Desenvolvimento de Pipelines para análise de EST, bibliotecas ITS e 16S para estudos genômicos em formigas Attini

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

An environment for knowledge discovery in biology

This paper describes a data mining environment for knowledge discovery in bioinformatics applications. The system has a generic kernel that implements the mining functions to be applied to input primary databases, with a warehouse architecture, of biomedical information. Both supervised and unsupervised classification can be implemented within the kernel and applied to data extracted from the primary database, with the results being suitably stored in a complex object database for knowledge discovery. The kernel also includes a specific high-performance library that allows designing and applying the mining functions in parallel machines. The experimental results obtained by the application of the kernel functions are reported. © 2003 Elsevier Ltd. All rights reserved.

A transcript finishing initiative for closing gaps in the human transcriptome

We report the results of a transcript finishing initiative, undertaken for the purpose of identifying and characterizing novel human transcripts, in which RT-PCR was used to bridge gaps between paired EST Clusters, mapped against the genomic sequence. Each pair of EST Clusters selected for experimental validation was designated a transcript finishing unit (TFU). A total of 489 TFUs were selected for validation, and an overall efficiency of 43.1% was achieved. We generated a total of 59,975 bp of transcribed sequences organized into 432 exons, contributing to the definition of the structure of 211 human transcripts. The structure of several transcripts reported here was confirmed during the course of this project, through the generation of their corresponding full-length cDNA sequences. Nevertheless, for 21% of the validated TFUs, a full-length cDNA sequence is not yet available in public databases, and the structure of 69.2% of these TFUs was not correctly predicted by computer programs. The TF strategy provides a significant contribution to the definition of the complete catalog of human genes and transcripts, because it appears to be particularly useful for identification of low abundance transcripts expressed in a restricted Set of tissues as well as for the delineation of gene boundaries and alternatively spliced isoforms.

TIME-OPTIMAL GEOMAGNETIC ATTITUDE MANEUVERS OF AN AXISYMMETRICAL SPINNING SATELLITE

A formulation used to determine the time-optimal geomagnetic attitude maneuvers subject to dynamic and geometric constraints is proposed in this paper. This was obtained by a direct search procedure based on a control function parametrization method, using linear programming to obtain numerical suboptimal solutions by linear perturbation. Due to its characteristics it can be used in small computers and to generate computer programs of general application. The dynamic modeling, the magnetic torque model and the suboptimal control procedure are presented. Simulation runs have verified the feasibility of the formulation thus derived and have shown a notable improvement in performance.

Determination of the maximum force due to skull impact in fights between sheep of the Ovis aries species

The present article presents a means of determining the maximum impact force between two bodies from the determination of the involved impulse in the impact and the sound emitted by the shock of the bodies during this impact.It also presents a case study applied to the shock between the skulls of male sheep of the Ovis aries species. These animals do not possess horns and dispute the territorial leadership by fighting, during which the skull is used as a weapon of attack, similar to a battering ram.Initially, a revision of basic physics approaching the theory of impulse is made, which shows that the average force during an impact can be obtained by the quantity of movement of the bodies. In its turn, the quantity of movement is obtained through the average speed of approach and the mass of the bodies. The maximum force is obtained from the average force, using the approach of the Force X Time curve with the Sonorous Intensity X Time Curve.In order to study the case of a shock between two sheep, the mass of the bodies was obtained through direct weighing and the average speed of approach obtained indirectly through filming, thus making possible the calculation of the average force. The Sonorous Intensity X Time Curve was obtained through the recording of the sound of the impact during a filmed fight, with later manipulation through computer programs. With this data the maximum force exercised between the skull of the sheep during the impact was obtained, which will be used in later studies.

Estudo biológico e morfométrico dos estádios ninfais de Rhodnius neglectus Lent, 1954 (Hemiptera, Reduviidae)

The following parameters of the biological cycle of the Rhodnius neglectus were determined under a temperature of 28°C and relative humidity of the air varying between 52-94%: a) average period of incubation: 13.67 days; b) rate of the eggs eclosion: 86.18%; c) average period of growth of the 1st, 2nd, 3rd, 4th, 5th instar nymphs: 18.91, 15.19, 21.38, 21.34, 30.43 days, respectively; d) percentage of death in the instar nymphs: 13.82, 18.26, 9.95, 8.78, 15.06% respectively; e) percentage of changes per instar nymphs: 86.18, 81.74, 90.05, 91.22, 84.94% respectively. The morphometric study with the stereoscopic microscope and Leica image analyses system, using the Qwin software, of the five instar nymphs showed that in the five instar nymphs a gradual growth of the head, thorax and abdomen occurs. In all the instars the abdomen is the largest segment. In the four first instars the head is larger than the thorax. In the fifth instar the head and the thorax present equivalent sizes.

Otimização da distância de extração de madeira com forwarder

The activities and management operations of wood harvesting do not have good computational tools available to help the forest technicians with the task of cost reduction. In many cases, machines of high investment are used in wood harvesting without adequate operation planning; consequently, the cost per hour of these machines, which is high, could be reduced. Using technological resources such as the Geographic Information Systems (GIS) integrated with the Global Positioning System (GPS), which are the basis of precision harvesting. In this research, a technological tool capable of calculating and optimizing the average skidding distance of the forwarder was developed. It was used in stands of different sizes and formats through mathematical techniques and available functionalities in the Geographic Information System GRASS. The developed tool, called optimized model, divides the stand in small parts in relation to shorter skidding distances. The main variable considered was the alignment of plantation. The model was tested in eucalypt stands located in the State of São Paulo. Sixteen stands were randomly selected: eight with a rectangular polygon form, and eight with irregular polygon form. The main variables were collected in these stands. Results showed that the optimized model developed, is efficient and flexible. It was possible to divide the stands in small parts resulting in smaller skidding medium distances. The stands with irregular form had shorter skidding medium distances than the rectangular stands.

Routine libraries for pattern recognition in quasispecies.

The results obtained through biological research usually need to be analyzed using computational tools, since manual analysis becomes unfeasible due to the complexity and size of these results. For instance, the study of quasispecies frequently demands the analysis of several, very lengthy sequences of nucleotides and amino acids. Therefore, bioinformatics tools for the study of quasispecies are constantly being developed due to different problems found by biologists. In the present study, we address the development of a software tool for the evaluation of population diversity in quasispecies. Special attention is paid to the localization of genome regions prone to changes, as well as of possible hot spots.

The use of molecular spectra simulation for diagnostics of reactive flows

The C 2 * radical is used as a system probe tool to the reactive flow diagnostic, and it was chosen due to its large occurrence in plasma and combustion in aeronautics and aerospace applications. The rotational temperatures of C 2 * species were determined by the comparison between experimental and theoretical data. The simulation code was developed by the authors, using C++ language and the object oriented paradigm, and it includes a set of new tools that increase the efficacy of the C 2 * probe to determine the rotational temperature of the system. A brute force approach for the determination of spectral parameters was adopted in this version of the computer code. The statistical parameter c 2 was used as an objective criterion to determine the better match of experimental and synthesized spectra. The results showed that the program works even with low-quality experimental data, typically collected from in situ airborne compact apparatus. The technique was applied to flames of a Bunsen burner, and the rotational temperature of ca. 2100 K was calculated.

The CND-Goiaba 1.0 software for nutritional diagnosis of guava (Psidium guajava L.) 'Paluma', in Brazil

Computer programs enable the transformation of raw data into useful information for decision making in many fields, including agriculture. Various programs have been developed to assist farmers to make better decisions about crop management practices and plant nutrition parameters. This article introduces the CND-Goiaba 1.0 software (C Sharp) and its use as a tool to perform the mathematical calculations involved in determining the compositional nutrient diagnosis (CND) indexes for the guava tree. This program was developed in Brazil, the world's leading producer of red guavas. A database was created based on 205 leaf samples collected in commercial plots (sampling units) of cultivated 'Paluma' guava trees (Psidium guajava L.) with ages between 5 and 20 years, during the 2009-2010 and 2010-2011 growing seasons. The production data were normally distributed according to the Shapiro-Wilk test (W=0.988; p=0.11). The software made it possible to diagnose that 63% of the orchards evaluated needed to improve the nutritional status of their trees. The CND method showed severe nutritional imbalances in Mg and Zn in these orchards. © ISHS.

Cephalometric analysis of prediction tracings: A comparison of three different methods

The purpose of this study was to compare-using cephalometric analysis (McNamara, and Legan and Burstone)-prediction tracings performed using three different methods, that is, manual and using the Dentofacial Planner Plus and Dolphin Image computer programs, with postoperative outcomes. Pre- and postoperative (6 months after surgery) lateral cephalometric radiographs were selected from 25 long-faced patients treated with combined surgery. Prediction tracings were made with each method and compared cephalometrically with the postoperative results. This protocol was repeated once more for method error evaluation. Statistical analysis was made by ANOVA and the Tukey test. The results showed superior predictability when the manual method was applied (50% similarity to postoperative results), followed by Dentofacial Planner Plus (31.2%) and Dolphin Image (18.8%). The experimental condition suggests that the manual method provides greater accuracy, although the predictability of the digital methods proved quite satisfactory. © 2013 World Federation of Orthodontists.

Desenvolvimento de aplicativo para o método de discriminação de Fisher e seu uso na experimentação agronômica: Carlos Roberto Pereira Padovani. -

Pós-graduação em Agronomia (Energia na Agricultura) - FCA

Avaliação qualitativa e quantitativa do reparo ósseo por imagens processadas pelos programas ImageJ e ODR

Pós-graduação em Ciência Animal - FMVA

A contribuição de uma ferramenta na realização de uma experiência em educação virtual para o ensino fundamental com algumas escolas locais

Pós-graduação em Geografia - IGCE