Improvements in the score matrix calculation method using parallel score estimating algorithm

The increasing amount of sequences stored in genomic databases has become unfeasible to the sequential analysis. Then, the parallel computing brought its power to the Bioinformatics through parallel algorithms to align and analyze the sequences, providing improvements mainly in the running time of these algorithms. In many situations, the parallel strategy contributes to reducing the computational complexity of the big problems. This work shows some results obtained by an implementation of a parallel score estimating technique for the score matrix calculation stage, which is the first stage of a progressive multiple sequence alignment. The performance and quality of the parallel score estimating are compared with the results of a dynamic programming approach also implemented in parallel. This comparison shows a significant reduction of running time. Moreover, the quality of the final alignment, using the new strategy, is analyzed and compared with the quality of the approach with dynamic programming.

Moderating effect of ammonia on particle growth and stability of quasi-monodisperse silver nanoparticles synthesized by the Turkevich method

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

LaNiO3 nanotubes produced using a template-assisted method

We have studied the experimental conditions needed to produce LaNiO3 (LNO) nanostructures using a template-assisted method. In this route, a mesoporous anodic aluminum oxide template was filled with a chemical solution that had been prepared with polymeric precursors route. The precursor solutions and synthesized samples were characterized by X-ray diffraction (XRD), thermogravimetric analysis, infrared spectroscopy and high-resolution scanning electron microscopy (HRSEM). The XRD results for the samples that were heat-treated at 700 degrees C revealed that these samples crystallize in a perovskite-like LaNiO3 structure. HRSEM images revealed that the samples prepared with different deposition times (0.5, 1 and 2 h) promoted the formation of LaNiO3 nanotubes with different wall thicknesses.

Application of the finite element method in Dentistry

The finite element method (FEM) involves a series of computational procedures to calculate the stress in each element, which performs a model solution. Such a structural analysis allows the determination of stress resulting from external force, pressure, thermal change, and other factors. This method is extremely useful for indicating mechanical aspects of biomaterials and human tissues that can hardly be measured in vivo. The results obtained can then be studied using visualization software within the FEM environment to view a variety of parameters, and to fully identify implications of the analysis. Objective: An overview to show application of FEM in dentistry was undertaken. Literature review: This paper shows the basic concept, advances, advantages, limitations and applications of finite element method (FEM) in dentistry. Conclusion: It is extremely important to verify what the purpose of the study is in order to correctly apply FEM.

Comparative clinical sample preparation of DNA and RNA viral nucleic acids for a commercial deep sequencing system (Illumina MiSeq (R))

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

Hormesis method for increasing oat straw with a view to viability of direct-seeding systems

In conservation agriculture, mainly under direct seeding, maintaining the vegetation ground cover is essential, since this serves as a reservoir of nutrients which are slowly released to plants by microorganisms. Some authors have sought to study increases in the amount of straw in the soil, in addition to slowing down the process of decomposition, with hormesis being one of the techniques used. This technique states that all chemical substances are both poisonous and nonpoisonous, with only the dosage determining whether they are lethal or not. This study aimed to evaluate the dry weight and agronomic characteristics of a crop of black oat subjected to hormesis. The experimental design was of randomised blocks, with 12 treatments and 4 replications, giving a total of 48 experimental lots. The treatments were: Haloxyfop-R Methyl Ester at dosages of 0.625, 1.25 and 2.50 g ha(-1); Glyphosate at dosages of 12.50, 25.00 and 50.00 g ha-1; 2,4-D dimethylamine salt at dosages of 100.00, 200.00 and 300.00 g ha(-1); Alterbane at a dosage of 500.00 g ha(-1); Salicylic acid at a dose of 100 g ha(-1); and a control. It was concluded that for the subdosages under test, the herbicides 2,4-D at medium dosage and Verdict at low dosage were shown to be the best treatments for conserving straw as ground cover under direct seeding.

Maize leaf phytotoxicity and grain yield are affected by nitrogen source and application method

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Rapid and sensitive ultra-high-pressure liquid chromatography method for quantification of antichagasic benznidazole in plasma: application in a preclinical pharmacokinetic study

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

Search for a standard model Higgs boson produced in association with a top-quark pair and decaying to bottom quarks using a matrix element method

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Rapid preparation of (BiO)(2)CO3 nanosheets by microwave-assisted hydrothermal method with promising photocatalytic activity under UV-Vis light

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

An easy method of preparing ozone gas sensors based on ZnO nanorods

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Validation of high-performance liquid chromatographic method for analysis of fluconazole in microemulsions and liquid crystals

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

Synthesis of Bi-based superconductor by microwave-assisted hydrothermal method

In this work we studied the synthesis of BSCCO-2212 superconducting phase associating a quite similar method developed by Pechini with the microwave-assisted hydrothermal method. To study the influence of the microwaves on the properties of BSCCO system, we synthesized two samples by such method. For one sample we used carbonates and for the other one we used nitrates as chemical reagents. We also produced a reference sample just using carbonates by Pechini's method to compare their morphological and superconducting properties. The structural properties of the samples were analyzed by scanning electron microscopy and X-ray diffraction. The Bi-2212 phase is predominant in all samples and despites the nitrates-like sample has a broader distribution of grain size in comparison with the reference sample, its magnetic behaviour is closer to that presented by the reference one.

Using the Ferrenberg-Swendsen Monte Carlo method for nonuniversal exponents

We use the method of Monte Carlo evolution in the coupling constant space of Ferrenberg and Swendsen to evaluate the nonuniversal exponent η* associated to a linear defect in a 2d Ising model. © 1989.

Prediction of crude protein digestibility of animal by-product meals for dogs by the protein solubility in pepsin method

Animal by-product meals have large variability in crude protein (CP) content and digestibility. In vivo digestibility procedures are precise but laborious, and in vitro methods could be an alternative to evaluate and classify these ingredients. The present study reports prediction equations to estimate the CP digestibility of meat and bone meal (MBM) and poultry by-product meal (PM) using the protein solubility in pepsin method (PSP). Total tract CP digestibility of eight MBM and eight PM samples was determined in dogs by the substitution method. A basal diet was formulated for dog maintenance, and sixteen diets were produced by mixing 70 % of the basal diet and 30 % of each tested meal. Six dogs per diet were used to determine ingredient digestibility. In addition, PSP of the MBM and PM samples was determined using three pepsin concentrations: 0·02, 0·002 and 0·0002 %. The CP content of MBM and PM ranged from 39 to 46 % and 57 to 69 %, respectively, and their mean CP digestibility by dogs was 76 (2·4) and 85 (2·6) %, respectively. The pepsin concentration with higher Pearson correlation coefficients with the in vivo results were 0·0002 % for MBM (r 0·380; P = 0·008) and 0·02 % for PM (r 0·482; P = 0·005). The relationship between the in vivo and in vitro results was better explained by the following equations: CP digestibility of MBM = 61·7 + 0·2644 × PSP at 0·0002 % (P = 0·008; R (2) 0·126); and CP digestibility of PM = 54·1 + 0·3833 × PSP at 0·02 % (P = 0·005; R (2) 0·216). Although significant, the coefficients of determination were low, indicating that the models were weak and need to be used with caution.