Aplicação de técnicas de aprendizado de máquina no reconhecimento de classes estruturais de proteínas

Nowadays, classifying proteins in structural classes, which concerns the inference of patterns in their 3D conformation, is one of the most important open problems in Molecular Biology. The main reason for this is that the function of a protein is intrinsically related to its spatial conformation. However, such conformations are very difficult to be obtained experimentally in laboratory. Thus, this problem has drawn the attention of many researchers in Bioinformatics. Considering the great difference between the number of protein sequences already known and the number of three-dimensional structures determined experimentally, the demand of automated techniques for structural classification of proteins is very high. In this context, computational tools, especially Machine Learning (ML) techniques, have become essential to deal with this problem. In this work, ML techniques are used in the recognition of protein structural classes: Decision Trees, k-Nearest Neighbor, Naive Bayes, Support Vector Machine and Neural Networks. These methods have been chosen because they represent different paradigms of learning and have been widely used in the Bioinfornmatics literature. Aiming to obtain an improvment in the performance of these techniques (individual classifiers), homogeneous (Bagging and Boosting) and heterogeneous (Voting, Stacking and StackingC) multiclassification systems are used. Moreover, since the protein database used in this work presents the problem of imbalanced classes, artificial techniques for class balance (Undersampling Random, Tomek Links, CNN, NCL and OSS) are used to minimize such a problem. In order to evaluate the ML methods, a cross-validation procedure is applied, where the accuracy of the classifiers is measured using the mean of classification error rate, on independent test sets. These means are compared, two by two, by the hypothesis test aiming to evaluate if there is, statistically, a significant difference between them. With respect to the results obtained with the individual classifiers, Support Vector Machine presented the best accuracy. In terms of the multi-classification systems (homogeneous and heterogeneous), they showed, in general, a superior or similar performance when compared to the one achieved by the individual classifiers used - especially Boosting with Decision Tree and the StackingC with Linear Regression as meta classifier. The Voting method, despite of its simplicity, has shown to be adequate for solving the problem presented in this work. The techniques for class balance, on the other hand, have not produced a significant improvement in the global classification error. Nevertheless, the use of such techniques did improve the classification error for the minority class. In this context, the NCL technique has shown to be more appropriated

General solutions for some classes of interacting two field kinks

In this work we present some classes of models whose the corresponding two coupled first-order nonlinear equations can be put into a linear form, and consequently be solved completely. In these cases the so-called trial orbit method is completely unnecessary. We recall that some physically important models as, for instance, the problem of tiling a plane with a network of defects and polymer properties are in this class of models. (c) 2005 Elsevier B.V. All rights reserved.

Família e subjetividade: tendências e particularidades das classes trabalhadoras no capitalismo contemporâneo

This work problematizes the inflections of the offensive of the capital on the work, having as a social-historical context the relation between the productive restructuring and the social reproduction of the working families classes. Part of the presupposition that the reproduction of the capital, to raise deep transformations in the productions, organization of the work and in the social relationships, it also produces determinations in the life and work conditions, in the affectionate relationships and in the family coexistence expressing, so, a subjective way. Thereby, the conditions of reproductions of the work in the scenery aimed by the contemporary capitalism have been demonstrating the crescent impoverishment of the workers, the alimentary insecurity, the shortage of the work, the weakness of the political organization and the regression of the State in the conduction of public policy that characterize the daily violation of human and social rights. In this approach, we seek to contemplate the several configurations of affectionate-sexual coexistence expressed by the family, articulating it to the contemporary work division, pondering about the forms of satisfaction of the needs engendered by the group for preservation of their bonds, in face to the daily adversity which translates to the growing responsibility to assist social d mands and in the impediments to the enrichment of the individuality and human diversity.

Ofensiva do Capital e Desmobilização das Forças do Trabalho: As Estratégias Gerenciais Burguesas para a Desarticulação das Classes Trabalhadoras

The problematic that gives shape to this research is the question of the historical process of demobilization of the movement of the working classes in your accented contemporary moment. Their object of study, however, and that it particularizes, it relates to a portion this problematic; it relates to set of determinations that comprise a broader set of determinations of this historical process: it is a set of determinations forged and mediated by bourgeois strategies of management for the conformation of the circumstances necessary for the domination and for the conduct of labor force on operations in work processes for the production of surplus value. What we investigated are, because, the strategies of disarticulation that the bourgeoisie utilizes, under the mantle of subsidies conceptual and interventive of its management of work processes and the sieve of class struggles, to obstruct the union of workers; hamper the movements proletarians. Managerial strategies that intentionally or unintentionally, instill in the social relations of production means to produce and reproduce, activate and reactivate conditions of incitement of individualism and competition between the workers themselves. We shall see, thus, by analyzing means, centrally, from some of the fundamentals of disarticulation in the managerial strategies bourgeois and some of the fundamental strategies of management bourgeois hegemonized with the restructuring productive of 1970, that the disarticulation, and also the demobilization, is a concrete condition, is an objective condition, that is beyond a question that can be "solved" only by enlightenment cognitive, only by formation criticism intellectual. In everyday of the work spaces permeated by managerial strategies bourgeois there elements, then, operating as a material force putting difficulties important for the articulation of the workers, the solidarity of the proletariat; elements that constitute obstacle significant to an awareness of class and belonging; elements act in favor of the atomization of the worker - even if engenders, in the same process, as a contradiction, potentiality of resistance and fight the forces of labor

The Interval Constructor on classes of ML-algebras

Monoidal logic, ML for short, which formalized the fuzzy logics of continuous t-norms and their residua, has arisen great interest, since it has been applied to fuzzy mathematics, artificial intelligence, and other areas. It is clear that fuzzy logics basically try to represent imperfect or fuzzy information aiming to model the natural human reasoning. On the other hand, in order to deal with imprecision in the computational representation of real numbers, the use of intervals have been proposed, as it can guarantee that the results of numerical computation are in a bounded interval, controlling, in this way, the numerical errors produced by successive roundings. There are several ways to connect both areas; the most usual one is to consider interval membership degrees. The algebraic counterpart of ML is ML-algebra, an interesting structure due to the fact that by adding some properties it is possible to reach different classes of residuated lattices. We propose to apply an interval constructor to ML-algebras and some of their subclasses, to verify some properties within these algebras, in addition to the analysis of the algebraic aspects of them

On Fuzzy Implication Classes - Towards Extensions of Fuzzy Rule-Based Systems

Atualmente, há diferentes definições de implicações fuzzy aceitas na literatura. Do ponto de vista teórico, esta falta de consenso demonstra que há discordâncias sobre o real significado de "implicação lógica" nos contextos Booleano e fuzzy. Do ponto de vista prático, isso gera dúvidas a respeito de quais "operadores de implicação" os engenheiros de software devem considerar para implementar um Sistema Baseado em Regras Fuzzy (SBRF). Uma escolha ruim destes operadores pode implicar em SBRF's com menor acurácia e menos apropriados aos seus domínios de aplicação. Uma forma de contornar esta situação e conhecer melhor os conectivos lógicos fuzzy. Para isso se faz necessário saber quais propriedades tais conectivos podem satisfazer. Portanto, a m de corroborar com o significado de implicação fuzzy e corroborar com a implementação de SBRF's mais apropriados, várias leis Booleanas têm sido generalizadas e estudadas como equações ou inequações nas lógicas fuzzy. Tais generalizações são chamadas de leis Boolean-like e elas não são comumente válidas em qualquer semântica fuzzy. Neste cenário, esta dissertação apresenta uma investigação sobre as condições suficientes e necessárias nas quais três leis Booleanlike like — y ≤ I(x, y), I(x, I(y, x)) = 1 e I(x, I(y, z)) = I(I(x, y), I(x, z)) — se mantém válidas no contexto fuzzy, considerando seis classes de implicações fuzzy e implicações geradas por automorfismos. Além disso, ainda no intuito de implementar SBRF's mais apropriados, propomos uma extensão para os mesmos

O uso da representação cartográfica e a cartofobia: analisando a prática e a formação inicial docente na Geografia do ensino público em Teresina-PI

This word has objective to analyzer the relevance of the use of the cartographic representations, in the constructions of the geographical knowledge, during the process of the teaching-learning in the classes of the Geographic of the High School, drawing liam with the formation docent of the regulars courses of teacher training in the regular courses of Degree in Geography. Delimit is the area of empiric search to College State Zacarias de Goes (CEZG) Liceu Piauiense, and to regulars courses of Degree in Geography of the University Federal of the Piauí (UFPI) and University State of the Piauí (UESPI), educational institutions of the public network, located in the city of the Teresina Piauí. Expression of the problematic searched is gaps to been demystified on the vision cartofógica, when has reference to use of the cartographic representations, in the practice, and the initial formation docent in the Geography. To analyze the dynamics of the use of the cartographic resources, tried demystify the Cartography while of the space during the teaching of discipline Geography. So, the lyam with the initial formation in the begree search understand the impasses of construction to academic know and the possibilities of the didactic transposition to the restructure of the know scholar to teacher who works in the Geography, trying to make the teaching of this discipline more interesting and value

Genetic diversity of three size classes of seeds of Eucalyptus globulus ssp. globulus

Variation in seed size is often observed in samples of eucalypt seeds and this leads to heterogeneous populations of plants, principally through variation in the early stages of plant development. It follows that samples of seeds more uniform in size could produce more uniform populations of plants. In studies of Eucalyptus globulus ssp. globulus it was of interest to determine whether or not the genetic diversity within a population, through the use of isozyme markers, was altered in the subpopulations developed from seeds of different size classes. A commercial sample of seed was separated by seed size into three subpopulations and the percentage germination and mean fresh weight of the seedlings were determined. Proteins extracted from leaves of the seedlings were separated by electrophoresis and tested for activity of eight different enzymes. These eight enzymes showed activity at 20 loci and mean genetic diversity and fixation index were determined using 13 of these loci. The subpopulation of the smallest seeds contained a greater proportion of abnormal seeds and had a lower percentage germination and plant weight compared to the other subpopulations. No significant differences were found in the number of alleles per locus, percentage of polymorphic loci, mean heterozygosity. The major part of the endogamy, indicated by F statistic, was found within the subpopulations: F-(IS) = 0.518; F-(ST) = 0.010 and F(IT) = 0.523. We conclude that the use of seeds of uniform size will lead to more uniform germination and plant growth without alteration in overall genetic diversity.

Chromosomal Variability among Allopatric Populations of Erythrinidae Fish Hoplias malabaricus: Mapping of Three Classes of Repetitive DNAs

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

Molecular Characterization and Physical Mapping of Two Classes of 5S rDNA in the Genomes of Gymnotus sylvius and G. inaequilabiatus (Gymnotiformes, Gymnotidae)

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Caracterização das glândulas mandibulares nas diferentes classes de adultos de Scaptotrigona postica Latreille (Hymenoptera: Apidae)

As glândulas mandibulares de operárias recém-emergidas, nutridoras e campeiras, rainhas virgens e fisogástricas, e machos maduros de Scaptotrigona postica Latreille foram estudadas histológica e morfometricamente. Estas glândulas apresentam diferenças histológicas características para cada idade e/ou função do indivíduo. de acordo com a morfometria conclui-se que as glândulas mandibulares possuem um ciclo secretor determinado, no qual a secreção começa a ser produzida nas operárias recém-emergidas, e acumula-se no citoplasma e reservatório da glândula das operárias nutridoras. Nas operárias campeiras o citoplasma encontra-se bastante vacuolizado, o que foi interpretado como resultado da eliminação da secreção. Rainhas fisogástricas apresentaram as maiores áreas celulares e nucleares, ao oposto dos machos, os quais apresentaram as menores áreas.

Losing identity: structural diversity of transposable elements belonging to different classes in the genome of Anopheles gambiae

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Phase Transition in Dynamical Systems: Defining Classes of Universality for Two-Dimensional Hamiltonian Mappings via Critical Exponents

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Pressão de preconsolidação como ferramenta de análise da sustentabilidade estrutural de classes de solos com diferentes usos

O principal problema ambiental causado pelo uso do solo em áreas de preservação permanente longitudinais aos rios é a supressão da mata ciliar. O tipo e a intensidade desse uso alteram a estrutura do solo e comprometem as funções físicas dessas áreas, principalmente próximo aos cursos d'água. O objetivo deste trabalho foi avaliar a sustentabilidade estrutural, a partir do ensaio de compressão uniaxial, de três classes de solo (Cambissolo Háplico, Argissolo Amarelo e Gleissolo Háplico) e o impacto de diferentes tipos de usos do solo - não permitido pela legislação ambiental - de áreas de preservação permanente na sub-bacia do rio Ribeira de Iguape, SP. Foram delimitadas na área experimental três classes de solo: Cambissolo, Argissolo e Gleissolo. Numa primeira etapa, compararam-se as três classes de solos sob mata nativa e sob pastagem. Na segunda, avaliou-se a influência de diferentes tipos de uso do solo - cultivo de banana, pastagem degradada, uso silvipastoril e mata nativa - sobre a estrutura de um Cambissolo. A pressão de preconsolidação mostrou-se ferramenta capaz de identificar a degradação nos solos. O uso do solo nas áreas de preservação permanente altera a pressão de preconsolidação do solo, causando sua degradação estrutural, colocando em risco a sustentabilidade das terras, e não deve ser permitido. O Gleissolo mostrou maiores valores de pressão de preconsolidação em função de teores crescentes de água e, portanto, maior capacidade de suporte de carga em relação ao Cambissolo e Argissolo. O cultivo de banana foi o tipo de uso que mais degradou os solos das áreas de preservação permanente.

Classes sucessionais e síndromes de dispersão de espécie arbóreas e arbustivas existentes em vegetação ciliar remanescente (Conchal, SP), como subsídio para avaliar o potencial do fragmento como fonte de propágulos para enriquecimento de áreas revegetadas no Rio Mogi-Guaçu, SP

Este estudo foi realizado em fragmento de vegetação ciliar remanescente, localizado à margem direita do rio Mogi-Guaçu, Município de Conchal, SP, tendo como objetivo a avaliação do potencial desse fragmento como fonte de propágulos para projetos de enriquecimento em áreas ciliares implantadas na região de Mogi-Guaçu, SP. Para tanto, foi realizada a caracterização sucessional e da síndrome de dispersão das espécies arbóreas e arbustivas. No local, foram registradas 99 espécies arbóreas e arbustivas, pertencentes a 38 famílias. As famílias com maior número de espécies foram Euphorbiaceae, Fabaceae, Myrtaceae e Rubiaceae. Quanto aos grupos sucessionais, foi verificado equilíbrio na quantidade de espécies secundárias tardias (28,3%) e daquelas típicas de sub-bosque (23,2%). A síndrome de dispersão predominante entre as espécies arbóreas e arbustivas foi a zoocoria, identificada em 64,6% delas, seguida pela anemocoria, que representou 20,2% dos casos. Os resultados gerais apontaram o bom estado de conservação desse fragmento e a viabilidade de sua utilização como fonte de propágulos para ações de revegetação em áreas ciliares da região.