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[PMID]:29199498
[Au] Autor:Strbac V; Pierce DM; Vander Sloten J; Famaey N
[Ad] Endereço:a Biomechanics Section, Department of Mechanical Engineering , KULeuven , Heverlee , Belgium .
[Ti] Título:GPGPU-based explicit finite element computations for applications in biomechanics: the performance of material models, element technologies, and hardware generations.
[So] Source:Comput Methods Biomech Biomed Engin;20(16):1643-1657, 2017 Dec.
[Is] ISSN:1476-8259
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Finite element (FE) simulations are increasingly valuable in assessing and improving the performance of biomedical devices and procedures. Due to high computational demands such simulations may become difficult or even infeasible, especially when considering nearly incompressible and anisotropic material models prevalent in analyses of soft tissues. Implementations of GPGPU-based explicit FEs predominantly cover isotropic materials, e.g. the neo-Hookean model. To elucidate the computational expense of anisotropic materials, we implement the Gasser-Ogden-Holzapfel dispersed, fiber-reinforced model and compare solution times against the neo-Hookean model. Implementations of GPGPU-based explicit FEs conventionally rely on single-point (under) integration. To elucidate the expense of full and selective-reduced integration (more reliable) we implement both and compare corresponding solution times against those generated using underintegration. To better understand the advancement of hardware, we compare results generated using representative Nvidia GPGPUs from three recent generations: Fermi (C2075), Kepler (K20c), and Maxwell (GTX980). We explore scaling by solving the same boundary value problem (an extension-inflation test on a segment of human aorta) with progressively larger FE meshes. Our results demonstrate substantial improvements in simulation speeds relative to two benchmark FE codes (up to 300[Formula: see text] while maintaining accuracy), and thus open many avenues to novel applications in biomechanics and medicine.
[Mh] Termos MeSH primário: Gráficos por Computador
Computadores
Análise de Elementos Finitos
[Mh] Termos MeSH secundário: Túnica Adventícia/fisiologia
Anisotropia
Aorta Abdominal/fisiologia
Fenômenos Biomecânicos
Simulação por Computador
Seres Humanos
Reprodutibilidade dos Testes
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1803
[Cu] Atualização por classe:180309
[Lr] Data última revisão:
180309
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171205
[St] Status:MEDLINE
[do] DOI:10.1080/10255842.2017.1404586


  2 / 48748 MEDLINE  
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[PMID]:29386432
[Au] Autor:Uesawa Y
[Ad] Endereço:Department of Clinical Pharmaceutics, Meiji Pharmaceutical University.
[Ti] Título:[Adverse Effect Predictions Based on Computational Toxicology Techniques and Large-scale Databases].
[So] Source:Yakugaku Zasshi;138(2):185-190, 2018.
[Is] ISSN:1347-5231
[Cp] País de publicação:Japan
[La] Idioma:jpn
[Ab] Resumo: Understanding the features of chemical structures related to the adverse effects of drugs is useful for identifying potential adverse effects of new drugs. This can be based on the limited information available from post-marketing surveillance, assessment of the potential toxicities of metabolites and illegal drugs with unclear characteristics, screening of lead compounds at the drug discovery stage, and identification of leads for the discovery of new pharmacological mechanisms. This present paper describes techniques used in computational toxicology to investigate the content of large-scale spontaneous report databases of adverse effects, and it is illustrated with examples. Furthermore, volcano plotting, a new visualization method for clarifying the relationships between drugs and adverse effects via comprehensive analyses, will be introduced. These analyses may produce a great amount of data that can be applied to drug repositioning.
[Mh] Termos MeSH primário: Sistemas de Notificação de Reações Adversas a Medicamentos
Computadores
Bases de Dados como Assunto
Efeitos Colaterais e Reações Adversas Relacionados a Medicamentos
Toxicologia/métodos
[Mh] Termos MeSH secundário: Reposicionamento de Medicamentos
Valor Preditivo dos Testes
Vigilância de Produtos Comercializados
Relação Estrutura-Atividade
[Pt] Tipo de publicação:JOURNAL ARTICLE; REVIEW
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180228
[Lr] Data última revisão:
180228
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180202
[St] Status:MEDLINE
[do] DOI:10.1248/yakushi.17-00174-4


  3 / 48748 MEDLINE  
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[PMID]:29385151
[Au] Autor:Olijnyk NV
[Ad] Endereço:United States Military Academy, West Point, NY, United States of America.
[Ti] Título:Examination of China's performance and thematic evolution in quantum cryptography research using quantitative and computational techniques.
[So] Source:PLoS One;13(1):e0190646, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:This study performed two phases of analysis to shed light on the performance and thematic evolution of China's quantum cryptography (QC) research. First, large-scale research publication metadata derived from QC research published from 2001-2017 was used to examine the research performance of China relative to that of global peers using established quantitative and qualitative measures. Second, this study identified the thematic evolution of China's QC research using co-word cluster network analysis, a computational science mapping technique. The results from the first phase indicate that over the past 17 years, China's performance has evolved dramatically, placing it in a leading position. Among the most significant findings is the exponential rate at which all of China's performance indicators (i.e., Publication Frequency, citation score, H-index) are growing. China's H-index (a normalized indicator) has surpassed all other countries' over the last several years. The second phase of analysis shows how China's main research focus has shifted among several QC themes, including quantum-key-distribution, photon-optical communication, network protocols, and quantum entanglement with an emphasis on applied research. Several themes were observed across time periods (e.g., photons, quantum-key-distribution, secret-messages, quantum-optics, quantum-signatures); some themes disappeared over time (e.g., computer-networks, attack-strategies, bell-state, polarization-state), while others emerged more recently (e.g., quantum-entanglement, decoy-state, unitary-operation). Findings from the first phase of analysis provide empirical evidence that China has emerged as the global driving force in QC. Considering China is the premier driving force in global QC research, findings from the second phase of analysis provide an understanding of China's QC research themes, which can provide clarity into how QC technologies might take shape. QC and science and technology policy researchers can also use these findings to trace previous research directions and plan future lines of research.
[Mh] Termos MeSH primário: Segurança Computacional/tendências
Computadores
Teoria Quântica
Pesquisa/tendências
[Mh] Termos MeSH secundário: China
Previsões
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180221
[Lr] Data última revisão:
180221
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180201
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0190646


  4 / 48748 MEDLINE  
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[PMID]:29315317
[Au] Autor:Marshall HH; Griffiths DJ; Mwanguhya F; Businge R; Griffiths AGF; Kyabulima S; Mwesige K; Sanderson JL; Thompson FJ; Vitikainen EIK; Cant MA
[Ad] Endereço:Centre for Ecology and Conservation, University of Exeter, Penryn Campus, Cornwall, United Kingdom.
[Ti] Título:Data collection and storage in long-term ecological and evolutionary studies: The Mongoose 2000 system.
[So] Source:PLoS One;13(1):e0190740, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Studying ecological and evolutionary processes in the natural world often requires research projects to follow multiple individuals in the wild over many years. These projects have provided significant advances but may also be hampered by needing to accurately and efficiently collect and store multiple streams of the data from multiple individuals concurrently. The increase in the availability and sophistication of portable computers (smartphones and tablets) and the applications that run on them has the potential to address many of these data collection and storage issues. In this paper we describe the challenges faced by one such long-term, individual-based research project: the Banded Mongoose Research Project in Uganda. We describe a system we have developed called Mongoose 2000 that utilises the potential of apps and portable computers to meet these challenges. We discuss the benefits and limitations of employing such a system in a long-term research project. The app and source code for the Mongoose 2000 system are freely available and we detail how it might be used to aid data collection and storage in other long-term individual-based projects.
[Mh] Termos MeSH primário: Evolução Biológica
Ecossistema
Monitoramento Ambiental/métodos
[Mh] Termos MeSH secundário: Animais
Computadores
Coleta de Dados
Bases de Dados Factuais
Feminino
Herpestidae
Seres Humanos
Masculino
Gravidez
Smartphone
Uganda
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180221
[Lr] Data última revisão:
180221
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180110
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0190740


  5 / 48748 MEDLINE  
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[PMID]:29351280
[Au] Autor:Christensen A; Mariani P; Payne MR
[Ad] Endereço:DTU Aqua, Technical University of Denmark, Kgs. Lyngby, Denmark.
[Ti] Título:A generic framework for individual-based modelling and physical-biological interaction.
[So] Source:PLoS One;13(1):e0189956, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The increased availability of high-resolution ocean data globally has enabled more detailed analyses of physical-biological interactions and their consequences to the ecosystem. We present IBMlib, which is a versatile, portable and computationally effective framework for conducting Lagrangian simulations in the marine environment. The purpose of the framework is to handle complex individual-level biological models of organisms, combined with realistic 3D oceanographic model of physics and biogeochemistry describing the environment of the organisms without assumptions about spatial or temporal scales. The open-source framework features a minimal robust interface to facilitate the coupling between individual-level biological models and oceanographic models, and we provide application examples including forward/backward simulations, habitat connectivity calculations, assessing ocean conditions, comparison of physical circulation models, model ensemble runs and recently posterior Eulerian simulations using the IBMlib framework. We present the code design ideas behind the longevity of the code, our implementation experiences, as well as code performance benchmarking. The framework may contribute substantially to progresses in representing, understanding, predicting and eventually managing marine ecosystems.
[Mh] Termos MeSH primário: Modelos Teóricos
Oceanografia
[Mh] Termos MeSH secundário: Computadores
Ecossistema
Biologia Marinha
Software
Interface Usuário-Computador
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T; VALIDATION STUDIES
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180215
[Lr] Data última revisão:
180215
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180120
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0189956


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[PMID]:29293576
[Au] Autor:Warris S; Timal NRN; Kempenaar M; Poortinga AM; van de Geest H; Varbanescu AL; Nap JP
[Ad] Endereço:Expertise Centre ALIFE, Institute for Life Science & Technology, Hanze University of Applied Sciences Groningen, Groningen, the Netherlands.
[Ti] Título:pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment.
[So] Source:PLoS One;13(1):e0190279, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Our previously published CUDA-only application PaSWAS for Smith-Waterman (SW) sequence alignment of any type of sequence on NVIDIA-based GPUs is platform-specific and therefore adopted less than could be. The OpenCL language is supported more widely and allows use on a variety of hardware platforms. Moreover, there is a need to promote the adoption of parallel computing in bioinformatics by making its use and extension more simple through more and better application of high-level languages commonly used in bioinformatics, such as Python. RESULTS: The novel application pyPaSWAS presents the parallel SW sequence alignment code fully packed in Python. It is a generic SW implementation running on several hardware platforms with multi-core systems and/or GPUs that provides accurate sequence alignments that also can be inspected for alignment details. Additionally, pyPaSWAS support the affine gap penalty. Python libraries are used for automated system configuration, I/O and logging. This way, the Python environment will stimulate further extension and use of pyPaSWAS. CONCLUSIONS: pyPaSWAS presents an easy Python-based environment for accurate and retrievable parallel SW sequence alignments on GPUs and multi-core systems. The strategy of integrating Python with high-performance parallel compute languages to create a developer- and user-friendly environment should be considered for other computationally intensive bioinformatics algorithms.
[Mh] Termos MeSH primário: Alinhamento de Sequência/métodos
[Mh] Termos MeSH secundário: Algoritmos
Biologia Computacional
Computadores
Linguagens de Programação
Software
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180215
[Lr] Data última revisão:
180215
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180103
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0190279


  7 / 48748 MEDLINE  
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[PMID]:29371457
[Au] Autor:Schreiber LR; Bluhm H
[Ad] Endereço:Jülich Aachen Research Alliance (JARA), Institute for Quantum Information, RWTH Aachen and Forschungszentrum Jülich, Germany. lars.schreiber@physik.rwth-aachen.de.
[Ti] Título:Toward a silicon-based quantum computer.
[So] Source:Science;359(6374):393-394, 2018 01 26.
[Is] ISSN:1095-9203
[Cp] País de publicação:United States
[La] Idioma:eng
[Mh] Termos MeSH primário: Desenho de Equipamento
Silício
[Mh] Termos MeSH secundário: Computadores
Pontos Quânticos
[Pt] Tipo de publicação:JOURNAL ARTICLE; COMMENT
[Nm] Nome de substância:
Z4152N8IUI (Silicon)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180129
[Lr] Data última revisão:
180129
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180127
[St] Status:MEDLINE
[do] DOI:10.1126/science.aar6209


  8 / 48748 MEDLINE  
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[PMID]:29342158
[Au] Autor:Chamberlain BP; Levy-Kramer J; Humby C; Deisenroth MP
[Ad] Endereço:Department of Computing, Imperial College London, London, United Kingdom.
[Ti] Título:Real-time community detection in full social networks on a laptop.
[So] Source:PLoS One;13(1):e0188702, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:For a broad range of research and practical applications it is important to understand the allegiances, communities and structure of key players in society. One promising direction towards extracting this information is to exploit the rich relational data in digital social networks (the social graph). As global social networks (e.g., Facebook and Twitter) are very large, most approaches make use of distributed computing systems for this purpose. Distributing graph processing requires solving many difficult engineering problems, which has lead some researchers to look at single-machine solutions that are faster and easier to maintain. In this article, we present an approach for analyzing full social networks on a standard laptop, allowing for interactive exploration of the communities in the locality of a set of user specified query vertices. The key idea is that the aggregate actions of large numbers of users can be compressed into a data structure that encapsulates the edge weights between vertices in a derived graph. Local communities can be constructed by selecting vertices that are connected to the query vertices with high edge weights in the derived graph. This compression is robust to noise and allows for interactive queries of local communities in real-time, which we define to be less than the average human reaction time of 0.25s. We achieve single-machine real-time performance by compressing the neighborhood of each vertex using minhash signatures and facilitate rapid queries through Locality Sensitive Hashing. These techniques reduce query times from hours using industrial desktop machines operating on the full graph to milliseconds on standard laptops. Our method allows exploration of strongly associated regions (i.e., communities) of large graphs in real-time on a laptop. It has been deployed in software that is actively used by social network analysts and offers another channel for media owners to monetize their data, helping them to continue to provide free services that are valued by billions of people globally.
[Mh] Termos MeSH primário: Computadores
Apoio Social
[Mh] Termos MeSH secundário: Seres Humanos
Software
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180129
[Lr] Data última revisão:
180129
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180118
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0188702


  9 / 48748 MEDLINE  
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Registro de Ensaios Clínicos
Registro de Ensaios Clínicos
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[PMID]:28468687
[Au] Autor:De Cocker K; De Bourdeaudhuij I; Cardon G; Vandelanotte C
[Ad] Endereço:Department of Movement and Sports Sciences, Ghent University, Watersportlaan 2, B-9000, Ghent, Belgium.
[Ti] Título:What are the working mechanisms of a web-based workplace sitting intervention targeting psychosocial factors and action planning?
[So] Source:BMC Public Health;17(1):382, 2017 05 03.
[Is] ISSN:1471-2458
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Office workers demonstrate high levels of sitting on workdays. As sitting is positively associated with adverse health risks in adults, a theory-driven web-based computer-tailored intervention to influence workplace sitting, named 'Start to Stand,' was developed. The intervention was found to be effective in reducing self-reported workplace sitting among Flemish employees. The aim of this study was to investigate through which mechanisms the web-based computer-tailored intervention influenced self-reported workplace sitting. METHODS: Employees (n = 155) participated in a clustered randomised controlled trial and reported socio-demographics (age, gender, education), work-related (hours at work, employment duration), health-related (weight and height, workplace sitting and physical activity) and psychosocial (knowledge, attitudes, self-efficacy, social support, intention regarding (changing) sitting behaviours) variables at baseline and 1-month follow-up. The product-of-coefficients test of MacKinnon based on multiple linear regression analyses was conducted to examine the mediating role of five psychosocial factors (knowledge, attitudes, self-efficacy, social support, intention). The influence of one self-regulation skill (action planning) in the association between the intervention and self-reported workplace sitting time was investigated via moderation analyses. RESULTS: The intervention had a positive influence on knowledge (p = 0.040), but none of the psychosocial variables did mediate the intervention effect on self-reported workplace sitting. Action planning was found to be a significant moderator (p < 0.001) as the decrease in self-reported workplace sitting only occurred in the group completing an action plan. CONCLUSIONS: Future interventions aimed at reducing employees' workplace sitting are suggested to focus on self-regulatory skills and promote action planning when using web-based computer-tailored advice. TRIAL REGISTRATION: Clinicaltrials.gov NCT02672215 ; (Archived by WebCite at https://clinicaltrials.gov/ct2/show/NCT02672215 ).
[Mh] Termos MeSH primário: Exercício
Promoção da Saúde/métodos
Postura
Estilo de Vida Sedentário
Local de Trabalho/organização & administração
[Mh] Termos MeSH secundário: Adulto
Fatores Etários
Pesos e Medidas Corporais
Computadores
Feminino
Conhecimentos, Atitudes e Prática em Saúde
Seres Humanos
Internet
Masculino
Meia-Idade
Saúde do Trabalhador
Autoeficácia
Autorrelato
Fatores Sexuais
Apoio Social
Sociobiologia
Local de Trabalho/psicologia
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1710
[Cu] Atualização por classe:180121
[Lr] Data última revisão:
180121
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170505
[Cl] Clinical Trial:ClinicalTrial
[St] Status:MEDLINE
[do] DOI:10.1186/s12889-017-4325-5


  10 / 48748 MEDLINE  
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[PMID]:29267387
[Au] Autor:Ma L; Sun K; Tu K; Pan L; Zhang W
[Ad] Endereço:College of Food Science and Technology, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
[Ti] Título:Identification of double-yolked duck egg using computer vision.
[So] Source:PLoS One;12(12):e0190054, 2017.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The double-yolked (DY) egg is quite popular in some Asian countries because it is considered as a sign of good luck, however, the double yolk is one of the reasons why these eggs fail to hatch. The usage of automatic methods for identifying DY eggs can increase the efficiency in the poultry industry by decreasing egg loss during incubation or improving sale proceeds. In this study, two methods for DY duck egg identification were developed by using computer vision technology. Transmittance images of DY and single-yolked (SY) duck eggs were acquired by a CCD camera to identify them according to their shape features. The Fisher's linear discriminant (FLD) model equipped with a set of normalized Fourier descriptors (NFDs) extracted from the acquired images and the convolutional neural network (CNN) model using primary preprocessed images were built to recognize duck egg yolk types. The classification accuracies of the FLD model for SY and DY eggs were 100% and 93.2% respectively, while the classification accuracies of the CNN model for SY and DY eggs were 98% and 98.8% respectively. The CNN-based algorithm took about 0.12 s to recognize one sample image, which was slightly faster than the FLD-based (about 0.20 s). Finally, this work compared two classification methods and provided the better method for DY egg identification.
[Mh] Termos MeSH primário: Computadores
Gema de Ovo
[Mh] Termos MeSH secundário: Algoritmos
Animais
Patos
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180116
[Lr] Data última revisão:
180116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171222
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0190054



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