Quark clustering and chiral symmetry breaking in nuclear matter

Chiral symmetry breaking at finite baryon density is usually discussed in the context of quark matter, i.e. a system of deconfined quarks. Many systems like stable nuclei and neutron stars however have quarks confined within nucleons. In this paper we construct a Fermi sea of three-quark nucleon clusters and investigate the change of the quark condensate as a function of baryon density. We study the effect of quark clustering on the in-medium quark condensate and compare results with the traditional approach of modeling hadronic matter in terms of a Fermi sea of deconfined quarks.

Post-processing association rules with clustering and objective measures

The post-processing of association rules is a difficult task, since a large number of patterns can be obtained. Many approaches have been developed to overcome this problem, as objective measures and clustering, which are respectively used to: (i) highlight the potentially interesting knowledge in domain; (ii) structure the domain, organizing the rules in groups that contain, somehow, similar knowledge. However, objective measures don't reduce nor organize the collection of rules, making the understanding of the domain difficult. On the other hand, clustering doesn't reduce the exploration space nor direct the user to find interesting knowledge, making the search for relevant knowledge not so easy. This work proposes the PAR-COM (Post-processing Association Rules with Clustering and Objective Measures) methodology that, combining clustering and objective measures, reduces the association rule exploration space directing the user to what is potentially interesting. Thereby, PAR-COM minimizes the user's effort during the post-processing process.

A nature-inspired approach to speed up optimum-path forest clustering and its application to intrusion detection in computer networks

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

Expression of genes related to apoptosis, cell cycle and signaling pathways are independent of TP53 status in urinary bladder cancer cells

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

Analysis of Bothrops jararacussu venomous gland transcriptome focusing on structural and functional aspects: I - gene expression profile of highly expressed phospholipases A(2)

Snake venom glands are a rich source of bioactive molecules such as peptides, proteins and enzymes that show important pharmacological activity leading to in local and systemic effects as pain, edema, bleeding and muscle necrosis. Most studies on pharmacologically active peptides and proteins from snake venoms have been concerned with isolation and structure elucidation through methods of classical biochemistry. As an attempt to examine the transcripts expressed in the venom gland of Bothrops jararacussu and to unveil the toxicological and pharmacological potential of its products at the molecular level, we generated 549 expressed sequence tags (ESTs) from a directional cDNA library. Sequences obtained from single-pass sequencing of randomly selected cDNA clones could be identified by similarities searches on existing databases, resulting in 197 sequences with significant similarity to phospholipase A(2) (PLA(2)), of which 83.2% were Lys49-PLA(2) homologs (BOJU-1), 0.1% were basic Asp49-PLA(2)s (BOJU-II) and 0.6% were acidic Asp49-PLA(2)s (BOJU-III). Adjoining this very abundant class of proteins we found 88 transcripts codifying for putative sequences of metalloproteases, which after clustering and assembling resulted in three full-length sequences: BOJUMET-I, BOJUMET-II and BOJUMET-III; as well as 25 transcripts related to C-type lectin like protein including a full-length cDNA of a putative galactose binding C-type lectin and a cluster of eight serine-proteases transcripts including a full-length cDNA of a putative serine protease. Among the full-length sequenced clones we identified a nerve growth factor (Bj-NGF) with 92% identity with a human NGF (NGHUBM) and an acidic phospholipase A2 (BthA-I-PLA(2)) displaying 85-93% identity with other snake venom toxins. Genetic distance among PLA(2)s from Bothrops species were evaluated by phylogenetic analysis. Furthermore, analysis of full-length putative Lys49-PLA(2) through molecular modeling showed conserved structural domains, allowing the characterization of those proteins as group II PLA(2)s. The constructed cDNA library provides molecular clones harboring sequences that can be used to probe directly the genetic material from gland venom of other snake species. Expression of complete cDNAs or their modified derivatives will be useful for elucidation of the structure-function relationships of these toxins and peptides of biotechnological interest. (C) 2004 Elsevier SAS. All rights reserved.

Errors in nonword repetition: bridging short- and long-term memory

According to the working memory model, the phonological loop is the component of working memory specialized in processing and manipulating limited amounts of speech-based information. The Children's Test of Nonword Repetition (CNRep) is a suitable measure of phonological short-term memory for English-speaking children, which was validated by the Brazilian Children's Test of Pseudoword Repetition (BCPR) as a Portuguese-language version. The objectives of the present study were: i) to investigate developmental aspects of the phonological memory processing by error analysis in the nonword repetition task, and ii) to examine phoneme (substitution, omission and addition) and order (migration) errors made in the BCPR by 180 normal Brazilian children of both sexes aged 4-10, from preschool to 4th grade. The dominant error was substitution [F(3,525) = 180.47; P < 0.0001]. The performance was age-related [F(4,175) = 14.53; P < 0.0001]. The length effect, i.e., more errors in long than in short items, was observed [F(3,519) = 108.36; P < 0.0001]. In 5-syllable pseudowords, errors occurred mainly in the middle of the stimuli, before the syllabic stress [F(4,16) = 6.03; P = 0.003]; substitutions appeared more at the end of the stimuli, after the stress [F(12,48) = 2.27; P = 0.02]. In conclusion, the BCPR error analysis supports the idea that phonological loop capacity is relatively constant during development, although school learning increases the efficiency of this system. Moreover, there are indications that long-term memory contributes to holding memory trace. The findings were discussed in terms of distinctiveness, clustering and redintegration hypotheses.

Preparation and characterization of erbium and ytterbium co-doped sol-gel SiO2 : HfO2 films for planar waveguides

This work reports on the preparation of erbium and ytterbium co-doped SiO2:HfO2 single mode planar waveguides using the sol-gel method. Silica nanoparticles were prepared from tetraethylorthosilicate in basic media and the films were characterized by transmission electron microscopy, scanning electron microscopy, mechanical profilometry, M-lines spectroscopy based on prism coupling technique, X-ray diffractometry, infrared spectroscopy and photoluminescence spectroscopy. The film thicknesses and the refractive indexes were adjusted in order to satisfy a future efficient coupling to single mode optical fiber. Films suitable for both weak and strong light confinement were prepared varying hafnia concentration into the silica matrix. The lifetime values of erbium I-4(13/2) state were measured in order to investigate the influence of clustering and hydroxyl groups on the fluorescence quantum efficiency of the I-4(13/2) level, responsible for the emission at 1.55 mu m attributed to the I-4(13/2) -> I-4(15/2) transition. The high lifetime values suggest the absence of erbium clusters and the elimination of hydroxyl groups by rapid thermal process. (c) 2007 Elsevier B.V. All rights reserved.

Revisiting AFLP fingerprinting for an unbiased assessment of genetic structure and differentiation of taurine and zebu cattle

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

Abordagem multivariada envolvendo características físicas e morfológicas do sêmen bovino, idade dos touros e época de colheita de sêmen

Avaliaram-se as relações entre características físicas e morfológicas do sêmen de bovinos das subespécies Bos taurus taurus e Bos taurus indicus com a idade dos touros e a época de colheita do sêmen. Utilizaram-se observações feitas durante o período de 1993 a 1999, em 42 touros com 12 a 174 meses de idade, divididos em cinco classes: Bos taurus taurus - 12 a 36 meses; 37 a 60 meses; 61 a 84 meses; 85 a 108 meses; e 109 a 138 meses; e Bos taurus indicus - 12 a 42 meses; 43 a 72 meses; 73 a 102 meses; 103 a 132 meses; e 133 a 174 meses. As características analisadas foram: volume, turbilhonamento espermático, concentração espermática, motilidade espermática, vigor espermático, anormalidades espermáticas e integridade do acrossoma. No processamento das análises, utilizaram-se as médias das características em cada classe de idade e o mês de colheita de sêmen durante o período de 1993 a 1999. As técnicas estatísticas multivariadas de componentes principais e de agrupamento hierárquico mostraram resultados que podem contribuir na escolha de sêmen de melhor qualidade. As classes 103 a 132 meses e 133 a 174 meses para a subespécie Bos taurus indicus e a classe de idade 109 a 138 meses para a subespécie Bos taurus taurus foram as mais contrastantes. Para ambas as subespécies, nos meses mais úmidos, o sêmen apresentou menor qualidade, principalmente na subespécie Bos taurus taurus. As características do sêmen mais contrastantes no estudo por classes e no período de coleta de sêmen foram: vigor espermático, motilidade espermática, concentração espermática, integridade do acrossoma e anormalidades terciárias no sêmen.

Análise multivariada na compactação de um latossolo vermelho cultivado com milho

Os solos submetidos aos sistemas de produção sem preparo estão sujeitos à compactação, provocada pelo tráfego de máquinas, tornando necessário o acompanhamento das alterações do ambiente físico, que, quando desfavorável, restringe o crescimento radicular, podendo reduzir a produtividade das culturas. O objetivo do trabalho foi avaliar o efeito de diferentes intensidades de compactação na qualidade física de um Latossolo Vermelho textura média, localizado em Jaboticabal (SP), sob cultivo de milho, usando métodos de estatística multivariada. O delineamento experimental foi inteiramente casualizado, com seis intensidades de compactação e quatro repetições. Foram coletadas amostras indeformadas do solo nas camadas de 0,02-0,05, 0,08-0,11 e 0,15-0,18 m para determinação da densidade do solo (Ds), na camada de 0-0,20 m. As características da cultura avaliadas foram: densidade radicular, diâmetro radicular, matéria seca das raízes, altura das plantas, altura de inserção da primeira espiga, diâmetro do colmo e matéria seca das plantas. As análises de agrupamentos e componentes principais permitiram identificar três grupos de alta, média e baixa produtividade de plantas de milho, segundo variáveis do solo, do sistema radicular e da parte aérea das plantas. A classificação dos acessos em grupos foi feita por três métodos: método de agrupamentos hierárquico, método não-hierárquico k-means e análise de componentes principais. Os componentes principais evidenciaram que elevadas produtividades de milho estão correlacionadas com o bom crescimento da parte aérea das plantas, em condições de menor densidade do solo, proporcionando elevada produção de matéria seca das raízes, contudo, de pequeno diâmetro. A qualidade física do Latossolo Vermelho para o cultivo do milho foi assegurada até à densidade do solo de 1,38 Mg m-3.

Avaliação de cultivares de amendoim para resistência a Spodoptera frugiperda

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Genetic variability in natural populations of Zeyheria montana mart. from the Brazilian Cerrado

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

Leak detection in petroleum pipelines using a fuzzy system

A methodology for pipeline leakage detection using a combination of clustering and classification tools for fault detection is presented here. A fuzzy system is used to classify the running mode and identify the operational and process transients. The relationship between these transients and the mass balance deviation are discussed. This strategy allows for better identification of the leakage because the thresholds are adjusted by the fuzzy system as a function of the running mode and the classified transient level. The fuzzy system is initially off-line trained with a modified data set including simulated leakages. The methodology is applied to a small-scale LPG pipeline monitoring case where portability, robustness and reliability are amongst the most important criteria for the detection system. The results are very encouraging with relatively low levels of false alarms, obtaining increased leakage detection with low computational costs. (c) 2005 Elsevier B.V. All rights reserved.

HIERARCHICAL VERSUS NONHIERARCHICAL PATTERNS OF GENETIC DISTANCES AMONG POPULATIONS - A SIMULATION STUDY

A simulation study was made of the effects of mixing two evolutionary forces (natural selection and random genetic drift), combined in a single data matrix of gene frequencies, on the resulting genetic distances among populations. Twenty-one, kinds of simulated gene frequencies surfaces, for 15 populations linearly distributed over geographic space, were used to construct 21 data matrices, combining different proportions of two types of surfaces (gradients and random surfaces). These matrices were analysed by Unweighted Pair-Group Method - Arithmetic Averages (UPGMA), clustering and Principal Coordinate Analysis. The results obtained show that ordination is more accurate than UPGMA in revealing the spatial patterns in the genetic distances, in comparison with results obtained using the Mantel test comparing directly genetic and geographic distances.

Genetic divergence in Eucalyptus spp. clones by molecular RAPD markers

The genetic divergence in 20 Eucalyptus spp. clones was evaluated by multivariate techniques based on 167 RAPD markers, of which 155 were polymorphic and 12 monomorphic. The measures of genetic distances were obtained by the arithmetic complement of the coefficients of Jaccard and of Sorenso-Nei and Li and evaluated by the hierarchical methods of Single Linkage clustering and Unweighted Pair Group Method with Arithmetic Mean (UPGMA). Independent of the dissimilarity coefficient, the greatest divergence was found between clones 7 and 17 and the smallest between the clones 11 and 14. Clone clustering was little influenced by the applied procedure so that, adopting the same percentage of divergence, the UPGMA identified two groups less for the coefficient of Sorenso-Nei and Li. The clones evidenced considerable genetic divergence, which is partly associated to the origin of the study material. The clusters formed by the UPGMA clustering algorithm associated to the arithmetic complement of Jaccard were most consistent.