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https://www.readbyqxmd.com/read/28672236/developing-and-applying-metamodels-of-high-resolution-process-based-simulations-for-high-throughput-exposure-assessment-of-organic-chemicals-in-riverine-ecosystems
#1
M Craig Barber, Kristin K Isaacs, Caroline Tebes-Stevens
As defined by Wikipedia (https://en.wikipedia.org/wiki/Metamodeling), "(a) metamodel or surrogate model is a model of a model, and metamodeling is the process of generating such metamodels." The goals of metamodeling include, but are not limited to (1) developing functional or statistical relationships between a model's input and output variables for model analysis, interpretation, or information consumption by users' clients; (2) quantifying a model's sensitivity to alternative or uncertain forcing functions, initial conditions, or parameters; and (3) characterizing the model's response or state space...
June 30, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28663021/comparative-analysis-of-diabetes-self-management-education-programs-in-the-european-union-member-states
#2
Sarama Saha, Henna Riemenschneider, Gabriele Müller, Diane Levin-Zamir, Stephan Van den Broucke, Peter E H Schwarz
Diabetes self-management education (DSME) is generally considered as an integral part of diabetes care. The availability of different types of self-management in the European Union Member States (EUMS) remains uncertain. The aim of this study is to perform a comparative analysis of existing DSME programs (DSMEP) implemented in EUMS. Unpublished data regarding DSME in the EUMS was assessed with Diabetes Literacy Survey using wiki tool (WT) targeting patients and different stakeholders. An additional literature review (LR) was performed in PubMed to identify published studies regarding DSMEP in the EUMS from 2004 to 2014...
June 26, 2017: Primary Care Diabetes
https://www.readbyqxmd.com/read/28608851/a-global-dataset-of-crowdsourced-land-cover-and-land-use-reference-data
#3
Steffen Fritz, Linda See, Christoph Perger, Ian McCallum, Christian Schill, Dmitry Schepaschenko, Martina Duerauer, Mathias Karner, Christopher Dresel, Juan-Carlos Laso-Bayas, Myroslava Lesiv, Inian Moorthy, Carl F Salk, Olha Danylo, Tobias Sturn, Franziska Albrecht, Liangzhi You, Florian Kraxner, Michael Obersteiner
Global land cover is an essential climate variable and a key biophysical driver for earth system models. While remote sensing technology, particularly satellites, have played a key role in providing land cover datasets, large discrepancies have been noted among the available products. Global land use is typically more difficult to map and in many cases cannot be remotely sensed. In-situ or ground-based data and high resolution imagery are thus an important requirement for producing accurate land cover and land use datasets and this is precisely what is lacking...
June 13, 2017: Scientific Data
https://www.readbyqxmd.com/read/28583426/studying-behaviors-among-neurosurgery-residents-using-web-2-0-analytic-tools
#4
Benjamin Davidson, Naif M Alotaibi, Daipayan Guha, Sandi Amaral, Abhaya V Kulkarni, Andres M Lozano
BACKGROUND: Web 2.0 technologies (e.g., blogs, social networks, and wikis) are increasingly being used by medical schools and postgraduate training programs as tools for information dissemination. These technologies offer the unique opportunity to track metrics of user engagement and interaction. Here, we employ Web 2.0 tools to assess academic behaviors among neurosurgery residents. METHODS: We performed a retrospective review of all educational lectures, part of the core Neurosurgery Residency curriculum at the University of Toronto, posted on our teaching website (www...
June 2, 2017: Journal of Surgical Education
https://www.readbyqxmd.com/read/28562810/teaching-learning-evaluation-on-the-icnp%C3%A2-using-virtual-learning-environment
#5
Carolina Costa Valcanti Avelino, Lívia Cristina Scalon da Costa, Soraia Matilde Marques Buchhorn, Denismar Alves Nogueira, Sueli Leiko Takamatsu Goyatá
Objective: Evaluating the teaching-learning process of undergraduates and nursing professionals on the International Classification for Nursing Practice (ICNP®) through a course on Moodle Platform. Method: Mixed research conducted with 51 nursing students and nurses. Many technological and educational resources were used. To collect data, two semi-structured questionnaires were applied and focus groups were carried out. Statistical and thematic analysis of the data was performed...
May 2017: Revista Brasileira de Enfermagem
https://www.readbyqxmd.com/read/28518075/leveraging-cyverse-resources-for-de-novo-comparative-transcriptomics-of-underserved-non-model-organisms
#6
Blake L Joyce, Asher K Haug-Baltzell, Jonathan P Hulvey, Fiona McCarthy, Upendra Kumar Devisetty, Eric Lyons
This workflow allows novice researchers to leverage advanced computational resources such as cloud computing to carry out pairwise comparative transcriptomics. It also serves as a primer for biologists to develop data scientist computational skills, e.g. executing bash commands, visualization and management of large data sets. All command line code and further explanations of each command or step can be found on the wiki (https://wiki.cyverse.org/wiki/x/dgGtAQ). The Discovery Environment and Atmosphere platforms are connected together through the CyVerse Data Store...
May 9, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/28489282/collaborative-writing-applications-in-healthcare-effects-on-professional-practice-and-healthcare-outcomes
#7
REVIEW
Patrick M Archambault, Tom H van de Belt, Craig Kuziemsky, Ariane Plaisance, Audrey Dupuis, Carrie A McGinn, Rebecca Francois, Marie-Pierre Gagnon, Alexis F Turgeon, Tanya Horsley, William Witteman, Julien Poitras, Jean Lapointe, Kevin Brand, Jean Lachaine, France Légaré
BACKGROUND: Collaborative writing applications (CWAs), such as wikis and Google Documents, hold the potential to improve the use of evidence in both public health and healthcare. Although a growing body of literature indicates that CWAs could have positive effects on healthcare, such as improved collaboration, behavioural change, learning, knowledge management, and adaptation of knowledge to local context, this has never been assessed systematically. Moreover, several questions regarding safety, reliability, and legal aspects exist...
May 10, 2017: Cochrane Database of Systematic Reviews
https://www.readbyqxmd.com/read/28473308/sa%C3%A3%C2%BAde-na-copa-the-world-s-first-application-of-participatory-surveillance-for-a-mass-gathering-at-fifa-world-cup-2014-brazil
#8
Onicio Leal Neto, George Santiago Dimech, Marlo Libel, Wayner Vieira de Souza, Eduarda Cesse, Mark Smolinski, Wanderson Oliveira, Jones Albuquerque
BACKGROUND: The 2005 International Health Regulations (IHRs) established parameters for event assessments and notifications that may constitute public health emergencies of international concern. These requirements and parameters opened up space for the use of nonofficial mechanisms (such as websites, blogs, and social networks) and technological improvements of communication that can streamline the detection, monitoring, and response to health problems, and thus reduce damage caused by these problems...
May 4, 2017: JMIR Public Health and Surveillance
https://www.readbyqxmd.com/read/28472320/chimerscope-a-novel-alignment-free-algorithm-for-fusion-transcript-prediction-using-paired-end-rna-seq-data
#9
You Li, Tayla B Heavican, Neetha N Vellichirammal, Javeed Iqbal, Chittibabu Guda
The RNA-Seq technology has revolutionized transcriptome characterization not only by accurately quantifying gene expression, but also by the identification of novel transcripts like chimeric fusion transcripts. The 'fusion' or 'chimeric' transcripts have improved the diagnosis and prognosis of several tumors, and have led to the development of novel therapeutic regimen. The fusion transcript detection is currently accomplished by several software packages, primarily relying on sequence alignment algorithms...
May 2, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28464793/icover-an-interactive-visualization-tool-for-verification-and-refinement-of-metagenomic-bins
#10
Bertjan Broeksema, Magdalena Calusinska, Fintan McGee, Klaas Winter, Francesco Bongiovanni, Xavier Goux, Paul Wilmes, Philippe Delfosse, Mohammad Ghoniem
BACKGROUND: Recent advances in high-throughput sequencing allow for much deeper exploitation of natural and engineered microbial communities, and to unravel so-called "microbial dark matter" (microbes that until now have evaded cultivation). Metagenomic analyses result in a large number of genomic fragments (contigs) that need to be grouped (binned) in order to reconstruct draft microbial genomes. While several contig binning algorithms have been developed in the past 2 years, they often lack consensus...
May 2, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28426589/open-access-crowd-sourced-repository-of-anesthesia-information-wiki-anesthesia-as-antidote-to-inaccurate-internet-based-resources
#11
André A J Van Zundert, Stephen P Gatt, Ravi P Mahajan
No abstract text is available yet for this article.
May 2017: Anesthesia and Analgesia
https://www.readbyqxmd.com/read/28389770/a-fast-genomic-selection-approach-for-large-genomic-data
#12
Hailan Liu, Guo-Bo Chen
We propose a novel computational method for genomic selection that combines identical-by-state (IBS)-based Haseman-Elston (HE) regression and best linear prediction (BLP), called HE-BLP. Genomic best linear unbiased prediction (GBLUP) has been widely used in whole-genome prediction for breeding programs. To determine the total genetic variance of a training population, a linear mixed model (LMM) should be solved via restricted maximum likelihood (REML), whose computational complexity is the cube of the sample size...
June 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28377089/patient-eligibility-for-thrombectomy-after-acute-stroke-northern-french-alps-database-analysis
#13
J Papassin, I M Favre-Wiki, T Atroun, F Tahon, K Boubagra, G Rodier, F Bing, S Marcel, C Vallot, L Belle, M Hommel, O Detante
BACKGROUND: Since 2015, the emergence of mechanical thrombectomy as standard care in acute stroke has involved organizational changes not only for stroke centers, but also for entire emergency regional networks. The aim of our study was to assess the proportion of ischemic stroke patients, admitted to stroke units in the Northern French Alps within the first 6h of onset, eligible for thrombectomy. METHODS: This study retrospectively analyzed the clinical and radiological data of all acute stroke patients hospitalized at three stroke units of the Northern French Alps Emergency Network (RENAU) in 2014...
April 1, 2017: Revue Neurologique
https://www.readbyqxmd.com/read/28372915/creation-of-an-online-wiki-improves-post-operative-surgical-protocol-adherence-in-arthroplasty-patients
#14
Eric F Swart, Daniel J Miller, Thomas R Hickernell, Kevin J Bozic, Jeffrey A Geller, William B Macaulay
BACKGROUND: Perioperative care pathways are tools used in high-volume clinical settings to standardize care, reduce variability, and improve outcomes. However, the mechanism by which the information is transmitted to other caregivers is often inconsistent and error-prone. At our institution, we developed an online, user-editable ("wiki") database to communicate post-operative protocols. The purpose of this study is to evaluate the hypothesis that implementation of the wiki would improve protocol adherence and reduce unintentional deviations inpatient care...
March 9, 2017: Journal of Arthroplasty
https://www.readbyqxmd.com/read/28369191/the-rnaseq-er-api-a-gateway-to-systematically-updated-analysis-of-public-rna-seq-data
#15
Robert Petryszak, Nuno A Fonseca, Anja Füllgrabe, Laura Huerta, Maria Keays, Y Amy Tang, Alvis Brazma
Motivation: The exponential growth of publicly available RNA sequencing (RNA-Seq) data poses an increasing challenge to researchers wishing to discover, analyse and store such data, particularly those based in institutions with limited computational resources. EMBL-EBI is in an ideal position to address these challenges and to allow the scientific community easy access to not just raw, but also processed RNA-Seq data. We present a Web service to access the results of a systematically and continually updated standardised alignment as well as gene and exon expression quantification of all public bulk (and in the near future also single-cell) RNA-Seq runs in 264 species in European Nucleotide Archive, using Representational State Transfer...
March 22, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334306/peptidemapper-efficient-and-versatile-amino-acid-sequence-and-tag-mapping
#16
Dominik Kopczynski, Harald Barsnes, Pål R Njølstad, Albert Sickmann, Marc Vaudel, Robert Ahrends
Summary: The mapping of amino acid sequences is an essential task in bioinformatics. Notably, the mapping of peptide sequences on a proteome is required for the post-processing of proteomics results. However, this step can quickly become a bottleneck when working with extensive numbers of peptides or large protein sequence databases. Here, we present PeptideMapper, a novel amino acid sequence mapper for both peptide sequences and de novo sequencing identification results. By taking advantage of the latest advances in pattern matching, PeptideMapper achieves unprecedented performance (i...
March 2, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334108/fast-admixture-analysis-and-population-tree-estimation-for-snp-and-ngs-data
#17
Yu Jade Cheng, Thomas Mailund, Rasmus Nielsen
Structure methods are highly used population genetic methods for classifying individuals in a sample fractionally into discrete ancestry components. We introduce a new optimization algorithm for the classical STRUCTURE model in a maximum likelihood framework. Using analyses of real data we show that the new method finds solutions with higher likelihoods than the state-of-the-art method inthe same computational time. The optimization algorithm is also applicable to models based on genotype likelihoods, that can account for the uncertainty in genotype-calling associated with Next Generation Sequencing (NGS) data...
February 17, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28333216/buddysuite-command-line-toolkits-for-manipulating-sequences-alignments-and-phylogenetic-trees
#18
Stephen R Bond, Karl E Keat, Sofia N Barreira, Andreas D Baxevanis
The ability to manipulate sequence, alignment, and phylogenetic tree files has become an increasingly important skill in the life sciences, whether to generate summary information or to prepare data for further downstream analysis. The command line can be an extremely powerful environment for interacting with these resources, but only if the user has the appropriate general-purpose tools on hand. BuddySuite is a collection of four independent yet interrelated command-line toolkits that facilitate each step in the workflow of sequence discovery, curation, alignment, and phylogenetic reconstruction...
June 1, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28288034/the-current-use-of-social-media-in-undergraduate-nursing-education-a-review-of-the-literature
#19
Jennifer Gunberg Ross, Shannon Marie Myers
Social media, including blogs, Twitter, wikis, Facebook, YouTube, and Ning, provides an opportunity for nurse educators to engage undergraduate nursing students who are members of the millennial generation in active learning while enhancing knowledge and fostering communication. Despite the rise of social media usage in undergraduate nursing education, there is a significant deficiency of empirical evidence supporting the efficacy and outcomes of these teaching strategies. This article provides an overview of social media use in undergraduate nursing education and a review of the existing research related to social media use in prelicensure nursing education...
July 2017: Computers, Informatics, Nursing: CIN
https://www.readbyqxmd.com/read/28257959/the-immune-microenvironment-genome-wide-copy-number-aberrations-and-survival-in-mesothelioma
#20
Bibhusal Thapa, Adriana Salcedo, Xihui Lin, Marzena Walkiewicz, Carmel Murone, Malaka Ameratunga, Khashyar Asadi, Siddhartha Deb, Stephen Arthur Barnett, Simon Knight, Paul Mitchell, D Neil Watkins, Paul C Boutros, Thomas John
INTRODUCTION: Results of recent clinical studies of immune checkpoint inhibitors in malignant pleural mesothelioma (MPM) have dampened initial enthusiasm. However, the immune environment and targets of these treatments such as programmed cell death protein 1 and its ligand programmed death ligand 1 (PD-L1) have not been well characterized in MPM. Using a large cohort of patients, we investigated PD-L1 expression, immune infiltrates, and genome-wide copy number status and correlated them to clinicopathological features...
May 2017: Journal of Thoracic Oncology
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