Automatic classification of enzyme family in protein annotation

Most of the tasks in genome annotation can be at least partially automated. Since this annotation is time-consuming, facilitating some parts of the process - thus freeing the specialist to carry out more valuable tasks - has been the motivation of many tools and annotation environments. In particular, annotation of protein function can benefit from knowledge about enzymatic processes. The use of sequence homology alone is not a good approach to derive this knowledge when there are only a few homologues of the sequence to be annotated. The alternative is to use motifs. This paper uses a symbolic machine learning approach to derive rules for the classification of enzymes according to the Enzyme Commission (EC). Our results show that, for the top class, the average global classification error is 3.13%. Our technique also produces a set of rules relating structural to functional information, which is important to understand the protein tridimensional structure and determine its biological function. © 2009 Springer Berlin Heidelberg.

Evaluación de las metodologías de enseñanza-aprendizaje de la bioética en las facultades de odontología Brasileñas

Introduction. Bioethics is present in Dentistry and other health areas, as scientific research that results on profession progress, as in proper clinical attendance. The study consists on valuation of teaching-learning methods of Bioethical on Brazilian Dental Schools. Materials and methods. Data collect occurred by semi-structured questioners send by e-mail and correspondence. It was realized descriptive analysis of quantitative answers, and for qualitative answers, it was used content analysis, by categorical analysis technique in according to Bardin. Results. Among 182 Dental Schools actives in Brazil, only 57 (31.3%) showed bioethical discipline in its curricular grid. It was observed the discipline is teaching on theoretical form (77.8%). Principal forms of evaluation are: writing prove (100%) and seminaries (75%). Just 6.4% of professors use bibliographic references about bioethical faced to Odontology specifically. The majority of interviewed person (74.2%) considered that bioethics is related on the direct and indirect form with all others disciplines. In relation to importance of Bioethical on dental surgeon formation, 64.7% emphasized it in professional-patient relation. Conclusion. The Bioethics show teaching and practice method of conserver evaluation, and so, it's necessary others methods directed to reflection of actual problems in odontology area that contribute significantly on integral formation of dental surgeon. © Viguera Editores SL 2009.

Robust and fast vowel recognition using optimum-path forest

The applications of Automatic Vowel Recognition (AVR), which is a sub-part of fundamental importance in most of the speech processing systems, vary from automatic interpretation of spoken language to biometrics. State-of-the-art systems for AVR are based on traditional machine learning models such as Artificial Neural Networks (ANNs) and Support Vector Machines (SVMs), however, such classifiers can not deal with efficiency and effectiveness at the same time, existing a gap to be explored when real-time processing is required. In this work, we present an algorithm for AVR based on the Optimum-Path Forest (OPF), which is an emergent pattern recognition technique recently introduced in literature. Adopting a supervised training procedure and using speech tags from two public datasets, we observed that OPF has outperformed ANNs, SVMs, plus other classifiers, in terms of training time and accuracy. ©2010 IEEE.

New trends in musical genre classification using optimum-path forest

Musical genre classification has been paramount in the last years, mainly in large multimedia datasets, in which new songs and genres can be added at every moment by anyone. In this context, we have seen the growing of musical recommendation systems, which can improve the benefits for several applications, such as social networks and collective musical libraries. In this work, we have introduced a recent machine learning technique named Optimum-Path Forest (OPF) for musical genre classification, which has been demonstrated to be similar to the state-of-the-art pattern recognition techniques, but much faster for some applications. Experiments in two public datasets were conducted against Support Vector Machines and a Bayesian classifier to show the validity of our work. In addition, we have executed an experiment using very recent hybrid feature selection techniques based on OPF to speed up feature extraction process. © 2011 International Society for Music Information Retrieval.

Automatic classification of fish germ cells through optimum-path forest

The spermatogenesis is crucial to the species reproduction, and its monitoring may shed light over some important information of such process. Thus, the germ cells quantification can provide useful tools to improve the reproduction cycle. In this paper, we present the first work that address this problem in fishes with machine learning techniques. We show here how to obtain high recognition accuracies in order to identify fish germ cells with several state-of-the-art supervised pattern recognition techniques. © 2011 IEEE.

Automatic segmentation of the secondary austenite-phase island precipitates in a superduplex stainless steel weld metal

Duplex and superduplex stainless steels are class of materials of a high importance for engineering purposes, since they have good mechanical properties combination and also are very resistant to corrosion. It is known as well that the chemical composition of such steels is very important to maintain some desired properties. In the past years, some works have reported that γ 2 precipitation improves the toughness of such steels, and its quantification may reveals some important information about steel quality. Thus, we propose in this work the automatic segmentation of γ 2 precipitation using two pattern recognition techniques: Optimum-Path Forest (OPF) and a Bayesian classifier. To the best of our knowledge, this if the first time that machine learning techniques are applied into this area. The experimental results showed that both techniques achieved similar and good recognition rates. © 2012 Taylor & Francis Group.

Fast robot voice interface through optimum-path forest

Voice-based user interfaces have been actively pursued aiming to help individuals with motor impairments, providing natural interfaces to communicate with machines. In this work, we have introduced a recent machine learning technique named Optimum-Path Forest (OPF) for voice-based robot interface, which has been demonstrated to be similar to the state-of-the-art pattern recognition techniques, but much faster. Experiments were conducted against Support Vector Machines, Neural Networks and a Bayesian classifier to show the OPF robustness. The proposed architecture provides high accuracy rates allied with low computational times. © 2012 IEEE.

Intrusion detection in computer networks using optimum-path forest clustering

Nowadays, organizations face the problem of keeping their information protected, available and trustworthy. In this context, machine learning techniques have also been extensively applied to this task. Since manual labeling is very expensive, several works attempt to handle intrusion detection with traditional clustering algorithms. In this paper, we introduce a new pattern recognition technique called Optimum-Path Forest (OPF) clustering to this task. Experiments on three public datasets have showed that OPF classifier may be a suitable tool to detect intrusions on computer networks, since it outperformed some state-of-the-art unsupervised techniques. © 2012 IEEE.

Aprendizado de máquina simbólico e técnicas fractais para caracterizar rejeição em biópsia miocárdica

This work combines symbolic machine learning and multiscale fractal techniques to generate models that characterize cellular rejection in myocardial biopsies and that can base a diagnosis support system. The models express the knowledge by the features threshold, fractal dimension, lacunarity, number of clusters, spatial percolation and percolation probability, all obtained with myocardial biopsies processing. Models were evaluated and the most significant was the one generated by the C4.5 algorithm for the features spatial percolation and number of clusters. The result is relevant and contributes to the specialized literature since it determines a standard diagnosis protocol. © 2013 Springer.

Genome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approach

Background: Meat quality involves many traits, such as marbling, tenderness, juiciness, and backfat thickness, all of which require attention from livestock producers. Backfat thickness improvement by means of traditional selection techniques in Canchim beef cattle has been challenging due to its low heritability, and it is measured late in an animal's life. Therefore, the implementation of new methodologies for identification of single nucleotide polymorphisms (SNPs) linked to backfat thickness are an important strategy for genetic improvement of carcass and meat quality.Results: The set of SNPs identified by the random forest approach explained as much as 50% of the deregressed estimated breeding value (dEBV) variance associated with backfat thickness, and a small set of 5 SNPs were able to explain 34% of the dEBV for backfat thickness. Several quantitative trait loci (QTL) for fat-related traits were found in the surrounding areas of the SNPs, as well as many genes with roles in lipid metabolism.Conclusions: These results provided a better understanding of the backfat deposition and regulation pathways, and can be considered a starting point for future implementation of a genomic selection program for backfat thickness in Canchim beef cattle. © 2013 Mokry et al.; licensee BioMed Central Ltd.

Estimativa da radiação solar ultravioleta em Botucatu/SP Brasil utilizando técnicas de aprendizado de máquina

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

Leitura de O boy da via láctea de Regina Chamlian: por uma 8ª série do Ensino Fundamental

Pós-graduação em Educação - FFC

Elaboração e avaliação de um ambiente virtual para o ensino/aprendizagem de embriologia

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

Analisando a determinação sexual de vertebrados com base em redes de interação entre proteínas

Pós-graduação em Ciências Biológicas (Genética) - IBB

Conversão grafema-fone para um sistema de reconhecimento de voz com suporte a grandes vocabulários para o português brasileiro

O processamento de voz tornou-se uma tecnologia cada vez mais baseada na modelagem automática de vasta quantidade de dados. Desta forma, o sucesso das pesquisas nesta área está diretamente ligado a existência de corpora de domínio público e outros recursos específicos, tal como um dicionário fonético. No Brasil, ao contrário do que acontece para a língua inglesa, por exemplo, não existe atualmente em domínio público um sistema de Reconhecimento Automático de Voz (RAV) para o Português Brasileiro com suporte a grandes vocabulários. Frente a este cenário, o trabalho tem como principal objetivo discutir esforços dentro da iniciativa FalaBrasil [1], criada pelo Laboratório de Processamento de Sinais (LaPS) da UFPA, apresentando pesquisas e softwares na área de RAV para o Português do Brasil. Mais especificamente, o presente trabalho discute a implementação de um sistema de reconhecimento de voz com suporte a grandes vocabulários para o Português do Brasil, utilizando a ferramenta HTK baseada em modelo oculto de Markov (HMM) e a criação de um módulo de conversão grafema-fone, utilizando técnicas de aprendizado de máquina.