Base de dados : MEDLINE
Pesquisa : L01.178.682.099.325.750 [Categoria DeCS]
Referências encontradas : 38 [refinar]
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  1 / 38 MEDLINE  
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PMID:28617217
Autor:Preiss J; Stevenson M
Endereço:Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello, Sheffield, UK. j.preiss@sheffield.ac.uk.
Título:Quantifying and filtering knowledge generated by literature based discovery.
Fonte:BMC Bioinformatics; 18(Suppl 7):249, 2017 May 31.
ISSN:1471-2105
País de publicação:England
Idioma:eng
Resumo:BACKGROUND: Literature based discovery (LBD) automatically infers missed connections between concepts in literature. It is often assumed that LBD generates more information than can be reasonably examined. METHODS: We present a detailed analysis of the quantity of hidden knowledge produced by an LBD system and the effect of various filtering approaches upon this. The investigation of filtering combined with single or multi-step linking term chains is carried out on all articles in PubMed. RESULTS: The evaluation is carried out using both replication of existing discoveries, which provides justification for multi-step linking chain knowledge in specific cases, and using timeslicing, which gives a large scale measure of performance. CONCLUSIONS: While the quantity of hidden knowledge generated by LBD can be vast, we demonstrate that (a) intelligent filtering can greatly reduce the number of hidden knowledge pairs generated, (b) for a specific term, the number of single step connections can be manageable, and
Tipo de publicação: JOURNAL ARTICLE


  2 / 38 MEDLINE  
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PMID:27455789
Autor:Messer M
Título:[Finding access possibilities for suitable information services].
Título:Zugriffsmöglichkeiten zu geeigneten Informationsquellen finden..
Fonte:Pflege Z; 69(6):368-9, 2016 Jun.
ISSN:0945-1129
País de publicação:Germany
Idioma:ger
Tipo de publicação: JOURNAL ARTICLE


  3 / 38 MEDLINE  
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PMID:27455071
Autor:Preiss J; Stevenson M
Endereço:Advanced Computing Research Center, Department of Computer Science, The University of Sheffield, 211 Portobello, Sheffield, S1 4DP, UK. j.preiss@sheffield.ac.uk.
Título:The effect of word sense disambiguation accuracy on literature based discovery.
Fonte:BMC Med Inform Decis Mak; 16 Suppl 1:57, 2016 Jul 18.
ISSN:1472-6947
País de publicação:England
Idioma:eng
Resumo:BACKGROUND: The volume of research published in the biomedical domain has increasingly lead to researchers focussing on specific areas of interest and connections between findings being missed. Literature based discovery (LBD) attempts to address this problem by searching for previously unnoticed connections between published information (also known as "hidden knowledge"). A common approach is to identify hidden knowledge via shared linking terms. However, biomedical documents are highly ambiguous which can lead LBD systems to over generate hidden knowledge by hypothesising connections through different meanings of linking terms. Word Sense Disambiguation (WSD) aims to resolve ambiguities in text by identifying the meaning of ambiguous terms. This study explores the effect of WSD accuracy on LBD performance. METHODS: An existing LBD system is employed and four approaches to WSD of biomedical documents integrated with it. The accuracy of each WSD approach is determined by comparing its output against a standard benchmark. Evaluation of the LBD output is carried out using timeslicing approach, where hidden knowledge is generated from articles published prior to a certain cutoff date and a gold standard extracted from publications after the cutoff date. RESULTS: WSD accuracy varies depending on the approach used. The connection between the performance of the LBD and WSD systems are analysed to reveal a correlation between WSD accuracy and LBD performance. CONCLUSION: This study reveals that LBD performance is sensitive to WSD accuracy. It is therefore concluded that WSD has the potential to improve the output of LBD systems by reducing the amount of spurious hidden knowledge that is generated. It is also suggested that further improvements in WSD accuracy have the potential to improve LBD accuracy.
Tipo de publicação: JOURNAL ARTICLE


  4 / 38 MEDLINE  
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PMID:27435341
Autor:Kastrin A; Rindflesch TC; Hristovski D
Endereço:Andrej Kastrin, PhD, Faculty of Information Studies, Ljubljanska cesta 31A, SI-8000 Novo Mesto, Slovenia, E-mail: andrej.kastrin@guest.arnes.si.
Título:Link Prediction on a Network of Co-occurring MeSH Terms: Towards Literature-based Discovery.
Fonte:Methods Inf Med; 55(4):340-6, 2016 Aug 05.
ISSN:2511-705X
País de publicação:Germany
Idioma:eng
Resumo:OBJECTIVES: Literature-based discovery (LBD) is a text mining methodology for automatically generating research hypotheses from existing knowledge. We mimic the process of LBD as a classification problem on a graph of MeSH terms. We employ unsupervised and supervised link prediction methods for predicting previously unknown connections between biomedical concepts. METHODS: We evaluate the effectiveness of link prediction through a series of experiments using a MeSH network that contains the history of link formation between biomedical concepts. We performed link prediction using proximity measures, such as common neighbor (CN), Jaccard coefficient (JC), Adamic / Adar index (AA) and preferential attachment (PA). Our approach relies on the assumption that similar nodes are more likely to establish a link in the future. RESULTS: Applying an unsupervised approach, the AA measure achieved the best performance in terms of area under the ROC curve (AUC = 0.76), followed by CN, JC, and PA. In a supervised approach, we evaluate whether proximity measures can be combined to define a model of link formation across all four predictors. We applied various classifiers, including decision trees, k-nearest neighbors, logistic regression, multilayer perceptron, naïve Bayes, and random forests. Random forest classifier accomplishes the best performance (AUC = 0.87). CONCLUSIONS: The link prediction approach proved to be effective for LBD processing. Supervised statistical learning approaches clearly outperform an unsupervised approach to link prediction.
Tipo de publicação: JOURNAL ARTICLE


  5 / 38 MEDLINE  
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PMID:27228359
Autor:Singh RS
Endereço:Department of Biology, McMaster University, 1280 Main St. West, Hamilton, ON L8S 4K1, Canada.
Título:Science beyond boundary: are premature discoveries things of the past?
Fonte:Genome; 59(6):433-7, 2016 Jun.
ISSN:1480-3321
País de publicação:Canada
Idioma:eng
Resumo:Mendel's name more than of any other draws our attention to the personal side in terms of success and failure in science. Mendel lived 19 years after presenting his research findings and died without receiving any recognition for his work. Are premature discoveries things of the past, you may ask? I review the material basis of science in terms of science boundary and field accessibility and analyze the possibility of premature discoveries in different fields of science such as, for example, physics and biology. I conclude that science has reached a stage where progress is being made mostly by pushing the boundary of the known from inside than by leaping across boundaries. As more researchers become engaged in science, and as more publications become open access, on-line, and interactive, the probability of an important discovery remaining buried and going unrecognized would become exceedingly small. Of course, as examples from physics show, a new theory or an important idea can always lie low, unrecognized until it becomes re-discovered and popularized by other researchers. Thus, premature discoveries will become less likely but not forbidden.
Tipo de publicação: HISTORICAL ARTICLE; JOURNAL ARTICLE


  6 / 38 MEDLINE  
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PMID:27029431
Autor:Ma E; Vetter J; Bliss L; Lai HH; Mysorekar IU; Jain S
Endereço:Department of Obstetrics and Gynecology, Washington University School of Medicine, St. Louis, Missouri;
Título:A multiplexed analysis approach identifies new association of inflammatory proteins in patients with overactive bladder.
Fonte:Am J Physiol Renal Physiol; 311(1):F28-34, 2016 Jul 01.
ISSN:1522-1466
País de publicação:United States
Idioma:eng
Resumo:Overactive bladder (OAB) is a common debilitating bladder condition with unknown etiology and limited diagnostic modalities. Here, we explored a novel high-throughput and unbiased multiplex approach with cellular and molecular components in a well-characterized patient cohort to identify biomarkers that could be reliably used to distinguish OAB from controls or provide insights into underlying etiology. As a secondary analysis, we determined whether this method could discriminate between OAB and other chronic bladder conditions. We analyzed plasma samples from healthy volunteers (n = 19) and patients diagnosed with OAB, interstitial cystitis/bladder pain syndrome (IC/BPS), or urinary tract infections (UTI; n = 51) for proinflammatory, chemokine, cytokine, angiogenesis, and vascular injury factors using Meso Scale Discovery (MSD) analysis and urinary cytological analysis. Wilcoxon rank-sum tests were used to perform univariate and multivariate comparisons between patient groups (controls, OAB, IC/BPS, and UTI). Multivariate logistic regression models were fit for each MSD analyte on 1) OAB patients and controls, 2) OAB and IC/BPS patients, and 3) OAB and UTI patients. Age, race, and sex were included as independent variables in all multivariate analysis. Receiver operating characteristic (ROC) curves were generated to determine the diagnostic potential of a given analyte. Our findings demonstrate that five analytes, i.e., interleukin 4, TNF-α, macrophage inflammatory protein-1ß, serum amyloid A, and Tie2 can reliably differentiate OAB relative to controls and can be used to distinguish OAB from the other conditions. Together, our pilot study suggests a molecular imbalance in inflammatory proteins may contribute to OAB pathogenesis.
Tipo de publicação: JOURNAL ARTICLE
Nome de substância:0 (Biomarkers); 0 (Chemokines); 0 (Cytokines); 0 (Tumor Necrosis Factor-alpha)


  7 / 38 MEDLINE  
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PMID:26930283
Autor:Díaz I; Cortey M; Olvera À; Segalés J
Endereço:IRTA, Centre de Recerca en Sanitat Animal (CReSA, IRTA-UAB), Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain.
Título:Use of H-Index and Other Bibliometric Indicators to Evaluate Research Productivity Outcome on Swine Diseases.
Fonte:PLoS One; 11(3):e0149690, 2016.
ISSN:1932-6203
País de publicação:United States
Idioma:eng
Resumo:H-index is the most commonly applied tool to evaluate scientific productivity. In this study, the use of the H-index to evaluate scientific production in swine veterinary medicine was explored. A database of 137 pig infectious agents was constructed, including its taxonomic division, zoonotic potential, status as emerging pathogen and whether it was OIE-listed. The H-index and the total number of citations were calculated for those pathogens, the location of the affiliation of the first author of each paper included in the H-index core was registered and, for the ten pathogens with the highest H-index, evolution over time was measured. H-index values were compared to the M quotient, A-index, G-index, HG-index and the G/H ratio. H-indices were found to be severely affected by search accuracy and the database was hand curated. Swine pathogen H-indexes were highly dispersed ranging from 0 to 106 and were generally higher for pathogens causing endemic diseases in large pig producing countries. Indeed, the three top pathogens were Escherichia coli, Porcine reproductive and respiratory syndrome virus and Porcine circovirus type 2 with H-indices 106, 95 and 85, respectively. H-indices of viruses and bacteria were significantly higher (P<0.001) than other pathogen types. Also, non-zoonotic pathogens had higher H-indices than zoonotic pathogens (p<0.009) while no differences could be found for being listed by the OIE. For emerging diseases, only non-emerging viruses had higher H-index (p = 0.02). The study of H-indexes over time revealed three general patterns and that they had increased mainly after the 1980's. As expected, there were strong geographic patterns in terms of authorship and North America (38%) and Europe (46%) coped the majority of the papers. Finally, in order to quantify the contribution of a subject to a specific field, a new index "Deciphering Citations Organized by Subject" (Dcos) is proposed.
Tipo de publicação: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T


  8 / 38 MEDLINE  
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PMID:24735045
Autor:Cox R; McIntyre KM; Sanchez J; Setzkorn C; Baylis M; Revie CW
Endereço:Centre for Veterinary Epidemiological Research, Atlantic Veterinary College, University of Prince Edward Island, Charlottetown, PE, Canada.
Título:Comparison of the h-Index Scores Among Pathogens Identified as Emerging Hazards in North America.
Fonte:Transbound Emerg Dis; 63(1):79-91, 2016 Feb.
ISSN:1865-1682
País de publicação:Germany
Idioma:eng
Resumo:Disease surveillance must assess the relative importance of pathogen hazards. Here, we use the Hirsch index (h-index) as a novel method to identify and rank infectious pathogens that are likely to be a hazard to human health in the North American region. This bibliometric index was developed to quantify an individual's scientific research output and was recently used as a proxy measure for pathogen impact. Analysis of more than 3000 infectious organisms indicated that 651 were human pathogen species that had been recorded in the North American region. The h-index of these pathogens ranged from 0 to 584. The h-index of emerging pathogens was greater than non-emerging pathogens as was the h-index of frequently pathogenic pathogens when compared to non-pathogenic pathogens. As expected, the h-index of pathogens varied over time between 1960 and 2011. We discuss how the h-index can contribute to pathogen prioritization and as an indicator of pathogen emergence.
Tipo de publicação: JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T


  9 / 38 MEDLINE  
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PMID:26389649
Autor:Atkinson KH
Endereço:A/A Patent Investigations, Winchester, MA 01890, USA.
Título:Reinventing nonpatent literature for pharmaceutical patenting.
Fonte:Pharm Pat Anal; 4(5):371-5, 2015.
ISSN:2046-8962
País de publicação:England
Idioma:eng
Tipo de publicação: JOURNAL ARTICLE


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PMID:26262370
Autor:Kothari CR; Payne PR
Endereço:Department of Biomedical Informatics, School of Medicine, The Ohio State University, Columbus, OH, USA.
Título:A Metadata based Knowledge Discovery Methodology for Seeding Translational Research.
Fonte:Stud Health Technol Inform; 216:1071, 2015.
ISSN:0926-9630
País de publicação:Netherlands
Idioma:eng
Resumo:In this paper, we present a semantic, metadata based knowledge discovery methodology for identifying teams of researchers from diverse backgrounds who can collaborate on interdisciplinary research projects: projects in areas that have been identified as high-impact areas at The Ohio State University. This methodology involves the semantic annotation of keywords and the postulation of semantic metrics to improve the efficiency of the path exploration algorithm as well as to rank the results. Results indicate that our methodology can discover groups of experts from diverse areas who can collaborate on translational research projects.
Tipo de publicação: JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., EXTRAMURAL



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