropy.

Técnica do Grupo de Renormalização Numérico (GRN) aplicada em quantum dots

Pós-graduação em Física - IGCE

Influence of mobility models in precision spray aided by wireless sensor networks

Precision Spray is a technique to increase performance of Precision Agriculture. This spray technique may be aided by a Wireless Sensor Network, however, for such approach, the communication between the agricultural input applicator vehicle and network is critical due to its proper functioning. Thus, this work analyzes how the number of nodes in a wireless sensor network, its type of distribution and different areas of scenario affects the performance of communication. We performed simulations to observe system's behavior changing to find the most fitted non-controlled mobility model to the system.

Search for resonances and quantum black holes using dijet mass spectra in proton-proton collisions at root s=8 TeV

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

The spin-orbit resonant problem including core-mantle gravitational coupling

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)