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País United Kingdom (1.270) Brazil (29) Chile (6) France (2) India (2) Mexico (2) Canada (1) Mais... Idioma Inglês (33) Português (5) Espanhol (2)		Ordenar por:  Relevância Autor Título Ano Registros recuperados: 1.312 Primeira ... 1 2 3 4 5 6 7 8 9 ... Última Bioinformática : Aplicaciones a la proteómica y genómica Colegio de Postgraduados Riaño Pachón, Diego Mauricio; González Estrada, Elizabeth; Alexa, Adrian; Ramírez, Fidel; Vischi Winck, Flavia; Gómez Merino, Fernando, Coord.; Silva Rojas, Hilda Victoria, Coord.; Pérez Rodríguez, Paulino, Coord.. En esta publicación intitulada “Bioinformática: aplicaciones a la genómica y proteómica” se detallan algunos de los avances más sobresalientes de los temas de genómica y proteómica, derivados de un curso internacional sobre el tema, organizado por el Colegio de Postgraduados. Estos avances incluyen aspectos de las dos ciencias ómicas, incluyendo genómica y biología estructural, código R, análisis comparativo y evolución, agrupamiento y minería de datos en R, redes de interacciones entre proteínas y proteómica bioinformática. BIOINFORMATICS : APPLICATIONS TO GENOMICS AND PROTEOMICS. ABSTRACT : In this publication entitled "Bioinformatics: applications to genomics and proteomics" are some of the most salient issues of genomics and proteomics, derived from an... Tipo: Libro Palavras-chave: Bioinformática; Proteómica; Genómica; ADN; Proteínas; Modelación; Simulación; Análisis de genómas; Biología estructural; Código R; Análisis comparativo; Minería de datos; Computación aplicada; Bioinformatics; Proteomics; DNA; Proteins; Models; Genomics; Simulation; R Code; Data mining; Computing; Genome analysis. Ano: 2010 URL: http://hdl.handle.net/10521/313 Base de datos para factores de transcripción de Glycine max, Triticum aestivum y Zea maiz. Colegio de Postgraduados Ramírez Sánchez, Obed. Los factores de transcripción (FTs) son proteínas que incrementan o disminuyen la tasa transcripcional de uno o varios genes. Los FTs desempeñan un papel fundamental en el control de casi todos los procesos biológicos: crecimiento, metabolismo, respuesta a factores ambientales, etc. En plantas cultivadas, son de particular importancia aquellos relacionados con la respuesta al estrés (sequía, salinidad, bajas temperaturas, plagas, enfermedades, etc.). La identificación de FTs, su posterior anotación y la construcción de bases de datos públicas constituye un importante recurso para el estudio de los procesos que controlan la expresión génica. Se construyó la base de datos FT-MTS que contiene información de 13,975 genes identificados como FTs en los genomas... Palavras-chave: Regulación transcripcional; Anotación funcional; Bioinformática; Transcriptional regulation; Functional annotation; Bioinformatics; Cómputo aplicado; Maestría. Ano: 2012 URL: http://hdl.handle.net/10521/689 Electronic Field Guides and User Communities in the Eco-informatics Revolution Ecology and Society Stevenson, R. D.; University of Massachusetts Boston; robert.stevenson@umb.edu; Haber, William A; Missouri Botanical Garden; whaber@racsa.co.cr; Morris, Robert; UMASS Boston; ram@cs.umb.edu. The recognition that taxonomy is central to the conservation of biodiversity has reestablished the critical role of taxonomy in biology. However, many of the tools taxonomists produce for the identification and characterization of species, e.g., dichotomous keys, have been difficult to use and largely ignored by the general public in favor of field guides, which are essentially browsable picture guides. We review the role of field guides in species identification and discuss the application of a host of digital technologies to produce user-friendly tools for identification that are likely to greatly enhance species identification in the field by nonspecialists. We suggest that wider adoption of the citizen science model and the use of electronic field... Tipo: Peer-Reviewed Reports Palavras-chave: Bioinformatics; Birding; Citizen science; Ecoinformatics; Field biology; Field guides; Species identification; Taxonomic keys; Taxonomy. Ano: 2003 Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism Electron. J. Biotechnol. Wünschiers,Röbbe; Axelsson,Rikard; Vellguth,Martin; Lindblad,Peter. Many cyanobacteria are capable of utilizing light energy for nitrogen fixation. As a by-product of this nitrogenase mediated catalysis, hydrogen gas is produced. Several approaches to increase hydrogen production from cyanobacteria exist. Usually, these approaches are non-targeted. Here we exemplify how DNA-microarray based gene-expression analysis and bioinformatic visualization techniques can be used to analyze nitrogen and hydrogen metabolism from the filamentous, heterocyst forming cyanobacterium Nostoc PCC 7120. We analyzed the expression of 1249 genes from major metabolic categories under nitrogen fixing and non-nitrogen fixing growth. Of the selected genes, 494 show a more than 2-fold expression difference in the two conditions analyzed. Under... Tipo: Journal article Palavras-chave: Bioinformatics; Cyanobacteria; DNA-microarrays; Gene expression; Metabolic pathways; Nitrogen availability; Nitrogen fixation. Ano: 2007 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000400008 Cloning and analysis of a NBS-LRR disease resistance gene candidate PnAG1 from peanut (Arachis hypogaea L.) Electron. J. Biotechnol. Shan,Shi-hua; Zhang,Ting-ting; Li,Chun-juan; Yang,Chen; Yan,Cai-xia; Wan,Shu-bo. Background: Based on the conserved sequences of a known NBS resistance gene, a pair of degenerate primers was designed to amplify the NBS-LRR resistance gene from peanut using PCR and RACE methods. Results: Analyzing the amino acid sequence by BLAST on NCBI, which was deduced from the 1088bp-long gene named PnAG1-2, showed that it had a certain homology with some resistance proteins, among which Arachis cardenasii resistance protein gene had the highest homology (66%). Relative quantification PCR analysis indicated that PnAG1-2 gene expresses more in J11 (an A. flavus-resistant variety) than in JH1012 (an A. flavus-susceptible variety) when the harvest time was coming. Conclusions: In this study, the NBS-LRR resistance sequence was successfully cloned from... Tipo: Journal article Palavras-chave: Bioinformatics; NBS-LRR; Peanut; Real-time fluorescence quantitative PCR. Ano: 2011 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582011000600006 Expression analysis in response to drought stress in soybean: shedding light on the regulation of metabolic pathway genes Genet. Mol. Biol. Guimarães-Dias,Fábia; Neves-Borges,Anna Cristina; Viana,Antonio Americo Barbosa; Mesquita,Rosilene Oliveira; Romano,Eduardo; Grossi-de-Sá,Maria de Fátima; Nepomuceno,Alexandre Lima; Loureiro,Marcelo Ehlers; Alves-Ferreira,Márcio. Metabolomics analysis of wild type Arabidopsis thaliana plants, under control and drought stress conditions revealed several metabolic pathways that are induced under water deficit. The metabolic response to drought stress is also associated with ABA dependent and independent pathways, allowing a better understanding of the molecular mechanisms in this model plant. Through combining an in silico approach and gene expression analysis by quantitative real-time PCR, the present work aims at identifying genes of soybean metabolic pathways potentially associated with water deficit. Digital expression patterns of Arabidopsis genes, which were selected based on the basis of literature reports, were evaluated under drought stress condition by Genevestigator. Genes... Tipo: Info:eu-repo/semantics/article Palavras-chave: Glycine max; Drought resistance; QPCR; Metabolic pathway; Bioinformatics. Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200004 An overall evaluation of the resistance (R) and pathogenesis-related (PR) superfamilies in soybean, as compared with Medicago and Arabidopsis Genet. Mol. Biol. Wanderley-Nogueira,Ana C.; Belarmino,Luis C.; Soares-Cavalcanti,Nina da M.; Bezerra-Neto,João P.; Kido,Ederson A.; Pandolfi,Valesca; Abdelnoor,Ricardo V.; Binneck,Eliseu; Carazzole,Marcelo F.; Benko-Iseppon,Ana M.. Plants have the ability to recognize and respond to a multitude of pathogens, resulting in a massive reprogramming of the plant to activate defense responses including Resistance (R) and Pathogenesis-Related (PR) genes. Abiotic stresses can also activate PR genes and enhance pathogen resistance, representing valuable genes for breeding purposes. The present work offers an overview of soybean R and PR genes present in the GENOSOJA (Brazilian Soybean Genome Consortium) platform, regarding their structure, abundance, evolution and role in the plantpathogen metabolic pathway, as compared with Medicago and Arabidopsis. Searches revealed 3,065 R candidates (756 in Soybean, 1,142 in Medicago and 1,167 in Arabidopsis), and PR candidates matching to 1,261 sequences... Tipo: Info:eu-repo/semantics/article Palavras-chave: Pathogen response; Biotic stress; Bioinformatics; Glycine max; Medicago truncatula. Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200007 Clustering and artificial neural networks: classification of variable lengths of Helminth antigens in set of domains Genet. Mol. Biol. Rodrigues,Thiago de Souza; Pacífico,Lucila Grossi Gonçalves; Teixeira,Santuza Maria Ribeiro; Oliveira,Sérgio Costa; Braga,Antônio de Pádua. A new scheme for representing proteins of different lengths in number of amino acids that can be presented to a fixed number of inputs Artificial Neural Networks (ANNs) speel-out classification is described. K-Means's clustering of the new vectors with subsequent classification was then possible with the dimension reduction technique Principal Component Analysis applied previously. The new representation scheme was applied to a set of 112 antigens sequences from several parasitic helminths, selected in the National Center for Biotechnology Information and classified into fourth different groups. This bioinformatic tool permitted the establishment of a good correlation with domains that are already well characterized, regardless of the differences between... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Artificial neural networks; Clustering; Helminth antigen; Domain. Ano: 2004 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572004000400032 In silico identification of coffee genome expressed sequences potentially associated with resistance to diseases Genet. Mol. Biol. Alvarenga,Samuel Mazzinghy; Caixeta,Eveline Teixeira; Hufnagel,Bárbara; Thiebaut,Flávia; Maciel-Zambolim,Eunize; Zambolimand,Laércio; Sakiyama,Ney Sussumu. Sequences potentially associated with coffee resistance to diseases were identified by in silico analyses using the database of the Brazilian Coffee Genome Project (BCGP). Keywords corresponding to plant resistance mechanisms to pathogens identified in the literature were used as baits for data mining. Expressed sequence tags (ESTs) related to each of these keywords were identified with tools available in the BCGP bioinformatics platform. A total of 11,300 ESTs were mined. These ESTs were clustered and formed 979 EST-contigs with similarities to chitinases, kinases, cytochrome P450 and nucleotide binding site-leucine rich repeat (NBS-LRR) proteins, as well as with proteins related to disease resistance, pathogenesis, hypersensitivity response (HR) and... Tipo: Info:eu-repo/semantics/article Palavras-chave: Coffea; Data mining; ESTs; Genomics; In silico; Bioinformatics. Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000400031 ABC transporters in Mycoplasma hyopneumoniae and Mycoplasma synoviae: insights into evolution and pathogenicity Genet. Mol. Biol. Nicolás,Marisa Fabiana; Barcellos,Fernando Gomes; Nehab Hess,Pablo; Hungria,Mariangela. ABC transporters represent one of the largest superfamilies of active membrane transport proteins (MTPs) with a highly conserved ATPase domain that binds and hydrolyzes ATP, supplying energy for the uptake of a variety of nutrients and for the extrusion of drugs and metabolic wastes. The complete genomes of a non-pathogenic (J) and pathogenic (7448) strain of Mycoplasma hyopneumoniae, as well as of a pathogenic (53) strain of Mycoplasma synoviae have been recently sequenced. A detailed study revealed a high percentage of CDSs encoding MTPs in M. hyopneumoniae strains J (13.4%), 7448 (13.8%), and in M. synoviae 53 (11.2%), and the ABC systems represented from 85.0 to 88.6% of those CDSs. Uptake systems are mainly involved in cell nutrition and some might be... Tipo: Info:eu-repo/semantics/article Palavras-chave: ABC transporters; Bioinformatics; Genomes of microorganisms; Membrane transport proteins; Mycoplasma; Phylogeny of prokaryotes. Ano: 2007 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000200006 Overall picture of expressed Heat Shock Factors in Glycine max, Lotus japonicus and Medicago truncatula Genet. Mol. Biol. Soares-Cavalcanti,Nina M.; Belarmino,Luís C; Kido,Ederson A.; Pandolfi,Valesca; Marcelino-Guimarães,Francismar C.; Rodrigues,Fabiana A.; Pereira,Gonçalo A.G.; Benko-Iseppon,Ana M.. Heat shock (HS) leads to the activation of molecular mechanisms, known as HS-response, that prevent damage and enhance survival under stress. Plants have a flexible and specialized network of Heat Shock Factors (HSFs), which are transcription factors that induce the expression of heat shock proteins. The present work aimed to identify and characterize the Glycine max HSF repertory in the Soybean Genome Project (GENOSOJA platform), comparing them with other legumes (Medicago truncatula and Lotus japonicus) in view of current knowledge of Arabidopsis thaliana. The HSF characterization in leguminous plants led to the identification of 25, 19 and 21 candidate ESTs in soybean, Lotus and Medicago, respectively. A search in the SuperSAGE libraries revealed 68... Tipo: Info:eu-repo/semantics/article Palavras-chave: HSF; Fabaceae; Bioinformatics; Abiotic stress; Transcription factor. Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200006 Mining plant genome browsers as a means for efficient connection of physical, genetic and cytogenetic mapping: an example using soybean Genet. Mol. Biol. Belarmino,Luis C.; Oliveira,Ana R. da S.; Brasileiro-Vida,Ana C.; Bortoleti,Kyria C. de A.; Bezerra-Neto,João Pacífico; Abdelnoor,Ricardo V.; Benko-Iseppon,Ana M.. Physical maps are important tools to uncover general chromosome structure as well as to compare different plant lineages and species, helping to elucidate genome structure, evolution and possibilities regarding synteny and colinearity. The increasing production of sequence data has opened an opportunity to link information from mapping studies to the underlying sequences. Genome browsers are invaluable platforms that provide access to these sequences, including tools for genome analysis, allowing the integration of multivariate information, and thus aiding to explain the emergence of complex genomes. The present work presents a tutorial regarding the use of genome browsers to develop targeted physical mapping, providing also a general overview and examples... Tipo: Info:eu-repo/semantics/article Palavras-chave: Gene families; FISH; BAC; SSR; Aquaporin; Bioinformatics. Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200015 Positive selection, molecular recombination structure and phylogenetic reconstruction of members of the family Tombusviridae: implication in virus taxonomy Genet. Mol. Biol. Boulila,Moncef. A detailed study of putative recombination events and their evolution frequency in the whole genome of the currently known members of the family Tombusviridae, comprising 79 accessions retrieved from the international databases, was carried out by using the RECCO and RDP version 3.31β algorithms. The first program allowed the detection of potential recombination sites in seven out of eight virus genera (Aureusvirus, Avenavirus, Carmovirus, Dianthovirus, Necrovirus, Panicovirus, and Tombusvirus), the second program provided the same results except for genus Dianthovirus. On the other hand, both methods failed to detect recombination breakpoints in the genome of members of genus Machlomovirus. Furthermore, based on Fisher's Exact Test of Neutrality, positive... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Phylogeny; Recombination; Positive selection; Tombusviridae; Sequence; Taxonomy. Ano: 2011 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572011000400018 Ribosome binding site recognition using neural networks Genet. Mol. Biol. Oliveira,Márcio Ferreira da Silva; Mendes,Daniele Quintella; Ferrari,Luciana Itida; Vasconcelos,Ana Tereza Ribeiro. Pattern recognition is an important process for gene localization in genomes. The ribosome binding sites are signals that can help in the identification of a gene. It is difficult to find these signals in the genome through conventional methods because they are highly degenerated. Artificial Neural Networks is the approach used in this work to address this problem. Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Neural networks; Ribosome binding site. Ano: 2004 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572004000400028 Complex networks: the key to systems biology Genet. Mol. Biol. Costa,Luciano da F.; Rodrigues,Francisco A.; Cristino,Alexandre S.. Though introduced recently, complex networks research has grown steadily because of its potential to represent, characterize and model a wide range of intricate natural systems and phenomena. Because of the intrinsic complexity and systemic organization of life, complex networks provide a specially promising framework for systems biology investigation. The current article is an up-to-date review of the major developments related to the application of complex networks in biology, with special attention focused on the more recent literature. The main concepts and models of complex networks are presented and illustrated in an accessible fashion. Three main types of networks are covered: transcriptional regulatory networks, protein-protein interaction networks... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Complex networks; Metabolic networks; Protein-protein networks; Systems biology; Transcription networks. Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000400001 Translational selection on SHH genes Genet. Mol. Biol. Hajjari,Mohammadreza; Saffar,Behnaz; Khoshnevisan,Atefeh. Codon usage bias has been observed in various organisms. In this study, the correlation between SHH genes expression in some tissues and codon usage features was analyzed by bioinformatics. We found that translational selection may act on compositional features of this set of genes. Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Codon usage bias; Correlation; Translational selection. Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000200033 A genomic analysis of disease-resistance genes encoding nucleotide binding sites in Sorghum bicolor Genet. Mol. Biol. Cheng,Xiao; Jiang,Haiyang; Zhao,Yang; Qian,Yexiong; Zhu,Suwen; Cheng,Beijiu. A large set of candidate nucleotide-binding site (NBS)-encoding genes related to disease resistance was identified in the sorghum (Sorghum bicolor) genome. These resistance (R) genes were characterized based on their structural diversity, physical chromosomal location and phylogenetic relationships. Based on their N-terminal motifs and leucine-rich repeats (LRR), 50 non-regular NBS genes and 224 regular NBS genes were identified in 274 candidate NBS genes. The regular NBS genes were classified into ten types: CNL, CN, CNLX, CNX, CNXL, CXN, NX, N, NL and NLX. The vast majority (97%) of NBS genes occurred in gene clusters, indicating extensive gene duplication in the evolution of S. bicolor NBS genes. Analysis of the S. bicolor NBS phylogenetic tree revealed... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Disease resistance gene; Nucleotide binding site; Sorghum bicolor. Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000200016 A web-based bioinformatics interface applied to the GENOSOJA project: databases and pipelines Genet. Mol. Biol. Nascimento,Leandro Costa do; Costa,Gustavo Gilson Lacerda; Binneck,Eliseu; Pereira,Gonçalo Amarante Guimarães; Carazzolle,Marcelo Falsarella. The Genosoja consortium is an initiative to integrate different omics research approaches carried out in Brazil. Basically, the aim of the project is to improve the plant by identifying genes involved in responses against stresses that affect domestic production, like drought stress and Asian Rust fungal disease. To do so, the project generated several types of sequence data using different methodologies, most of them sequenced by next generation sequencers. The initial stage of the project is highly dependent on bioinformatics analysis, providing suitable tools and integrated databases. In this work, we describe the main features of the Genosoja web database, including the pipelines to analyze some kinds of data (ESTs, SuperSAGE, microRNAs, subtractive... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; Database; Gene expression; Soybean; Genosoja. Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200002 Determining the pathogenicity of CFTR missense variants: Multiple comparisons of in silico predictors and variant annotation databases Genet. Mol. Biol. Michels,Marcus; Matte,Ursula; Fraga,Lucas Rosa; Mancuso,Aline Castello Branco; Ligabue-Braun,Rodrigo; Berneira,Elias Figueroa Rodrigues; Siebert,Marina; Sanseverino,Maria Teresa Vieira. Abstract Pathogenic variants in the Cystic Fibrosis Transmembrane Conductance Regulator gene (CFTR) are responsible for cystic fibrosis (CF), the commonest monogenic autosomal recessive disease, and CFTR-related disorders in infants and youth. Diagnosis of such diseases relies on clinical, functional, and molecular studies. To date, over 2,000 variants have been described on CFTR (~40% missense). Since few of them have confirmed pathogenicity, in silico analysis could help molecular diagnosis and genetic counseling. Here, the pathogenicity of 779 CFTR missense variants was predicted by consensus predictor PredictSNP and compared to annotations on CFTR2 and ClinVar. Sensitivity and specificity analysis was divided into modeling and validation phases using... Tipo: Info:eu-repo/semantics/article Palavras-chave: CFTR; Missense variant; Prediction; Bioinformatics; Cystic fibrosis. Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572019000400560 Biomolecular computers with multiple restriction enzymes Genet. Mol. Biol. Sakowski,Sebastian; Krasinski,Tadeusz; Waldmajer,Jacek; Sarnik,Joanna; Blasiak,Janusz; Poplawski,Tomasz. Abstract The development of conventional, silicon-based computers has several limitations, including some related to the Heisenberg uncertainty principle and the von Neumann “bottleneck”. Biomolecular computers based on DNA and proteins are largely free of these disadvantages and, along with quantum computers, are reasonable alternatives to their conventional counterparts in some applications. The idea of a DNA computer proposed by Ehud Shapiro’s group at the Weizmann Institute of Science was developed using one restriction enzyme as hardware and DNA fragments (the transition molecules) as software and input/output signals. This computer represented a two-state two-symbol finite automaton that was subsequently extended by using two restriction enzymes. In... Tipo: Info:eu-repo/semantics/article Palavras-chave: Bioinformatics; DNA; DNA computer; Restriction enzymes. Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000500860 Registros recuperados: 1.312 Primeira ... 1 2 3 4 5 6 7 8 9 ... Última

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