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.

Archival Classification and Knowledge Organization: Theoretical Possibilities for the Archival Field

The main goal of this study is to outline a possible relation between archival classification and knowledge organization theory. In this sense, we seek to contribute to the conceptual classification in Archival Science, since there is a lack of systematization about archival classification; not just classification, but even the study of historical and conceptual aspects of the discipline. In the context of knowledge organization there is a considerable amount of research on how to build classification schemes and indexing systems that can help contribute to and expand archival classification theory. In order to comprehend this vast field of theories and methodologies we construct a parallel comparing the classification concepts in both areas and analyzing these concepts.

The Relationship between Authors and Main Thematic Categories in the Field of Knowledge Organization: A Bibliometric Approach

This is a study about the relationships between authors and the main thematic categories in the papers published in the last five International ISKO Conferences, held between 2002 and 2010. The aim is to map the domain as ISKO conferences are considered the most representative forum in the field. The published papers are considered to indicate the relationships between authors and themes. The Classification Scheme for Knowledge Organization Error! Bookmark not defined Literature (CSKOL) was used to categorize the papers. The theoretical and methodological foundations of the study can be found in the concept of domain analysis proposed by Hjorland. The analysis of the papers (n=146) led to the identification of the most productive authors, the networks representing the relationships between the authors as also the categories that constitute the primary areas of research.

Environmental Fate of Neonicotinoids and Classification of Their Potential Risks to Hypogean, Epygean, and Surface Water Ecosystems in Brazil

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

A classification of Pepper yellow mosaic virus isolates into pathotypes

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

Self-Organizing Maps as a New Tool for Classification of Plants at Lower Hierarchical Levels

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

Detection and classification of voltage disturbances using a Fuzzy-ARTMAP-wavelet network

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

Theoretical Approximations Between Brazilian and Spanish Authors' Production in the Field of Knowledge Organization in the Production of Journals on Information Science in Brazil

This work identifies and analyzes literature about knowledge organization (KO), expressed in scientific journals communication of information science (IS). It performs an exploratory study on the Base de Dados Referencial de Artigos de Periodicos em Ciência da Informacio (BRAPCI, Reference Database of Journal Articles on Information Science) between the years 2000 and 2010. The descriptors relating to "knowledge organization" are used in order to recover and analyze the corresponding articles and to identify descriptors and concepts which integrate the semantic universe related to KO. Through the analysis of content, based on metrical studies, this article gathers and interprets data relating to documents and authors. Through this, it demonstrates the development of this field and its research fronts according to the observed characteristics, as well as noting the transformation indicative in the production of knowledge. The work describes the influences of the Spanish researchers on Brazilian literature in the fields of knowledge and information organization. As a result, it presents the most cited and productive authors, the theoretical currents which support them, and the most significant relationships of the Spanish-Brazilian authors network. Based on the constant key-words analysis in the cited articles, the co-existence of the French conception current and the incipient Spanish influence in Brazil is observed. Through this, it contributes to the comprehension of the thematic range relating to KO, stimulating both criticism and self-criticism, debate and knowledge creation, based on studies that have been developed and institutionalized in academic contexts in Spain and Brazil.

Critical analysis of the international classification of headache disorders diagnostic criteria (ICHD I-1988) and (ICHD II-2004), for migraine in children and adolescents

The present study analyzed the (ICHD I-1988) and ( ICHD II-2004) diagnostic criteria in children and adolescents. Our population consisted of 496 patients of the Headache Outpatient Ward for Children and Adolescents retrospectively studied from 1992 to 2002. Individuals were classified according to three diagnostic groups: Intuitive Clinical Diagnosis ( Gold Standard), ICHD I-1988 and ICHD II-2004. They were statistically compared using the variables: Sensitivity ( S), Specificity (Sp), Positive Predictive Value (PPV), Negative Predictive Value (NPV). When ICHD I-1988 was used, the sensitivity of migraine without and with aura was 21% and 27%, respectively, whereas in ICHD II-2004 it changed to 53% and 71% without affecting specificity. As a conclusion, the current classification criteria ( ICHD II-2004) showed greater sensitivity and high specificity for migraine than ICHD I-1988, although it improved migraine diagnosis in children and adolescents, the sensitivity remains poor.

A Brazilian registry of juvenile dermatomyositis: onset features and classification of 189 cases

ObjectiveTo describe onset features, classification and treatment of juvenile dermatomyositis (JDM) and juvenile polymyositis (JPM) from a multicentre registry.MethodsInclusion criteria were onset age lower than 18 years and a diagnosis of any idiopathic inflammatory myopathy (IIM) by attending physician. Bohan & Peter (1975) criteria categorisation was established by a scoring algorithm to define JDM and JPM based oil clinical protocol data.ResultsOf the 189 cases included, 178 were classified as JDM, 9 as JPM (19.8: 1) and 2 did not fit the criteria; 6.9% had features of chronic arthritis and connective tissue disease overlap. Diagnosis classification agreement occurred in 66.1%. Medial? onset age was 7 years, median follow-up duration was 3.6 years. Malignancy was described in 2 (1.1%) cases. Muscle weakness occurred in 95.8%; heliotrope rash 83.5%; Gottron plaques 83.1%; 92% had at least one abnormal muscle enzyme result. Muscle biopsy performed in 74.6% was abnormal in 91.5% and electromyogram performed in 39.2% resulted abnormal in 93.2%. Logistic regression analysis was done in 66 cases with all parameters assessed and only aldolase resulted significant, as independent variable for definite JDM (OR=5.4, 95%CI 1.2-24.4, p=0.03). Regarding treatment, 97.9% received steroids; 72% had in addition at least one: methotrexate (75.7%), hydroxychloroquine (64.7%), cyclosporine A (20.6%), IV immunoglobulin (20.6%), azathioprine (10.3%) or cyclophosphamide (9.6%). In this series 24.3% developed calcinosis and mortality rate was 4.2%.ConclusionEvaluation of predefined criteria set for a valid diagnosis indicated aldolase as the most important parameter associated with de, methotrexate combination, was the most indicated treatment.

Dentists' level of knowledge of the treatment plans for periodontal ligament injuries after dentoalveolar trauma

This study investigated the level of knowledge held by dentists about the possible treatment plan procedures for periodontal ligament injuries after dentoalveolar trauma. A 5-item self-applied questionnaire was prepared with questions referring to the professional profile of the interviewees and to the treatment plan they would propose for periodontal ligament injuries secondary to dentoalveolar trauma. The questionnaires were filled out by 693 dentists attending the 23rd Annual Meeting of the Brazilian Society for Dental Research, and the data obtained were subjected to descriptive analysis. Either the chi-square test or Fisher's exact test was applied to assess associations among variables, at a 5% level of significance. The results revealed that dentists experienced difficulty in establishing a treatment plan for subluxation, and for extrusive, lateral and intrusive luxations. In general, holding a dental specialty degree had no influence on the knowledge about treatment plan procedures for the most severe injuries. It could be concluded that the dentists participating in this study, whether specialists or not, did not have sufficient knowledge to treat most of the periodontal ligament injuries resulting from dentoalveolar trauma adequately.

Use of knowledge regarding LH receptors to improve superstimulatory treatments in cattle

Embryo transfer is a biotechnology that has been used worldwide to increase the production of offspring from female bovines. Treatments to induce multiple ovulations (superovulation) have evolved from superstimulatory protocols that depended upon detection of oestrus to treatments that synchronise follicle growth and ovulation, allowing for improved donor management and fixed-timed AI (FTAI). The protocols associated with FTAI facilitate animal handling and produce at least as many viably embryos as conventional treatment protocols that required detection of oestrus. Recent knowledge regarding LH receptors (LHR) and follicular development can be applied to improve embryo transfer protocols. In fact, improvements in the superstimulatory treatment called the 'P-36 protocol', which include hormones that stimulate LHR, indicate that adjustments related to LHR availability may increase bovine embryo yield compared with conventional protocols based on the detection of oestrus.

Concordance between macroinvertebrate communities and the typological classification of white and clear-water streams in Western Brazilian Amazonia

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)