|
|
|
| Registros recuperados: 1.312 | |
|
|
| MOSTRA DE ESTAGIÁRIOS E BOLSISTAS DA EMBRAPA INFORMÁTICA AGROPECUÁRIA, 8., 2012, Campinas.. |
| Desde a primeira edição do evento, em 2005, até a sétima edição, 2011, já foram apresentados 309 trabalhos. Em sua 8a edição, realizada em novembro de 2012, a Mostra contou com a participação de 47 trabalhos inscritos em três categorias: Pesquisa, Pós-graduação e Suporte à Pesquisa, em que 14 trabalhos foram selecionados para apresentação oral e 33 trabalhos para apresentação na seção de pôsteres. |
| Tipo: Outras publicações técnicas (INFOTECA-E) |
Palavras-chave: Agroinformática; Mudanças climáticas; Bioinformática.; Tecnologia da Informação.; Information technology; Bioinformatics; Climate change. |
| Ano: 2012 |
URL: http://www.infoteca.cnptia.embrapa.br/infoteca/handle/doc/954471 |
| |
|
| |
|
| |
|
| |
|
| |
|
|
| Ten Hoopen, Petra; Pesant, Stephane; Kottmann, Renzo; Kopf, Anna; Bicak, Mesude; Claus, Simon; Deneudt, Klaas; Borremans, Catherine; Thijsse, Peter; Dekeyzer, Stefanie; Schaap, Dick M. A.; Bowler, Chris; Gloeckner, Frank Oliver; Cochrane, Guy. |
| Contextual data collected concurrently with molecular samples are critical to the use of metagenomics in the fields of marine biodiversity, bioinformatics and biotechnology. We present here Marine Microbial Biodiversity, Bioinformatics and Biotechnology (M2B3) standards for "Reporting" and "Serving" data. The M2B3 Reporting Standard (1) describes minimal mandatory and recommended contextual information for a marine microbial sample obtained in the epipelagic zone, (2) includes meaningful information for researchers in the oceanographic, biodiversity and molecular disciplines, and (3) can easily be adopted by any marine laboratory with minimum sampling resources. The M2B3 Service Standard defines a software interface through which these data can be... |
| Tipo: Text |
Palavras-chave: Data standard; Marine; Molecular; Biodiversity; Microbial; Bioinformatics; Reporting; Interoperability. |
| Ano: 2015 |
URL: http://archimer.ifremer.fr/doc/00311/42266/41588.pdf |
| |
|
|
| Genitsaris, Savvas; Monchy, Sebastien; Breton, Elsa; Lecuyer, Eric; Christaki, Urania. |
| The aim of this study was to analyze planktonic protistan assemblages under different environmental pressures at 2 adjacent coastal stations (inshore and offshore; similar to 6.4 km apart) in the eastern English Channel (EEC). Samples were collected between March 2012 and June 2013, and analyzed using bioinformatic analysis and tag pyrosequencing of the V2-V3 hypervariable region of the 18S rRNA gene. In addition to the taxonomic composition of the protistan communities, the detected operational taxonomic units (OTUs) were sorted into 6 major functional groups based on their trophic roles in marine systems. Comparisons of 13 environmental factors, including physical and chemical variables, indicated significant differences between the 2 stations. However,... |
| Tipo: Text |
Palavras-chave: Unicellular eukaryotes; Community organization; Environmental parameters; Biotic interactions; 18S rRNA; Pyrosequencing; Bioinformatics; Ecological tools. |
| Ano: 2016 |
URL: https://archimer.ifremer.fr/doc/00373/48450/48765.pdf |
| |
|
|
| Delphine Dauga. |
| The curation process is significantly slowed down by missing information in the articles analyzed (for example, the identity of the clones used to generate ISH probes, the precise sequences tested in reporter assays, etc..). To help authors ensure in the future that necessary information is present in their article, we defined the Article Minimum Information Standard (AMIS) guidelines. This standard describes for each experiment the mandatory information that should be mentioned in literature articles to facilitate the curation process. These guidelines extend the minimal information defined by the MISFISHIE format (Deutsch at al. 2008, _Nature Biotechnology_). This standard was deduced from the ANISEED curation pipeline (Tassy, Dauga, Daian, Sobral et al.... |
| Tipo: Presentation |
Palavras-chave: Bioinformatics; Data Standards. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5054/version/1 |
| |
|
|
| Andreas Mayr; Djork-Arne Clevert; Sepp Hochreiter. |
| One of the main topics in systems biology is to model genetic pathways. Genes of a pathway, which show linear dependencies of their expression values, are easy to identify to belong to the pathway. However, if feedback loops or signal cascades are present, gene expression values of pathway genes can be nonlinearly dependent on the expression values of other genes in the pathway. In this situation such genes are hard to detect as belonging to the pathway because nonlinearity and noise must be distinguished.

We propose an algorithm to infer nonlinear network elements in pathways from microarray data. Our model assumes, that gene expression values, belonging to one pathway, are mainly driven by one single latent factor. We... |
| Tipo: Poster |
Palavras-chave: Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/4715/version/1 |
| |
|
| |
|
|
| Varala Sravani; I Vani Priyadarshini; Amineni Umamaheswari. |
| The Leukocyte Immunoglobulin-like Receptors (LILRs) are a family of receptors that was broadly expressed on all leukocytes and have the ability to regulate their function. The increased levels of human LILRA3 in rheumatoid arthritis patients leads to stroke. In quest of designing novel inhibitors against LILRA3 an accurate homology model for the protein was based on crystal structures of 1GOX and 3P2T using Modeller 9V9. The use of multiple templates for structure prediction led us to propose a structure comprising all 439 amino acids of human LILRA3 for the first time. The best model was selected based on GA341 and DOPE score and further assessed through ProSA and PROCHECK. The validated structure was subjected to CASTp analysis ligand binding site... |
| Tipo: Presentation |
Palavras-chave: Bioinformatics; Plant Biology. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6532/version/1 |
| |
|
|
| Valentina Carapella; Vicente Grau; Pras Pathmanathan; Kevin Burrage. |
| Cardiac motion is a vital process as it sustains the pumping of blood in the body. For this reason motion abnormalities are often associated with severe cardiac pathologies. Clinical imaging techniques, such as MRI, are powerful in assessing motion abnormalities but their connection with pathology often remains unknown.

Computational models of cardiac motion, integrating imaging data, would thus be of great help in linking tissue structure (i.e. cells organisation into fibres and sheets) to motion abnormalities and to pathology. Current models, though, are not able yet to correctly predict realistic cardiac motion in the healthy or diseased heart.

Our hypothesis is that a more realistic... |
| Tipo: Poster |
Palavras-chave: Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6594/version/1 |
| |
|
|
| Kentaro Hayashi; Vincent Piras; Masaru Tomita; Masa Tsuchiya; Kumar Selvarajoo. |
| The Tumor Necrosis Factor-α (TNF-α), a cytokine produced during the innate immune response to invading pathogens, is involved in numerous fundamental cellular processes. Here, to understand the temporal activation profiles of the TNF-α regulated signaling network, we developed a dynamic computational model based on the perturbation-response approach and the law of information (signaling flux) conservation. Our simulations show that the temporal average population response of the TNF-α stimulated transcription factors NF-κB and AP-1, and 3 groups of 180 downstream gene expressions follow first-order equations. Using the model, in contrast to a well-known previous study, our model suggests that the continuous... |
| Tipo: Manuscript |
Palavras-chave: Immunology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6495/version/1 |
| |
|
|
| Conrad Plake. |
| Manual curation of biomedical data is highly accurate but time consuming, and does not scale with the ever increasing growth of biomedical literature. Text mining as a high-throughput computational technique scales well but requires human expertise to produce highly accurate results. Ontologies can help organizing large quantities of unstructured information. Here we present three systems, namely GoGene, GoPubMed and GoWeb, employing biomedical ontologies and show how they can assist manual curation of biomedical data.

GoGene associates all genes from different model organisms to concepts of the Gene Ontology (GO) and the Medical Subject Headings (MeSH). The hierarchical structures of both terminologies support clustering... |
| Tipo: Presentation |
Palavras-chave: Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3122/version/1 |
| |
|
|
| Nico M. Franz; David M. Thau. |
| The prospects of integrating full-blown biological taxonomies into an ontological reasoning framework are reviewed. We contrast the common usage of a static 'snapshot' hierarchy in ontological representations of taxonomy with a more realistic situation that involves dynamic, piece-meal revisions of particular taxonomic groups and requires alignment with relevant preceding perspectives. Taxonomic practice is characterized by a range of phenomena that are orthogonal to the logical semantic background from which ontological entities and relationships originate, and therefore pose special challenges to ontological representation and reasoning. Among these phenomena are: (1) the notion that there is a single phylogenetic hierarchy in nature... |
| Tipo: Manuscript |
Palavras-chave: Bioinformatics; Evolutionary Biology. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/4593/version/1 |
| |
|
| |
|
|
| Michael Bada; Lawrence Hunter. |
| We are creating a gold-standard corpus of manually annotated full-text biomedical journal articles toward natural-language-processing applications. Central to this is our use of entire ontologies of the Open Biomedical Ontologies initiative as well as other terminologies as term sources, in contrast to most other such annotation projects, which have used small, ad hoc schemas. In addition to the standard difficulties in such annotation projects, each of the terminologies we have used has idiosyncrasies and ambiguities that present further challenges to consistent, high-quality annotation of these articles. In this paper we present and discuss the most salient of these with regard to the Gene Ontology that we have encountered and addressed in our... |
| Tipo: Manuscript |
Palavras-chave: Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3556/version/1 |
| |
|
| |
|
| |
|
|
| Octavio Martinez; Humberto Reyes-Valdés. |
| The transcriptome is a set of genes transcribed in a given tissue under specific conditions and can be characterized by a list of genes with their corresponding frequencies of transcription. Transcriptome changes can be measured by counting gene tags from mRNA libraries or by measuring light signals in DNA microarrays. Recently we proposed an approach to define and estimate the diversity and specialization of transcriptomes and gene specificity. This approach can be useful for the determination and measure of transcriptional networks. We defined transcriptome diversity as the Shannon entropy of its frequency distribution. Gene specificity is defined as the mutual information between the tissues and the corresponding transcript, allowing detection of either... |
| Tipo: Poster |
Palavras-chave: Genetics & Genomics; Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3012/version/1 |
| |
| Registros recuperados: 1.312 | |
|
|
|
