The UCSC Table Browser data retrieval tool

OpenAIRE

Karolchik, Donna; Hinrichs, Angela S.; Furey, Terrence S.; Roskin, Krishna M.; Sugnet, Charles W.; Haussler, David; Kent, W. James

2004-01-01

The University of California Santa Cruz (UCSC) Table Browser (http://genome.ucsc.edu/cgi-bin/hgText) provides text-based access to a large collection of genome assemblies and annotation data stored in the Genome Browser Database. A flexible alternative to the graphical-based Genome Browser, this tool offers an enhanced level of query support that includes restrictions based on field values, free-form SQL queries and combined queries on multiple tables. Output can be filtered to restrict the f...

An application of TOPSIS for ranking internet web browsers

Directory of Open Access Journals (Sweden)

Shahram Rostampour

2012-07-01

Full Text Available Web browser is one of the most important internet facilities for surfing the internet. A good web browser must incorporate literally tens of features such as integrated search engine, automatic updates, etc. Each year, ten web browsers are formally introduced as top best reviewers by some organizations. In this paper, we propose the implementation of TOPSIS technique to rank ten web browsers. The proposed model of this paper uses five criteria including speed, features, security, technical support and supported configurations. In terms of speed, Safari is the best web reviewer followed by Google Chrome and Internet Explorer while Opera is the best web reviewer when we look into 20 different features. We have also ranked these web browsers using all five categories together and the results indicate that Opera, Internet explorer, Firefox and Google Chrome are the best web browsers to be chosen.

Selfrando: Securing the Tor Browser against De-anonymization Exploits

Directory of Open Access Journals (Sweden)

Conti Mauro

2016-10-01

Full Text Available Tor is a well-known anonymous communication system used by millions of users, including journalists and civil rights activists all over the world. The Tor Browser gives non-technical users an easy way to access the Tor Network. However, many government organizations are actively trying to compromise Tor not only in regions with repressive regimes but also in the free world, as the recent FBI incidents clearly demonstrate. Exploiting software vulnerabilities in general, and browser vulnerabilities in particular, constitutes a clear and present threat to the Tor software. The Tor Browser shares a large part of its attack surface with the Firefox browser. Therefore, Firefox vulnerabilities (even patched ones are highly valuable to attackers trying to monitor users of the Tor Browser.

The UCSC genome browser database: update 2007

DEFF Research Database (Denmark)

Kuhn, R M; Karolchik, D; Zweig, A S

2006-01-01

The University of California, Santa Cruz Genome Browser Database contains, as of September 2006, sequence and annotation data for the genomes of 13 vertebrate and 19 invertebrate species. The Genome Browser displays a wide variety of annotations at all scales from the single nucleotide level up t...

Controlling EPICS from a web browser

International Nuclear Information System (INIS)

Evans, K. Jr.

1999-01-01

An alternative to using a large graphical display manager like MEDM [1,2] to interface to a control system, is to use individual control objects, such as text boxes, meters, etc., running in a browser. This paper presents three implementations of this concept, one using ActiveX controls, one with Java applets, and another with Microsoft Agent. The ActiveX controls have performance nearing that of MEDM, but they only work on Windows platforms. The Java applets require a server to get around Web security restrictions and are not as fast, but they have the advantage of working on most platforms and with both of the leading Web browsers. The agent works on Windows platforms with and without a browser and allows voice recognition and speech synthesis, making it somewhat more innovative than MEDM

Quantifying the web browser ecosystem.

Science.gov (United States)

Ferdman, Sela; Minkov, Einat; Bekkerman, Ron; Gefen, David

2017-01-01

Contrary to the assumption that web browsers are designed to support the user, an examination of a 900,000 distinct PCs shows that web browsers comprise a complex ecosystem with millions of addons collaborating and competing with each other. It is possible for addons to "sneak in" through third party installations or to get "kicked out" by their competitors without user involvement. This study examines that ecosystem quantitatively by constructing a large-scale graph with nodes corresponding to users, addons, and words (terms) that describe addon functionality. Analyzing addon interactions at user level using the Personalized PageRank (PPR) random walk measure shows that the graph demonstrates ecological resilience. Adapting the PPR model to analyzing the browser ecosystem at the level of addon manufacturer, the study shows that some addon companies are in symbiosis and others clash with each other as shown by analyzing the behavior of 18 prominent addon manufacturers. Results may herald insight on how other evolving internet ecosystems may behave, and suggest a methodology for measuring this behavior. Specifically, applying such a methodology could transform the addon market.

A Case Study of Learning, Motivation, and Performance Strategies for Teaching and Coaching CDE Teams

Science.gov (United States)

Ball, Anna; Bowling, Amanda; Bird, Will

2016-01-01

This intrinsic case study examined the case of students on CDE (Career Development Event) teams preparing for state competitive events and the teacher preparing them in a school with a previous exemplary track record of winning multiple state and national career development events. The students were interviewed multiple times during the 16-week…

Quantifying the web browser ecosystem

Science.gov (United States)

Ferdman, Sela; Minkov, Einat; Gefen, David

2017-01-01

Contrary to the assumption that web browsers are designed to support the user, an examination of a 900,000 distinct PCs shows that web browsers comprise a complex ecosystem with millions of addons collaborating and competing with each other. It is possible for addons to “sneak in” through third party installations or to get “kicked out” by their competitors without user involvement. This study examines that ecosystem quantitatively by constructing a large-scale graph with nodes corresponding to users, addons, and words (terms) that describe addon functionality. Analyzing addon interactions at user level using the Personalized PageRank (PPR) random walk measure shows that the graph demonstrates ecological resilience. Adapting the PPR model to analyzing the browser ecosystem at the level of addon manufacturer, the study shows that some addon companies are in symbiosis and others clash with each other as shown by analyzing the behavior of 18 prominent addon manufacturers. Results may herald insight on how other evolving internet ecosystems may behave, and suggest a methodology for measuring this behavior. Specifically, applying such a methodology could transform the addon market. PMID:28644833

A Lead Provided by Bookmarks - Intelligent Browsers

Directory of Open Access Journals (Sweden)

Dan Balanescu

2015-05-01

Full Text Available Browsers are applications that allow Internet access. A defining characteristic is their unidirectionality: Navigator-> Internet. The purpose of this article is to support the idea of Intelligent Browsers that is defined by bidirectional: Navigator-> Internet and Internet-> Navigator. The fundamental idea is that the Internet contains huge resources of knowledge, but they are “passive”. The purpose of this article is to propose the “activation” of this knowledge so that they, through “Intelligent Browsers”, to become from Sitting Ducks to Active Mentors. Following this idea, the present article proposes changes to Bookmarks function, from the current status of Favorites to Recommendations. The article presents an analysis of the utility of this function (by presenting a research of web browsing behaviors and in particular finds that the significance of this utility has decreased lately (to the point of becoming almost useless, as will be shown, in terms data-information-knowledge. Finally, it presents the idea of a project which aims to be an applied approach that anticipates the findings of this study and the concept of Intelligent Browsers (or Active Browsers required in the context of the Big Data concept.

Genome Maps, a new generation genome browser.

Science.gov (United States)

Medina, Ignacio; Salavert, Francisco; Sanchez, Rubén; de Maria, Alejandro; Alonso, Roberto; Escobar, Pablo; Bleda, Marta; Dopazo, Joaquín

2013-07-01

Genome browsers have gained importance as more genomes and related genomic information become available. However, the increase of information brought about by new generation sequencing technologies is, at the same time, causing a subtle but continuous decrease in the efficiency of conventional genome browsers. Here, we present Genome Maps, a genome browser that implements an innovative model of data transfer and management. The program uses highly efficient technologies from the new HTML5 standard, such as scalable vector graphics, that optimize workloads at both server and client sides and ensure future scalability. Thus, data management and representation are entirely carried out by the browser, without the need of any Java Applet, Flash or other plug-in technology installation. Relevant biological data on genes, transcripts, exons, regulatory features, single-nucleotide polymorphisms, karyotype and so forth, are imported from web services and are available as tracks. In addition, several DAS servers are already included in Genome Maps. As a novelty, this web-based genome browser allows the local upload of huge genomic data files (e.g. VCF or BAM) that can be dynamically visualized in real time at the client side, thus facilitating the management of medical data affected by privacy restrictions. Finally, Genome Maps can easily be integrated in any web application by including only a few lines of code. Genome Maps is an open source collaborative initiative available in the GitHub repository (https://github.com/compbio-bigdata-viz/genome-maps). Genome Maps is available at: http://www.genomemaps.org.

CompaGB: An open framework for genome browsers comparison

Directory of Open Access Journals (Sweden)

Chiapello Hélène

2011-05-01

Full Text Available Abstract Background Tools to visualize and explore genomes hold a central place in genomics and the diversity of genome browsers has increased dramatically over the last few years. It often turns out to be a daunting task to compare and choose a well-adapted genome browser, as multidisciplinary knowledge is required to carry out this task and the number of tools, functionalities and features are overwhelming. Findings To assist in this task, we propose a community-based framework based on two cornerstones: (i the implementation of industry promoted software qualification method (QSOS adapted for genome browser evaluations, and (ii a web resource providing numerous facilities either for visualizing comparisons or performing new evaluations. We formulated 60 criteria specifically for genome browsers, and incorporated another 65 directly from QSOS's generic section. Those criteria aim to answer versatile needs, ranging from a biologist whose interest primarily lies into user-friendly and informative functionalities, a bioinformatician who wants to integrate the genome browser into a wider framework, or a computer scientist who might choose a software according to more technical features. We developed a dedicated web application to enrich the existing QSOS functionalities (weighting of criteria, user profile with features of interest to a community-based framework: easy management of evolving data, user comments... Conclusions The framework is available at http://genome.jouy.inra.fr/CompaGB. It is open to anyone who wishes to participate in the evaluations. It helps the scientific community to (1 choose a genome browser that would better fit their particular project, (2 visualize features comparatively with easily accessible formats, such as tables or radar plots and (3 perform their own evaluation against the defined criteria. To illustrate the CompaGB functionalities, we have evaluated seven genome browsers according to the implemented methodology

Ajax and Firefox: New Web Applications and Browsers

Science.gov (United States)

Godwin-Jones, Bob

2005-01-01

Alternative browsers are gaining significant market share, and both Apple and Microsoft are releasing OS upgrades which portend some interesting changes in Web development. Of particular interest for language learning professionals may be new developments in the area of Web browser based applications, particularly using an approach dubbed "Ajax."…

WebVR: an interactive web browser for virtual environments

Science.gov (United States)

Barsoum, Emad; Kuester, Falko

2005-03-01

The pervasive nature of web-based content has lead to the development of applications and user interfaces that port between a broad range of operating systems and databases, while providing intuitive access to static and time-varying information. However, the integration of this vast resource into virtual environments has remained elusive. In this paper we present an implementation of a 3D Web Browser (WebVR) that enables the user to search the internet for arbitrary information and to seamlessly augment this information into virtual environments. WebVR provides access to the standard data input and query mechanisms offered by conventional web browsers, with the difference that it generates active texture-skins of the web contents that can be mapped onto arbitrary surfaces within the environment. Once mapped, the corresponding texture functions as a fully integrated web-browser that will respond to traditional events such as the selection of links or text input. As a result, any surface within the environment can be turned into a web-enabled resource that provides access to user-definable data. In order to leverage from the continuous advancement of browser technology and to support both static as well as streamed content, WebVR uses ActiveX controls to extract the desired texture skin from industry strength browsers, providing a unique mechanism for data fusion and extensibility.

FPRandom: Randomizing core browser objects to break advanced device fingerprinting techniques

OpenAIRE

Laperdrix , Pierre; Baudry , Benoit; Mishra , Vikas

2017-01-01

International audience; The rich programming interfaces (APIs) provided by web browsers can be diverted to collect a browser fingerprint. A small number of queries on these interfaces are sufficient to build a fingerprint that is statistically unique and very stable over time. Consequently, the fingerprint can be used to track users. Our work aims at mitigating the risk of browser fingerprinting for users privacy by 'breaking' the stability of a fingerprint over time. We add randomness in the...

Web Browser History Detection as a Real-World Privacy Threat

CERN Document Server

Janc, A

2010-01-01

Web browser history detection using CSS $visited$ styles has long been dismissed as an issue of marginal impact. However, due to recent changes in Web usage patterns, coupled with browser performance improvements, the long-standing issue has now become a significant threat to the privacy of Internet users. In this paper we analyze the impact of CSS-based history detection and demonstrate the feasibility of conducting practical attacks with minimal resources. We analyze Web browser behavior and detectability of content loaded via standard protocols and with various HTTP response codes. We develop an algorithm for efficient examination of large link sets and evaluate its performance in modern browsers. Compared to existing methods our approach is up to 6 times faster, and is able to detect up to 30,000 visited links per second. We present a novel Web application capable of effectively detecting clients’ browsing histories and discuss real-world results obtained from 271,576 Internet users. Our results indicat...

GeneWiz browser: An Interactive Tool for Visualizing Sequenced Chromosomes

DEFF Research Database (Denmark)

Hallin, Peter Fischer; Stærfeldt, Hans Henrik; Rotenberg, Eva

2009-01-01

, standard atlases are pre-generated for all prokaryotic genomes available in GenBank, providing a fast overview of all available genomes, including recently deposited genome sequences. The tool is available online from http://www.cbs.dtu.dk/services/gwBrowser. [Supplemental material including interactive...... atlases is available online at http://www.cbs.dtu.dk/services/gwBrowser/suppl/]....... readability and increased functionality compared to other browsers. The tool allows the user to select the display of various genomic features, color setting and data ranges. Custom numerical data can be added to the plot, allowing for example visualization of gene expression and regulation data. Further...

D3GB: An Interactive Genome Browser for R, Python, and WordPress.

Science.gov (United States)

Barrios, David; Prieto, Carlos

2017-05-01

Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which leads to better results. New developments that facilitate the creation and utilization of genome browsers could contribute to improving analysis results and supporting the quick visualization of genomic data. D3 Genome Browser is an interactive genome browser that can be easily integrated in analysis protocols and shared on the Web. It is distributed as an R package, a Python module, and a WordPress plugin to facilitate its integration in pipelines and the utilization of platform capabilities. It is compatible with popular data formats such as GenBank, GFF, BED, FASTA, and VCF, and enables the exploration of genomic data with a Web browser.

WebPlus: lxplus in your browser

CERN Multimedia

CERN. Geneva

2017-01-01

This talk will cover the possibility of offering a lxplus like service directly on the browser. How we could rely on containers and schedulers to maintain long lived sessions, and how to offer integration with common CERN services.

Browser impacts in Mapungubwe National Park, South Africa: Should we be worried?

Directory of Open Access Journals (Sweden)

Corli Coetsee

2016-09-01

Full Text Available This study explores the impact of browsers on vegetation types within the Mapungubwe National Park and specifically whether rocky outcrops or ridges in the park serve as refugia from browsers, particularly elephants. We sampled 80 transects at 20 sites and recorded 1740 plants comprising 65 species. We found that a high proportion (> 80% of the woody vegetation sampled indicated browser utilisation. Although certain woody species (e.g. Albizia harveyi, Boscia albitrunca, Lannea schweinfurthii appeared to be preferred by browsers, browsing levels were relatively high among all woody species. High levels of browsing by herbivores other than elephants suggest that they have a significant impact on the park’s vegetation. We did not find that rocky ridges acted as refugia to browsers, but instead found that vegetation in rocky ridges was more severely impacted by browsers than vegetation in flat areas, despite vegetation being more accessible in flat areas. If elephant numbers continue to increase at the current rate (e.g. elephant numbers doubled between 2007 and 2010, we predict that some of the heavily utilised species will become locally rare over time. Conservation implications: High levels of browsing by both elephant and smaller herbivores contribute to significant impacts on vegetation away from rivers in Mapungubwe National Park. Without management interventions that address both types of impact, structural and species diversity are bound to decrease over the short to medium term.

A user-centred evaluation framework for the Sealife semantic web browsers.

Science.gov (United States)

Oliver, Helen; Diallo, Gayo; de Quincey, Ed; Alexopoulou, Dimitra; Habermann, Bianca; Kostkova, Patty; Schroeder, Michael; Jupp, Simon; Khelif, Khaled; Stevens, Robert; Jawaheer, Gawesh; Madle, Gemma

2009-10-01

Semantically-enriched browsing has enhanced the browsing experience by providing contextualized dynamically generated Web content, and quicker access to searched-for information. However, adoption of Semantic Web technologies is limited and user perception from the non-IT domain sceptical. Furthermore, little attention has been given to evaluating semantic browsers with real users to demonstrate the enhancements and obtain valuable feedback. The Sealife project investigates semantic browsing and its application to the life science domain. Sealife's main objective is to develop the notion of context-based information integration by extending three existing Semantic Web browsers (SWBs) to link the existing Web to the eScience infrastructure. This paper describes a user-centred evaluation framework that was developed to evaluate the Sealife SWBs that elicited feedback on users' perceptions on ease of use and information findability. Three sources of data: i) web server logs; ii) user questionnaires; and iii) semi-structured interviews were analysed and comparisons made between each browser and a control system. It was found that the evaluation framework used successfully elicited users' perceptions of the three distinct SWBs. The results indicate that the browser with the most mature and polished interface was rated higher for usability, and semantic links were used by the users of all three browsers. Confirmation or contradiction of our original hypotheses with relation to SWBs is detailed along with observations of implementation issues.

Multi-Sector Sustainability Browser (MSSB) User Manual: A ...

Science.gov (United States)

EPA’s Sustainable and Healthy Communities (SHC) Research Program is developing methodologies, resources, and tools to assist community members and local decision makers in implementing policy choices that facilitate sustainable approaches in managing their resources affecting the built environment, natural environment, and human health. In order to assist communities and decision makers in implementing sustainable practices, EPA is developing computer-based systems including models, databases, web tools, and web browsers to help communities decide upon approaches that support their desired outcomes. Communities need access to resources that will allow them to achieve their sustainability objectives through intelligent decisions in four key sustainability areas: • Land Use • Buildings and Infrastructure • Transportation • Materials Management (i.e., Municipal Solid Waste [MSW] processing and disposal) The Multi-Sector Sustainability Browser (MSSB) is designed to support sustainable decision-making for communities, local and regional planners, and policy and decision makers. Document is an EPA Technical Report, which is the user manual for the Multi-Sector Sustainability Browser (MSSB) tool. The purpose of the document is to provide basic guidance on use of the tool for users

CERESVis: A QC Tool for CERES that Leverages Browser Technology for Data Validation

Science.gov (United States)

Chu, C.; Sun-Mack, S.; Heckert, E.; Chen, Y.; Doelling, D.

2015-12-01

In this poster, we are going to present three user interfaces that CERES team uses to validate pixel-level data. Besides our home grown tools, we will aslo present the browser technology that we use to provide interactive interfaces, such as jquery, HighCharts and Google Earth. We pass data to the users' browsers and use the browsers to do some simple computations. The three user interfaces are: Thumbnails -- it displays hundrends images to allow users to browse 24-hour data files in few seconds. Multiple-synchronized cursors -- it allows users to compare multiple images side by side. Bounding Boxes and Histograms -- it allows users to draw multiple bounding boxes on an image and the browser computes/display the histograms.

A browser-based event display for the CMS experiment at the LHC

International Nuclear Information System (INIS)

Hategan, M; McCauley, T; Nguyen, P

2012-01-01

The line between native and web applications is becoming increasingly blurred as modern web browsers are becoming powerful platforms on which applications can be run. Such applications are trivial to install and are readily extensible and easy to use. In an educational setting, web applications permit a way to deploy deploy tools in a highly-restrictive computing environment. The I2U2 collaboration has developed a browser-based event display for viewing events in data collected and released to the public by the CMS experiment at the LHC. The application itself reads a JSON event format and uses the JavaScript 3D rendering engine pre3d. The only requirement is a modern browser using HTML5 canvas. The event display has been used by thousands of high school students in the context of programs organized by I2U2, QuarkNet, and IPPOG. This browser-based approach to display of events can have broader usage and impact for experts and public alike.

Transcriptional Responses of Escherichia coli to a Small-Molecule Inhibitor of LolCDE, an Essential Component of the Lipoprotein Transport Pathway

Science.gov (United States)

Lorenz, Christian; Dougherty, Thomas J.

2016-01-01

ABSTRACT In Gram-negative bacteria, a dedicated machinery consisting of LolABCDE components targets lipoproteins to the outer membrane. We used a previously identified small-molecule inhibitor of the LolCDE complex of Escherichia coli to assess the global transcriptional consequences of interference with lipoprotein transport. Exposure of E. coli to the LolCDE inhibitor at concentrations leading to minimal and significant growth inhibition, followed by transcriptome sequencing, identified a small group of genes whose transcript levels were decreased and a larger group whose mRNA levels increased 10- to 100-fold compared to those of untreated cells. The majority of the genes whose mRNA concentrations were reduced were part of the flagellar assembly pathway, which contains an essential lipoprotein component. Most of the genes whose transcript levels were elevated encode proteins involved in selected cell stress pathways. Many of these genes are involved with envelope stress responses induced by the mislocalization of outer membrane lipoproteins. Although several of the genes whose RNAs were induced have previously been shown to be associated with the general perturbation of the cell envelope by antibiotics, a small subset was affected only by LolCDE inhibition. Findings from this work suggest that the efficiency of the Lol system function may be coupled to a specific monitoring system, which could be exploited in the development of reporter constructs suitable for use for screening for additional inhibitors of lipoprotein trafficking. IMPORTANCE Inhibition of the lipoprotein transport pathway leads to E. coli death and subsequent lysis. Early significant changes in the levels of RNA for a subset of genes identified to be associated with some periplasmic and envelope stress responses were observed. Together these findings suggest that disruption of this key pathway can have a severe impact on balanced outer membrane synthesis sufficient to affect viability. PMID

Transcriptional Responses of Escherichia coli to a Small-Molecule Inhibitor of LolCDE, an Essential Component of the Lipoprotein Transport Pathway.

Science.gov (United States)

Lorenz, Christian; Dougherty, Thomas J; Lory, Stephen

2016-12-01

In Gram-negative bacteria, a dedicated machinery consisting of LolABCDE components targets lipoproteins to the outer membrane. We used a previously identified small-molecule inhibitor of the LolCDE complex of Escherichia coli to assess the global transcriptional consequences of interference with lipoprotein transport. Exposure of E. coli to the LolCDE inhibitor at concentrations leading to minimal and significant growth inhibition, followed by transcriptome sequencing, identified a small group of genes whose transcript levels were decreased and a larger group whose mRNA levels increased 10- to 100-fold compared to those of untreated cells. The majority of the genes whose mRNA concentrations were reduced were part of the flagellar assembly pathway, which contains an essential lipoprotein component. Most of the genes whose transcript levels were elevated encode proteins involved in selected cell stress pathways. Many of these genes are involved with envelope stress responses induced by the mislocalization of outer membrane lipoproteins. Although several of the genes whose RNAs were induced have previously been shown to be associated with the general perturbation of the cell envelope by antibiotics, a small subset was affected only by LolCDE inhibition. Findings from this work suggest that the efficiency of the Lol system function may be coupled to a specific monitoring system, which could be exploited in the development of reporter constructs suitable for use for screening for additional inhibitors of lipoprotein trafficking. Inhibition of the lipoprotein transport pathway leads to E. coli death and subsequent lysis. Early significant changes in the levels of RNA for a subset of genes identified to be associated with some periplasmic and envelope stress responses were observed. Together these findings suggest that disruption of this key pathway can have a severe impact on balanced outer membrane synthesis sufficient to affect viability. Copyright © 2016 Lorenz et al.

WiBAF : Within Browser Adaptation Framework

NARCIS (Netherlands)

Montes Garcia, A.

2014-01-01

The objective of this thesis project is to develop a framework that provides mechanisms to the user to balance personalization and privacy on the web. To achieve this we suggest a browser based adaptation engine that allows the user to choose what portions of her user model will be stored on the

The UCSC Genome Browser Database: update 2006

DEFF Research Database (Denmark)

Hinrichs, A S; Karolchik, D; Baertsch, R

2006-01-01

The University of California Santa Cruz Genome Browser Database (GBD) contains sequence and annotation data for the genomes of about a dozen vertebrate species and several major model organisms. Genome annotations typically include assembly data, sequence composition, genes and gene predictions, ...

A Policy Based Approach for the Management of Web Browser Resources to Prevent Anonymity Attacks in Tor

Science.gov (United States)

Navarro-Arribas, Guillermo; Garcia-Alfaro, Joaquin

Web browsers are becoming the universal interface to reach applications and services related with these systems. Different browsing contexts may be required in order to reach them, e.g., use of VPN tunnels, corporate proxies, anonymisers, etc. By browsing context we mean how the user browsers the Web, including mainly the concrete configuration of its browser. When the context of the browser changes, its security requirements also change. In this work, we present the use of authorisation policies to automatise the process of controlling the resources of a Web browser when its context changes. The objective of our proposal is oriented towards easing the adaptation to the security requirements of the new context and enforce them in the browser without the need for user intervention. We present a concrete application of our work as a plug-in for the adaption of security requirements in Mozilla/Firefox browser when a context of anonymous navigation through the Tor network is enabled.

Nessi: An EEG-Controlled Web Browser for Severely Paralyzed Patients

Directory of Open Access Journals (Sweden)

Michael Bensch

2007-01-01

Full Text Available We have previously demonstrated that an EEG-controlled web browser based on self-regulation of slow cortical potentials (SCPs enables severely paralyzed patients to browse the internet independently of any voluntary muscle control. However, this system had several shortcomings, among them that patients could only browse within a limited number of web pages and had to select links from an alphabetical list, causing problems if the link names were identical or if they were unknown to the user (as in graphical links. Here we describe a new EEG-controlled web browser, called Nessi, which overcomes these shortcomings. In Nessi, the open source browser, Mozilla, was extended by graphical in-place markers, whereby different brain responses correspond to different frame colors placed around selectable items, enabling the user to select any link on a web page. Besides links, other interactive elements are accessible to the user, such as e-mail and virtual keyboards, opening up a wide range of hypertext-based applications.

An Asynchronous P300-Based Brain-Computer Interface Web Browser for Severely Disabled People.

Science.gov (United States)

Martinez-Cagigal, Victor; Gomez-Pilar, Javier; Alvarez, Daniel; Hornero, Roberto

2017-08-01

This paper presents an electroencephalographic (EEG) P300-based brain-computer interface (BCI) Internet browser. The system uses the "odd-ball" row-col paradigm for generating the P300 evoked potentials on the scalp of the user, which are immediately processed and translated into web browser commands. There were previous approaches for controlling a BCI web browser. However, to the best of our knowledge, none of them was focused on an assistive context, failing to test their applications with a suitable number of end users. In addition, all of them were synchronous applications, where it was necessary to introduce a "read-mode" command in order to avoid a continuous command selection. Thus, the aim of this study is twofold: 1) to test our web browser with a population of multiple sclerosis (MS) patients in order to assess the usefulness of our proposal to meet their daily communication needs; and 2) to overcome the aforementioned limitation by adding a threshold that discerns between control and non-control states, allowing the user to calmly read the web page without undesirable selections. The browser was tested with sixteen MS patients and five healthy volunteers. Both quantitative and qualitative metrics were obtained. MS participants reached an average accuracy of 84.14%, whereas 95.75% was achieved by control subjects. Results show that MS patients can successfully control the BCI web browser, improving their personal autonomy.

Cracking ShadowCrypt: Exploring the Limitations of Secure I/O Systems in Internet Browsers

Directory of Open Access Journals (Sweden)

Freyberger Michael

2018-04-01

Full Text Available An important line of privacy research is investigating the design of systems for secure input and output (I/O within Internet browsers. These systems would allow for users’ information to be encrypted and decrypted by the browser, and the specific web applications will only have access to the users’ information in encrypted form. The state-of-the-art approach for a secure I/O system within Internet browsers is a system called ShadowCrypt created by UC Berkeley researchers [23]. This paper will explore the limitations of ShadowCrypt in order to provide a foundation for the general principles that must be followed when designing a secure I/O system within Internet browsers. First, we developed a comprehensive UI attack that cannot be mitigated with popular UI defenses, and tested the efficacy of the attack through a user study administered on Amazon Mechanical Turk. Only 1 of the 59 participants who were under attack successfully noticed the UI attack, which validates the stealthiness of the attack. Second, we present multiple attack vectors against Shadow-Crypt that do not rely upon UI deception. These attack vectors expose the privacy weaknesses of Shadow DOM—the key browser primitive leveraged by ShadowCrypt. Finally, we present a sketch of potential countermeasures that can enable the design of future secure I/O systems within Internet browsers.

Cracking ShadowCrypt: Exploring the Limitations of Secure I/O Systems in Internet Browsers

OpenAIRE

Freyberger Michael; He Warren; Akhawe Devdatta; Mazurek Michelle L.; Mittal Prateek

2018-01-01

An important line of privacy research is investigating the design of systems for secure input and output (I/O) within Internet browsers. These systems would allow for users’ information to be encrypted and decrypted by the browser, and the specific web applications will only have access to the users’ information in encrypted form. The state-of-the-art approach for a secure I/O system within Internet browsers is a system called ShadowCrypt created by UC Berkeley researchers [23]. This paper wi...

The UCSC Genome Browser Database: 2008 update

DEFF Research Database (Denmark)

Karolchik, D; Kuhn, R M; Baertsch, R

2007-01-01

The University of California, Santa Cruz, Genome Browser Database (GBD) provides integrated sequence and annotation data for a large collection of vertebrate and model organism genomes. Seventeen new assemblies have been added to the database in the past year, for a total coverage of 19 vertebrat...

Browser App Approach: Can It Be an Answer to the Challenges in Cross-Platform App Development?

Directory of Open Access Journals (Sweden)

Minh Q. Huynh

2017-02-01

Full Text Available Aim/Purpose: As smartphones proliferate, many different platforms begin to emerge. The challenge to developers as well as IS educators and students is how to learn the skills to design and develop apps to run on cross-platforms. Background: For developers, the purpose of this paper is to describe an alternative to the complex native app development. For IS educators and students, the paper provides a feasible way to learn and develop fully functional mobile apps without technical burdens. Methodology: The methods used in the development of browser-based apps is prototyping. Our proposed approach is browser-based, supports cross-platforms, uses open-source standards, and takes advantage of “write-once-and-run-anywhere” (WORA concept. Contribution: The paper illustrates the application of the browser-based approach to create a series of browser apps without high learning curve. Findings: The results show the potentials for using browser app approach to teach as well as to create new apps. Recommendations for Practitioners\t: Our proposed browser app development approach and example would be useful to mobile app developers/IS educators and non-technical students because the source code as well as documentations in this project are available for downloading. Future Research: For further work, we discuss the use of hybrid development framework to enhance browser apps.

The MycoBrowser portal: a comprehensive and manually annotated resource for mycobacterial genomes.

Science.gov (United States)

Kapopoulou, Adamandia; Lew, Jocelyne M; Cole, Stewart T

2011-01-01

In this paper, we present the MycoBrowser portal (http://mycobrowser.epfl.ch/), a resource that provides both in silico generated and manually reviewed information within databases dedicated to the complete genomes of Mycobacterium tuberculosis, Mycobacterium leprae, Mycobacterium marinum and Mycobacterium smegmatis. A central component of MycoBrowser is TubercuList (http://tuberculist.epfl.ch), which has recently benefited from a new data management system and web interface. These improvements were extended to all MycoBrowser databases. We provide an overview of the functionalities available and the different ways of interrogating the data then discuss how both the new information and the latest features are helping the mycobacterial research communities. Copyright © 2010 Elsevier Ltd. All rights reserved.

Lexicon Sextant: Modeling a Mnemonic System for Customizable Browser Information Organization and Management

Science.gov (United States)

Shen, Siu-Tsen

2016-01-01

This paper presents an ongoing study of the development of a customizable web browser information organization and management system, which the author has named Lexicon Sextant (LS). LS is a user friendly, graphical web based add-on to the latest generation of web browsers, such as Google Chrome, making it easier and more intuitive to store and…

A browser-based tool for conversion between Fortran NAMELIST and XML/HTML

Science.gov (United States)

Naito, O.

A browser-based tool for conversion between Fortran NAMELIST and XML/HTML is presented. It runs on an HTML5 compliant browser and generates reusable XML files to aid interoperability. It also provides a graphical interface for editing and annotating variables in NAMELIST, hence serves as a primitive code documentation environment. Although the tool is not comprehensive, it could be viewed as a test bed for integrating legacy codes into modern systems.

A browser-based tool for conversion between Fortran NAMELIST and XML/HTML

Directory of Open Access Journals (Sweden)

O. Naito

2017-01-01

Full Text Available A browser-based tool for conversion between Fortran NAMELIST and XML/HTML is presented. It runs on an HTML5 compliant browser and generates reusable XML files to aid interoperability. It also provides a graphical interface for editing and annotating variables in NAMELIST, hence serves as a primitive code documentation environment. Although the tool is not comprehensive, it could be viewed as a test bed for integrating legacy codes into modern systems.

Concertina browsers: a formative evaluation of user preference.

Science.gov (United States)

Harper, Simon; Christophorou, Nicola

2008-09-01

Evidence suggests that concertina browsers - browsers with the facility to expand and contract sections of information - are important in providing the reader with an enhanced cognition of small to medium amounts of information. These systems have been shown to be useful for visually disabled users surfing the World Wide Web (Web), and with the development of the Mobile Web, there has been renewed interest in their use. This is due to the similarities of reduced or constrained vision found to exist between visually impaired users and the users of mobile devices. The cognition of information fragments is key to the user experience and the reduction of 'information overload'; as such we are concerned with assisting designers of concertina browsers in providing an enhanced user experience by ascertaining user preference through a formative evaluation of concertina summaries. This aspect of browsing is important because in all concertina systems there is a distinct cognition speed/depth trade-off. Here we investigate a number of these concertina summarization techniques against each other. We describe a formative evaluation which concludes that users prefer concertina summarization of Web documents starting from 6.25% slices of both the top and bottom and expanding from the top in 2% steps to a target maximum of 18.50% (being 12.25% from the top and 6.25% from the bottom). These preferences were found to be representative of documents of less than 600 words of content, and included the preference to not fragment an individual sentence even if that meant slightly increasing the target: Starting, maximum, and step percentage slices.

A Lifelog Browser for Visualization and Search of Mobile Everyday-Life

Directory of Open Access Journals (Sweden)

Keum-Sung Hwang

2014-01-01

Full Text Available Mobile devices can now handle a great deal of information thanks to the convergence of diverse functionalities. Mobile environments have already shown great potential in terms of providing customized service to users because they can record meaningful and private information continually for long periods of time. The research for understanding, searching and summarizing the everyday-life of human has received increasing attention in recent years due to the digital convergence. In this paper, we propose a mobile life browser, which visualizes and searches human's mobile life based on the contents and context of lifelog data. The mobile life browser is for searching the personal information effectively collected on his/her mobile device and for supporting the concept-based searching method by using concept networks and Bayesian networks. In the experiments, we collected the real mobile log data from three users for a month and visualized the mobile lives of the users with the mobile life browser developed. Some tests on searching tasks confirmed that the result using the proposed concept-based searching method is promising.

Contingency Table Browser - prediction of early stage protein structure.

Science.gov (United States)

Kalinowska, Barbara; Krzykalski, Artur; Roterman, Irena

2015-01-01

The Early Stage (ES) intermediate represents the starting structure in protein folding simulations based on the Fuzzy Oil Drop (FOD) model. The accuracy of FOD predictions is greatly dependent on the accuracy of the chosen intermediate. A suitable intermediate can be constructed using the sequence-structure relationship information contained in the so-called contingency table - this table expresses the likelihood of encountering various structural motifs for each tetrapeptide fragment in the amino acid sequence. The limited accuracy with which such structures could previously be predicted provided the motivation for a more indepth study of the contingency table itself. The Contingency Table Browser is a tool which can visualize, search and analyze the table. Our work presents possible applications of Contingency Table Browser, among them - analysis of specific protein sequences from the point of view of their structural ambiguity.

Quality Search Content: A Reality With Next Generation Browsers

Digital Repository Service at National Institute of Oceanography (India)

Lakshminarayana, S.

Internet became destiny to get information or to transact a business need. Most of the works including the recent articles demands for quality search content from the Web. The Interactions in the Internet are performed through a web browser. A...

ABrowse - a customizable next-generation genome browser framework

Directory of Open Access Journals (Sweden)

Kong Lei

2012-01-01

Full Text Available Abstract Background With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Results Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. Conclusions ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for

ABrowse--a customizable next-generation genome browser framework.

Science.gov (United States)

Kong, Lei; Wang, Jun; Zhao, Shuqi; Gu, Xiaocheng; Luo, Jingchu; Gao, Ge

2012-01-05

With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for Arabidopsis thaliana genome has been built at http://arabidopsis.cbi.edu.cn/.

ABrowse - a customizable next-generation genome browser framework

Science.gov (United States)

2012-01-01

Background With the rapid growth of genome sequencing projects, genome browser is becoming indispensable, not only as a visualization system but also as an interactive platform to support open data access and collaborative work. Thus a customizable genome browser framework with rich functions and flexible configuration is needed to facilitate various genome research projects. Results Based on next-generation web technologies, we have developed a general-purpose genome browser framework ABrowse which provides interactive browsing experience, open data access and collaborative work support. By supporting Google-map-like smooth navigation, ABrowse offers end users highly interactive browsing experience. To facilitate further data analysis, multiple data access approaches are supported for external platforms to retrieve data from ABrowse. To promote collaborative work, an online user-space is provided for end users to create, store and share comments, annotations and landmarks. For data providers, ABrowse is highly customizable and configurable. The framework provides a set of utilities to import annotation data conveniently. To build ABrowse on existing annotation databases, data providers could specify SQL statements according to database schema. And customized pages for detailed information display of annotation entries could be easily plugged in. For developers, new drawing strategies could be integrated into ABrowse for new types of annotation data. In addition, standard web service is provided for data retrieval remotely, providing underlying machine-oriented programming interface for open data access. Conclusions ABrowse framework is valuable for end users, data providers and developers by providing rich user functions and flexible customization approaches. The source code is published under GNU Lesser General Public License v3.0 and is accessible at http://www.abrowse.org/. To demonstrate all the features of ABrowse, a live demo for Arabidopsis thaliana genome

A Comparative Performance Analysis of Popular Internet Browsers ...

African Journals Online (AJOL)

As more and more services become available on the Internet, the issue of fast ... perform best in down load time, Internet Explorer performs best in memory usage, ... Key words: World Wide Web, Internet Browser, W3C, APIs, Milnet ... the most accessible parts of the Internet. Its ... information that should be kept private in an.

Usability of Web Browsers for Multi-touch Platforms

OpenAIRE

Khan, Hasan Zaryab

2010-01-01

Multi-touch interface is an improvement within the existing touch screen technology, which allows the user to operate the electronic visual display with finger gestures. This work examines how good current web browsers are positioned to avail of the next generation HCI, currently dubbed Natural User Interfaces which are largely multi-touch interfaces at this point in time.

MLitB: machine learning in the browser

Directory of Open Access Journals (Sweden)

Edward Meeds

2015-07-01

Full Text Available With few exceptions, the field of Machine Learning (ML research has largely ignored the browser as a computational engine. Beyond an educational resource for ML, the browser has vast potential to not only improve the state-of-the-art in ML research, but also, inexpensively and on a massive scale, to bring sophisticated ML learning and prediction to the public at large. This paper introduces MLitB, a prototype ML framework written entirely in Javascript, capable of performing large-scale distributed computing with heterogeneous classes of devices. The development of MLitB has been driven by several underlying objectives whose aim is to make ML learning and usage ubiquitous (by using ubiquitous compute devices, cheap and effortlessly distributed, and collaborative. This is achieved by allowing every internet capable device to run training algorithms and predictive models with no software installation and by saving models in universally readable formats. Our prototype library is capable of training deep neural networks with synchronized, distributed stochastic gradient descent. MLitB offers several important opportunities for novel ML research, including: development of distributed learning algorithms, advancement of web GPU algorithms, novel field and mobile applications, privacy preserving computing, and green grid-computing. MLitB is available as open source software.

A retrospective randomized study to compare the energy delivered using CDE with different techniques and OZil? settings by different surgeons in phacoemulsification

OpenAIRE

Chen, Ming; Sweeney, Henry W; Luke, Becky; Chen, Mindy; Brown, Mathew

2009-01-01

Ming Chen1, Henry W Sweeney2, Becky Luke3, Mindy Chen4, Mathew Brown51University of Hawaii, Honolulu, Hawaii, USA; 2Research Support Services, the Queens Medical Center, Honolulu, Hawaii, USA; 3Surgical Suite, Honolulu, Hawaii, USA; 4University of California, Irvine, CA, USA; 5University of California, San Diego, CA, USAAbstract: Cumulative dissipated energy (CDE) was used with Infiniti® Vision System (Alcon Labs) as an energy delivery guide to compare four different phaco techniques ...

A retrospective randomized study to compare the energy delivered using CDE with different techniques and OZil settings by different surgeons in phacoemulsification

OpenAIRE

Chen, Ming

2009-01-01

Ming Chen1, Henry W Sweeney2, Becky Luke3, Mindy Chen4, Mathew Brown51University of Hawaii, Honolulu, Hawaii, USA; 2Research Support Services, the Queens Medical Center, Honolulu, Hawaii, USA; 3Surgical Suite, Honolulu, Hawaii, USA; 4University of California, Irvine, CA, USA; 5University of California, San Diego, CA, USAAbstract: Cumulative dissipated energy (CDE) was used with Infiniti® Vision System (Alcon Labs) as an energy delivery guide to compare four different phaco techniques ...

Faecal nitrogen of browser and mixed feeder game species during ...

African Journals Online (AJOL)

Faecal nitrogen of browser and mixed feeder game species during different seasons. ... A practical measure of assessing periods of potential nutritional stress of game species is needed in the management of ... AJOL African Journals Online.

A browser-based multi-user working environment for physicists

International Nuclear Information System (INIS)

Erdmann, M; Fischer, R; Glaser, C; Klingebiel, D; Komm, M; Müller, G; Rieger, M; Steggemann, J; Urban, M; Winchen, T

2014-01-01

Many programs in experimental particle physics do not yet have a graphical interface, or demand strong platform and software requirements. With the most recent development of the VISPA project, we provide graphical interfaces to existing software programs and access to multiple computing clusters through standard web browsers. The scalable clientserver system allows analyses to be performed in sizable teams, and disburdens the individual physicist from installing and maintaining a software environment. The VISPA graphical interfaces are implemented in HTML, JavaScript and extensions to the Python webserver. The webserver uses SSH and RPC to access user data, code and processes on remote sites. As example applications we present graphical interfaces for steering the reconstruction framework OFFLINE of the Pierre-Auger experiment, and the analysis development toolkit PXL. The browser based VISPA system was field-tested in biweekly homework of a third year physics course by more than 100 students. We discuss the system deployment and the evaluation by the students.

Engineering the ATLAS TAG Browser

International Nuclear Information System (INIS)

Zhang Qizhi

2011-01-01

ELSSI is a web-based event metadata (TAG) browser and event-level selection service for ATLAS. In this paper, we describe some of the challenges encountered in the process of developing ELSSI, and the software engineering strategies adopted to address those challenges. Approaches to management of access to data, browsing, data rendering, query building, query validation, execution, connection management, and communication with auxiliary services are discussed. We also describe strategies for dealing with data that may vary over time, such as run-dependent trigger decision decoding. Along with examples, we illustrate how programming techniques in multiple languages (PHP, JAVASCRIPT, XML, AJAX, and PL/SQL) have been blended to achieve the required results. Finally, we evaluate features of the ELSSI service in terms of functionality, scalability, and performance.

Trajectory Browser Website

Science.gov (United States)

Foster, Cyrus; Jaroux, Belgacem A.

2012-01-01

The Trajectory Browser is a web-based tool developed at the NASA Ames Research Center to be used for the preliminary assessment of trajectories to small-bodies and planets and for providing relevant launch date, time-of-flight and V requirements. The site hosts a database of transfer trajectories from Earth to asteroids and planets for various types of missions such as rendezvous, sample return or flybys. A search engine allows the user to find trajectories meeting desired constraints on the launch window, mission duration and delta V capability, while a trajectory viewer tool allows the visualization of the heliocentric trajectory and the detailed mission itinerary. The anticipated user base of this tool consists primarily of scientists and engineers designing interplanetary missions in the context of pre-phase A studies, particularly for performing accessibility surveys to large populations of small-bodies. The educational potential of the website is also recognized for academia and the public with regards to trajectory design, a field that has generally been poorly understood by the public. The website is currently hosted on NASA-internal URL http://trajbrowser.arc.nasa.gov/ with plans for a public release as soon as development is complete.

Molecular Events Involved in a Single Cycle of Ligand Transfer from an ATP Binding Cassette Transporter, LolCDE, to a Molecular Chaperone, LolA*

OpenAIRE

Taniguchi, Naohiro; Tokuda, Hajime

2008-01-01

An ATP binding cassette transporter LolCDE complex releases lipoproteins from the inner membrane of Escherichia coli in an ATP-dependent manner, leading to the formation of a complex between a lipoprotein and a periplasmic chaperone, LolA. LolA is proposed to undergo a conformational change upon the lipoprotein binding. The lipoprotein is then transferred from the LolA-lipoprotein complex to the outer membrane via LolB. Unlike most ATP binding cassette transporters med...

Disruption of lolCDE, Encoding an ATP-Binding Cassette Transporter, Is Lethal for Escherichia coli and Prevents Release of Lipoproteins from the Inner Membrane

OpenAIRE

Narita, Shin-ichiro; Tanaka, Kimie; Matsuyama, Shin-ichi; Tokuda, Hajime

2002-01-01

ATP-binding cassette transporter LolCDE was previously identified, by using reconstituted proteoliposomes, as an apparatus catalyzing the release of outer membrane-specific lipoproteins from the inner membrane of Escherichia coli. Mutations resulting in defective LolD were previously shown to be lethal for E. coli. The amino acid sequences of LolC and LolE are similar to each other, but the necessity of both proteins for lipoprotein release has not been proved. Moreover, previous reconstituti...

Exploratory Visual Analytics of a Dynamically Built Network of Nodes in a WebGL-Enabled Browser

Science.gov (United States)

2014-01-01

dimensionality reduction, feature extraction, high-dimensional data, t-distributed stochastic neighbor embedding, neighbor retrieval visualizer, visual...WebGL-enabled rendering is supported natively by browsers such as the latest Mozilla Firefox , Google Chrome, and Microsoft Internet Explorer 11. At the...appropriate names. The resultant 26-node network is displayed in a Mozilla Firefox browser in figure 2 (also see appendix B). 3 Figure 1. The

SU-E-J-114: Web-Browser Medical Physics Applications Using HTML5 and Javascript.

Science.gov (United States)

Bakhtiari, M

2012-06-01

Since 2010, there has been a great attention about HTML5. Application developers and browser makers fully embrace and support the web of the future. Consumers have started to embrace HTML5, especially as more users understand the benefits and potential that HTML5 can mean for the future.Modern browsers such as Firefox, Google Chrome, and Safari are offering better and more robust support for HTML5, CSS3, and JavaScript. The idea is to introduce the HTML5 to medical physics community for open source software developments. The benefit of using HTML5 is developing portable software systems. The HTML5, CSS, and JavaScript programming languages were used to develop several applications for Quality Assurance in radiation therapy. The canvas element of HTML5 was used for handling and displaying the images, and JavaScript was used to manipulate the data. Sample application were developed to: 1. analyze the flatness and symmetry of the radiotherapy fields in a web browser, 2.analyze the Dynalog files from Varian machines, 3. visualize the animated Dynamic MLC files, 4. Simulation via Monte Carlo, and 5. interactive image manipulation. The programs showed great performance and speed in uploading the data and displaying the results. The flatness and symmetry program and Dynalog file analyzer ran in a fraction of second. The reason behind this performance is using JavaScript language which is a lower level programming language in comparison to the most of the scientific programming packages such as Matlab. The second reason is that JavaScript runs locally on client side computers not on the web-servers. HTML5 and JavaScript can be used to develop useful applications that can be run online or offline on different modern web-browsers. The programming platform can be also one of the modern web-browsers which are mostly open source (such as Firefox). © 2012 American Association of Physicists in Medicine.

ImageJS: Personalized, participated, pervasive, and reproducible image bioinformatics in the web browser

Directory of Open Access Journals (Sweden)

Jonas S Almeida

2012-01-01

Full Text Available Background: Image bioinformatics infrastructure typically relies on a combination of server-side high-performance computing and client desktop applications tailored for graphic rendering. On the server side, matrix manipulation environments are often used as the back-end where deployment of specialized analytical workflows takes place. However, neither the server-side nor the client-side desktop solution, by themselves or combined, is conducive to the emergence of open, collaborative, computational ecosystems for image analysis that are both self-sustained and user driven. Materials and Methods: ImageJS was developed as a browser-based webApp, untethered from a server-side backend, by making use of recent advances in the modern web browser such as a very efficient compiler, high-end graphical rendering capabilities, and I/O tailored for code migration. Results : Multiple versioned code hosting services were used to develop distinct ImageJS modules to illustrate its amenability to collaborative deployment without compromise of reproducibility or provenance. The illustrative examples include modules for image segmentation, feature extraction, and filtering. The deployment of image analysis by code migration is in sharp contrast with the more conventional, heavier, and less safe reliance on data transfer. Accordingly, code and data are loaded into the browser by exactly the same script tag loading mechanism, which offers a number of interesting applications that would be hard to attain with more conventional platforms, such as NIH′s popular ImageJ application. Conclusions : The modern web browser was found to be advantageous for image bioinformatics in both the research and clinical environments. This conclusion reflects advantages in deployment scalability and analysis reproducibility, as well as the critical ability to deliver advanced computational statistical procedures machines where access to sensitive data is controlled, that is, without

ImageJS: Personalized, participated, pervasive, and reproducible image bioinformatics in the web browser.

Science.gov (United States)

Almeida, Jonas S; Iriabho, Egiebade E; Gorrepati, Vijaya L; Wilkinson, Sean R; Grüneberg, Alexander; Robbins, David E; Hackney, James R

2012-01-01

Image bioinformatics infrastructure typically relies on a combination of server-side high-performance computing and client desktop applications tailored for graphic rendering. On the server side, matrix manipulation environments are often used as the back-end where deployment of specialized analytical workflows takes place. However, neither the server-side nor the client-side desktop solution, by themselves or combined, is conducive to the emergence of open, collaborative, computational ecosystems for image analysis that are both self-sustained and user driven. ImageJS was developed as a browser-based webApp, untethered from a server-side backend, by making use of recent advances in the modern web browser such as a very efficient compiler, high-end graphical rendering capabilities, and I/O tailored for code migration. Multiple versioned code hosting services were used to develop distinct ImageJS modules to illustrate its amenability to collaborative deployment without compromise of reproducibility or provenance. The illustrative examples include modules for image segmentation, feature extraction, and filtering. The deployment of image analysis by code migration is in sharp contrast with the more conventional, heavier, and less safe reliance on data transfer. Accordingly, code and data are loaded into the browser by exactly the same script tag loading mechanism, which offers a number of interesting applications that would be hard to attain with more conventional platforms, such as NIH's popular ImageJ application. The modern web browser was found to be advantageous for image bioinformatics in both the research and clinical environments. This conclusion reflects advantages in deployment scalability and analysis reproducibility, as well as the critical ability to deliver advanced computational statistical procedures machines where access to sensitive data is controlled, that is, without local "download and installation".

Interactive metagenomic visualization in a Web browser

Directory of Open Access Journals (Sweden)

Phillippy Adam M

2011-09-01

Full Text Available Abstract Background A critical output of metagenomic studies is the estimation of abundances of taxonomical or functional groups. The inherent uncertainty in assignments to these groups makes it important to consider both their hierarchical contexts and their prediction confidence. The current tools for visualizing metagenomic data, however, omit or distort quantitative hierarchical relationships and lack the facility for displaying secondary variables. Results Here we present Krona, a new visualization tool that allows intuitive exploration of relative abundances and confidences within the complex hierarchies of metagenomic classifications. Krona combines a variant of radial, space-filling displays with parametric coloring and interactive polar-coordinate zooming. The HTML5 and JavaScript implementation enables fully interactive charts that can be explored with any modern Web browser, without the need for installed software or plug-ins. This Web-based architecture also allows each chart to be an independent document, making them easy to share via e-mail or post to a standard Web server. To illustrate Krona's utility, we describe its application to various metagenomic data sets and its compatibility with popular metagenomic analysis tools. Conclusions Krona is both a powerful metagenomic visualization tool and a demonstration of the potential of HTML5 for highly accessible bioinformatic visualizations. Its rich and interactive displays facilitate more informed interpretations of metagenomic analyses, while its implementation as a browser-based application makes it extremely portable and easily adopted into existing analysis packages. Both the Krona rendering code and conversion tools are freely available under a BSD open-source license, and available from: http://krona.sourceforge.net.

SNUGB: a versatile genome browser supporting comparative and functional fungal genomics

Directory of Open Access Journals (Sweden)

Kim Seungill

2008-12-01

Full Text Available Abstract Background Since the full genome sequences of Saccharomyces cerevisiae were released in 1996, genome sequences of over 90 fungal species have become publicly available. The heterogeneous formats of genome sequences archived in different sequencing centers hampered the integration of the data for efficient and comprehensive comparative analyses. The Comparative Fungal Genomics Platform (CFGP was developed to archive these data via a single standardized format that can support multifaceted and integrated analyses of the data. To facilitate efficient data visualization and utilization within and across species based on the architecture of CFGP and associated databases, a new genome browser was needed. Results The Seoul National University Genome Browser (SNUGB integrates various types of genomic information derived from 98 fungal/oomycete (137 datasets and 34 plant and animal (38 datasets species, graphically presents germane features and properties of each genome, and supports comparison between genomes. The SNUGB provides three different forms of the data presentation interface, including diagram, table, and text, and six different display options to support visualization and utilization of the stored information. Information for individual species can be quickly accessed via a new tool named the taxonomy browser. In addition, SNUGB offers four useful data annotation/analysis functions, including 'BLAST annotation.' The modular design of SNUGB makes its adoption to support other comparative genomic platforms easy and facilitates continuous expansion. Conclusion The SNUGB serves as a powerful platform supporting comparative and functional genomics within the fungal kingdom and also across other kingdoms. All data and functions are available at the web site http://genomebrowser.snu.ac.kr/.

A browser-based event display for the CMS Experiment at the LHC using WebGL

Science.gov (United States)

McCauley, T.

2017-10-01

Modern web browsers are powerful and sophisticated applications that support an ever-wider range of uses. One such use is rendering high-quality, GPU-accelerated, interactive 2D and 3D graphics in an HTML canvas. This can be done via WebGL, a JavaScript API based on OpenGL ES. Applications delivered via the browser have several distinct benefits for the developer and user. For example, they can be implemented using well-known and well-developed technologies, while distribution and use via a browser allows for rapid prototyping and deployment and ease of installation. In addition, delivery of applications via the browser allows for easy use on mobile, touch-enabled devices such as phones and tablets. iSpy WebGL is an application for visualization of events detected and reconstructed by the CMS Experiment at the Large Hadron Collider at CERN. The first event display developed for an LHC experiment to use WebGL, iSpy WebGL is a client-side application written in JavaScript, HTML, and CSS and uses the WebGL API three.js. iSpy WebGL is used for monitoring of CMS detector performance, for production of images and animations of CMS collisions events for the public, as a virtual reality application using Google Cardboard, and asa tool available for public education and outreach such as in the CERN Open Data Portal and the CMS masterclasses. We describe here its design, development, and usage as well as future plans.

JavaScript Access to DICOM Network and Objects in Web Browser.

Science.gov (United States)

Drnasin, Ivan; Grgić, Mislav; Gogić, Goran

2017-10-01

Digital imaging and communications in medicine (DICOM) 3.0 standard provides the baseline for the picture archiving and communication systems (PACS). The development of Internet and various communication media initiated demand for non-DICOM access to PACS systems. Ever-increasing utilization of the web browsers, laptops and handheld devices, as opposed to desktop applications and static organizational computers, lead to development of different web technologies. The DICOM standard officials accepted those subsequently as tools of alternative access. This paper provides an overview of the current state of development of the web access technology to the DICOM repositories. It presents a different approach of using HTML5 features of the web browsers through the JavaScript language and the WebSocket protocol by enabling real-time communication with DICOM repositories. JavaScript DICOM network library, DICOM to WebSocket proxy and a proof-of-concept web application that qualifies as a DICOM 3.0 device were developed.

Engineering the ATLAS TAG Browser

CERN Document Server

Zhang, Q; The ATLAS collaboration

2011-01-01

ELSSI is a web-based event metadata (TAG) browser and event-level selection service for ATLAS. TAGs from all ATLAS physics and Monte Carlo data sets are routinely loaded into Oracle databases as an integral part of event processing. As data volumes increase, more and more sites are joining the distributed TAG data hosting topology. Meanwhile, TAG content and database schemata continue to evolve as new user requirements and additional sources of metadata emerge. All of this has posed many challenges to the development of ELSSI, which must support vast amounts of TAG data while source, content, geographic locations, and user query patterns may change over time. In this paper, we describe some of the challenges encountered in the process of developing ELSSI, and the software engineering strategies adopted to address those challenges. Approaches to management of access to data, browsing, data rendering, query building, query validation, execution, connection management, and communication with auxiliary services a...

Engineering the ATLAS TAG Browser

CERN Document Server

Zhang, Q; The ATLAS collaboration

2011-01-01

ELSSI is a web-based event metadata (TAG) browser and event-level selection service for ATLAS. TAGs from all ATLAS physics and Monte Carlo data sets are routinely loaded into Oracle databases as an integral part of event processing. As data volumes increase, more and more sites are joining the distributed TAG data hosting topology[1]. Meanwhile, TAG content and database schemata continue to evolve as new user requirements and additional sources of metadata emerge. All of this has posed many challenges to the development of ELSSI, which must support vast amounts of TAG data while source, content, geographic locations, and user query patterns may change over time. In this paper, we describe some of the challenges encountered in the process of developing ELSSI, and the software engineering strategies adopted to address those challenges. Approaches to management of access to data, browsing, data rendering, query building, query validation, execution, connection management, and communication with auxiliary service...

Piracy Versus Privacy: An Analysis of Values Encoded in the PirateBrowser

NARCIS (Netherlands)

Bodó, B.

2015-01-01

The Piratebrowser is a web browser which utilizes the Privacy Enhancing Technology Tor to circumvent nationally implemented internet filters blocking the access to the Pirate Bay. The article analyzes the possible consequences of a mass influx of copyright pirates into the privacy domain. It

TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks.

Science.gov (United States)

Lepoivre, Cyrille; Bergon, Aurélie; Lopez, Fabrice; Perumal, Narayanan B; Nguyen, Catherine; Imbert, Jean; Puthier, Denis

2012-01-31

Deciphering gene regulatory networks by in silico approaches is a crucial step in the study of the molecular perturbations that occur in diseases. The development of regulatory maps is a tedious process requiring the comprehensive integration of various evidences scattered over biological databases. Thus, the research community would greatly benefit from having a unified database storing known and predicted molecular interactions. Furthermore, given the intrinsic complexity of the data, the development of new tools offering integrated and meaningful visualizations of molecular interactions is necessary to help users drawing new hypotheses without being overwhelmed by the density of the subsequent graph. We extend the previously developed TranscriptomeBrowser database with a set of tables containing 1,594,978 human and mouse molecular interactions. The database includes: (i) predicted regulatory interactions (computed by scanning vertebrate alignments with a set of 1,213 position weight matrices), (ii) potential regulatory interactions inferred from systematic analysis of ChIP-seq experiments, (iii) regulatory interactions curated from the literature, (iv) predicted post-transcriptional regulation by micro-RNA, (v) protein kinase-substrate interactions and (vi) physical protein-protein interactions. In order to easily retrieve and efficiently analyze these interactions, we developed In-teractomeBrowser, a graph-based knowledge browser that comes as a plug-in for Transcriptome-Browser. The first objective of InteractomeBrowser is to provide a user-friendly tool to get new insight into any gene list by providing a context-specific display of putative regulatory and physical interactions. To achieve this, InteractomeBrowser relies on a "cell compartments-based layout" that makes use of a subset of the Gene Ontology to map gene products onto relevant cell compartments. This layout is particularly powerful for visual integration of heterogeneous biological information

EntrezAJAX: direct web browser access to the Entrez Programming Utilities

Directory of Open Access Journals (Sweden)

Pallen Mark J

2010-06-01

Full Text Available Abstract Web applications for biology and medicine often need to integrate data from Entrez services provided by the National Center for Biotechnology Information. However, direct access to Entrez from a web browser is not possible due to 'same-origin' security restrictions. The use of "Asynchronous JavaScript and XML" (AJAX to create rich, interactive web applications is now commonplace. The ability to access Entrez via AJAX would be advantageous in the creation of integrated biomedical web resources. We describe EntrezAJAX, which provides access to Entrez eUtils and is able to circumvent same-origin browser restrictions. EntrezAJAX is easily implemented by JavaScript developers and provides identical functionality as Entrez eUtils as well as enhanced functionality to ease development. We provide easy-to-understand developer examples written in JavaScript to illustrate potential uses of this service. For the purposes of speed, reliability and scalability, EntrezAJAX has been deployed on Google App Engine, a freely available cloud service. The EntrezAJAX webpage is located at http://entrezajax.appspot.com/

Savant Genome Browser 2: visualization and analysis for population-scale genomics.

Science.gov (United States)

Fiume, Marc; Smith, Eric J M; Brook, Andrew; Strbenac, Dario; Turner, Brian; Mezlini, Aziz M; Robinson, Mark D; Wodak, Shoshana J; Brudno, Michael

2012-07-01

High-throughput sequencing (HTS) technologies are providing an unprecedented capacity for data generation, and there is a corresponding need for efficient data exploration and analysis capabilities. Although most existing tools for HTS data analysis are developed for either automated (e.g. genotyping) or visualization (e.g. genome browsing) purposes, such tools are most powerful when combined. For example, integration of visualization and computation allows users to iteratively refine their analyses by updating computational parameters within the visual framework in real-time. Here we introduce the second version of the Savant Genome Browser, a standalone program for visual and computational analysis of HTS data. Savant substantially improves upon its predecessor and existing tools by introducing innovative visualization modes and navigation interfaces for several genomic datatypes, and synergizing visual and automated analyses in a way that is powerful yet easy even for non-expert users. We also present a number of plugins that were developed by the Savant Community, which demonstrate the power of integrating visual and automated analyses using Savant. The Savant Genome Browser is freely available (open source) at www.savantbrowser.com.

Results from the CDE phase activity on neutron dosimetry for the international fusion materials irradiation facility test cell

CERN Document Server

Esposito, B; Maruccia, G; Petrizzi, L; Bignon, G; Blandin, C; Chauffriat, S; Lebrun, A; Recroix, H; Trapp, J P; Kaschuck, Y

2000-01-01

The international fusion materials irradiation facility (IFMIF) project deals with the study of an accelerator-based, deuterium-lithium source, producing high energy neutrons at sufficient intensity and irradiation volume to test samples of candidate materials for fusion energy reactors. IFMIF would also provide calibration and validation of data from fission reactor and other accelerator based irradiation tests. This paper describes the activity on neutron/gamma dosimetry (necessary for the characterization of the specimens' irradiation) performed in the frame of the IFMIF conceptual design evaluation (CDE) neutronics tasks. During the previous phase (conceptual design activity (CDA)) the multifoil activation method was proposed for the measurement of the neutron fluence and spectrum and a set of suitable foils was defined. The cross section variances and covariances of this set of foils have now been used for tests on the sensitivity of the IFMIF neutron spectrum determination to cross section uncertainties...

EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli

Directory of Open Access Journals (Sweden)

Jia Peng

2011-10-01

Full Text Available Abstract Background Escherichia coli has been extensively studied as a prokaryotic model organism whose whole genome was determined in 1997. However, it is difficult to identify all the gene products involved in diverse functions by using whole genome sequencesalone. The high-resolution transcriptome mapping using tiling arrays has proved effective to improve the annotation of transcript units and discover new transcripts of ncRNAs. While abundant tiling array data have been generated, the lack of appropriate visualization tools to accommodate and integrate multiple sources of data has emerged. Findings EcoBrowser is a web-based tool for visualizing genome annotations and transcriptome data of E. coli. Important tiling array data of E. coli from different experimental platforms are collected and processed for query. An AJAX based genome browser is embedded for visualization. Thus, genome annotations can be compared with transcript profiling and genome occupancy profiling from independent experiments, which will be helpful in discovering new transcripts including novel mRNAs and ncRNAs, generating a detailed description of the transcription unit architecture, further providing clues for investigation of prokaryotic transcriptional regulation that has proved to be far more complex than previously thought. Conclusions With the help of EcoBrowser, users can get a systemic view both from the vertical and parallel sides, as well as inspirations for the design of new experiments which will expand our understanding of the regulation mechanism.

TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks

Directory of Open Access Journals (Sweden)

Lepoivre Cyrille

2012-01-01

Full Text Available Abstract Background Deciphering gene regulatory networks by in silico approaches is a crucial step in the study of the molecular perturbations that occur in diseases. The development of regulatory maps is a tedious process requiring the comprehensive integration of various evidences scattered over biological databases. Thus, the research community would greatly benefit from having a unified database storing known and predicted molecular interactions. Furthermore, given the intrinsic complexity of the data, the development of new tools offering integrated and meaningful visualizations of molecular interactions is necessary to help users drawing new hypotheses without being overwhelmed by the density of the subsequent graph. Results We extend the previously developed TranscriptomeBrowser database with a set of tables containing 1,594,978 human and mouse molecular interactions. The database includes: (i predicted regulatory interactions (computed by scanning vertebrate alignments with a set of 1,213 position weight matrices, (ii potential regulatory interactions inferred from systematic analysis of ChIP-seq experiments, (iii regulatory interactions curated from the literature, (iv predicted post-transcriptional regulation by micro-RNA, (v protein kinase-substrate interactions and (vi physical protein-protein interactions. In order to easily retrieve and efficiently analyze these interactions, we developed In-teractomeBrowser, a graph-based knowledge browser that comes as a plug-in for Transcriptome-Browser. The first objective of InteractomeBrowser is to provide a user-friendly tool to get new insight into any gene list by providing a context-specific display of putative regulatory and physical interactions. To achieve this, InteractomeBrowser relies on a "cell compartments-based layout" that makes use of a subset of the Gene Ontology to map gene products onto relevant cell compartments. This layout is particularly powerful for visual integration

Jet browser model accelerated by GPUs

Directory of Open Access Journals (Sweden)

Forster Richárd

2016-12-01

Full Text Available In the last centuries the experimental particle physics began to develop thank to growing capacity of computers among others. It is allowed to know the structure of the matter to level of quark gluon. Plasma in the strong interaction. Experimental evidences supported the theory to measure the predicted results. Since its inception the researchers are interested in the track reconstruction. We studied the jet browser model, which was developed for 4π calorimeter. This method works on the measurement data set, which contain the components of interaction points in the detector space and it allows to examine the trajectory reconstruction of the final state particles. We keep the total energy in constant values and it satisfies the Gauss law. Using GPUs the evaluation of the model can be drastically accelerated, as we were able to achieve up to 223 fold speedup compared to a CPU based parallel implementation.

GUIdock-VNC: using a graphical desktop sharing system to provide a browser-based interface for containerized software.

Science.gov (United States)

Mittal, Varun; Hung, Ling-Hong; Keswani, Jayant; Kristiyanto, Daniel; Lee, Sung Bong; Yeung, Ka Yee

2017-04-01

Software container technology such as Docker can be used to package and distribute bioinformatics workflows consisting of multiple software implementations and dependencies. However, Docker is a command line-based tool, and many bioinformatics pipelines consist of components that require a graphical user interface. We present a container tool called GUIdock-VNC that uses a graphical desktop sharing system to provide a browser-based interface for containerized software. GUIdock-VNC uses the Virtual Network Computing protocol to render the graphics within most commonly used browsers. We also present a minimal image builder that can add our proposed graphical desktop sharing system to any Docker packages, with the end result that any Docker packages can be run using a graphical desktop within a browser. In addition, GUIdock-VNC uses the Oauth2 authentication protocols when deployed on the cloud. As a proof-of-concept, we demonstrated the utility of GUIdock-noVNC in gene network inference. We benchmarked our container implementation on various operating systems and showed that our solution creates minimal overhead. © The Authors 2017. Published by Oxford University Press.

Self-study program on HTML browser--application to Clinical Nursing General Remarks Course.

Science.gov (United States)

Ochiai, N; Sota, Y; Ezumi, H

1997-01-01

We created a self-study program using HTML browser on the Clinical Nursing General Remarks Course, Eighty-three students each selected a published book on a personal history (written personal reflections from individuals who had undergone medical treatment and hospitalization), read it and submitted reports of their impressions of the histories. Their reports were arranged from a nursing perspective and entered on the home page of our college using HTML browser. We intended that the students would become more interested in reading of the personal histories, and that they would acquire new self-study skills and increase their interest in Internet through use of our program. In addition, we hoped that this program would encourage positive communication and mutual sharing of information. The students were able to easily refer to a personal history according to their interest from a nursing perspective. Therefore this program realized the mutual learning among students and other users.

jsPsych: a JavaScript library for creating behavioral experiments in a Web browser.

Science.gov (United States)

de Leeuw, Joshua R

2015-03-01

Online experiments are growing in popularity, and the increasing sophistication of Web technology has made it possible to run complex behavioral experiments online using only a Web browser. Unlike with offline laboratory experiments, however, few tools exist to aid in the development of browser-based experiments. This makes the process of creating an experiment slow and challenging, particularly for researchers who lack a Web development background. This article introduces jsPsych, a JavaScript library for the development of Web-based experiments. jsPsych formalizes a way of describing experiments that is much simpler than writing the entire experiment from scratch. jsPsych then executes these descriptions automatically, handling the flow from one task to another. The jsPsych library is open-source and designed to be expanded by the research community. The project is available online at www.jspsych.org .

Development of a browser application to foster research on linking climate and health datasets: Challenges and opportunities.

Science.gov (United States)

Hajat, Shakoor; Whitmore, Ceri; Sarran, Christophe; Haines, Andy; Golding, Brian; Gordon-Brown, Harriet; Kessel, Anthony; Fleming, Lora E

2017-01-01

Improved data linkages between diverse environment and health datasets have the potential to provide new insights into the health impacts of environmental exposures, including complex climate change processes. Initiatives that link and explore big data in the environment and health arenas are now being established. To encourage advances in this nascent field, this article documents the development of a web browser application to facilitate such future research, the challenges encountered to date, and how they were addressed. A 'storyboard approach' was used to aid the initial design and development of the application. The application followed a 3-tier architecture: a spatial database server for storing and querying data, server-side code for processing and running models, and client-side browser code for user interaction and for displaying data and results. The browser was validated by reproducing previously published results from a regression analysis of time-series datasets of daily mortality, air pollution and temperature in London. Data visualisation and analysis options of the application are presented. The main factors that shaped the development of the browser were: accessibility, open-source software, flexibility, efficiency, user-friendliness, licensing restrictions and data confidentiality, visualisation limitations, cost-effectiveness, and sustainability. Creating dedicated data and analysis resources, such as the one described here, will become an increasingly vital step in improving understanding of the complex interconnections between the environment and human health and wellbeing, whilst still ensuring appropriate confidentiality safeguards. The issues raised in this paper can inform the future development of similar tools by other researchers working in this field. Copyright © 2016 Elsevier B.V. All rights reserved.

RPAN: rice pan-genome browser for ∼3000 rice genomes.

Science.gov (United States)

Sun, Chen; Hu, Zhiqiang; Zheng, Tianqing; Lu, Kuangchen; Zhao, Yue; Wang, Wensheng; Shi, Jianxin; Wang, Chunchao; Lu, Jinyuan; Zhang, Dabing; Li, Zhikang; Wei, Chaochun

2017-01-25

A pan-genome is the union of the gene sets of all the individuals of a clade or a species and it provides a new dimension of genome complexity with the presence/absence variations (PAVs) of genes among these genomes. With the progress of sequencing technologies, pan-genome study is becoming affordable for eukaryotes with large-sized genomes. The Asian cultivated rice, Oryza sativa L., is one of the major food sources for the world and a model organism in plant biology. Recently, the 3000 Rice Genome Project (3K RGP) sequenced more than 3000 rice genomes with a mean sequencing depth of 14.3×, which provided a tremendous resource for rice research. In this paper, we present a genome browser, Rice Pan-genome Browser (RPAN), as a tool to search and visualize the rice pan-genome derived from 3K RGP. RPAN contains a database of the basic information of 3010 rice accessions, including genomic sequences, gene annotations, PAV information and gene expression data of the rice pan-genome. At least 12 000 novel genes absent in the reference genome were included. RPAN also provides multiple search and visualization functions. RPAN can be a rich resource for rice biology and rice breeding. It is available at http://cgm.sjtu.edu.cn/3kricedb/ or http://www.rmbreeding.cn/pan3k. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

Identification of transcriptional macromolecular associations in human bone using browser based in silico analysis in a giant correlation matrix.

Science.gov (United States)

Reppe, Sjur; Sachse, Daniel; Olstad, Ole K; Gautvik, Vigdis T; Sanderson, Paul; Datta, Harish K; Berg, Jens P; Gautvik, Kaare M

2013-03-01

Intracellular signaling is critically dependent on gene regulatory networks comprising physical molecular interactions. Presently, there is a lack of comprehensive databases for most human tissue types to verify such macromolecular interactions. We present a user friendly browser which helps to identify functional macromolecular interactions in human bone as significant correlations at the transcriptional level. The molecular skeletal phenotype has been characterized by transcriptome analysis of iliac crest bone biopsies from 84 postmenopausal women through quantifications of ~23,000 mRNA species. When the signal levels were inter-correlated, an array containing >260 million correlations was generated, thus recognizing the human bone interactome at the RNA level. The matrix correlation and p values were made easily accessible by a freely available online browser. We show that significant correlations within the giant matrix are reproduced in a replica set of 13 male vertebral biopsies. The identified correlations differ somewhat from transcriptional interactions identified in cell culture experiments and transgenic mice, thus demonstrating that care should be taken in extrapolating such results to the in vivo situation in human bone. The current giant matrix and web browser are a valuable tool for easy access to the human bone transcriptome and molecular interactions represented as significant correlations at the RNA-level. The browser and matrix should be a valuable hypothesis generating tool for identification of regulatory mechanisms and serve as a library of transcript relationships in human bone, a relatively inaccessible tissue. Copyright © 2012 Elsevier Inc. All rights reserved.

Web Pages Content Analysis Using Browser-Based Volunteer Computing

Directory of Open Access Journals (Sweden)

Wojciech Turek

2013-01-01

Full Text Available Existing solutions to the problem of finding valuable information on the Websuffers from several limitations like simplified query languages, out-of-date in-formation or arbitrary results sorting. In this paper a different approach to thisproblem is described. It is based on the idea of distributed processing of Webpages content. To provide sufficient performance, the idea of browser-basedvolunteer computing is utilized, which requires the implementation of text pro-cessing algorithms in JavaScript. In this paper the architecture of Web pagescontent analysis system is presented, details concerning the implementation ofthe system and the text processing algorithms are described and test resultsare provided.

Context Aware Concurrent Execution Framework for Web Browser

DEFF Research Database (Denmark)

Saeed, Aamir; Erbad, Aiman Mahmood; Olsen, Rasmus Løvenstein

Computing hungry multimedia web applications need to efficiently utilize the device resources. HTML5 web workers is a non-sharing concurrency platform that enables multimedia web application to utilize the available multi-core hardware. HTML5 web workers are implemented by major browser vendors...... to facilitate concurrent execution in web clients and enhance the quality of ambitious web applications. The concurrent execution in web workers allows parallel processing using available cores at the expense of communication overhead and extra computation. The benefits of concurrent execution can be maximized...... by balancing load across workers/CPU cores. This work presents load-balancing algorithms between web workers using parameters such as scheduler throughput, computation priority and game entity locality. An award-winning web-based multimedia game (raptjs.com) is used to test the performance of the load balance...

Hygroscopicity of secondary organic aerosols formed by oxidation of cycloalkenes, monoterpenes, sesquiterpenes, and related compounds

Directory of Open Access Journals (Sweden)

V. Varutbangkul

2006-01-01

Full Text Available A series of experiments has been conducted in the Caltech indoor smog chamber facility to investigate the water uptake properties of aerosol formed by oxidation of various organic precursors. Secondary organic aerosol (SOA from simple and substituted cycloalkenes (C5-C8 is produced in dark ozonolysis experiments in a dry chamber (RH~5%. Biogenic SOA from monoterpenes, sesquiterpenes, and oxygenated terpenes is formed by photooxidation in a humid chamber (~50% RH. Using the hygroscopicity tandem differential mobility analyzer (HTDMA, we measure the diameter-based hygroscopic growth factor (GF of the SOA as a function of time and relative humidity. All SOA studied is found to be slightly hygroscopic, with smaller water uptake than that of typical inorganic aerosol substances. The aerosol water uptake increases with time early in the experiments for the cycloalkene SOA, but decreases with time for the sesquiterpene SOA. This behavior could indicate competing effects between the formation of more highly oxidized polar compounds (more hygroscopic, and formation of longer-chained oligomers (less hygroscopic. All SOA also exhibit a smooth water uptake with RH with no deliquescence or efflorescence. The water uptake curves are found to be fitted well with an empirical three-parameter functional form. The measured pure organic GF values at 85% RH are between 1.09–1.16 for SOA from ozonolysis of cycloalkenes, 1.01–1.04 for sesquiterpene photooxidation SOA, and 1.06–1.10 for the monoterpene and oxygenated terpene SOA. The GF of pure SOA (GForg in experiments in which inorganic seed aerosol is used is determined by assuming volume-weighted water uptake (Zdanovskii-Stokes-Robinson or 'ZSR' approach and using the size-resolved organic mass fraction measured by the Aerodyne Aerosol Mass Spectrometer. Knowing the water content associated with the inorganic fraction yields GForg values. However, for each precursor, the GForg values computed from different

Multimedia consultation session recording and playback using Java-based browser in global PACS

Science.gov (United States)

Martinez, Ralph; Shah, Pinkesh J.; Yu, Yuan-Pin

1998-07-01

The current version of the Global PACS software system uses a Java-based implementation of the Remote Consultation and Diagnosis (RCD) system. The Java RCD includes a multimedia consultation session between physicians that includes text, static image, image annotation, and audio data. The JAVA RCD allows 2-4 physicians to collaborate on a patient case. It allows physicians to join the session via WWW Java-enabled browsers or stand alone RCD application. The RCD system includes a distributed database archive system for archiving and retrieving patient and session data. The RCD system can be used for store and forward scenarios, case reviews, and interactive RCD multimedia sessions. The RCD system operates over the Internet, telephone lines, or in a private Intranet. A multimedia consultation session can be recorded, and then played back at a later time for review, comments, and education. A session can be played back using Java-enabled WWW browsers on any operating system platform. The JAVA RCD system shows that a case diagnosis can be captured digitally and played back with the original real-time temporal relationships between data streams. In this paper, we describe design and implementation of the RCD session playback.

An Optimal Free Energy Dissipation Strategy of the MinCDE Oscillator in Regulating Symmetric Bacterial Cell Division

Science.gov (United States)

Xiong, Liping; Lan, Ganhui

2015-01-01

Sustained molecular oscillations are ubiquitous in biology. The obtained oscillatory patterns provide vital functions as timekeepers, pacemakers and spacemarkers. Models based on control theory have been introduced to explain how specific oscillatory behaviors stem from protein interaction feedbacks, whereas the energy dissipation through the oscillating processes and its role in the regulatory function remain unexplored. Here we developed a general framework to assess an oscillator’s regulation performance at different dissipation levels. Using the Escherichia coli MinCDE oscillator as a model system, we showed that a sufficient amount of energy dissipation is needed to switch on the oscillation, which is tightly coupled to the system’s regulatory performance. Once the dissipation level is beyond this threshold, unlike stationary regulators’ monotonic performance-to-cost relation, excess dissipation at certain steps in the oscillating process damages the oscillator’s regulatory performance. We further discovered that the chemical free energy from ATP hydrolysis has to be strategically assigned to the MinE-aided MinD release and the MinD immobilization steps for optimal performance, and a higher energy budget improves the robustness of the oscillator. These results unfold a novel mode by which living systems trade energy for regulatory function. PMID:26317492

Integration of a browser based operator manual in the system environment of a process computer system

International Nuclear Information System (INIS)

Weber, Andreas; Erfle, Robert; Feinkohl, Dirk

2012-01-01

The integration of a browser based operator manual in the system environment of a process computer system is an optimization of the operating procedure in the control room and a safety enhancement due to faster and error-free access to the manual contents. Several requirements by the authorities have to be fulfilled: the operating manual has to be available as hard copy, the format has to be true to original, protection against manipulation has to be provided, the manual content of the browser-based version and the hard copy have to identical, and the display presentation has to be consistent with ergonomic principals. The integration of the on-line manual in the surveillance process computer system provides the operator with the relevant comments to the surveillance signal. The described integration of the on-line manual is an optimization of the operator's everyday job with respect to ergonomics and safety (human performance).

Modeling the HTML DOM and Browser API in Static Analysis of JavaScript Web Applications

DEFF Research Database (Denmark)

Jensen, Simon Holm; Madsen, Magnus; Møller, Anders

2011-01-01

of reasoning about the flow of control and data in modern JavaScript applications that interact with the HTML DOM and browser API. One application of such a static analysis is to detect type-related and dataflow-related programming errors. We report on experiments with a range of modern web applications...

Geant4 application in a Web browser

International Nuclear Information System (INIS)

Garnier, Laurent

2014-01-01

Geant4 is a toolkit for the simulation of the passage of particles through matter. The Geant4 visualization system supports many drivers including OpenGL[1], OpenInventor, HepRep[2], DAWN[3], VRML, RayTracer, gMocren[4] and ASCIITree, with diverse and complementary functionalities. Web applications have an increasing role in our work, and thanks to emerging frameworks such as Wt [5], building a web application on top of a C++ application without rewriting all the code can be done. Because the Geant4 toolkit's visualization and user interface modules are well decoupled from the rest of Geant4, it is straightforward to adapt these modules to render in a web application instead of a computer's native window manager. The API of the Wt framework closely matches that of Qt [6], our experience in building Qt driver will benefit for Wt driver. Porting a Geant4 application to a web application is easy, and with minimal effort, Geant4 users can replicate this process to share their own Geant4 applications in a web browser.

Seed dispersers, seed predators, and browsers act synergistically as biotic filters in a mosaic landscape.

Directory of Open Access Journals (Sweden)

Regino Zamora

Full Text Available In this study, we analize the functional influence of animals on the plants they interact with in a mediterranean mountain. We hypothesise that seed dispersers, seed predators, and browsers can act as biotic filters for plant communities. We analyse the combined effects of mutualistic (seed dispersal and antagonistic (seed predation, herbivory animal interactions in a mosaic landscape of Mediterranean mountains, basing our results on observational and experimental field. Most of the dispersed seeds came from tree species, whereas the population of saplings was composed predominantly of zoochorous shrub species. Seed predators preferentially consumed seeds from tree species, whereas seeds from the dominant fleshy-fruited shrubs had a higher probability of escaping these predators. The same pattern was repeated among the different landscape units by browsers, since they browsed selectively and far more intensely on tree-species saplings than on the surrounding shrubs. In synthesis, our work identifies the major biotic processes that appear to be favoring a community dominated by shrubs versus trees because seed dispersers, predators, and herbivores together favored shrub dispersal and establishment versus trees.

Interactive atlas using web browser: CT and MRI of the temporal bone

International Nuclear Information System (INIS)

Chung, Eun Chul; Youn, Eun Kyung; Lee, Young Uk

2000-01-01

The purposes of this study were to construct an interactive atlas of the temporal bone using a web-browser and to provide a template for web-based teaching files, using free and shared applets and scripts on the internet. HRCT and MR images of the temporal bone including its normal anatomy, tumors, trauma, inflammation, anomalies and vascular diseases were used in this study. Acquired radiologic images were transformed to GIF/JPG formats and to achieve appropriate image quality, were retouched. Text and image files of normal anatomy and diseases were written by HTML. JavaScript and applets were inserted in the HTML files for the interactive display of images and texts. In order to review anatomic features and diseases, a search index was also attached to the last part of the file. Using interactive images and text, temporal bone anatomy and disorders were displayed. Scripts and applets were also useful for indicating specific points of interest when a mouse was placed over the anatomic sites. The atlas may be viewed in the form of a CD-ROM, or via the internet using any computer platform or web-browser. This web-based teaching file of the temporal bone offers dynamic and interactive education. It can be usefully employed as a template for the production of interactive educational materials, offering JavaScript and providing suitable input for classes. It can replace texts and imaging contents. (author)

A Hybrid Web Browser Architecture for Mobile Devices

Directory of Open Access Journals (Sweden)

CHO, J.

2014-08-01

Full Text Available Web browsing on mobile networks is slow in comparison to wired or Wi-Fi networks. Particularly, the connection establishment phase including DNS lookups and TCP handshakes takes a long time on mobile networks due to its long round-trip latency. In this paper, we propose a novel web browser architecture that aims to improve mobile web browsing performance. Our approach delegates the connection establishment and HTTP header field delivery tasks to a dedicated proxy server located at the joint point between the WAN and mobile network. Since the traffic for the connection establishment and HTTP header fields delivery passes only through the WAN between the proxy and web servers, our approach significantly reduces both the number and size of packets on the mobile network. Our evaluation showed that the proposed scheme reduces the number of mobile network packets by up to 42% and, consequently, the average page loading time is shortened by up to 52%.

Gesture Interaction Browser-Based 3D Molecular Viewer.

Science.gov (United States)

Virag, Ioan; Stoicu-Tivadar, Lăcrămioara; Crişan-Vida, Mihaela

2016-01-01

The paper presents an open source system that allows the user to interact with a 3D molecular viewer using associated hand gestures for rotating, scaling and panning the rendered model. The novelty of this approach is that the entire application is browser-based and doesn't require installation of third party plug-ins or additional software components in order to visualize the supported chemical file formats. This kind of solution is suitable for instruction of users in less IT oriented environments, like medicine or chemistry. For rendering various molecular geometries our team used GLmol (a molecular viewer written in JavaScript). The interaction with the 3D models is made with Leap Motion controller that allows real-time tracking of the user's hand gestures. The first results confirmed that the resulting application leads to a better way of understanding various types of translational bioinformatics related problems in both biomedical research and education.

Browser Based Platform in Maintaining Clinical Activities - Use of The iPads in Head and Neck Clinics

Science.gov (United States)

Yang, W. Y.; Moore, J.; Quon, H.; Evans, K.; Sharabi, A.; Herman, J.; Hacker-Prietz, A.; McNutt, T.

2014-03-01

Purpose: Incompatibility between documentation and clinical workflow causes physician resistance in organized data collection, which in turn complicates the use of data in patient care improvement. To resolve the gap, we developed an iPad compatible in situ browser-based platform that integrates clinical activity with data collection and analysis presentation. The ability to perform in-clinic activities and monitor decision making using the iPad was evaluated. Methods: A browser-based platform that can exchange and present analysed data from the MOSAIQ database was developed in situ, the iPads were distributed in head and neck clinics to present the browser for clinical activities, data collection and assessment monitoring. Performance of the iPads for in-clinic activities was observed. Results: All in-clinic documentation activities can be performed without workstation computers. Accessing patient record and previous assessments was significantly faster without having to open the MOSAIQ application. Patient assessments can be completed with the physician facing the patient. Graphical presentation of toxicity progression and patient radiation plans to the patient can be performed in single interface without patient leaving the seating area. Updates in patient treatment status and medical history were presented in real time without having to move paper charts around. Conclusions: The iPad can be used in clinical activities independent of computer workstations. Improvements in clinical workflow can be critical in reducing physician resistance in data maintenance. Using the iPad in providing real-time quality monitoring is intuitive to both providers and patients.

A Connection Model between the Positioning Mechanism and Ultrasonic Measurement System via a Web Browser to Assess Acoustic Target Strength

Science.gov (United States)

Ishii, Ken; Imaizumi, Tomohito; Abe, Koki; Takao, Yoshimi; Tamura, Shuko

This paper details a network-controlled measurement system for use in fisheries engineering. The target strength (TS) of fish is important in order to convert acoustic integration values obtained during acoustic surveys into estimates of fish abundance. The target strength pattern is measured with the combination of the rotation system for the aspect of the sample and the echo data acquisition system using the underwater supersonic wave. The user interface of the network architecture is designed for collaborative use with researchers in other organizations. The flexible network architecture is based on the web direct-access model for the rotation mechanism. The user interface is available for monitoring and controlling via a web browser that is installed in any terminal PC (personal computer). Previously the combination of two applications was performed not by a web browser but by the exclusive interface program. So a connection model is proposed between two applications by indirect communication via the DCOM (Distributed Component Object Model) server and added in the web direct-access model. A prompt report system in the TS measurement system and a positioning and measurement system using an electric flatcar via a web browser are developed. By a secure network architecture, DCOM communications via both Intranet and LAN are successfully certificated.

nodeGame: Real-time, synchronous, online experiments in the browser.

Science.gov (United States)

Balietti, Stefano

2017-10-01

nodeGame is a free, open-source JavaScript/ HTML5 framework for conducting synchronous experiments online and in the lab directly in the browser window. It is specifically designed to support behavioral research along three dimensions: (i) larger group sizes, (ii) real-time (but also discrete time) experiments, and (iii) batches of simultaneous experiments. nodeGame has a modular source code, and defines an API (application programming interface) through which experimenters can create new strategic environments and configure the platform. With zero-install, nodeGame can run on a great variety of devices, from desktop computers to laptops, smartphones, and tablets. The current version of the software is 3.0, and extensive documentation is available on the wiki pages at http://nodegame.org .

Browser based platform in maintaining clinical activities – use of the iPads in head and neck clinics

International Nuclear Information System (INIS)

Yang, W Y; Moore, J; Quon, H; Evans, K; Sharabi, A; Herman, J; Hacker-Prietz, A; McNutt, T

2014-01-01

Purpose: Incompatibility between documentation and clinical workflow causes physician resistance in organized data collection, which in turn complicates the use of data in patient care improvement. To resolve the gap, we developed an iPad compatible in situ browser-based platform that integrates clinical activity with data collection and analysis presentation. The ability to perform in-clinic activities and monitor decision making using the iPad was evaluated. Methods: A browser-based platform that can exchange and present analysed data from the MOSAIQ database was developed in situ, the iPads were distributed in head and neck clinics to present the browser for clinical activities, data collection and assessment monitoring. Performance of the iPads for in-clinic activities was observed. Results: All in-clinic documentation activities can be performed without workstation computers. Accessing patient record and previous assessments was significantly faster without having to open the MOSAIQ application. Patient assessments can be completed with the physician facing the patient. Graphical presentation of toxicity progression and patient radiation plans to the patient can be performed in single interface without patient leaving the seating area. Updates in patient treatment status and medical history were presented in real time without having to move paper charts around. Conclusions: The iPad can be used in clinical activities independent of computer workstations. Improvements in clinical workflow can be critical in reducing physician resistance in data maintenance. Using the iPad in providing real-time quality monitoring is intuitive to both providers and patients.

EMBEDDED LINUX BASED ALBUM BROWSER SYSTEM AT MUSIC STORES

Directory of Open Access Journals (Sweden)

Suryadiputra Liawatimena

2009-01-01

Full Text Available The goal of this research is the creation of an album browser system at a music store based on embedded Linux. It is expected with this system; it will help the promotion of said music store and make the customers activity at the store simpler and easier. This system uses NFS for networking, database system, ripping software, and GUI development. The research method used are and laboratory experiments to test the system’s hardware using TPC-57 (Touch Panel Computer 5.7" SA2410 ARM-9 Medallion CPU Module and software using QtopiaCore. The result of the research are; 1. The database query process is working properly; 2. The audio data buffering process is working properly. With those experiment results, it can be concluded that the summary of this research is that the system is ready to be implemented and used in the music stores.

CAI System with Multi-Media Text Through Web Browser for NC Lathe Programming

Science.gov (United States)

Mizugaki, Yoshio; Kikkawa, Koichi; Mizui, Masahiko; Kamijo, Keisuke

A new Computer Aided Instruction (CAI) system for NC lathe programming has been developed with use of multi-media texts including movies, animations, pictures, sound and texts through Web browser. Although many CAI systems developed previously for NC programming consist of text-based instructions, it is difficult for beginners to learn NC programming with use of them. In the developed CAI system, multi-media texts are adopted for the help of users' understanding, and it is available through Web browser anytime and anywhere. Also the error log is automatically recorded for the future references. According to the NC programming coded by a user, the movement of the NC lathe is animated and shown in the monitor screen in front of the user. If its movement causes the collision between a cutting tool and the lathe, some sound and the caution remark are generated. If the user makes mistakes some times at a certain stage in learning NC, the corresponding suggestion is shown in the form of movies, animations, and so forth. By using the multimedia texts, users' attention is kept concentrated during a training course. In this paper, the configuration of the CAI system is explained and the actual procedures for users to learn the NC programming are also explained too. Some beginners tested this CAI system and their results are illustrated and discussed from the viewpoint of the efficiency and usefulness of this CAI system. A brief conclusion is also mentioned.

A hybrid BCI web browser based on EEG and EOG signals.

Science.gov (United States)

Shenghong He; Tianyou Yu; Zhenghui Gu; Yuanqing Li

2017-07-01

In this study, we propose a new web browser based on a hybrid brain computer interface (BCI) combining electroencephalographic (EEG) and electrooculography (EOG) signals. Specifically, the user can control the horizontal movement of the mouse by imagining left/right hand motion, and control the vertical movement of the mouse, select/reject a target, or input text in an edit box by blinking eyes in synchrony with the flashes of the corresponding buttons on the GUI. Based on mouse control, target selection and text input, the user can open a web page of interest, select an intended target in the web and read the page content. An online experiment was conducted involving five healthy subjects. The experimental results demonstrated the effectiveness of the proposed method.

Desain prototipe aplikasi sistem monitoring browser ponsel anak untuk menerapkan internet sehat dengan kontrol orang tua

Directory of Open Access Journals (Sweden)

Taufik Hidayat

2017-05-01

Full Text Available AbstrakPenggunaan internet dikalangan anak-anak saat ini sudah menjadi trend, bahkan banyak orang tua sudah memberikan ponsel android kepada anak-anak dalam melakukan komunikasi sehari-hari. Hal tersebut sangat berdampak kepada anak dalam pemanfaatan teknologi internet yang kurang sehat seperti mendapatkan data dan informasi melalui browsing internet tanpa pemantauan orang tua sehingga anak dengan mudah mendapatkan kata-kata atau informasi yang tidak layak dikonsumsi oleh anak tersebut. Penelitian ini bertujuan untuk mendesain aplikasi sistem monitoring browser ponsel anak untuk menerapkan internet sehat dengan kontrol orang tua menggunakan metode prototipe. Hasil penelitian tersebut berupa rancangan aplikasi monitoring broser anak yang dapat digunakan untuk memantau aktivitas browsing internet pada ponsel anak secara online pada platform android dengan otomatis mengirim pesan notifikasi kepada orang tua dan orang tua dapat memberikan respon atau balasan secara langsung ketika anak sedang mencoba melakukan aktivitas browsing internet yang tidak sehat. Kata kunci: Kontrol orang tua, penelusuran aman, sistem monitoring, aktivitas penelusuran harian  Abstract The use of the internet among children currently have become a trend, even many parents already gives android phones to children in doing everyday communication. It is so impacting to the child in the utilization of internet technologies that are less healthy as get data and information through browsing the internet without monitoring parents so children easily get words or information that is not feasible is consumed by the child. This research aims to design a monitoring system of the mobile browser app to implement a healthy internet parental control method using prototype. The results of such research in the form of a draft application monitoring these children which can be used to monitor the activities of internet browsing on mobile child online on the android platform with automatic

Cloud Based Resource for Data Hosting, Visualization and Analysis Using UCSC Cancer Genomics Browser | Informatics Technology for Cancer Research (ITCR)

Science.gov (United States)

The Cancer Analysis Virtual Machine (CAVM) project will leverage cloud technology, the UCSC Cancer Genomics Browser, and the Galaxy analysis workflow system to provide investigators with a flexible, scalable platform for hosting, visualizing and analyzing their own genomic data.

CliniSpace: a multiperson 3D online immersive training environment accessible through a browser.

Science.gov (United States)

Dev, Parvati; Heinrichs, W LeRoy; Youngblood, Patricia

2011-01-01

Immersive online medical environments, with dynamic virtual patients, have been shown to be effective for scenario-based learning (1). However, ease of use and ease of access have been barriers to their use. We used feedback from prior evaluation of these projects to design and develop CliniSpace. To improve usability, we retained the richness of prior virtual environments but modified the user interface. To improve access, we used a Software-as-a-Service (SaaS) approach to present a richly immersive 3D environment within a web browser.

ROOT I/O in Javascript - Reading ROOT files in a browser

CERN Multimedia

CERN. Geneva

2012-01-01

A JavaScript version of the ROOT I/O subsystem is being developed, in order to be able to browse (inspect) ROOT files in a platform independent way. This allows the content of ROOT files to be displayed in most web browsers, without having to install ROOT or any other software on the server or on the client. This gives a direct access to ROOT files from new (e.g. portable) devices in a light way. It will be possible to display simple graphical objects such as histograms and graphs (TH1, TH2, TH3, TProfile, TGraph, ...). The rendering will first be done with an external JavaScript graphic library, before investigating a way to produce graphics closer to what ROOT supports on other platforms (X11, Windows).

DNA deformability changes of single base pair mutants within CDE binding sites in S. Cerevisiae centromere DNA correlate with measured chromosomal loss rates and CDE binding site symmetries

Directory of Open Access Journals (Sweden)

Marx Kenneth A

2006-03-01

Full Text Available Abstract Background The centromeres in yeast (S. cerevisiae are organized by short DNA sequences (125 bp on each chromosome consisting of 2 conserved elements: CDEI and CDEIII spaced by a CDEII region. CDEI and CDEIII are critical sequence specific protein binding sites necessary for correct centromere formation and following assembly with proteins, are positioned near each other on a specialized nucleosome. Hegemann et al. BioEssays 1993, 15: 451–460 reported single base DNA mutants within the critical CDEI and CDEIII binding sites on the centromere of chromosome 6 and quantitated centromere loss of function, which they measured as loss rates for the different chromosome 6 mutants during cell division. Olson et al. Proc Natl Acad Sci USA 1998, 95: 11163–11168 reported the use of protein-DNA crystallography data to produce a DNA dinucleotide protein deformability energetic scale (PD-scale that describes local DNA deformability by sequence specific binding proteins. We have used the PD-scale to investigate the DNA sequence dependence of the yeast chromosome 6 mutants' loss rate data. Each single base mutant changes 2 PD-scale values at that changed base position relative to the wild type. In this study, we have utilized these mutants to demonstrate a correlation between the change in DNA deformability of the CDEI and CDEIII core sites and the overall experimentally measured chromosome loss rates of the chromosome 6 mutants. Results In the CDE I and CDEIII core binding regions an increase in the magnitude of change in deformability of chromosome 6 single base mutants with respect to the wild type correlates to an increase in the measured chromosome loss rate. These correlations were found to be significant relative to 105 Monte Carlo randomizations of the dinucleotide PD-scale applied to the same calculation. A net loss of deformability also tends to increase the loss rate. Binding site position specific, 4 data-point correlations were also

pileup.js: a JavaScript library for interactive and in-browser visualization of genomic data.

Science.gov (United States)

Vanderkam, Dan; Aksoy, B Arman; Hodes, Isaac; Perrone, Jaclyn; Hammerbacher, Jeff

2016-08-01

P: ileup.js is a new browser-based genome viewer. It is designed to facilitate the investigation of evidence for genomic variants within larger web applications. It takes advantage of recent developments in the JavaScript ecosystem to provide a modular, reliable and easily embedded library. The code and documentation for pileup.js is publicly available at https://github.com/hammerlab/pileup.js under the Apache 2.0 license. correspondence@hammerlab.org. © The Author 2016. Published by Oxford University Press.

Viewing and Editing Earth Science Metadata MOBE: Metadata Object Browser and Editor in Java

Science.gov (United States)

Chase, A.; Helly, J.

2002-12-01

Metadata is an important, yet often neglected aspect of successful archival efforts. However, to generate robust, useful metadata is often a time consuming and tedious task. We have been approaching this problem from two directions: first by automating metadata creation, pulling from known sources of data, and in addition, what this (paper/poster?) details, developing friendly software for human interaction with the metadata. MOBE and COBE(Metadata Object Browser and Editor, and Canonical Object Browser and Editor respectively), are Java applications for editing and viewing metadata and digital objects. MOBE has already been designed and deployed, currently being integrated into other areas of the SIOExplorer project. COBE is in the design and development stage, being created with the same considerations in mind as those for MOBE. Metadata creation, viewing, data object creation, and data object viewing, when taken on a small scale are all relatively simple tasks. Computer science however, has an infamous reputation for transforming the simple into complex. As a system scales upwards to become more robust, new features arise and additional functionality is added to the software being written to manage the system. The software that emerges from such an evolution, though powerful, is often complex and difficult to use. With MOBE the focus is on a tool that does a small number of tasks very well. The result has been an application that enables users to manipulate metadata in an intuitive and effective way. This allows for a tool that serves its purpose without introducing additional cognitive load onto the user, an end goal we continue to pursue.

A freely-available authoring system for browser-based CALL with speech recognition

Directory of Open Access Journals (Sweden)

Myles O'Brien

2017-06-01

Full Text Available A system for authoring browser-based CALL material incorporating Google speech recognition has been developed and made freely available for download. The system provides a teacher with a simple way to set up CALL material, including an optional image, sound or video, which will elicit spoken (and/or typed answers from the user and check them against a list of specified permitted answers, giving feedback with hints when necessary. The teacher needs no HTML or Javascript expertise, just the facilities and ability to edit text files and upload to the Internet. The structure and functioning of the system are explained in detail, and some suggestions are given for practical use. Finally, some of its limitations are described.

HiView: an integrative genome browser to leverage Hi-C results for the interpretation of GWAS variants.

Science.gov (United States)

Xu, Zheng; Zhang, Guosheng; Duan, Qing; Chai, Shengjie; Zhang, Baqun; Wu, Cong; Jin, Fulai; Yue, Feng; Li, Yun; Hu, Ming

2016-03-11

Genome-wide association studies (GWAS) have identified thousands of genetic variants associated with complex traits and diseases. However, most of them are located in the non-protein coding regions, and therefore it is challenging to hypothesize the functions of these non-coding GWAS variants. Recent large efforts such as the ENCODE and Roadmap Epigenomics projects have predicted a large number of regulatory elements. However, the target genes of these regulatory elements remain largely unknown. Chromatin conformation capture based technologies such as Hi-C can directly measure the chromatin interactions and have generated an increasingly comprehensive catalog of the interactome between the distal regulatory elements and their potential target genes. Leveraging such information revealed by Hi-C holds the promise of elucidating the functions of genetic variants in human diseases. In this work, we present HiView, the first integrative genome browser to leverage Hi-C results for the interpretation of GWAS variants. HiView is able to display Hi-C data and statistical evidence for chromatin interactions in genomic regions surrounding any given GWAS variant, enabling straightforward visualization and interpretation. We believe that as the first GWAS variants-centered Hi-C genome browser, HiView is a useful tool guiding post-GWAS functional genomics studies. HiView is freely accessible at: http://www.unc.edu/~yunmli/HiView .

Making the PACS workstation a browser of image processing software: a feasibility study using inter-process communication techniques.

Science.gov (United States)

Wang, Chunliang; Ritter, Felix; Smedby, Orjan

2010-07-01

To enhance the functional expandability of a picture archiving and communication systems (PACS) workstation and to facilitate the integration of third-part image-processing modules, we propose a browser-server style method. In the proposed solution, the PACS workstation shows the front-end user interface defined in an XML file while the image processing software is running in the background as a server. Inter-process communication (IPC) techniques allow an efficient exchange of image data, parameters, and user input between the PACS workstation and stand-alone image-processing software. Using a predefined communication protocol, the PACS workstation developer or image processing software developer does not need detailed information about the other system, but will still be able to achieve seamless integration between the two systems and the IPC procedure is totally transparent to the final user. A browser-server style solution was built between OsiriX (PACS workstation software) and MeVisLab (Image-Processing Software). Ten example image-processing modules were easily added to OsiriX by converting existing MeVisLab image processing networks. Image data transfer using shared memory added communication based on IPC techniques is an appealing method that allows PACS workstation developers and image processing software developers to cooperate while focusing on different interests.

PubMed-EX: a web browser extension to enhance PubMed search with text mining features.

Science.gov (United States)

Tsai, Richard Tzong-Han; Dai, Hong-Jie; Lai, Po-Ting; Huang, Chi-Hsin

2009-11-15

PubMed-EX is a browser extension that marks up PubMed search results with additional text-mining information. PubMed-EX's page mark-up, which includes section categorization and gene/disease and relation mark-up, can help researchers to quickly focus on key terms and provide additional information on them. All text processing is performed server-side, freeing up user resources. PubMed-EX is freely available at http://bws.iis.sinica.edu.tw/PubMed-EX and http://iisr.cse.yzu.edu.tw:8000/PubMed-EX/.

Taking advantage of HTML5 browsers to realize the concepts of session state and workflow sharing in web-tool applications

Science.gov (United States)

Suftin, I.; Read, J. S.; Walker, J.

2013-12-01

Scientists prefer not having to be tied down to a specific machine or operating system in order to analyze local and remote data sets or publish work. Increasingly, analysis has been migrating to decentralized web services and data sets, using web clients to provide the analysis interface. While simplifying workflow access, analysis, and publishing of data, the move does bring with it its own unique set of issues. Web clients used for analysis typically offer workflows geared towards a single user, with steps and results that are often difficult to recreate and share with others. Furthermore, workflow results often may not be easily used as input for further analysis. Older browsers further complicate things by having no way to maintain larger chunks of information, often offloading the job of storage to the back-end server or trying to squeeze it into a cookie. It has been difficult to provide a concept of "session storage" or "workflow sharing" without a complex orchestration of the back-end for storage depending on either a centralized file system or database. With the advent of HTML5, browsers gained the ability to store more information through the use of the Web Storage API (a browser-cookie holds a maximum of 4 kilobytes). Web Storage gives us the ability to store megabytes of arbitrary data in-browser either with an expiration date or just for a session. This allows scientists to create, update, persist and share their workflow without depending on the backend to store session information, providing the flexibility for new web-based workflows to emerge. In the DSASWeb portal ( http://cida.usgs.gov/DSASweb/ ), using these techniques, the representation of every step in the analyst's workflow is stored as plain-text serialized JSON, which we can generate as a text file and provide to the analyst as an upload. This file may then be shared with others and loaded back into the application, restoring the application to the state it was in when the session file

CDAPubMed: a browser extension to retrieve EHR-based biomedical literature

Directory of Open Access Journals (Sweden)

Perez-Rey David

2012-04-01

Full Text Available Abstract Background Over the last few decades, the ever-increasing output of scientific publications has led to new challenges to keep up to date with the literature. In the biomedical area, this growth has introduced new requirements for professionals, e.g., physicians, who have to locate the exact papers that they need for their clinical and research work amongst a huge number of publications. Against this backdrop, novel information retrieval methods are even more necessary. While web search engines are widespread in many areas, facilitating access to all kinds of information, additional tools are required to automatically link information retrieved from these engines to specific biomedical applications. In the case of clinical environments, this also means considering aspects such as patient data security and confidentiality or structured contents, e.g., electronic health records (EHRs. In this scenario, we have developed a new tool to facilitate query building to retrieve scientific literature related to EHRs. Results We have developed CDAPubMed, an open-source web browser extension to integrate EHR features in biomedical literature retrieval approaches. Clinical users can use CDAPubMed to: (i load patient clinical documents, i.e., EHRs based on the Health Level 7-Clinical Document Architecture Standard (HL7-CDA, (ii identify relevant terms for scientific literature search in these documents, i.e., Medical Subject Headings (MeSH, automatically driven by the CDAPubMed configuration, which advanced users can optimize to adapt to each specific situation, and (iii generate and launch literature search queries to a major search engine, i.e., PubMed, to retrieve citations related to the EHR under examination. Conclusions CDAPubMed is a platform-independent tool designed to facilitate literature searching using keywords contained in specific EHRs. CDAPubMed is visually integrated, as an extension of a widespread web browser, within the standard

Design and Implementation of Browser based GPS/GPRS Vehicle Positioning and Tracking System

Directory of Open Access Journals (Sweden)

Zhang Keqiang

2015-01-01

Full Text Available This paper mainly describes a vehicle positioning and tracking system which is based on browser, GPS and GPRS. And this system takes advantage of Baidu Map as basic material to show vehicle status, which enables drivers and supervisor to monitor the vehicle’s current and past positions. The vehicle’s location data is got from satellites, and these data is sent to the central server through GPRS, the central server will store formatted data into the database after the data is parsed; Later, these data stored in the database will be used by web application and displayed on the map as markers. This paper also involves the implementation on mobile side, and this system used Baidu map JavaScript interface, Ajax, JSP and JSON to implement the vehicle positioning and tracking system.

Results from the CDE phase activity on neutron dosimetry for the international fusion materials irradiation facility test cell

Energy Technology Data Exchange (ETDEWEB)

Esposito, B. E-mail: esposito@frascati.enea.it; Bertalot, L.; Maruccia, G.; Petrizzi, L.; Bignan, G.; Blandin, C.; Chauffriat, S.; Lebrun, A.; Recroix, H.; Trapp, J.P.; Kaschuck, Y

2000-11-01

The international fusion materials irradiation facility (IFMIF) project deals with the study of an accelerator-based, deuterium-lithium source, producing high energy neutrons at sufficient intensity and irradiation volume to test samples of candidate materials for fusion energy reactors. IFMIF would also provide calibration and validation of data from fission reactor and other accelerator based irradiation tests. This paper describes the activity on neutron/gamma dosimetry (necessary for the characterization of the specimens' irradiation) performed in the frame of the IFMIF conceptual design evaluation (CDE) neutronics tasks. During the previous phase (conceptual design activity (CDA)) the multifoil activation method was proposed for the measurement of the neutron fluence and spectrum and a set of suitable foils was defined. The cross section variances and covariances of this set of foils have now been used for tests on the sensitivity of the IFMIF neutron spectrum determination to cross section uncertainties. The analysis has been carried out using the LSL-M2 code, which optimizes the neutron spectrum by means of a least-squares technique taking into account the variance and covariance files. In the second part of the activity, the possibility of extending to IFMIF the use of existing on-line in-core neutron/gamma monitors (to be located at several positions inside the IFMIF test cell for beam control, safety and diagnostic purposes) has been studied. A feasibility analysis of the modifications required to adapt sub-miniature fission chambers (recently developed by CEA-Cadarache) to the high flux test module of the test cell has been carried out. The verification of this application pertinence and a gross definition of the in-core detector characteristics are described. The option of using self-powered neutron detectors (SPNDs) is also discussed.

IcyTree: rapid browser-based visualization for phylogenetic trees and networks.

Science.gov (United States)

Vaughan, Timothy G

2017-08-01

IcyTree is an easy-to-use application which can be used to visualize a wide variety of phylogenetic trees and networks. While numerous phylogenetic tree viewers exist already, IcyTree distinguishes itself by being a purely online tool, having a responsive user interface, supporting phylogenetic networks (ancestral recombination graphs in particular), and efficiently drawing trees that include information such as ancestral locations or trait values. IcyTree also provides intuitive panning and zooming utilities that make exploring large phylogenetic trees of many thousands of taxa feasible. IcyTree is a web application and can be accessed directly at http://tgvaughan.github.com/icytree . Currently supported web browsers include Mozilla Firefox and Google Chrome. IcyTree is written entirely in client-side JavaScript (no plugin required) and, once loaded, does not require network access to run. IcyTree is free software, and the source code is made available at http://github.com/tgvaughan/icytree under version 3 of the GNU General Public License. tgvaughan@gmail.com. © The Author(s) 2017. Published by Oxford University Press.

ENCODE whole-genome data in the UCSC genome browser (2011 update).

Science.gov (United States)

Raney, Brian J; Cline, Melissa S; Rosenbloom, Kate R; Dreszer, Timothy R; Learned, Katrina; Barber, Galt P; Meyer, Laurence R; Sloan, Cricket A; Malladi, Venkat S; Roskin, Krishna M; Suh, Bernard B; Hinrichs, Angie S; Clawson, Hiram; Zweig, Ann S; Kirkup, Vanessa; Fujita, Pauline A; Rhead, Brooke; Smith, Kayla E; Pohl, Andy; Kuhn, Robert M; Karolchik, Donna; Haussler, David; Kent, W James

2011-01-01

The ENCODE project is an international consortium with a goal of cataloguing all the functional elements in the human genome. The ENCODE Data Coordination Center (DCC) at the University of California, Santa Cruz serves as the central repository for ENCODE data. In this role, the DCC offers a collection of high-throughput, genome-wide data generated with technologies such as ChIP-Seq, RNA-Seq, DNA digestion and others. This data helps illuminate transcription factor-binding sites, histone marks, chromatin accessibility, DNA methylation, RNA expression, RNA binding and other cell-state indicators. It includes sequences with quality scores, alignments, signals calculated from the alignments, and in most cases, element or peak calls calculated from the signal data. Each data set is available for visualization and download via the UCSC Genome Browser (http://genome.ucsc.edu/). ENCODE data can also be retrieved using a metadata system that captures the experimental parameters of each assay. The ENCODE web portal at UCSC (http://encodeproject.org/) provides information about the ENCODE data and links for access.

Family genome browser: visualizing genomes with pedigree information.

Science.gov (United States)

Juan, Liran; Liu, Yongzhuang; Wang, Yongtian; Teng, Mingxiang; Zang, Tianyi; Wang, Yadong

2015-07-15

Families with inherited diseases are widely used in Mendelian/complex disease studies. Owing to the advances in high-throughput sequencing technologies, family genome sequencing becomes more and more prevalent. Visualizing family genomes can greatly facilitate human genetics studies and personalized medicine. However, due to the complex genetic relationships and high similarities among genomes of consanguineous family members, family genomes are difficult to be visualized in traditional genome visualization framework. How to visualize the family genome variants and their functions with integrated pedigree information remains a critical challenge. We developed the Family Genome Browser (FGB) to provide comprehensive analysis and visualization for family genomes. The FGB can visualize family genomes in both individual level and variant level effectively, through integrating genome data with pedigree information. Family genome analysis, including determination of parental origin of the variants, detection of de novo mutations, identification of potential recombination events and identical-by-decent segments, etc., can be performed flexibly. Diverse annotations for the family genome variants, such as dbSNP memberships, linkage disequilibriums, genes, variant effects, potential phenotypes, etc., are illustrated as well. Moreover, the FGB can automatically search de novo mutations and compound heterozygous variants for a selected individual, and guide investigators to find high-risk genes with flexible navigation options. These features enable users to investigate and understand family genomes intuitively and systematically. The FGB is available at http://mlg.hit.edu.cn/FGB/. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Feeding practice in captive wild ruminants : pecularities in the nutrition of browsers/concentrate selectors and intermediate feeders. A review

OpenAIRE

Clauss, M; Kienzle, E; Hatt, J M

2003-01-01

We present a review on the feeding practice, the nutritional pathology and the documented nutritional peculiarities of zoo ruminants. The difference in chemical composition between browse and grass historically led to the conclusion that browsers need a diet lower in fibre and higher in protein than grazing ruminants. The term “concentrate selectors”, coined to describe browsing ruminants, additionally focused the attention on the chemical nature of a browser’s diet assumed high in easily fer...

SINGLE VERSUS MULTIPLE TRIAL VECTORS IN CLASSICAL DIFFERENTIAL EVOLUTION FOR OPTIMIZING THE QUANTIZATION TABLE IN JPEG BASELINE ALGORITHM

Directory of Open Access Journals (Sweden)

B Vinoth Kumar

2017-07-01

Full Text Available Quantization Table is responsible for compression / quality trade-off in baseline Joint Photographic Experts Group (JPEG algorithm and therefore it is viewed as an optimization problem. In the literature, it has been found that Classical Differential Evolution (CDE is a promising algorithm to generate the optimal quantization table. However, the searching capability of CDE could be limited due to generation of single trial vector in an iteration which in turn reduces the convergence speed. This paper studies the performance of CDE by employing multiple trial vectors in a single iteration. An extensive performance analysis has been made between CDE and CDE with multiple trial vectors in terms of Optimization process, accuracy, convergence speed and reliability. The analysis report reveals that CDE with multiple trial vectors improves the convergence speed of CDE and the same is confirmed using a statistical hypothesis test (t-test.

The Transcriptional Repressor, MtrR, of the mtrCDE Efflux Pump Operon of Neisseria gonorrhoeae Can Also Serve as an Activator of “off Target” Gene (glnE Expression

Directory of Open Access Journals (Sweden)

Paul J. T. Johnson

2015-06-01

Full Text Available MtrR is a well-characterized repressor of the Neisseria gonorrhoeae mtrCDE efflux pump operon. However, results from a previous transcriptional profiling study suggested that MtrR also represses or activates expression of at least sixty genes outside of the mtr locus. Evidence that MtrR can directly repress so-called “off target” genes has previously been reported; in particular, MtrR was shown to directly repress glnA, which encodes glutamine synthetase. In contrast, evidence for the ability of MtrR to directly activate expression of gonococcal genes has been lacking; herein, we provide such evidence. We now report that MtrR has the ability to directly activate expression of glnE, which encodes the dual functional adenyltransferase/deadenylase enzyme GlnE that modifies GlnA resulting in regulation of its role in glutamine biosynthesis. With its capacity to repress expression of glnA, the results presented herein emphasize the diverse and often opposing regulatory properties of MtrR that likely contributes to the overall physiology and metabolism of N. gonorrhoeae.

Integration of a browser based operator manual in the system environment of a process computer system; Integration eines browserbasierten Betriebshandbuchs in die Systemumgebung einer Prozessrechneranlage

Energy Technology Data Exchange (ETDEWEB)

Weber, Andreas [Westinghouse Electric Germany GmbH (Germany); Erfle, Robert [DOSCO GmbH, Heidelberg (Germany); Feinkohl, Dirk [E.ON Kernkraft GmbH (Germany). Kernkraftwerk Unterweser

2012-11-01

The integration of a browser based operator manual in the system environment of a process computer system is an optimization of the operating procedure in the control room and a safety enhancement due to faster and error-free access to the manual contents. Several requirements by the authorities have to be fulfilled: the operating manual has to be available as hard copy, the format has to be true to original, protection against manipulation has to be provided, the manual content of the browser-based version and the hard copy have to identical, and the display presentation has to be consistent with ergonomic principals. The integration of the on-line manual in the surveillance process computer system provides the operator with the relevant comments to the surveillance signal. The described integration of the on-line manual is an optimization of the operator's everyday job with respect to ergonomics and safety (human performance).

Building a Better Book in the Browser (Using Semantic Web technologies and HTML5

Directory of Open Access Journals (Sweden)

Jason A. Clark

2015-07-01

Full Text Available The library as place and service continues to be shaped by the legacy of the book. The book itself has evolved in recent years, with various technologies vying to become the next dominant book form. In this article, we discuss the design and development of our prototype software from Montana State University (MSU Library for presenting books inside of web browsers. The article outlines the contextual background and technological potential for publishing traditional book content through the web using open standards. Our prototype demonstrates the application of HTML5, structured data with RDFa and Schema.org markup, linked data components using JSON-LD, and an API-driven data model. We examine how this open web model impacts discovery, reading analytics, eBook production, and machine-readability for libraries considering how to unite software development and publishing.

Development of a user-friendly system for image processing of electron microscopy by integrating a web browser and PIONE with Eos.

Science.gov (United States)

Tsukamoto, Takafumi; Yasunaga, Takuo

2014-11-01

Eos (Extensible object-oriented system) is one of the powerful applications for image processing of electron micrographs. In usual cases, Eos works with only character user interfaces (CUI) under the operating systems (OS) such as OS-X or Linux, not user-friendly. Thus, users of Eos need to be expert at image processing of electron micrographs, and have a little knowledge of computer science, as well. However, all the persons who require Eos does not an expert for CUI. Thus we extended Eos to a web system independent of OS with graphical user interfaces (GUI) by integrating web browser.Advantage to use web browser is not only to extend Eos with GUI, but also extend Eos to work under distributed computational environment. Using Ajax (Asynchronous JavaScript and XML) technology, we implemented more comfortable user-interface on web browser. Eos has more than 400 commands related to image processing for electron microscopy, and the usage of each command is different from each other. Since the beginning of development, Eos has managed their user-interface by using the interface definition file of "OptionControlFile" written in CSV (Comma-Separated Value) format, i.e., Each command has "OptionControlFile", which notes information for interface and its usage generation. Developed GUI system called "Zephyr" (Zone for Easy Processing of HYpermedia Resources) also accessed "OptionControlFIle" and produced a web user-interface automatically, because its mechanism is mature and convenient,The basic actions of client side system was implemented properly and can supply auto-generation of web-form, which has functions of execution, image preview, file-uploading to a web server. Thus the system can execute Eos commands with unique options for each commands, and process image analysis. There remain problems of image file format for visualization and workspace for analysis: The image file format information is useful to check whether the input/output file is correct and we also

A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila

Directory of Open Access Journals (Sweden)

Parrish Jodi R

2006-04-01

Full Text Available Abstract Background Biological processes are mediated by networks of interacting genes and proteins. Efforts to map and understand these networks are resulting in the proliferation of interaction data derived from both experimental and computational techniques for a number of organisms. The volume of this data combined with the variety of specific forms it can take has created a need for comprehensive databases that include all of the available data sets, and for exploration tools to facilitate data integration and analysis. One powerful paradigm for the navigation and analysis of interaction data is an interaction graph or map that represents proteins or genes as nodes linked by interactions. Several programs have been developed for graphical representation and analysis of interaction data, yet there remains a need for alternative programs that can provide casual users with rapid easy access to many existing and emerging data sets. Description Here we describe a comprehensive database of Drosophila gene and protein interactions collected from a variety of sources, including low and high throughput screens, genetic interactions, and computational predictions. We also present a program for exploring multiple interaction data sets and for combining data from different sources. The program, referred to as the Interaction Map (IM Browser, is a web-based application for searching and visualizing interaction data stored in a relational database system. Use of the application requires no downloads and minimal user configuration or training, thereby enabling rapid initial access to interaction data. IM Browser was designed to readily accommodate and integrate new types of interaction data as it becomes available. Moreover, all information associated with interaction measurements or predictions and the genes or proteins involved are accessible to the user. This allows combined searches and analyses based on either common or technique-specific attributes

Dual roles of an algal farming damselfish as a cultivator and opportunistic browser of an invasive seaweed.

Directory of Open Access Journals (Sweden)

Kimberly A Peyton

Full Text Available Herbivory is a fundamental process determining reef resilience, and while algal farming damselfishes can help shape benthic assemblages, an understanding of their contribution to areas outside of defended territories is relatively unexplored. Here, we demonstrate how the farming damselfish Stegastes marginatus plays a dual role in benthic structuring by 1 contributing to persistence of the invasive macroalga Acanthophora spicifera within a Hawaiian marine protected area, where the macroalga occurred exclusively inside Stegastes territories, and 2 behaving as an opportunistic browser of the exotic alga outside their territorial borders. Greater than 50% of the biomass of tethered A. spicifera was consumed within one-hour when placed outside Stegastes territories, compared to <5% lost from tethers within territories or herbivore exclusion cages. In situ remote video revealed that tethered A. spicifera located outside territories was grazed primarily by the surgeonfish Acanthurus nigrofuscus (∼68% of total bites and, surprisingly, by S. marginatus (∼27% of total bites that left their territories to feed on this resource on 107 occasions during 400 min of filming. Further, for over half of those occurrences where S. marginatus grazed on the tethered macroalga outside of territories, they fed alongside conspecifics and other species, displaying little of the aggressiveness that characterizes this damselfish. These results show that S. marginatus plays a wider role in determining benthic assemblages than previously recognized, acting both as cultivators of a canopy-forming invasive macroalga within their territories, and as opportunistic browsers in neighboring sites. Consequently, S. marginatus can affect benthic species composition across their territory borders. These results provide a rare example of interspecific facilitation of an exotic alga by an indigenous marine fish. Accounting for fish behaviors more broadly is important to further our

A modified choline-deficient, ethionine-supplemented diet reduces morbidity and retains a liver progenitor cell response in mice

Directory of Open Access Journals (Sweden)

Adam M. Passman

2015-12-01

Full Text Available The choline-deficient, ethionine-supplemented (CDE dietary model induces chronic liver damage, and stimulates liver progenitor cell (LPC-mediated repair. Long-term CDE administration leads to hepatocellular carcinoma in rodents and lineage-tracing studies show that LPCs differentiate into functional hepatocytes in this model. The CDE diet was first modified for mice by our laboratory by separately administering choline-deficient chow and ethionine in the drinking water (CD+E diet. Although this CD+E diet is widely used, concerns with variability in weight loss, morbidity, mortality and LPC response have been raised by researchers who have adopted this model. We propose that these inconsistencies are due to differential consumption of chow and ethionine in the drinking water, and that incorporating ethionine in the choline-deficient chow, and altering the strength, will achieve better outcomes. Therefore, C57Bl/6 mice, 5 and 6 weeks of age, were fed an all-inclusive CDE diet of various strengths (67% to 100% for 3 weeks. The LPC response was quantitated and cell lines were derived. We found that animal survival, LPC response and liver damage are correlated with CDE diet strength. The 67% and 75% CDE diet administered to mice older than 5 weeks and greater than 18 g provides a consistent and acceptable level of animal welfare and induces a substantial LPC response, permitting their isolation and establishment of cell lines. This study shows that an all-inclusive CDE diet for mice reproducibly induces an LPC response conducive to in vivo studies and isolation, whilst minimizing morbidity and mortality.

Beyond Continuous Delivery: An Empirical Investigation of Continuous Deployment Challenges

DEFF Research Database (Denmark)

Shahin, Mojtaba; Ali Babar, Muhammad; Zahedi, Mansooreh

2017-01-01

Context: A growing number of software organizations have been adopting Continuous DElivery (CDE) and Continuous Deployment (CD) practices. Researchers have started investing significant efforts in studying different aspects of CDE and CD. Many studies refer to CDE (i.e., where an application is p...

Oxydative stress in rats caused by coal dust plus cigarette smoke

Directory of Open Access Journals (Sweden)

Nia Kania

2016-02-01

Full Text Available Coal dust and cigarette smoke are pollutants found in coal mines that are capable of inducing oxidative stress, the effects of which on blood malondialdehyde (MDA level and serum superoxide dismutase (SOD level are still unknown. The purpose of the present study was to evaluate the effect of coal dust and cigarette smoke on levels of MDA and SOD in rats. An experimental study was done on Wistar male rats divided into the following groups: control (C, coal dust exposure (14 days (CDE, cigarette smoke exposure (14 days (CSE, coal dust exposure (7 days followed by cigarette smoke exposure (7 days (CDE+CSE, cigarette smoke exposure (7 days followed by coal dust exposure (7 days (CSE+CDE. All exposures increased MDA levels and decreased SOD activity significantly between groups (p=0.000. All exposure groups had significantly increased blood MDA levels, compared to the control group, although there was no difference between CSE + CDE and CDE + CSE. For SOD levels, all exposure groups had significantly decreased the SOD levels compared to control. But there were no significant differences between CSE vs CDE and CDE + CSE vs CSE + CDE. We conclude that exposure to cigarette smoke significantly increases blood MDA level and decreases serum SOD activity, which was not found in exposure to coal dust. Combined exposures also increase blood MDA level and decrease serum SOD activity significantly.

Oxydative stress in rats caused by coal dust plus cigarette smoke

Directory of Open Access Journals (Sweden)

Nia Kania

2011-08-01

Full Text Available Coal dust and cigarette smoke are pollutants found in coal mines that are capable of inducing oxidative stress, the effects of which on blood malondialdehyde (MDA level and serum superoxide dismutase (SOD level are still unknown. The purpose of the present study was to evaluate the effect of coal dust and cigarette smoke on levels of MDA and SOD in rats. An experimental study was done on Wistar male rats divided into the following groups: control (C, coal dust exposure (14 days (CDE, cigarette smoke exposure (14 days (CSE, coal dust exposure (7 days followed by cigarette smoke exposure (7 days (CDE+CSE, cigarette smoke exposure (7 days followed by coal dust exposure (7 days (CSE+CDE. All exposures increased MDA levels and decreased SOD activity significantly between groups (p=0.000. All exposure groups had significantly increased blood MDA levels, compared to the control group, although there was no difference between CSE + CDE and CDE + CSE. For SOD levels, all exposure groups had significantly decreased the SOD levels compared to control. But there were no significant differences between CSE vs CDE and CDE + CSE vs CSE + CDE. We conclude that exposure to cigarette smoke significantly increases blood MDA level and decreases serum SOD activity, which was not found in exposure to coal dust. Combined exposures also increase blood MDA level and decrease serum SOD activity significantly.

Adapting an existing visualization application for browser-based deployment: A case study from the Tropical Rainfall Measuring Mission

Science.gov (United States)

Kelley, Owen A.

2013-02-01

THOR, the Tool for High-resolution Observation Review, is a data viewer for the Tropical Rainfall Measuring Mission (TRMM) and the upcoming Global Precipitation Measurement (GPM) mission. THOR began as a desktop application, but now it can be accessed with a web browser, making THOR one of the first online tools for visualizing TRMM satellite data (http://pps.gsfc.nasa.gov/thor). In this effort, the reuse of the existing visualization code was maximized and the complexity of new code was minimized by avoiding unnecessary functionality, frameworks, or libraries. The simplicity of this approach makes it potentially attractive to researchers wishing to adapt their visualization applications for online deployment. To enable THOR to run within a web browser, three new pieces of code are written. First, the graphical user interface (GUI) of the desktop application is translated into HTML, JavaScript, and CSS. Second, a simple communication mechanism is developed over HTTP. Third, a virtual GUI is created on the server that interfaces with the image-generating routines of the existing desktop application so that these routines do not need to be modified for online use. While the basic functionality of THOR is now available online, prototyping is ongoing for enhanced 3D imaging and other aspects of both THOR Desktop and THOR Online. Because TRMM data products are complex and periodically reprocessed with improved algorithms, having a tool such as THOR is important to analysts at the Precipitation Processing System where the algorithms are tested and the products generated, stored, and distributed. Researchers also have found THOR useful for taking a first look at individual files before writing their own software to perform specialized calculations and analyses.

COBE: A Conjunctive Ontology Browser and Explorer for Visualizing SNOMED CT Fragments.

Science.gov (United States)

Sun, Mengmeng; Zhu, Wei; Tao, Shiqiang; Cui, Licong; Zhang, Guo-Qiang

2015-01-01

Ontology search interfaces can benefit from the latest information retrieval advances. This paper introduces a Conjunctive Ontology Browser and Explorer (COBE) for searching and exploring SNOMED CT concepts and visualizing SNOMED CT fragments. COBE combines navigational exploration (NE) with direct lookup (DL) as two complementary modes for finding specific SNOMED CT concepts. The NE mode allows a user to interactively and incrementally narrow down (hence conjunctive) the search space by adding word stems, one at a time. Such word stems serve as attribute constraints, or "attributes" in Formal Concept Analysis, which allows the user to navigate to specific SNOMED CT concept clusters. The DL mode represents the common search mechanism by using a collection of key words, as well as concept identifiers. With respect to the DL mode, evaluation against manually created reference standard showed that COBE attains an example-based precision of 0.958, recall of 0.917, and F1 measure of 0.875. With respect to the NE mode, COBE leverages 28,371 concepts in non-lattice fragments to construct the stem cloud. With merely 9.37% of the total SNOMED CT stem cloud, our navigational exploration mode covers 98.97% of the entire concept collection.

CBrowse: a SAM/BAM-based contig browser for transcriptome assembly visualization and analysis.

Science.gov (United States)

Li, Pei; Ji, Guoli; Dong, Min; Schmidt, Emily; Lenox, Douglas; Chen, Liangliang; Liu, Qi; Liu, Lin; Zhang, Jie; Liang, Chun

2012-09-15

To address the impending need for exploring rapidly increased transcriptomics data generated for non-model organisms, we developed CBrowse, an AJAX-based web browser for visualizing and analyzing transcriptome assemblies and contigs. Designed in a standard three-tier architecture with a data pre-processing pipeline, CBrowse is essentially a Rich Internet Application that offers many seamlessly integrated web interfaces and allows users to navigate, sort, filter, search and visualize data smoothly. The pre-processing pipeline takes the contig sequence file in FASTA format and its relevant SAM/BAM file as the input; detects putative polymorphisms, simple sequence repeats and sequencing errors in contigs and generates image, JSON and database-compatible CSV text files that are directly utilized by different web interfaces. CBowse is a generic visualization and analysis tool that facilitates close examination of assembly quality, genetic polymorphisms, sequence repeats and/or sequencing errors in transcriptome sequencing projects. CBrowse is distributed under the GNU General Public License, available at http://bioinfolab.muohio.edu/CBrowse/ liangc@muohio.edu or liangc.mu@gmail.com; glji@xmu.edu.cn Supplementary data are available at Bioinformatics online.

Laser Doppler imaging as a tool in the burn wound treatment protocol

OpenAIRE

Venclauskiene, Algirda; Basevicius, Algidas; Zacharevskij, Ernest; Vaicekauskas, Vytautas; Rimdeika, Rytis; Lukosevicius, Saulius

2014-01-01

Introduction The main treatment of burns is early excision of injured tissues. Aim To compare two different methods of examination of burned patients: clinical burn depth examination (CDE) and laser Doppler imaging (LDI). Material and methods A prospective randomized study of 57 burn patients treated in 2009–2011 was carried out. The burned patients were randomized into a CDE group and an LDI group. The CDE and LDI scan were performed 72 h after injury, with the second and third CDE and LDI s...

A modified choline-deficient, ethionine-supplemented diet reduces morbidity and retains a liver progenitor cell response in mice.

Science.gov (United States)

Passman, Adam M; Strauss, Robyn P; McSpadden, Sarah B; Finch-Edmondson, Megan L; Woo, Ken H; Diepeveen, Luke A; London, Roslyn; Callus, Bernard A; Yeoh, George C

2015-12-01

The choline-deficient, ethionine-supplemented (CDE) dietary model induces chronic liver damage, and stimulates liver progenitor cell (LPC)-mediated repair. Long-term CDE administration leads to hepatocellular carcinoma in rodents and lineage-tracing studies show that LPCs differentiate into functional hepatocytes in this model. The CDE diet was first modified for mice by our laboratory by separately administering choline-deficient chow and ethionine in the drinking water (CD+E diet). Although this CD+E diet is widely used, concerns with variability in weight loss, morbidity, mortality and LPC response have been raised by researchers who have adopted this model. We propose that these inconsistencies are due to differential consumption of chow and ethionine in the drinking water, and that incorporating ethionine in the choline-deficient chow, and altering the strength, will achieve better outcomes. Therefore, C57Bl/6 mice, 5 and 6 weeks of age, were fed an all-inclusive CDE diet of various strengths (67% to 100%) for 3 weeks. The LPC response was quantitated and cell lines were derived. We found that animal survival, LPC response and liver damage are correlated with CDE diet strength. The 67% and 75% CDE diet administered to mice older than 5 weeks and greater than 18 g provides a consistent and acceptable level of animal welfare and induces a substantial LPC response, permitting their isolation and establishment of cell lines. This study shows that an all-inclusive CDE diet for mice reproducibly induces an LPC response conducive to in vivo studies and isolation, whilst minimizing morbidity and mortality. © 2015. Published by The Company of Biologists Ltd.

OpenMeetings as a browser-based teleconferencing tool for EFDA laboratories

Energy Technology Data Exchange (ETDEWEB)

Santos, B., E-mail: bsantos@ipfn.ist.utl.pt [Associacao EURATOM/IST, Instituto de Plasmas e Fusao Nuclear - Laboratorio Associado, Instituto Superior Tecnico, P-1049-001 Lisboa (Portugal); Castro, R. [Asociacion EURATOM/CIEMAT Para Fusion, 28040 Madrid (Spain); Santos, J.H.; Gomes, D.; Fernandes, H.; Sousa, J.; Varandas, C.A.F. [Associacao EURATOM/IST, Instituto de Plasmas e Fusao Nuclear - Laboratorio Associado, Instituto Superior Tecnico, P-1049-001 Lisboa (Portugal)

2011-10-15

Remote participation is a key success factor for worldwide organizations and video-conference is an important aspect when laboratory collaborators are geographically dispersed. Several tools for video-conference are available worldwide. However, there is a need for a default integrated set of tools which provide all the needed features for remote participation between cooperating laboratories. Moreover, laboratories currently use different video-conference tools to communicate leading to a non-compatible method among them. OpenMeetings is open source software which provides video-conferences through web-browsing. It is operating system independent, requires no computer installation providing easy integration with already existing tools and customization of requirements. This paper intends to give an OpenMeetings overview as a video-conference application between worldwide laboratories and to demonstrate its integration with the European Fusion Development Agreement (EFDA) Federation authentication and authorization features. EFDA Federation is a multi-organization security infrastructure, whose purpose is to provide sharing and provision of a wide set of resources so that authenticated users may access them in a transparent and secure mode. This infrastructure is based on a distributed security technology called PAPI (Point of Access to Providers of Information). OpenMeetings can be a valuable EFDA Federation resource and a good approach as a method to provide a worldwide laboratory video-conferencing application, based on standard browsers.

OpenMeetings as a browser-based teleconferencing tool for EFDA laboratories

International Nuclear Information System (INIS)

Santos, B.; Castro, R.; Santos, J.H.; Gomes, D.; Fernandes, H.; Sousa, J.; Varandas, C.A.F.

2011-01-01

Remote participation is a key success factor for worldwide organizations and video-conference is an important aspect when laboratory collaborators are geographically dispersed. Several tools for video-conference are available worldwide. However, there is a need for a default integrated set of tools which provide all the needed features for remote participation between cooperating laboratories. Moreover, laboratories currently use different video-conference tools to communicate leading to a non-compatible method among them. OpenMeetings is open source software which provides video-conferences through web-browsing. It is operating system independent, requires no computer installation providing easy integration with already existing tools and customization of requirements. This paper intends to give an OpenMeetings overview as a video-conference application between worldwide laboratories and to demonstrate its integration with the European Fusion Development Agreement (EFDA) Federation authentication and authorization features. EFDA Federation is a multi-organization security infrastructure, whose purpose is to provide sharing and provision of a wide set of resources so that authenticated users may access them in a transparent and secure mode. This infrastructure is based on a distributed security technology called PAPI (Point of Access to Providers of Information). OpenMeetings can be a valuable EFDA Federation resource and a good approach as a method to provide a worldwide laboratory video-conferencing application, based on standard browsers.

A novel method of fuzzy fault tree analysis combined with VB program to identify and assess the risk of coal dust explosions.

Directory of Open Access Journals (Sweden)

Hetang Wang

Full Text Available Coal dust explosions (CDE are one of the main threats to the occupational safety of coal miners. Aiming to identify and assess the risk of CDE, this paper proposes a novel method of fuzzy fault tree analysis combined with the Visual Basic (VB program. In this methodology, various potential causes of the CDE are identified and a CDE fault tree is constructed. To overcome drawbacks from the lack of exact probability data for the basic events, fuzzy set theory is employed and the probability data of each basic event is treated as intuitionistic trapezoidal fuzzy numbers. In addition, a new approach for calculating the weighting of each expert is also introduced in this paper to reduce the error during the expert elicitation process. Specifically, an in-depth quantitative analysis of the fuzzy fault tree, such as the importance measure of the basic events and the cut sets, and the CDE occurrence probability is given to assess the explosion risk and acquire more details of the CDE. The VB program is applied to simplify the analysis process. A case study and analysis is provided to illustrate the effectiveness of this proposed method, and some suggestions are given to take preventive measures in advance and avoid CDE accidents.

gb4gv: a genome browser for geminivirus

Directory of Open Access Journals (Sweden)

Eric S. Ho

2017-04-01

Full Text Available Background Geminiviruses (family Geminiviridae are prevalent plant viruses that imperil agriculture globally, causing serious damage to the livelihood of farmers, particularly in developing countries. The virus evolves rapidly, attributing to its single-stranded genome propensity, resulting in worldwide circulation of diverse and viable genomes. Genomics is a prominent approach taken by researchers in elucidating the infectious mechanism of the virus. Currently, the NCBI Viral Genome website is a popular repository of viral genomes that conveniently provides researchers a centralized data source of genomic information. However, unlike the genome of living organisms, viral genomes most often maintain peculiar characteristics that fit into no single genome architecture. By imposing a unified annotation scheme on the myriad of viral genomes may downplay their hallmark features. For example, the viron of begomoviruses prevailing in America encapsulates two similar-sized circular DNA components and both are required for systemic infection of plants. However, the bipartite components are kept separately in NCBI as individual genomes with no explicit association in linking them. Thus, our goal is to build a comprehensive Geminivirus genomics database, namely gb4gv, that not only preserves genomic characteristics of the virus, but also supplements biologically relevant annotations that help to interrogate this virus, for example, the targeted host, putative iterons, siRNA targets, etc. Methods We have employed manual and automatic methods to curate 508 genomes from four major genera of Geminiviridae, and 161 associated satellites obtained from NCBI RefSeq and PubMed databases. Results These data are available for free access without registration from our website. Besides genomic content, our website provides visualization capability inherited from UCSC Genome Browser. Discussion With the genomic information readily accessible, we hope that our database

Protection of ionizing radiation-induced cytogenetic damage by hydroalcoholic extract of Cynodon dactylon in Chinese hamster lung fibroblast cells and human peripheral blood lymphocytes.

Science.gov (United States)

Rao, Bola Sadashiva Satish; Upadhya, Dinesh; Adiga, Satish Kumar

2008-01-01

The radiomodulatory potential of hydroalcoholic extract of a medicinal plant Cynodon dactylon (family: Poaceae) against radiation-induced cytogenetic damage was analyzed using Chinese hamster lung fibroblast (V79) cells and human peripheral blood lymphocytes (HPBLs) growing in vitro. Induction of micronuclei was used as an index of cytogenetic damage, evaluated in cytokinesis blocked binucleate cells. The hydroalcoholic Cynodon dactylon extract (CDE) rendered protection against the radiation-induced DNA damage, as evidenced by the significant (p<0.001) reduction in micronucleated binucleate cells (MNBNC%) after various doses of CDE treatment in V79 cells and HPBLs. The optimum dose of CDE (40 and 50 microg/ml in HPBLs and V79 cells, respectively) with the greatest reduction in micronuclei was further used in combination with various doses of gamma radiation (0.5, 1, 2, 3, and 4 Gy) exposed 1 h after CDE treatment. A linear dose-dependent MNBNC% increase in radiation alone group was observed, while 40/50 microg/ml CDE significantly resulted in the reduction of MNBNC%, compared to the respective radiation alone groups. CDE resulted in a dose-dependent increase in free radical scavenging ability against various free radicals, viz., 2, 2-diphenyl-2-picryl-hydrazyl (DPPH); 2, 2-azinobis (3-ethylbenzothiazoline-6-sulfonic acid) (ABTS); superoxide anion (O2*-); hydroxyl radical (OH*) and nitric oxide radical (NO*) generated in vitro. Also, an excellent (70%) inhibition of lipid peroxidation in vitro was observed at a dose of 300 microg/ml CDE, attaining the saturation point at higher doses. The present findings demonstrated the radioprotective effect of CDE, also rendering protection against radiation-induced genomic instability and DNA damage. The observed radioprotective effect may be partly attributed to the free radical scavenging and antilipid peroxidative potential of CDE.

openBEB: open biological experiment browser for correlative measurements.

Science.gov (United States)

Ramakrishnan, Chandrasekhar; Bieri, Andrej; Sauter, Nora; Roizard, Sophie; Ringler, Philippe; Müller, Shirley A; Goldie, Kenneth N; Enimanev, Kaloyan; Stahlberg, Henning; Rinn, Bernd; Braun, Thomas

2014-03-26

New experimental methods must be developed to study interaction networks in systems biology. To reduce biological noise, individual subjects, such as single cells, should be analyzed using high throughput approaches. The measurement of several correlative physical properties would further improve data consistency. Accordingly, a considerable quantity of data must be acquired, correlated, catalogued and stored in a database for subsequent analysis. We have developed openBEB (open Biological Experiment Browser), a software framework for data acquisition, coordination, annotation and synchronization with database solutions such as openBIS. OpenBEB consists of two main parts: A core program and a plug-in manager. Whereas the data-type independent core of openBEB maintains a local container of raw-data and metadata and provides annotation and data management tools, all data-specific tasks are performed by plug-ins. The open architecture of openBEB enables the fast integration of plug-ins, e.g., for data acquisition or visualization. A macro-interpreter allows the automation and coordination of the different modules. An update and deployment mechanism keeps the core program, the plug-ins and the metadata definition files in sync with a central repository. The versatility, the simple deployment and update mechanism, and the scalability in terms of module integration offered by openBEB make this software interesting for a large scientific community. OpenBEB targets three types of researcher, ideally working closely together: (i) Engineers and scientists developing new methods and instruments, e.g., for systems-biology, (ii) scientists performing biological experiments, (iii) theoreticians and mathematicians analyzing data. The design of openBEB enables the rapid development of plug-ins, which will inherently benefit from the "house keeping" abilities of the core program. We report the use of openBEB to combine live cell microscopy, microfluidic control and visual

Multiple Browsers Structure Tree Recruitment in Logged Temperate Forests.

Directory of Open Access Journals (Sweden)

Edward K Faison

Full Text Available Historical extirpations have resulted in depauperate large herbivore assemblages in many northern forests. In eastern North America, most forests are inhabited by a single wild ungulate species, white-tailed deer (Odocoileus virginianus, and relationships between deer densities and impacts on forest regeneration are correspondingly well documented. Recent recolonizations by moose (Alces americanus in northeastern regions complicate established deer density thresholds and predictions of browsing impacts on forest dynamics because size and foraging differences between the two animals suggest a lack of functional redundancy. We asked to what extent low densities of deer + moose would structure forest communities differently from that of low densities of deer in recently logged patch cuts of Massachusetts, USA. In each site, a randomized block with three treatment levels of large herbivores-no-ungulates (full exclosure, deer (partial exclosure, and deer + moose (control was established. After 6-7 years, deer + moose reduced stem densities and basal area by 2-3-fold, Prunus pensylvanica and Quercus spp. recruitment by 3-6 fold, and species richness by 1.7 species (19%. In contrast, in the partial exclosures, deer had non-significant effects on stem density, basal area, and species composition, but significantly reduced species richness by 2.5 species on average (28%. Deer browsing in the partial exclosure was more selective than deer + moose browsing together, perhaps contributing to the decline in species richness in the former treatment and the lack of additional decline in the latter. Moose used the control plots at roughly the same frequency as deer (as determined by remote camera traps, suggesting that the much larger moose was the dominant browser species in terms of animal biomass in these cuts. A lack of functional redundancy with respect to foraging behavior between sympatric large herbivores may explain combined browsing effects that were

Multiple browsers structure tree recruitment in logged temperate forests

Science.gov (United States)

Faison, Edward K.; DeStefano, Stephen; Foster, David R.; Rapp, Joshua M.; Compton, Justin A.

2016-01-01

Historical extirpations have resulted in depauperate large herbivore assemblages in many northern forests. In eastern North America, most forests are inhabited by a single wild ungulate species, white-tailed deer (Odocoileus virginianus), and relationships between deer densities and impacts on forest regeneration are correspondingly well documented. Recent recolonizations by moose (Alces americanus) in northeastern regions complicate established deer density thresholds and predictions of browsing impacts on forest dynamics because size and foraging differences between the two animals suggest a lack of functional redundancy. We asked to what extent low densities of deer + moose would structure forest communities differently from that of low densities of deer in recently logged patch cuts of Massachusetts, USA. In each site, a randomized block with three treatment levels of large herbivores–no-ungulates (full exclosure), deer (partial exclosure), and deer + moose (control) was established. After 6–7 years, deer + moose reduced stem densities and basal area by 2-3-fold, Prunus pensylvanica and Quercus spp. recruitment by 3–6 fold, and species richness by 1.7 species (19%). In contrast, in the partial exclosures, deer had non-significant effects on stem density, basal area, and species composition, but significantly reduced species richness by 2.5 species on average (28%). Deer browsing in the partial exclosure was more selective than deer + moose browsing together, perhaps contributing to the decline in species richness in the former treatment and the lack of additional decline in the latter. Moose used the control plots at roughly the same frequency as deer (as determined by remote camera traps), suggesting that the much larger moose was the dominant browser species in terms of animal biomass in these cuts. A lack of functional redundancy with respect to foraging behavior between sympatric large herbivores may explain combined browsing effects that were

STUDYING STUDENT BEHAVIOR AND CHEMISTRY SKILL USING BROWSER-BASED TOOLS AND EYE-TRACKING HARDWARE

Directory of Open Access Journals (Sweden)

Norbert J. Pienta

Full Text Available Browser-based tools were created to collect quantitative data about university student problem-solving skills. Three of these tools have been described: a word question tool that creates ideal gas law and stoichiometry questions using a set of complexity factors; a Lewis structure drawing tool that enables the user to draw a solution to an ion or molecule assigned to them; and a "spheres" tool that uses spheres to represent atoms and molecules to denote the particulate nature of matter. Results from these studies show that relatively simple questions can be made very complex by the addition of many complexity factors that challenge the cognitive skills. The drawing tools can be used for instruction or to collect data about student understanding; the outcomes suggest that students with more instruction in chemistry are more successful but even the performance of students after four semesters is somewhat disappointing. Eye-tracking hardware enabled the study of the student use of the visual interface of the other tools and to study molecular representation or interpret spectral data.

Differences in energy expenditure for conventional and femtosecond-assisted cataract surgery using 2 different phacoemulsification systems.

Science.gov (United States)

Yesilirmak, Nilufer; Diakonis, Vasilios F; Sise, Adam; Waren, Daniel P; Yoo, Sonia H; Donaldson, Kendall E

2017-01-01

To compare the mean cumulative dissipated energy (CDE) in patients having femtosecond laser-assisted or conventional phacoemulsification cataract surgery using 2 different phacoemulsification platforms. Bascom Palmer Eye Institute, Miami, Florida, USA. Prospective comparative nonrandomized clinical study. Consecutive patients were scheduled to have femtosecond laser-assisted cataract surgery with the Lensx laser or conventional phacoemulsification using an active-fluidics torsional platform (Centurion) or torsional platform (Infiniti). The mean CDE and cataract grade were recorded. The study comprised 570 eyes (570 patients). There was no statistically significant difference in mean age (P = .41, femtosecond group; P = .33, conventional group) or cataract grade (P = .78 and P = .45, respectively) between the active-fluidics and gravity-fluidics platforms. In femtosecond cases (145 eyes), the mean CDE (percent-seconds) was 5.18 ± 4.58 (SD) with active fluidics and 7.00 ± 6.85 with gravity fluidics; in conventional cases (425 eyes), the mean CDE was 7.77 ± 6.97 and 11.43 ± 9.12, respectively. In both femtosecond cases and conventional cases, the CDE was lower with the active-fluidics platform than with the gravity-fluidics platform (P = .029, femtosecond group; P < .001 conventional group). With both fluidics platforms, the mean CDE was significantly lower in the femtosecond group than in the conventional group (both P < .001). The active-fluidics phacoemulsification platform achieved lower CDE values than the gravity-fluidics platform for conventional cataract extraction. Femtosecond laser pretreatment with the active-fluidics platform further reduced CDE. Copyright © 2017 ASCRS and ESCRS. Published by Elsevier Inc. All rights reserved.

A Browser-Server-Based Tele-audiology System That Supports Multiple Hearing Test Modalities.

Science.gov (United States)

Yao, Jianchu Jason; Yao, Daoyuan; Givens, Gregg

2015-09-01

Millions of global citizens suffering from hearing disorders have limited or no access to much needed hearing healthcare. Although tele-audiology presents a solution to alleviate this problem, existing remote hearing diagnosis systems support only pure-tone tests, leaving speech and other test procedures unsolved, due to the lack of software and hardware to enable communication required between audiologists and their remote patients. This article presents a comprehensive remote hearing test system that integrates the two most needed hearing test procedures: a pure-tone audiogram and a speech test. This enhanced system is composed of a Web application server, an embedded smart Internet-Bluetooth(®) (Bluetooth SIG, Kirkland, WA) gateway (or console device), and a Bluetooth-enabled audiometer. Several graphical user interfaces and a relational database are hosted on the application server. The console device has been designed to support the tests and auxiliary communication between the local site and the remote site. The study was conducted at an audiology laboratory. Pure-tone audiogram and speech test results from volunteers tested with this tele-audiology system are comparable with results from the traditional face-to-face approach. This browser-server-based comprehensive tele-audiology offers a flexible platform to expand hearing services to traditionally underserved groups.

Reproducible Bioconductor workflows using browser-based interactive notebooks and containers.

Science.gov (United States)

Almugbel, Reem; Hung, Ling-Hong; Hu, Jiaming; Almutairy, Abeer; Ortogero, Nicole; Tamta, Yashaswi; Yeung, Ka Yee

2018-01-01

Bioinformatics publications typically include complex software workflows that are difficult to describe in a manuscript. We describe and demonstrate the use of interactive software notebooks to document and distribute bioinformatics research. We provide a user-friendly tool, BiocImageBuilder, that allows users to easily distribute their bioinformatics protocols through interactive notebooks uploaded to either a GitHub repository or a private server. We present four different interactive Jupyter notebooks using R and Bioconductor workflows to infer differential gene expression, analyze cross-platform datasets, process RNA-seq data and KinomeScan data. These interactive notebooks are available on GitHub. The analytical results can be viewed in a browser. Most importantly, the software contents can be executed and modified. This is accomplished using Binder, which runs the notebook inside software containers, thus avoiding the need to install any software and ensuring reproducibility. All the notebooks were produced using custom files generated by BiocImageBuilder. BiocImageBuilder facilitates the publication of workflows with a point-and-click user interface. We demonstrate that interactive notebooks can be used to disseminate a wide range of bioinformatics analyses. The use of software containers to mirror the original software environment ensures reproducibility of results. Parameters and code can be dynamically modified, allowing for robust verification of published results and encouraging rapid adoption of new methods. Given the increasing complexity of bioinformatics workflows, we anticipate that these interactive software notebooks will become as necessary for documenting software methods as traditional laboratory notebooks have been for documenting bench protocols, and as ubiquitous. © The Author 2017. Published by Oxford University Press on behalf of the American Medical Informatics Association. All rights reserved. For Permissions, please email: journals.permissions@oup.com

A Qualitative Assessment of the Practice Experiences of Certified Diabetes Educator Pharmacists.

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Alzahrani, Fahad; Taylor, Jeff; Perepelkin, Jason; Mansell, Kerry

2015-08-01

To describe the practice experiences of Certified Diabetes Educator (CDE) pharmacists in Saskatchewan and determine what impact the CDE designation has had on their personal practices. A qualitative research approach was used. All pharmacists in Saskatchewan were e-mailed about the study, and eventually, a purposive sampling method was used to select a range of CDE pharmacists. Semistructured, in-person interviews were performed. An interview guide was developed to assess the work activities performed, the benefits of becoming a CDE and the challenges and resultant solutions that optimize their CDE designations. All interviews were transcribed verbatim and coded using deductive thematic analysis to identify the main themes that described the experiences of respondents, with the aid of QSR NVivo. A total of 14 CDE pharmacists from various communities and work settings chose to participate. All of the participants indicated they were engaging in increased diabetes-related activities since becoming CDEs. All participants indicated they were happy with their decisions to become CDEs and described numerous benefits as a direct result of achieving this designation. Although some solutions were offered, participants still face challenges in optimizing their role as CDEs, such as devoting enough time to diabetes management and remuneration for providing diabetes services. CDE pharmacists in Saskatchewan report performing enhanced diabetes-related activities subsequent to becoming CDEs and that obtaining this designation has had a positive impact on their personal practices. A larger, cross-country study is necessary to determine whether these results are consistent amongst all pharmacists in Canada. Copyright © 2015 Canadian Diabetes Association. Published by Elsevier Inc. All rights reserved.

The Rh allele frequencies in Gaza city in Palestine

Directory of Open Access Journals (Sweden)

Skaik Younis

2011-01-01

Full Text Available Background: The Rh blood group system is the second most clinically significant blood group system. It includes 49 antigens, but only five (D, C, E, c and e are the most routinely identified due to their unique relation to hemolytic disease of the newborn (HDN and transfusion reactions. Frequency of the Rh alleles showed variation, with regard to race and ethnic. Objectives: The purpose of the study was to document the Rh alleles′ frequencies amongst males (M and females (F in Gaza city in Palestine. Materials and Methods: Two hundred and thirty-two blood samples (110 M and 122 F were tested against monoclonal IgM anti-C,anti-c, anti-E, anti-e and a blend of monoclonal/polyclonal IgM/IgG anti-D. The expected Rh phenotypes were calculated using gene counting method. Results: The most frequent Rh antigen in the total sample was e, while the least frequent was E.The order of the combined Rh allele frequencies in both M and F was CDe > cDe > cde > CdE > cDE > Cde > CDE. A significant difference was reported between M and F regarding the phenotypic frequencies (P < 0.05. However, no significance (P > 0.05 was reported with reference to the observed and expected Rh phenotypic frequencies in either M or F students. Conclusion: It was concluded that the Rh antigens, alleles and phenotypes in Gaza city have unique frequencies, which may be of importance to the Blood Transfusion Center in Gaza city and anthropology.

Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser

LENUS (Irish Health Repository)

Fitzpatrick, David A

2010-05-10

Abstract Background Candida species are the most common cause of opportunistic fungal infection worldwide. Recent sequencing efforts have provided a wealth of Candida genomic data. We have developed the Candida Gene Order Browser (CGOB), an online tool that aids comparative syntenic analyses of Candida species. CGOB incorporates all available Candida clade genome sequences including two Candida albicans isolates (SC5314 and WO-1) and 8 closely related species (Candida dubliniensis, Candida tropicalis, Candida parapsilosis, Lodderomyces elongisporus, Debaryomyces hansenii, Pichia stipitis, Candida guilliermondii and Candida lusitaniae). Saccharomyces cerevisiae is also included as a reference genome. Results CGOB assignments of homology were manually curated based on sequence similarity and synteny. In total CGOB includes 65617 genes arranged into 13625 homology columns. We have also generated improved Candida gene sets by merging\\/removing partial genes in each genome. Interrogation of CGOB revealed that the majority of tandemly duplicated genes are under strong purifying selection in all Candida species. We identified clusters of adjacent genes involved in the same metabolic pathways (such as catabolism of biotin, galactose and N-acetyl glucosamine) and we showed that some clusters are species or lineage-specific. We also identified one example of intron gain in C. albicans. Conclusions Our analysis provides an important resource that is now available for the Candida community. CGOB is available at http:\\/\\/cgob.ucd.ie.

Erratum: Google Earth as Geoscience Data Browser Project: Development of a Tool to Convert JAMSTEC Research Vessel Navigation Data to KML [Data Science Journal, Volume 8, 30 March 2009. S85-S91

Directory of Open Access Journals (Sweden)

Y Yamagishi

2009-07-01

Full Text Available The following PDF indicates errata for the original article entitled "Google Earth as Geoscience Data Browser Project: Development of a Tool to Convert JAMSTEC Research Vessel Navigation Data to KML" by Y Yamagishi, H Nagao, K Suzuki, H Tamura, T Hatakeyama, H Yanaka and S Tsuboi.

Nucleon-nucleon correlations and the Coulomb Displacement Energy

International Nuclear Information System (INIS)

Van Neck, D.; Waroquier, M.; Heyde, K.

1997-01-01

Coulomb Displacement Energies (CDE) are accurately known for a wide range of nuclear masses. Assuming isospin independence in the nuclear Hamiltonian, the CDE can in first instance be interpreted as the Coulomb interaction energy between the density of the excess neutrons and the proton charge density in the parent nucleus. However, when using reasonable mean-field models for the proton and neutron density one underestimates the CDE by about 8% on average. This discrepancy is known as the Nolen-Schiffer anomaly, and various explanations have been put forward in the past. In this work the role of nucleon-nucleon correlations are re-examined. Calculations for the pair density functions in various nuclei are presented. Preliminary results suggest that the modifications to the mean-field pair density functions cause an enhancement of the CDE in the order of 4%, which is rather A-independent. (author)

A pneumatic bellows-driven setup for controlled-distance electrochemical impedance measurements of Zircaloy-2 in simulated BWR conditions

International Nuclear Information System (INIS)

Arilahti, E.; Bojinov, M.; Hansson-Lyyra, L.

2004-01-01

This paper describes a novel pneumatic bellows-driven arrangement designed for controlled distance electrochemistry (CDE) measurements. The feasibility of the new arrangement has been verified by performing contact electric impedance measurements to study corrosion of Zircaloy-2 in a re-circulation loop simulating the BWR conditions. Until now, the measurements have been carried out using a step-motor driven controlled-distance electrochemistry (CDE) arrangement. The electrical and electrochemical properties of the pre transition oxide on Zircaloy-2 determined from these measurements were in good agreement with those estimated from measurements with a step-motor driven CDE. Furthermore, the results indicate that the bellows-driven CDE device is less sensitive to the contact pressure variation than the step-motor driven arrangement. This property combined with the bellows driven displacement mechanism provides a clear advantage for future in-core corrosion studies of fuel cladding materials. (Author)

Pentoxifylline does not alter the response to inhaled grain dust.

Science.gov (United States)

Jagielo, P J; Watt, J L; Quinn, T J; Knapp, H R; Schwartz, D A

1997-05-01

Pentoxifylline (PTX) has been shown to reduce sepsis-induced neutrophil sequestration in the lung and inhibit endotoxin-mediated release of tumor necrosis factor-alpha (TNF-alpha). Previously, we have shown that endotoxin appears to be the principal agent in grain dust causing airway inflammation and airflow obstruction following grain dust inhalation. To determine whether PTX affects the physiologic and inflammatory events following acute grain dust inhalation, 10 healthy, nonsmoking subjects with normal airway reactivity were treated with PTX or placebo (PL) followed by corn dust extract (CDE) inhalation (0.08 mL/kg), using a single-blinded, crossover design. Subjects received PTX (1,200 mg/d) or PL for 4 days prior to CDE inhalation and 400 mg PTX or PL on the exposure day. Both respiratory symptoms and declines in FEV1 and FVC occurred following CDE exposure in both groups, but there were no significant differences in the frequency of symptoms or percent declines from baseline in the FEV1 and FVC at any of the time points measured in the study. Elevations in peripheral blood leukocyte and neutrophil concentrations and BAL total cell, neutrophil, TNF-alpha, and interleukin-8 concentrations were measured 4 h following exposure to CDE in both the PTX- and PL-treated subjects, but no significant differences were found between treatment groups. These results suggest that pretreatment with PTX prior to inhalation of CDE, in the doses used in this study, does not alter the acute physiologic or inflammatory events following exposure to inhaled CDE.

75 FR 60169 - Submission for OMB Review; Comment Request

Science.gov (United States)

2010-09-29

... October 29, 2010 to be assured of consideration. Community Development Financial Institutions (CDFI) Fund...: CDFI/CDE Fund Project Profile Web Form. Form: CDFI 0030. Description: The voluntary collection of narrative descriptions of projects financed by CDFI Fund awardees and allocates via the CDFI/CDE Project...

Surfing for Data: A Gathering Trend in Data Storage Is the Use of Web-Based Applications that Make It Easy for Authorized Users to Access Hosted Server Content with Just a Computing Device and Browser

Science.gov (United States)

Technology & Learning, 2005

2005-01-01

In recent years, the widespread availability of networks and the flexibility of Web browsers have shifted the industry from a client-server model to a Web-based one. In the client-server model of computing, clients run applications locally, with the servers managing storage, printing functions, and network traffic. Because every client is…

Statistical Viewer: a tool to upload and integrate linkage and association data as plots displayed within the Ensembl genome browser

Directory of Open Access Journals (Sweden)

Hauser Elizabeth R

2005-04-01

Full Text Available Abstract Background To facilitate efficient selection and the prioritization of candidate complex disease susceptibility genes for association analysis, increasingly comprehensive annotation tools are essential to integrate, visualize and analyze vast quantities of disparate data generated by genomic screens, public human genome sequence annotation and ancillary biological databases. We have developed a plug-in package for Ensembl called "Statistical Viewer" that facilitates the analysis of genomic features and annotation in the regions of interest defined by linkage analysis. Results Statistical Viewer is an add-on package to the open-source Ensembl Genome Browser and Annotation System that displays disease study-specific linkage and/or association data as 2 dimensional plots in new panels in the context of Ensembl's Contig View and Cyto View pages. An enhanced upload server facilitates the upload of statistical data, as well as additional feature annotation to be displayed in DAS tracts, in the form of Excel Files. The Statistical View panel, drawn directly under the ideogram, illustrates lod score values for markers from a study of interest that are plotted against their position in base pairs. A module called "Get Map" easily converts the genetic locations of markers to genomic coordinates. The graph is placed under the corresponding ideogram features a synchronized vertical sliding selection box that is seamlessly integrated into Ensembl's Contig- and Cyto- View pages to choose the region to be displayed in Ensembl's "Overview" and "Detailed View" panels. To resolve Association and Fine mapping data plots, a "Detailed Statistic View" plot corresponding to the "Detailed View" may be displayed underneath. Conclusion Features mapping to regions of linkage are accentuated when Statistic View is used in conjunction with the Distributed Annotation System (DAS to display supplemental laboratory information such as differentially expressed disease

An Observational Analysis of Coaching Behaviors for Career Development Event Teams: A Mixed Methods Study

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Ball, Anna L.; Bowling, Amanda M.; Sharpless, Justin D.

2016-01-01

School Based Agricultural Education (SBAE) teachers can use coaching behaviors, along with their agricultural content knowledge to help their Career Development Event (CDE) teams succeed. This mixed methods, collective case study observed three SBAE teachers preparing multiple CDEs throughout the CDE season. The teachers observed had a previous…

CpGislandEVO: A Database and Genome Browser for Comparative Evolutionary Genomics of CpG Islands

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Guillermo Barturen

2013-01-01

Full Text Available Hypomethylated, CpG-rich DNA segments (CpG islands, CGIs are epigenome markers involved in key biological processes. Aberrant methylation is implicated in the appearance of several disorders as cancer, immunodeficiency, or centromere instability. Furthermore, methylation differences at promoter regions between human and chimpanzee strongly associate with genes involved in neurological/psychological disorders and cancers. Therefore, the evolutionary comparative analyses of CGIs can provide insights on the functional role of these epigenome markers in both health and disease. Given the lack of specific tools, we developed CpGislandEVO. Briefly, we first compile a database of statistically significant CGIs for the best assembled mammalian genome sequences available to date. Second, by means of a coupled browser front-end, we focus on the CGIs overlapping orthologous genes extracted from OrthoDB, thus ensuring the comparison between CGIs located on truly homologous genome segments. This allows comparing the main compositional features between homologous CGIs. Finally, to facilitate nucleotide comparisons, we lifted genome coordinates between assemblies from different species, which enables the analysis of sequence divergence by direct count of nucleotide substitutions and indels occurring between homologous CGIs. The resulting CpGislandEVO database, linking together CGIs and single-cytosine DNA methylation data from several mammalian species, is freely available at our website.

Sorting of bacterial lipoproteins to the outer membrane by the Lol system.

Science.gov (United States)

Narita, Shin-ichiro; Tokuda, Hajime

2010-01-01

Bacterial lipoproteins comprise a subset of membrane proteins with a lipid-modified cysteine residue at their amino termini through which they are anchored to the membrane. In Gram-negative bacteria, lipoproteins are localized on either the inner or the outer membrane. The Lol system is responsible for the transport of lipoproteins to the outer membrane.The Lol system comprises an inner-membrane ABC transporter LolCDE complex, a periplasmic carrier protein, LolA, and an outer membrane receptor protein, LolB. Lipoproteins are synthesized as precursors in the cytosol and then translocated across the inner membrane by the Sec translocon to the outer leaflet of the inner membrane, where lipoprotein precursors are processed to mature lipoproteins. The LolCDE complex then mediates the release of outer membrane-specific lipoproteins from the inner membrane while the inner membrane-specific lipoproteins possessing Asp at position 2 are not released by LolCDE because it functions as a LolCDE avoidance signal, causing the retention of these lipoproteins in the inner membrane. A water-soluble lipoprotein-LolA complex is formed as a result of the release reaction mediated by LolCDE. This complex traverses the hydrophilic periplasm to reach the outer membrane, where LolB accepts a lipoprotein from LolA and then catalyzes its incorporation into the inner leaflet of the outer membrane.

Recent Findings Concerning PAMAM Dendrimer Conjugates with Cyclodextrins as Carriers of DNA and RNA

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Keiichi Motoyama

2009-08-01

Full Text Available We have evaluated the potential use of various polyamidoamine (PAMAM dendrimer [dendrimer, generation (G 2-4] conjugates with cyclodextrins (CyDs as novel DNA and RNA carriers. Among the various dendrimer conjugates with CyDs, the dendrimer (G3 conjugate with α-CyD having an average degree of substitution (DS of 2.4 [α-CDE (G3, DS2] displayed remarkable properties as DNA, shRNA and siRNA delivery carriers through the sensor function of α-CDEs toward nucleic acid drugs, cell surface and endosomal membranes. In an attempt to develop cell-specific gene transfer carriers, we prepared sugar-appended α-CDEs. Of the various sugar-appended α-CDEs prepared, galactose- or mannose-appended α-CDEs provided superior gene transfer activity to α-CDE in various cells, but not cell-specific gene delivery ability. However, lactose-appended α-CDE [Lac-α-CDE (G2] was found to possess asialoglycoprotein receptor (AgpR-mediated hepatocyte-selective gene transfer activity, both in vitro and in vivo. Most recently, we prepared folate-poly(ethylene glycol-appended α-CDE [Fol-PαC (G3] and revealed that Fol-PαC (G3 imparted folate receptor (FR-mediated cancer cell-selective gene transfer activity. Consequently, α-CDEs bearing integrated, multifunctional molecules may possess the potential to be novel carriers for DNA, shRNA and siRNA.

Role of bone marrow cells in the development of pancreatic fibrosis in a rat model of pancreatitis induced by a choline-deficient/ethionine-supplemented diet

Energy Technology Data Exchange (ETDEWEB)

Akita, Shingo; Kubota, Koji [Department of Surgery, Shinshu University School of Medicine, 3-1-1 Asahi, Matsumoto, Nagano 390-8621 (Japan); Kobayashi, Akira, E-mail: kbys@shinshu-u.ac.jp [Department of Surgery, Shinshu University School of Medicine, 3-1-1 Asahi, Matsumoto, Nagano 390-8621 (Japan); Misawa, Ryosuke; Shimizu, Akira; Nakata, Takenari; Yokoyama, Takahide [Department of Surgery, Shinshu University School of Medicine, 3-1-1 Asahi, Matsumoto, Nagano 390-8621 (Japan); Takahashi, Masafumi [Center for Molecular Medicine Division of Bioimaging Sciences, Jichi Medical University, 3311-1 Yakushiji, Shimono, Tochigi 329-0498 (Japan); Miyagawa, Shinichi [Department of Surgery, Shinshu University School of Medicine, 3-1-1 Asahi, Matsumoto, Nagano 390-8621 (Japan)

2012-04-20

Highlights: Black-Right-Pointing-Pointer BMC-derived PSCs play a role in a rat CDE diet-induced pancreatitis model. Black-Right-Pointing-Pointer BMC-derived PSCs contribute mainly to the early stage of pancreatic fibrosis. Black-Right-Pointing-Pointer BMC-derived activated PSCs can produce PDGF and TGF {beta}1. -- Abstract: Bone marrow cell (BMC)-derived myofibroblast-like cells have been reported in various organs, including the pancreas. However, the contribution of these cells to pancreatic fibrosis has not been fully discussed. The present study examined the possible involvement of pancreatic stellate cells (PSCs) originating from BMCs in the development of pancreatic fibrosis in a clinically relevant rat model of acute pancreatitis induced by a choline-deficient/ethionine-supplemented (CDE) diet. BMCs from female transgenic mice ubiquitously expressing green fluorescent protein (GFP) were transplanted into lethally irradiated male rats. Once chimerism was established, acute pancreatitis was induced by a CDE diet. Chronological changes in the number of PSCs originating from the donor BMCs were examined using double immunofluorescence for GFP and markers for PSCs, such as desmin and alpha smooth muscle actin ({alpha}SMA), 1, 3 and 8 weeks after the initiation of CDE feeding. We also used immunohistochemical staining to evaluate whether the PSCs from the BMCs produce growth factors, such as platelet-derived growth factor (PDGF) and transforming growth factor (TGF) {beta}1. The percentage of BMC-derived activated PSCs increased significantly, peaking after 1 week of CDE treatment (accounting for 23.3 {+-} 0.9% of the total population of activated PSCs) and then decreasing. These cells produced both PDGF and TGF{beta}1 during the early stage of pancreatic fibrosis. Our results suggest that PSCs originating from BMCs contribute mainly to the early stage of pancreatic injury, at least in part, by producing growth factors in a rat CDE diet-induced pancreatitis model.

Role of bone marrow cells in the development of pancreatic fibrosis in a rat model of pancreatitis induced by a choline-deficient/ethionine-supplemented diet

International Nuclear Information System (INIS)

Akita, Shingo; Kubota, Koji; Kobayashi, Akira; Misawa, Ryosuke; Shimizu, Akira; Nakata, Takenari; Yokoyama, Takahide; Takahashi, Masafumi; Miyagawa, Shinichi

2012-01-01

Highlights: ► BMC-derived PSCs play a role in a rat CDE diet-induced pancreatitis model. ► BMC-derived PSCs contribute mainly to the early stage of pancreatic fibrosis. ► BMC-derived activated PSCs can produce PDGF and TGF β1. -- Abstract: Bone marrow cell (BMC)-derived myofibroblast-like cells have been reported in various organs, including the pancreas. However, the contribution of these cells to pancreatic fibrosis has not been fully discussed. The present study examined the possible involvement of pancreatic stellate cells (PSCs) originating from BMCs in the development of pancreatic fibrosis in a clinically relevant rat model of acute pancreatitis induced by a choline-deficient/ethionine-supplemented (CDE) diet. BMCs from female transgenic mice ubiquitously expressing green fluorescent protein (GFP) were transplanted into lethally irradiated male rats. Once chimerism was established, acute pancreatitis was induced by a CDE diet. Chronological changes in the number of PSCs originating from the donor BMCs were examined using double immunofluorescence for GFP and markers for PSCs, such as desmin and alpha smooth muscle actin (αSMA), 1, 3 and 8 weeks after the initiation of CDE feeding. We also used immunohistochemical staining to evaluate whether the PSCs from the BMCs produce growth factors, such as platelet-derived growth factor (PDGF) and transforming growth factor (TGF) β1. The percentage of BMC-derived activated PSCs increased significantly, peaking after 1 week of CDE treatment (accounting for 23.3 ± 0.9% of the total population of activated PSCs) and then decreasing. These cells produced both PDGF and TGFβ1 during the early stage of pancreatic fibrosis. Our results suggest that PSCs originating from BMCs contribute mainly to the early stage of pancreatic injury, at least in part, by producing growth factors in a rat CDE diet-induced pancreatitis model.

[Reliability for detection of developmental problems using the semaphore from the Child Development Evaluation test: Is a yellow result different from a red result?

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Rizzoli-Córdoba, Antonio; Ortega-Ríosvelasco, Fernando; Villasís-Keever, Miguel Ángel; Pizarro-Castellanos, Mariel; Buenrostro-Márquez, Guillermo; Aceves-Villagrán, Daniel; O'Shea-Cuevas, Gabriel; Muñoz-Hernández, Onofre

The Child Development Evaluation (CDE) is a screening tool designed and validated in Mexico for detecting developmental problems. The result is expressed through a semaphore. In the CDE test, both yellow and red results are considered positive, although a different intervention is proposed for each. The aim of this work was to evaluate the reliability of the CDE test to discriminate between children with yellow/red result based on the developmental domain quotient (DDQ) obtained through the Battelle Development Inventory, 2nd edition (in Spanish) (BDI-2). The information was obtained for the study from the validation. Children with a normal (green) result in the CDE were excluded. Two different cut-off points of the DDQ were used (BDI-2): social: 20.1% vs. 28.9%; and adaptive: 6.9% vs. 20.4%. The semaphore result yellow/red allows identifying different magnitudes of delay in developmental domains or subdomains, supporting the recommendation of different interventions for each one. Copyright © 2014 Hospital Infantil de México Federico Gómez. Publicado por Masson Doyma México S.A. All rights reserved.

Development of a controlled-distance electrochemistry arrangement to be used in power plant environments

International Nuclear Information System (INIS)

Bojinov, M.; Laitinen, T.; Moilanen, P.; Maekelae, K.; Maekelae, M.; Saario, T.; Sirkiae, P.

2000-07-01

This publication presents the state-of-the-art of the controlled-distance electrochemistry (CDE) arrangement developed at VTT. Due to the possibility to control accurately the distance between two electrodes, the CDE arrangement makes possible electrochemical measurements in poorly-conductive media such as simulated coolants of light water reactor systems. This experimental arrangement has now been developed into a versatile electrochemical tool, which can be used for thin-layer electrochemistry (TLEC), wall-jet ring-disc and contact electric impedance (CEI) as well as contact electric resistance (CER) measurements. This report comprises results from the years 1997-1999 and summarises the different possible TLEC configurations and electrode locations as well as the development of a bellows-driven CDE system. (orig.)

Ready, Set, Algebra?

Science.gov (United States)

Levy, Alissa Beth

2012-01-01

The California Department of Education (CDE) has long asserted that success Algebra I by Grade 8 is the goal for all California public school students. In fact, the state's accountability system penalizes schools that do not require all of their students to take the Algebra I end-of-course examination by Grade 8 (CDE, 2009). In this dissertation,…

In vitro and in vivo siRNA delivery to hepatocyte utilizing ternary complexation of lactosylated dendrimer/cyclodextrin conjugates, siRNA and low-molecular-weight sacran.

Science.gov (United States)

Hayashi, Yuya; Higashi, Taishi; Motoyama, Keiichi; Jono, Hirofumi; Ando, Yukio; Arima, Hidetoshi

2018-02-01

In this study, we newly developed the ternary complexes consisting of lactosylated dendrimer (generation 3)/α-cyclodextrin conjugate (Lac-α-CDE), siRNA and the anionic polysaccharide sacrans, and evaluated their utility as siRNA transfer carriers. Three kinds of the low-molecular-weight sacrans, i.e. sacran (100) (Mw 44,889Da), sacran (1000) (Mw 943,692Da) and sacran (10,000) (Mw 1,488,281Da) were used. Lac-α-CDE/siRNA/sacran ternary complexes were prepared by adding the low-molecular-weight sacrans to the Lac-α-CDE/siRNA binary complex solution. Cellular uptake of the ternary complex with sacran (100) was higher than that of the binary complex or the other ternary complexes with sacran (1000) and sacran (10,000) in HepG2 cells. Additionally, the ternary complex possessed high serum resistance and endosomal escaping ability in HepG2 cells. High liver levels of siRNA and Lac-α-CDE were observed after the intravenous administration of the ternary complex rather than that of the binary complex. Moreover, intravenous administration of the ternary complex (siRNA 5mg/kg) induced the significant RNAi effect in the liver of mice with negligible change of blood chemistry values. Therefore, a ternary complexation of the Lac-α-CDE/siRNA binary complex with sacran is useful as a hepatocyte-specific siRNA delivery system. Copyright © 2017 Elsevier B.V. All rights reserved.

[Design of a supervision model for administration of the Child Development Evaluation Test at primary care facilities in Mexico].

Science.gov (United States)

Villasís-Keever, Miguel Ángel; Rizzoli-Córdoba, Antonio; Delgado-Ginebra, Ismael; Mares-Serratos, Blanca Berenice; Martell-Valdez, Liliana; Sánchez-Velázquez, Olivia; Reyes-Morales, Hortensia; O'Shea-Cuevas, Gabriel; Aceves-Villagrán, Daniel; Carrasco-Mendoza, Joaquín; Antillón-Ocampo, Fátima Adriana; Villagrán-Muñoz, Víctor Manuel; Halley-Castillo, Elizabeth; Baqueiro-Hernández, César Iván; Pizarro-Castellanos, Mariel; Martain-Pérez, Itzamara Jacqueline; Palma-Tavera, Josuha Alexander; Vargas-López, Guillermo; Muñoz-Hernández, Onofre

The Child Development Evaluation (CDE) test designed and validated in Mexico has been used as a screening tool for developmental problems in primary care facilities across Mexico. Heterogeneous results were found among those states where these were applied, despite using the same standardized training model for application. The objective was to evaluate a supervision model for quality of application of the CDE test at primary care facilities. A study was carried out in primary care facilities from three Mexican states to evaluate concordance of the results between supervisor and primary care personnel who administered the test using two different methods: direct observation (shadow study) or reapplication of the CDE test (consistency study). There were 380 shadow studies applied to 51 psychologists. General concordance of the shadow study was 86.1% according to the supervisor: green 94.5%, yellow 73.2% and red 80.0%. There were 302 re-test evaluations with a concordance of 88.1% (n=266): green 96.8%, yellow 71.7% and red 81.8%. There were no differences between CDE test subgroups by age. Both shadow and re-test study were adequate for the evaluation of the quality of the administration of the CDE Test and may be useful as a model of supervision in primary care facilities. The decision of which test to use relies on the availability of supervisors. Copyright © 2015 Hospital Infantil de México Federico Gómez. Publicado por Masson Doyma México S.A. All rights reserved.

Design of the CART data system for the US Department of Energy's ARM Program

International Nuclear Information System (INIS)

Melton, R.B.; Campbell, A.P.; Edwards, D.M.; Kanciruk, P.; Tichler, J.L.

1991-01-01

The Department of Energy (DOE) has initiated a major atmospheric research effort to reduce the uncertainties found in general circulation and other models due to the effects of clouds and radiation. The objective of the Atmospheric Radiation Measurement Program (ARM) is to provide an experimental testbed for the study of important atmospheric effects, particularly cloud and radiative processes, and testing parameterizations of the processes for use in atmospheric models. This experimental testbed, known as the Clouds and Radiation Testbed (CART), will include a complex data system, the CART Data Environment (CDE). The major functions of the CDE will be to: acquire environments from instruments and external data sources; perform quality assessments of the data streams; create data streams of known quality to be used as model input compared to model output; execute the models and capture their predictions; and make data streams associated with model tests available to ARM investigators in near real-time. The CDE will also be expected to capture ancillary information (''meta-data'') associated with the data streams, provide data management facilities for design of ARM experiments, and provide for archival data storage. The first section of this paper presents background information on CART. Next the process for the functional design of the system is described, the functional requirements summarized, and the conceptual architecture of the CDE is presented. Finally, the status of the CDE design activities is summarized, and major technical challenges are discussed

Comparison of cumulative dissipated energy between the Infiniti and Centurion phacoemulsification systems [Corrigendum

Directory of Open Access Journals (Sweden)

Chen M

2015-08-01

Full Text Available Chen M, Anderson E, Hill G, et al. Clin Ophthalmol. 2015;9:1367–1372.  On page 1367, the final sentence of the Introduction which reads:  “The purpose of this study was simply to compare the CDE between the single Centurion and single Infiniti phacoemulsification systems in a larger number of cases to see which one uses less CDE under similar age, sex, and complication rate (P>0.05 among five surgeons in one surgical center.”    Should read:“The purpose of this study is to compare the mean CDE and complication rate of the Centurion and Infiniti phacoemulsification systems.”On page 1370 there were errors in both Figures 1 and 2. The correct figures are presented here. Read the original article

PGen: large-scale genomic variations analysis workflow and browser in SoyKB.

Science.gov (United States)

Liu, Yang; Khan, Saad M; Wang, Juexin; Rynge, Mats; Zhang, Yuanxun; Zeng, Shuai; Chen, Shiyuan; Maldonado Dos Santos, Joao V; Valliyodan, Babu; Calyam, Prasad P; Merchant, Nirav; Nguyen, Henry T; Xu, Dong; Joshi, Trupti

2016-10-06

With the advances in next-generation sequencing (NGS) technology and significant reductions in sequencing costs, it is now possible to sequence large collections of germplasm in crops for detecting genome-scale genetic variations and to apply the knowledge towards improvements in traits. To efficiently facilitate large-scale NGS resequencing data analysis of genomic variations, we have developed "PGen", an integrated and optimized workflow using the Extreme Science and Engineering Discovery Environment (XSEDE) high-performance computing (HPC) virtual system, iPlant cloud data storage resources and Pegasus workflow management system (Pegasus-WMS). The workflow allows users to identify single nucleotide polymorphisms (SNPs) and insertion-deletions (indels), perform SNP annotations and conduct copy number variation analyses on multiple resequencing datasets in a user-friendly and seamless way. We have developed both a Linux version in GitHub ( https://github.com/pegasus-isi/PGen-GenomicVariations-Workflow ) and a web-based implementation of the PGen workflow integrated within the Soybean Knowledge Base (SoyKB), ( http://soykb.org/Pegasus/index.php ). Using PGen, we identified 10,218,140 single-nucleotide polymorphisms (SNPs) and 1,398,982 indels from analysis of 106 soybean lines sequenced at 15X coverage. 297,245 non-synonymous SNPs and 3330 copy number variation (CNV) regions were identified from this analysis. SNPs identified using PGen from additional soybean resequencing projects adding to 500+ soybean germplasm lines in total have been integrated. These SNPs are being utilized for trait improvement using genotype to phenotype prediction approaches developed in-house. In order to browse and access NGS data easily, we have also developed an NGS resequencing data browser ( http://soykb.org/NGS_Resequence/NGS_index.php ) within SoyKB to provide easy access to SNP and downstream analysis results for soybean researchers. PGen workflow has been optimized for the most

Small-Molecule Inhibitors of Gram-Negative Lipoprotein Trafficking Discovered by Phenotypic Screening

Science.gov (United States)

Fleming, Paul R.; MacCormack, Kathleen; McLaughlin, Robert E.; Whiteaker, James D.; Narita, Shin-ichiro; Mori, Makiko; Tokuda, Hajime; Miller, Alita A.

2015-01-01

In Gram-negative bacteria, lipoproteins are transported to the outer membrane by the Lol system. In this process, lipoproteins are released from the inner membrane by the ABC transporter LolCDE and passed to LolA, a diffusible periplasmic molecular chaperone. Lipoproteins are then transferred to the outer membrane receptor protein, LolB, for insertion in the outer membrane. Here we describe the discovery and characterization of novel pyridineimidazole compounds that inhibit this process. Escherichia coli mutants resistant to the pyridineimidazoles show no cross-resistance to other classes of antibiotics and map to either the LolC or LolE protein of the LolCDE transporter complex. The pyridineimidazoles were shown to inhibit the LolA-dependent release of the lipoprotein Lpp from E. coli spheroplasts. These results combined with bacterial cytological profiling are consistent with LolCDE-mediated disruption of lipoprotein targeting to the outer membrane as the mode of action of these pyridineimidazoles. The pyridineimidazoles are the first reported inhibitors of the LolCDE complex, a target which has never been exploited for therapeutic intervention. These compounds open the door to further interrogation of the outer membrane lipoprotein transport pathway as a target for antimicrobial therapy. PMID:25583975

Transcriptional repressor role of PocR on the 1,3-propanediol biosynthetic pathway by Lactobacillus panis PM1.

Science.gov (United States)

Kang, Tae Sun; Korber, Darren R; Tanaka, Takuji

2014-06-01

The regulatory role of a transcriptional regulator (PocR) in the 1,3-propanediol biosynthetic pathway of Lactobacillus panis PM1 contributes to the optimization of 1,3-propanediol production by this strain, which potentially will lead to 1,3-propanediol manufacturing efficiencies. Lactobacillus panis PM1 can utilize a 1,3-propanediol (1,3-PDO) biosynthetic pathway, consisting of diol dehydratase (PduCDE) and 1,3-PDO dehydrogenase, as a NADH recycling system, to survive under various environmental conditions. In this study, we identified a key transcriptional repressor (PocR) which was annotated as a transcriptional factor of AraC family as part of the 1,3-PDO biosynthetic pathway of L. panis PM1. The over-expression of the PocR gene resulted in the significant repression (81 %) of pduC (PduCDE large subunit) transcription, and subsequently, the decreased activity of PduCDE by 22 %. As a result of the regulation of PduCDE, production of both 3-hydroxypropionaldehyde and 1,3-PDO in the PocR over-expressing strain were significantly decreased by 40 % relative to the control strain. These results clearly demonstrate the transcriptional repressor role of PocR in the 1,3-PDO biosynthetic pathway.

Small-molecule inhibitors of gram-negative lipoprotein trafficking discovered by phenotypic screening.

Science.gov (United States)

McLeod, Sarah M; Fleming, Paul R; MacCormack, Kathleen; McLaughlin, Robert E; Whiteaker, James D; Narita, Shin-Ichiro; Mori, Makiko; Tokuda, Hajime; Miller, Alita A

2015-03-01

In Gram-negative bacteria, lipoproteins are transported to the outer membrane by the Lol system. In this process, lipoproteins are released from the inner membrane by the ABC transporter LolCDE and passed to LolA, a diffusible periplasmic molecular chaperone. Lipoproteins are then transferred to the outer membrane receptor protein, LolB, for insertion in the outer membrane. Here we describe the discovery and characterization of novel pyridineimidazole compounds that inhibit this process. Escherichia coli mutants resistant to the pyridineimidazoles show no cross-resistance to other classes of antibiotics and map to either the LolC or LolE protein of the LolCDE transporter complex. The pyridineimidazoles were shown to inhibit the LolA-dependent release of the lipoprotein Lpp from E. coli spheroplasts. These results combined with bacterial cytological profiling are consistent with LolCDE-mediated disruption of lipoprotein targeting to the outer membrane as the mode of action of these pyridineimidazoles. The pyridineimidazoles are the first reported inhibitors of the LolCDE complex, a target which has never been exploited for therapeutic intervention. These compounds open the door to further interrogation of the outer membrane lipoprotein transport pathway as a target for antimicrobial therapy. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Primary Cilia, Signaling Networks and Cell Migration

DEFF Research Database (Denmark)

Veland, Iben Rønn

Primary cilia are microtubule-based, sensory organelles that emerge from the centrosomal mother centriole to project from the surface of most quiescent cells in the human body. Ciliary entry is a tightly controlled process, involving diffusion barriers and gating complexes that maintain a unique...... this controls directional cell migration as a physiological response. The ciliary pocket is a membrane invagination with elevated activity of clathrin-dependent endocytosis (CDE). In paper I, we show that the primary cilium regulates TGF-β signaling and the ciliary pocket is a compartment for CDE...... on formation of the primary cilium and CDE at the pocket region. The ciliary protein Inversin functions as a molecular switch between canonical and non-canonical Wnt signaling. In paper II, we show that Inversin and the primary cilium control Wnt signaling and are required for polarization and cell migration...

Socializing Young People to Ethics via Play Experience: Browser Games and Parental Concerns for Safety Online

Directory of Open Access Journals (Sweden)

Divina Meigs

2009-01-01

Full Text Available This paper considers an online game and its relation to safety and privacy, in order to examine social and ethical issues raised by parental concern over harmful content. To gain real insights on the responsibility of adults, it develops a hands-on approach that takes into account the major stakeholders, especially young people and the related circle of people around them. Therefore the research question that is raised is: how do browser games provide reassurance to parents about their children’s safety and privacy? The issue of safety online is explored in three parts, using an ethnographic research framework: it explores a specific online game, it provides a profile of participants, it analyses their types of actions in relation to safety and privacy, and discusses the results in terms of incidence of risk, peer-monitoring and community control. The findings show that there is a rather strong tendency to self-regulation, but that tendency is partly due to a strong presence of mediating adults and peers. The results are discussed in terms of incidence of risk, peer-monitoring and networked means of control on the one hand, and in terms of scientific contribution to socialization theory on the other hand. They lead to final considerations on the repertoire of ethical strategies set up online and its meaning for the concerns of adults towards online risk as well as the need for policies on regulation and self-regulation. They also lead to extensions on the socialization to norms and the appropriation of ethics by young people.

Water: A looming crisis?

CSIR Research Space (South Africa)

Cloete, D

2010-04-01

Full Text Available · April 2010 Edited proceedings of a Round Table convened by Business Leadership South Africa and the Centre for Development and Enterprise CDE ROUND TABLE The Centre for Development and Enterprise is one of South Africa’s leading development think...-tanks, focusing on vital national development issues and their relationship to economic growth and democratic consolidation. Through examining South African realities and international experience, CDE formulates practical policy proposals for addressing major...

Objective Metric Based Assessments for Efficient Evaluation of Auditory Situation Awareness Characteristics of Tactical Communications and Protective Systems (TCAPS) and Augmented Hearing Protective Devices (HPDs)

Science.gov (United States)

2015-11-30

rocker -style, single-ended) earplug...X50_unity_ ComTac_III_max_ Combat_Arms_open EB15LE_max_ dB 125 Hz, Speaker at 9 open ear A AB ABC BCD BCD CDE DE DE E -1 1 3 5 7 9...Speaker at 9 open ear A B BC BCD BCD BCD CDE DE E -8 -6 -4 -2 0 2 4 Combat_Arms_open QuietPro_unity_ X50_unity_

Grain dust-induced lung inflammation is reduced by Rhodobacter sphaeroides diphosphoryl lipid A.

Science.gov (United States)

Jagielo, P J; Quinn, T J; Qureshi, N; Schwartz, D A

1998-01-01

To further determine the importance of endotoxin in grain dust-induced inflammation of the lower respiratory tract, we evaluated the efficacy of pentaacylated diphosphoryl lipid A derived from the lipopolysaccharide of Rhodobacter sphaeroides (RsDPLA) as a partial agonist of grain dust-induced airway inflammation. RsDPLA is a relatively inactive compound compared with lipid A derived from Escherichia coli (LPS) and has been demonstrated to act as a partial agonist of LPS-induced inflammation. To assess the potential stimulatory effect of RsDPLA in relation to LPS, we incubated THP-1 cells with RsDPLA (0.001-100 micrograms/ml), LPS (0.02 microgram endotoxin activity/ml), or corn dust extract (CDE; 0.02 microgram endotoxin activity/ml). Incubation with RsDPLA revealed a tumor necrosis factor (TNF)-alpha stimulatory effect at 100 micrograms/ml. In contrast, incubation with LPS or CDE resulted in TNF-alpha release at 0.02 microgram/ml. Pretreatment of THP-1 cells with varying concentrations of RsDPLA before incubation with LPS or CDE (0.02 microgram endotoxin activity/ml) resulted in a dose-dependent reduction in the LPS- or CDE-induced release of TNF-alpha with concentrations of RsDPLA of up to 10 micrograms/ml but not at 100 micrograms/ml. To further understand the role of endotoxin in grain dust-induced airway inflammation, we utilized the unique LPS inhibitory property of RsDPLA to determine the inflammatory response to inhaled CDE in mice in the presence of RsDPLA. Ten micrograms of RsDPLA intratracheally did not cause a significant inflammatory response compared with intratracheal saline. However, pretreatment of mice with 10 micrograms of RsDPLA intratracheally before exposure to CDE (5.4 and 0.2 micrograms/m3) or LPS (7.2 and 0.28 micrograms/m3) resulted in significant reductions in the lung lavage concentrations of total cells, neutrophils, and specific proinflammatory cytokines compared with mice pretreated with sterile saline. These results confirm the LPS

The GPlates Portal: Cloud-based interactive 3D and 4D visualization of global geological and geophysical data and models in a browser

Science.gov (United States)

Müller, Dietmar; Qin, Xiaodong; Sandwell, David; Dutkiewicz, Adriana; Williams, Simon; Flament, Nicolas; Maus, Stefan; Seton, Maria

2017-04-01

The pace of scientific discovery is being transformed by the availability of 'big data' and open access, open source software tools. These innovations open up new avenues for how scientists communicate and share data and ideas with each other, and with the general public. Here, we describe our efforts to bring to life our studies of the Earth system, both at present day and through deep geological time. The GPlates Portal (portal.gplates.org) is a gateway to a series of virtual globes based on the Cesium Javascript library. The portal allows fast interactive visualization of global geophysical and geological data sets, draped over digital terrain models. The globes use WebGL for hardware-accelerated graphics and are cross-platform and cross-browser compatible with complete camera control. The globes include a visualization of a high-resolution global digital elevation model and the vertical gradient of the global gravity field, highlighting small-scale seafloor fabric such as abyssal hills, fracture zones and seamounts in unprecedented detail. The portal also features globes portraying seafloor geology and a global data set of marine magnetic anomaly identifications. The portal is specifically designed to visualize models of the Earth through geological time. These space-time globes include tectonic reconstructions of the Earth's gravity and magnetic fields, and several models of long-wavelength surface dynamic topography through time, including the interactive plotting of vertical motion histories at selected locations. The portal has been visited over half a million times since its inception in October 2015, as tracked by google analytics, and the globes have been featured in numerous media articles around the world. This demonstrates the high demand for fast visualization of global spatial big data, both for the present-day as well as through geological time. The globes put the on-the-fly visualization of massive data sets at the fingertips of end-users to

IFMIF accelerator conceptual design activities

International Nuclear Information System (INIS)

Jameson, R.A.; Lagniel, J.M.; Sugimoto, M.; Kein, H.; Piaszczyk, C.; Tiplyakov, V.

1998-01-01

A Conceptual Design Evaluation (CDE) for the International Fusion Materials Irradiation Facility (IFMIF) began in 1997 and will be completed in 1998, as an international program of the IEA involving the European Community, Japan, Russia and the United States. The IFMIF accelerator system, comprising two 125 mA, 40 MeV deuterium accelerators operating at 175 MHz, is a key element of the IFMIF facility. The objectives and accomplishments of the CDE accelerator studies are outlined

Effects of cadmium, estradiol-17beta and their interaction on gonadal condition and metamorphosis of male and female African clawed frog, Xenopus laevis

Science.gov (United States)

Sharma, Bibek; Patino, Reynaldo

2010-01-01

To assess interaction effects between cadmium (Cd, a putative xenoestrogen) and estradiol-17beta (E(2)) on sex differentiation and metamorphosis, Xenopus laevis were exposed to solvent-control (0.005% ethanol), Cd (10microgL(-1)), E(2) (1microgL(-1)), or Cd and E(2) (Cd+E(2)) in FETAX medium from fertilization to 75d postfertilization. Each treatment was applied to four aquaria, each with 30 fertilized eggs. Mortality was recorded and animals were sampled as they completed metamorphosis (Nieuwkoop and Faber stage 66). Gonadal sex of individuals (including >or= tadpoles NF stage 55 at day 75) was determined gross-morphologically and used to compute sex ratios. Time course and percent completion of metamorphosis, snout-vent length (SVL), hindlimb length (HLL) and weight were analyzed for each gender separately. Survival rates did not differ among treatments. The E(2) and Cd+E(2) treatments significantly skewed sex ratios towards females; however, no sex-ratio differences were observed between the control and Cd treatments or between the E(2) and Cd+E(2) treatments. Time course of metamorphosis was generally delayed and percent completion of metamorphosis was generally reduced in males and females exposed to Cd, E(2) or their combination compared to control animals. In males, but not females, the effect of Cd+E(2) was greater than that of individual chemicals. Weight at completion of metamorphosis was reduced only in females and only by the Cd+E(2) treatment. In conclusion, although Cd at an environmentally relevant concentration did not exhibit direct or indirect feminizing effects in Xenopus tadpoles, the metal and E(2) both had similar inhibitory effects on metamorphosis that were of greater magnitude in males than females.

NINDS Common Data Elements for Congenital Muscular Dystrophy Clinical Research: A National Institute for Neurological Disorders and Stroke Project.

Science.gov (United States)

Lawlor, Michael W; Iannaccone, Susan T; Mathews, Katherine; Muntoni, Francesco; Alai-Hansen, Sherita; Odenkirchen, Joanne C; S Feldman, Robin

2018-01-01

A Congenital Muscular Dystrophy (CMD) Working Group (WG) consisting of international experts reviewed common data elements (CDEs) previously developed for other neuromuscular diseases (NMDs) and made recommendations for all types of studies on CMD. To develop a comprehensive set of CDEs, data definitions, case report forms and guidelines for use in CMD clinical research to facilitate interoperability of data collection, as part of the CDE project at the National Institute of Neurological Disorders and Stroke (NINDS). One working group composed of ten experts reviewed existing NINDS CDEs and outcome measures, evaluated the need for new elements, and provided recommendations for CMD clinical research. The recommendations were compiled, internally reviewed by the CMD working group, and posted online for external public comment. The CMD working group and the NIH CDE team reviewed the final version before release. The NINDS CMD CDEs and supporting documents are publicly available on the NINDS CDE website (https://www.commondataelements.ninds.nih.gov/CMD.aspx#tab=Data_Standards). Content areas include demographics, social status, health history, physical examination, diagnostic tests, and guidelines for a variety of specific outcomes and endpoints. The CMD CDE WG selected these documents from existing versions that were generated by other disease area working groups. Some documents were tailored to maximize their suitability for the CMD field. Widespread use of CDEs can facilitate CMD clinical research and trial design, data sharing and retrospective analyses. The CDEs that are most relevant to CMD research are like those generated for other NMDs, and CDE documents tailored to CMD are now available to the public. The existence of a single source for these documents facilitates their use in research studies and offers a clear mechanism for the discussion and update of the information as knowledge is gained.

Effect of nitrogen fertilizer on distribution of starch granules in different regions of wheat endosperm

Directory of Open Access Journals (Sweden)

Fei Xiong

2014-02-01

Full Text Available This study provided visual evidence of a nitrogen effect on starch granules (SGs in wheat endosperm. Winter wheat (Titicum aestivum L. cultivar Xumai 30 was cultured under no nitrogen (control and 240 kg ha− 1 of nitrogen applied at the booting stage. The number, morphology, and size of A- and B-type SGs in subaleurone of dorsal endosperm (SDE, center of dorsal endosperm (CDE, modified aleurone (MA, subaleurone of ventral endosperm (SVE, and center of ventral endosperm (CVE were observed under light and electron microscopes. (1 The distribution of SGs in SDE was similar to that in SVE, the distributions of SGs in CDE and CVE were similar, but the distribution of SGs in MA was different from those in the other four endosperm regions. The number of SGs in the five endosperm regions was in the order SDE > CDE > SVE > CVE > MA. (2 Nitrogen increased the number of A- and B-type SGs in SDE and SVE. Nitrogen also increased the number of B-type SGs but decreased the number of A-type SGs in CDE and CVE. Nitrogen decreased the numbers of A-type and B-type SGs in MA. The results suggest that increased N fertilizer application mainly increased the numbers of small SGs and decreased the numbers of large SGs, but that the results varied in different regions of the wheat endosperm.

Unraveling a molecular determinant for clathrin-independent internalization of the M2 muscarinic acetylcholine receptor

Science.gov (United States)

Wan, Min; Zhang, Wenhua; Tian, Yangli; Xu, Chanjuan; Xu, Tao; Liu, Jianfeng; Zhang, Rongying

2015-01-01

Endocytosis and postendocytic sorting of G-protein-coupled receptors (GPCRs) is important for the regulation of both their cell surface density and signaling profile. Unlike the mechanisms of clathrin-dependent endocytosis (CDE), the mechanisms underlying the control of GPCR signaling by clathrin-independent endocytosis (CIE) remain largely unknown. Among the muscarinic acetylcholine receptors (mAChRs), the M4 mAChR undergoes CDE and recycling, whereas the M2 mAChR is internalized through CIE and targeted to lysosomes. Here we investigated the endocytosis and postendocytic trafficking of M2 mAChR based on a comparative analysis of the third cytoplasmic domain in M2 and M4 mAChRs. For the first time, we identified that the sequence 374KKKPPPS380 servers as a sorting signal for the clathrin-independent internalization of M2 mAChR. Switching 374KKKPPPS380 to the i3 loop of the M4 mAChR shifted the receptor into lysosomes through the CIE pathway; and therefore away from CDE and recycling. We also found another previously unidentified sequence that guides CDE of the M2 mAChR, 361VARKIVKMTKQPA373, which is normally masked in the presence of the downstream sequence 374KKKPPPS380. Taken together, our data indicate that endocytosis and postendocytic sorting of GPCRs that undergo CIE could be sequence-dependent. PMID:26094760

(Non-)symbolic magnitude processing in children with mathematical difficulties: A meta-analysis.

Science.gov (United States)

Schwenk, Christin; Sasanguie, Delphine; Kuhn, Jörg-Tobias; Kempe, Sophia; Doebler, Philipp; Holling, Heinz

2017-05-01

Symbolic and non-symbolic magnitude representations, measured by digit or dot comparison tasks, are assumed to underlie the development of arithmetic skills. The comparison distance effect (CDE) has been suggested as a hallmark of the preciseness of mental magnitude representations. It implies that two magnitudes are harder to discriminate when the numerical distance between them is small, and may therefore differ in children with mathematical difficulties (MD), i.e. low mathematical achievement or dyscalculia. However, empirical findings on the CDE in children with MD are heterogeneous, and only few studies assess both symbolic and non-symbolic skills. This meta-analysis therefore integrates 44 symbolic and 48 non-symbolic response time (RT) outcomes reported in nineteen studies (N=1630 subjects, aged 6-14 years). Independent of age, children with MD show significantly longer mean RTs than typically achieving controls, particularly on symbolic (Hedges' g=0.75; 95% CI [0.51; 0.99]), but to a significantly lower extent also on non-symbolic (g=0.24; 95% CI [0.13; 0.36]) tasks. However, no group differences were found for the CDE. Extending recent work, these meta-analytical findings on children with MD corroborate the diagnostic importance of magnitude comparison speed in symbolic tasks. By contrast, the validity of CDE measures in assessing MD is questioned. Copyright © 2017 Elsevier Ltd. All rights reserved.

Comparison of cumulative dissipated energy between the Infiniti and Centurion phacoemulsification systems [Corrigendum

OpenAIRE

2015-01-01

Chen M, Anderson E, Hill G, et al. Clin Ophthalmol. 2015;9:1367–1372.  On page 1367, the final sentence of the Introduction which reads:  “The purpose of this study was simply to compare the CDE between the single Centurion and single Infiniti phacoemulsification systems in a larger number of cases to see which one uses less CDE under similar age, sex, and complication rate (P>0.05) among five surgeons in one surgical center.” &a...

Large-scale preparation of the homogeneous LolA–lipoprotein complex and efficient in vitro transfer of lipoproteins to the outer membrane in a LolB-dependent manner

OpenAIRE

Watanabe, Shoji; Oguchi, Yuki; Yokota, Naoko; Tokuda, Hajime

2007-01-01

An ATP-binding cassette transporter LolCDE complex of Escherichia coli releases lipoproteins destined to the outer membrane from the inner membrane as a complex with a periplasmic chaperone, LolA. Interaction of the LolA–lipoprotein complex with an outer membrane receptor, LolB, then causes localization of lipoproteins to the outer membrane. As far as examined, formation of the LolA–lipoprotein complex strictly depends on ATP hydrolysis by the LolCDE complex in the presence of LolA. It has be...

Genetic Analysis of the Mode of Interplay between an ATPase Subunit and Membrane Subunits of the Lipoprotein-Releasing ATP-Binding Cassette Transporter LolCDE†

OpenAIRE

Ito, Yasuko; Matsuzawa, Hitomi; Matsuyama, Shin-ichi; Narita, Shin-ichiro; Tokuda, Hajime

2006-01-01

The LolCDE complex, an ATP-binding cassette (ABC) transporter, releases lipoproteins from the inner membrane, thereby initiating lipoprotein sorting to the outer membrane of Escherichia coli. The LolCDE complex is composed of two copies of an ATPase subunit, LolD, and one copy each of integral membrane subunits LolC and LolE. LolD hydrolyzes ATP on the cytoplasmic side of the inner membrane, while LolC and/or LolE recognize and release lipoproteins anchored to the periplasmic leaflet of the i...

Transcriptional regulation of Saccharomyces cerevisiaeCYS3 encoding cystathionine γ-lyase

Science.gov (United States)

Hiraishi, Hiroyuki; Miyake, Tsuyoshi

2008-01-01

In studying the regulation of GSH11, the structural gene of the high-affinity glutathione transporter (GSH-P1) in Saccharomyces cerevisiae, a cis-acting cysteine responsive element, CCGCCACAC (CCG motif), was detected. Like GSH-P1, the cystathionine γ-lyase encoded by CYS3 is induced by sulfur starvation and repressed by addition of cysteine to the growth medium. We detected a CCG motif (−311 to −303) and a CGC motif (CGCCACAC; −193 to −186), which is one base shorter than the CCG motif, in the 5′-upstream region of CYS3. One copy of the centromere determining element 1, CDE1 (TCACGTGA; −217 to −210), being responsible for regulation of the sulfate assimilation pathway genes, was also detected. We tested the roles of these three elements in the regulation of CYS3. Using a lacZ-reporter assay system, we found that the CCG/CGC motif is required for activation of CYS3, as well as for its repression by cysteine. In contrast, the CDE1 motif was responsible for only activation of CYS3. We also found that two transcription factors, Met4 and VDE, are responsible for activation of CYS3 through the CCG/CGC and CDE1 motifs. These observations suggest a dual regulation of CYS3 by factors that interact with the CDE1 motif and the CCG/CGC motifs. PMID:18317767

Prospective study of Centurion® versus Infiniti® phacoemulsification systems: surgical and visual outcomes.

Science.gov (United States)

Oh, Lawrence J; Nguyen, Chu Luan; Wong, Eugene; Wang, Samuel S Y; Francis, Ian C

2017-01-01

To evaluate surgical outcomes (SOs) and visual outcomes (VOs) in cataract surgery comparing the Centurion ® phacoemulsification system (CPS) with the Infiniti ® phacoemulsification system (IPS). Prospective, consecutive study in a single-site private practice. Totally 412 patients undergoing cataract surgery with either the CPS using the 30-degree balanced ® tip ( n =207) or the IPS using the 30-degree Kelman ® tip ( n =205). Intraoperative and postoperative outcomes were documented prospectively up to one month follow-up. Nuclear sclerosis (NS) grade, cumulated dissipated energy (CDE), preoperative corrected distance visual acuity (CDVA), and CDVA at one month were recorded. CDE was 13.50% less in the whole CPS compared with the whole IPS subcohort. In eyes with NS grade III or greater, CDE was 28.87% less with CPS ( n =70) compared with IPS ( n =44) ( P =0.010). Surgical complications were not statistically different between the two subcohorts ( P =0.083), but in the one case of vitreous loss using the CPS, CDVA of 6/4 was achieved at one month. The mean CDVAs (VOs) at one month for NS grade III and above cataracts were -0.17 logMAR (6/4.5) in the CPS and -0.15 logMAR (6/4.5) in the IPS subcohort respectively ( P =0.033). CDE is 28.87% less, and VOs are significantly improved, in denser cataracts in the CPS compared with the IPS. The authors recommend the CPS for cases with denser nuclei.

A New Browser-based, Ontology-driven Tool for Generating Standardized, Deep Descriptions of Geoscience Models

Science.gov (United States)

Peckham, S. D.; Kelbert, A.; Rudan, S.; Stoica, M.

2016-12-01

Standardized metadata for models is the key to reliable and greatly simplified coupling in model coupling frameworks like CSDMS (Community Surface Dynamics Modeling System). This model metadata also helps model users to understand the important details that underpin computational models and to compare the capabilities of different models. These details include simplifying assumptions on the physics, governing equations and the numerical methods used to solve them, discretization of space (the grid) and time (the time-stepping scheme), state variables (input or output), model configuration parameters. This kind of metadata provides a "deep description" of a computational model that goes well beyond other types of metadata (e.g. author, purpose, scientific domain, programming language, digital rights, provenance, execution) and captures the science that underpins a model. While having this kind of standardized metadata for each model in a repository opens up a wide range of exciting possibilities, it is difficult to collect this information and a carefully conceived "data model" or schema is needed to store it. Automated harvesting and scraping methods can provide some useful information, but they often result in metadata that is inaccurate or incomplete, and this is not sufficient to enable the desired capabilities. In order to address this problem, we have developed a browser-based tool called the MCM Tool (Model Component Metadata) which runs on notebooks, tablets and smart phones. This tool was partially inspired by the TurboTax software, which greatly simplifies the necessary task of preparing tax documents. It allows a model developer or advanced user to provide a standardized, deep description of a computational geoscience model, including hydrologic models. Under the hood, the tool uses a new ontology for models built on the CSDMS Standard Names, expressed as a collection of RDF files (Resource Description Framework). This ontology is based on core concepts

WebViz: A web browser based application for collaborative analysis of 3D data

Science.gov (United States)

Ruegg, C. S.

2011-12-01

In the age of high speed Internet where people can interact instantly, scientific tools have lacked technology which can incorporate this concept of communication using the web. To solve this issue a web application for geological studies has been created, tentatively titled WebViz. This web application utilizes tools provided by Google Web Toolkit to create an AJAX web application capable of features found in non web based software. Using these tools, a web application can be created to act as piece of software from anywhere in the globe with a reasonably speedy Internet connection. An application of this technology can be seen with data regarding the recent tsunami from the major japan earthquakes. After constructing the appropriate data to fit a computer render software called HVR, WebViz can request images of the tsunami data and display it to anyone who has access to the application. This convenience alone makes WebViz a viable solution, but the option to interact with this data with others around the world causes WebViz to be taken as a serious computational tool. WebViz also can be used on any javascript enabled browser such as those found on modern tablets and smart phones over a fast wireless connection. Due to the fact that WebViz's current state is built using Google Web Toolkit the portability of the application is in it's most efficient form. Though many developers have been involved with the project, each person has contributed to increase the usability and speed of the application. In the project's most recent form a dramatic speed increase has been designed as well as a more efficient user interface. The speed increase has been informally noticed in recent uses of the application in China and Australia with the hosting server being located at the University of Minnesota. The user interface has been improved to not only look better but the functionality has been improved. Major functions of the application are rotating the 3D object using buttons

Towards a comparison criteria for CDeLP

OpenAIRE

Cobo, María Laura; Simari, Guillermo Ricardo

2007-01-01

The development of systems with the ability to reason about change notion and actions has been of great importance for the artificial intelligence community. The definition and implementation of systems capable of managing defeasible, incomplete, unreliable, or uncertain information has been also an area of much interest. With a few exceptions research on these two ways of reasoning was independently pursued. Nevertheless, they are complementary and closely related, since many applications th...

HmsC Controls Yersinia pestis Biofilm Formation in Response to Redox Environment

Directory of Open Access Journals (Sweden)

Gai-Xian Ren

2017-08-01

Full Text Available Yersinia pestis biofilm formation, controlled by intracellular levels of the second messenger molecule cyclic diguanylate (c-di-GMP, is important for blockage-dependent plague transmission from fleas to mammals. HmsCDE is a tripartite signaling system that modulates intracellular c-di-GMP levels to regulate biofilm formation in Y. pestis. Previously, we found that Y. pestis biofilm formation is stimulated in reducing environments in an hmsCDE-dependent manner. However, the mechanism by which HmsCDE senses the redox state remains elusive. Using a dsbA mutant and the addition of Cu2+ to simulate reducing and oxidizing periplasmic environments, we found that HmsC protein levels are decreased and the HmsC-HmsD protein-protein interaction is weakened in a reducing environment. In addition, we revealed that intraprotein disulphide bonds are critical for HmsC since breakage lowers protein stability and diminishes the interaction with HmsD. Our results suggest that HmsC might play a major role in sensing the environmental changes.

Control of head lice with a coconut-derived emulsion shampoo.

Science.gov (United States)

Connolly, M; Stafford, K A; Coles, G C; Kennedy, C T C; Downs, A M R

2009-01-01

To evaluate a novel coconut-derived emulsion (CDE) shampoo against head lice infestation in children. A school trial in which pupils were treated on days 0 and 7 and checked on days 8 and 15 and a family trial where product was applied by parents three times in 2 weeks or used as a cosmetic shampoo and checked on days 14 and days 70. UK schools in Bristol and Western-super-Mare and families in Northern Somerset. Numbers of children free from infestation after treatment. In the school trial, percentage cures at day 8 were 14% (permethrin, n=7) and 61% (CDE, n=37). In the family trial where all family members were treated, cure rate was 96% (n=28), and if the shampoo was subsequently used as a cosmetic shampoo, only 1 of 12 children became re-infested after 10 weeks. CDE shampoo is a novel effective method of controlling head lice and used after treatment as a cosmetic shampoo can aid in the reduction of re-infestation.

Fundamental Understanding of Crack Growth in Structural Components of Generation IV Supercritical Light Water Reactors

Energy Technology Data Exchange (ETDEWEB)

Iouri I. Balachov; Takao Kobayashi; Francis Tanzella; Indira Jayaweera; Palitha Jayaweera; Petri Kinnunen; Martin Bojinov; Timo Saario

2004-11-17

This work contributes to the design of safe and economical Generation-IV Super-Critical Water Reactors (SCWRs) by providing a basis for selecting structural materials to ensure the functionality of in-vessel components during the entire service life. During the second year of the project, we completed electrochemical characterization of the oxide film properties and investigation of crack initiation and propagation for candidate structural materials steels under supercritical conditions. We ranked candidate alloys against their susceptibility to environmentally assisted degradation based on the in situ data measure with an SRI-designed controlled distance electrochemistry (CDE) arrangement. A correlation between measurable oxide film properties and susceptibility of austenitic steels to environmentally assisted degradation was observed experimentally. One of the major practical results of the present work is the experimentally proven ability of the economical CDE technique to supply in situ data for ranking candidate structural materials for Generation-IV SCRs. A potential use of the CDE arrangement developed ar SRI for building in situ sensors monitoring water chemistry in the heat transport circuit of Generation-IV SCWRs was evaluated and proved to be feasible.

An evaluation of intraoperative and postoperative outcomes of torsional mode versus longitudinal ultrasound mode phacoemulsification: a Meta-analysis

Directory of Open Access Journals (Sweden)

Pia Leon

2016-06-01

Full Text Available AIM: To evaluate and compare the intraoperative parameters and postoperative outcomes of torsional mode and longitudinal mode of phacoemulsification. METHODS: Pertinent studies were identified by a computerized MEDLINE search from January 2002 to September 2013. The Meta-analysis is composed of two parts. In the first part the intraoperative parameters were considered: ultrasound time (UST and cumulative dissipated energy (CDE. The intraoperative values were also distinctly considered for two categories (moderate and hard cataract group depending on the nuclear opacity grade. In the second part of the study the postoperative outcomes as the best corrected visual acuity (BCVA and the endothelial cell loss (ECL were taken in consideration. RESULTS: The UST and CDE values proved statistically significant in support of torsional mode for both moderate and hard cataract group. The analysis of BCVA did not present statistically significant difference between the two surgical modalities. The ECL count was statistically significant in support of torsional mode (P<0.001. CONCLUSION: The Meta-analysis shows the superiority of the torsional mode for intraoperative parameters (UST, CDE and postoperative ECL outcomes.

An evaluation of intraoperative and postoperative outcomes of torsional mode versus longitudinal ultrasound mode phacoemulsification: a Meta-analysis.

Science.gov (United States)

Leon, Pia; Umari, Ingrid; Mangogna, Alessandro; Zanei, Andrea; Tognetto, Daniele

2016-01-01

To evaluate and compare the intraoperative parameters and postoperative outcomes of torsional mode and longitudinal mode of phacoemulsification. Pertinent studies were identified by a computerized MEDLINE search from January 2002 to September 2013. The Meta-analysis is composed of two parts. In the first part the intraoperative parameters were considered: ultrasound time (UST) and cumulative dissipated energy (CDE). The intraoperative values were also distinctly considered for two categories (moderate and hard cataract group) depending on the nuclear opacity grade. In the second part of the study the postoperative outcomes as the best corrected visual acuity (BCVA) and the endothelial cell loss (ECL) were taken in consideration. The UST and CDE values proved statistically significant in support of torsional mode for both moderate and hard cataract group. The analysis of BCVA did not present statistically significant difference between the two surgical modalities. The ECL count was statistically significant in support of torsional mode (P<0.001). The Meta-analysis shows the superiority of the torsional mode for intraoperative parameters (UST, CDE) and postoperative ECL outcomes.

[Population-based study of child developmental screening in Mexican PROSPERA beneficiaries younger than 5 years old].

Science.gov (United States)

Rizzoli-Córdoba, Antonio; Martell-Valdez, Liliana; Delgado-Ginebra, Ismael; Villasís-Keever, Miguel Ángel; Reyes-Morales, Hortensia; O'Shea-Cuevas, Gabriel; Aceves-Villagrán, Daniel; Carrasco-Mendoza, Joaquín; Villagrán-Muñoz, Víctor Manuel; Halley-Castillo, Elizabeth; Vargas-López, Guillermo; Muñoz-Hernández, Onofre

Evaluación del Desarrollo Infantil or Child Development Evaluation (CDE) test, a screening tool designed and validated in Mexico, classifies child development as normal (green) or abnormal (developmental lag or yellow and risk of delay or red). Population-based results of child development level with this tool are not known. The objective of this work was to evaluate the developmental level of children aged 1-59 months living in poverty (PROSPERA program beneficiaries) through application of the CDE test. CDE tests were applied by specifically trained and standardized personnel to children rural areas; fine motor skills, language and knowledge were more affected in males. The proportion of children with abnormal results is similar to other population-based studies. The highest rate in older children reinforces the need for an early-based intervention. The different pattern of areas affected between urban and rural areas suggests the need for a differentiated intervention. Copyright © 2015 Hospital Infantil de México Federico Gómez. Publicado por Masson Doyma México S.A. All rights reserved.

Characterization of the Pseudomonas aeruginosa Lol system as a lipoprotein sorting mechanism.

Science.gov (United States)

Tanaka, Shin-Ya; Narita, Shin-Ichiro; Tokuda, Hajime

2007-05-04

Escherichia coli lipoproteins are localized to either the inner or the outer membrane depending on the residue that is present next to the N-terminal acylated Cys. Asp at position 2 causes the retention of lipoproteins in the inner membrane. In contrast, the accompanying study (9) revealed that the residues at positions 3 and 4 determine the membrane specificity of lipoproteins in Pseudomonas aeruginosa. Since the five Lol proteins involved in the sorting of E. coli lipoproteins are conserved in P. aeruginosa, we examined whether or not the Lol proteins of P. aeruginosa are also involved in lipoprotein sorting but utilize different signals. The genes encoding LolCDE, LolA, and LolB homologues were cloned and expressed. The LolCDE homologue thus purified was reconstituted into proteoliposomes with lipoproteins. When incubated in the presence of ATP and a LolA homologue, the reconstituted LolCDE homologue released lipoproteins, leading to the formation of a LolA-lipoprotein complex. Lipoproteins were then incorporated into the outer membrane depending on a LolB homologue. As revealed in vivo, lipoproteins with Lys and Ser at positions 3 and 4, respectively, remained in proteoliposomes. On the other hand, E. coli LolCDE released lipoproteins with this signal and transferred them to LolA of not only E. coli but also P. aeruginosa. These results indicate that Lol proteins are responsible for the sorting of lipoproteins to the outer membrane of P. aeruginosa, as in the case of E. coli, but respond differently to inner membrane retention signals.

Comparison of cumulative dissipated energy delivered by active-fluidic pressure control phacoemulsification system versus gravity-fluidics.

Science.gov (United States)

Gonzalez-Salinas, Roberto; Garza-Leon, Manuel; Saenz-de-Viteri, Manuel; Solis-S, Juan C; Gulias-Cañizo, Rosario; Quiroz-Mercado, Hugo

2017-08-22

To compare the cumulative dissipated energy (CDE), aspiration time and estimated aspiration fluid utilized during phacoemulsification cataract surgery using two phacoemulsification systems . A total of 164 consecutive eyes of 164 patients undergoing cataract surgery, 82 in the active-fluidics group and 82 in the gravity-fluidics group were enrolled in this study. Cataracts graded NII to NIII using LOCS II were included. Each subject was randomly assigned to one of the two platforms with a specific configuration: the active-fluidics Centurion ® phacoemulsification system or the gravity-fluidics Infiniti ® Vision System. CDE, aspiration time (AT) and the mean estimated aspiration fluid (EAF) were registered and compared. A mean age of 68.3 ± 9.8 years was found (range 57-92 years), and no significant difference was evident between both groups. A positive correlation between the CDE values obtained by both platforms was verified (r = 0.271, R 2  = 0.073, P = 0.013). Similarly, a significant correlation was evidenced for the EAF (r = 0.334, R 2  = 0.112, P = 0.046) and AT values (r = 0.156, R 2  = 0.024, P = 0.161). A statistically significantly lower CDE count, aspiration time and estimated fluid were obtained using the active-fluidics configuration when compared to the gravity-fluidics configuration by 19.29, 12.10 and 9.29%, respectively (P = 0.001, P Infiniti ® IP system for NII and NIII cataracts.

Prospective study of Centurion® versus Infiniti® phacoemulsification systems: surgical and visual outcomes

Directory of Open Access Journals (Sweden)

Lawrence J. Oh

2017-11-01

Full Text Available AIM: To evaluate surgical outcomes (SOs and visual outcomes (VOs in cataract surgery comparing the Centurion® phacoemulsification system (CPS with the Infiniti® phacoemulsification system (IPS. METHODS: Prospective, consecutive study in a single-site private practice. Totally 412 patients undergoing cataract surgery with either the CPS using the 30-degree balanced® tip (n=207 or the IPS using the 30-degree Kelman® tip (n=205. Intraoperative and postoperative outcomes were documented prospectively up to one month follow-up. Nuclear sclerosis (NS grade, cumulated dissipated energy (CDE, preoperative corrected distance visual acuity (CDVA, and CDVA at one month were recorded. RESULTS: CDE was 13.50% less in the whole CPS compared with the whole IPS subcohort. In eyes with NS grade III or greater, CDE was 28.87% less with CPS (n=70 compared with IPS (n=44 (P=0.010. Surgical complications were not statistically different between the two subcohorts (P=0.083, but in the one case of vitreous loss using the CPS, CDVA of 6/4 was achieved at one month. The mean CDVAs (VOs at one month for NS grade III and above cataracts were -0.17 logMAR (6/4.5 in the CPS and -0.15 logMAR (6/4.5 in the IPS subcohort respectively (P=0.033. CONCLUSION: CDE is 28.87% less, and VOs are significantly improved, in denser cataracts in the CPS compared with the IPS. The authors recommend the CPS for cases with denser nuclei.

Outcomes of torsional microcoaxial phacoemulsification performed by 12-degree and 22-degree bent tips.

Science.gov (United States)

Helvacioglu, Firat; Yeter, Celal; Tunc, Zeki; Sencan, Sadik

2013-08-01

To compare the safety and efficacy of Ozil Intelligent Phaco torsional microcoaxial phacoemulsification surgeries performed with 12-degree and 22-degree bent tips using the Infiniti Vision System. Maltepe University School of Medicine Department of Ophthalmology, Istanbul, Turkey. Comparative case series. Eyes were assigned to 2.2 mm microcoaxial phacoemulsification using the torsional mode with a 22-degree bent tip (Group 1) or a 12-degree bent tip (Group 2). The primary outcome measures were ultrasound time (UST), cumulative dissipated energy (CDE), longitudinal and torsional ultrasound (US) amplitudes, mean surgical time, mean volume of balanced salt solution used, and surgical complications. Both groups included 45 eyes. The mean UST, CDE, longitudinal US amplitude, and torsional US amplitude were 65 seconds ± 27.23 (SD), 11.53 ± 6.99, 0.22 ± 0.26, and 42.86 ± 15.64, respectively, in Group 1 and 84 ± 45.04 seconds, 16.68 ± 10.66, 0.48 ± 0.68, and 46.27 ± 14.74, respectively, in Group 2. The mean UST, CDE, and longitudinal amplitudes were significantly lower in Group 1 (P=.003, P=.008, and P=.022, respectively). The mean volume of balanced salt solution was 73.33 ± 28.58 cc in Group 1 and 82.08 ± 26.21 cc in Group 2 (P=.134). Torsional phacoemulsification performed with 22-degree bent tips provided more effective lens removal than 12-degree bent tips, with a lower UST and CDE. Copyright © 2013 ASCRS and ESCRS. Published by Elsevier Inc. All rights reserved.

Control of gdhR Expression in Neisseria gonorrhoeae via Autoregulation and a Master Repressor (MtrR of a Drug Efflux Pump Operon

Directory of Open Access Journals (Sweden)

Corinne E. Rouquette-Loughlin

2017-04-01

Full Text Available The MtrCDE efflux pump of Neisseria gonorrhoeae contributes to gonococcal resistance to a number of antibiotics used previously or currently in treatment of gonorrhea, as well as to host-derived antimicrobials that participate in innate defense. Overexpression of the MtrCDE efflux pump increases gonococcal survival and fitness during experimental lower genital tract infection of female mice. Transcription of mtrCDE can be repressed by the DNA-binding protein MtrR, which also acts as a global regulator of genes involved in important metabolic, physiologic, or regulatory processes. Here, we investigated whether a gene downstream of mtrCDE, previously annotated gdhR in Neisseria meningitidis, is a target for regulation by MtrR. In meningococci, GdhR serves as a regulator of genes involved in glucose catabolism, amino acid transport, and biosynthesis, including gdhA, which encodes an l-glutamate dehydrogenase and is located next to gdhR but is transcriptionally divergent. We report here that in N. gonorrhoeae, expression of gdhR is subject to autoregulation by GdhR and direct repression by MtrR. Importantly, loss of GdhR significantly increased gonococcal fitness compared to a complemented mutant strain during experimental murine infection. Interestingly, loss of GdhR did not influence expression of gdhA, as reported for meningococci. This variance is most likely due to differences in promoter localization and utilization between gonococci and meningococci. We propose that transcriptional control of gonococcal genes through the action of MtrR and GdhR contributes to fitness of N. gonorrhoeae during infection.

The GPlates Portal: Cloud-Based Interactive 3D Visualization of Global Geophysical and Geological Data in a Web Browser.

Science.gov (United States)

Müller, R Dietmar; Qin, Xiaodong; Sandwell, David T; Dutkiewicz, Adriana; Williams, Simon E; Flament, Nicolas; Maus, Stefan; Seton, Maria

2016-01-01

The pace of scientific discovery is being transformed by the availability of 'big data' and open access, open source software tools. These innovations open up new avenues for how scientists communicate and share data and ideas with each other and with the general public. Here, we describe our efforts to bring to life our studies of the Earth system, both at present day and through deep geological time. The GPlates Portal (portal.gplates.org) is a gateway to a series of virtual globes based on the Cesium Javascript library. The portal allows fast interactive visualization of global geophysical and geological data sets, draped over digital terrain models. The globes use WebGL for hardware-accelerated graphics and are cross-platform and cross-browser compatible with complete camera control. The globes include a visualization of a high-resolution global digital elevation model and the vertical gradient of the global gravity field, highlighting small-scale seafloor fabric such as abyssal hills, fracture zones and seamounts in unprecedented detail. The portal also features globes portraying seafloor geology and a global data set of marine magnetic anomaly identifications. The portal is specifically designed to visualize models of the Earth through geological time. These space-time globes include tectonic reconstructions of the Earth's gravity and magnetic fields, and several models of long-wavelength surface dynamic topography through time, including the interactive plotting of vertical motion histories at selected locations. The globes put the on-the-fly visualization of massive data sets at the fingertips of end-users to stimulate teaching and learning and novel avenues of inquiry.

Combined 30-degree bevel up and down technique against 0-degree phaco tip for phacoemulsification surgery of hard cataracts

Directory of Open Access Journals (Sweden)

Joshi RS

2017-06-01

Full Text Available Rajesh Subhash Joshi, Sonal Jayant Muley Department of Ophthalmology, Vasantrao Naik Government Medical College, Yavatmal, Maharashtra, India Purpose: To evaluate the effective phaco time (EPT, cumulative dissipated energy (CDE and nucleus emulsification time (NET as phaco parameters with 0- and 30-degree phaco tip. Patients and methods: This prospective, interventional and observational case series included 294 patients scheduled for cataract removal by phacoemulsification technique. Patients with nuclear cataracts of grade 4 and 5 nuclear opalescence of Lens Opacities Classification System III were included in the study. Patients were consecutively allocated to phaco chop technique with 0-degree (0-degree group, n=147 and combined bevel up and down position using 30-degree phaco tip (combined bevel up/down group, n=147. The 0-degree group had phacoemulsification with 0-degree phaco tip, while the 30-degree group had chopping of the nucleus with bevel down phaco tip and emulsification of nuclear fragments was accomplished with bevel up tip. EPT, CDE, NET and intraoperative complications were noted and compared between the groups using analysis of variance. Results: Average EPT, CDE and NET were lower in the 30-degree group than in the 0-degree group. However, no statistically significant difference was found in EPT (P=0.0733, CDE (P=0.0663 and NET (P=0.0633 between the two groups. No serious intraoperative complications were noted. The anterior chamber was maintained throughout the procedure in both groups. No patients had wound burn and miosis during the procedure. None of the patients developed bullous keratopathy, uveitis and cystoid macular edema during the follow-up period. Conclusion: Combined bevel up and down 30-degree tip can yield effective hard nucleus phacoemulsification. Bevel down tip of 30-degree helps in effective chopping and bevel up tip assists in emulsification of the nuclear fragments. Although combined bevel up and down 30

[Impact of a training model for the Child Development Evaluation Test in primary care].

Science.gov (United States)

Rizzoli-Córdoba, Antonio; Delgado-Ginebra, Ismael; Cruz-Ortiz, Leopoldo Alfonso; Baqueiro-Hernández, César Iván; Martain-Pérez, Itzamara Jacqueline; Palma-Tavera, Josuha Alexander; Villasís-Keever, Miguel Ángel; Reyes-Morales, Hortensia; O'Shea-Cuevas, Gabriel; Aceves-Villagrán, Daniel; Carrasco-Mendoza, Joaquín; Antillón-Ocampo, Fátima Adriana; Villagrán-Muñoz, Víctor Manuel; Halley-Castillo, Elizabeth; Vargas-López, Guillermo; Muñoz-Hernández, Onofre

The Child Development Evaluation (CDE) Test is a screening tool designed and validated in Mexico for the early detection of child developmental problems. For professionals who will be administering the test in primary care facilities, previous acquisition of knowledge about the test is required in order to generate reliable results. The aim of this work was to evaluate the impact of a training model for primary care workers from different professions through the comparison of knowledge acquired during the training course. The study design was a before/after type considering the participation in a training course for the CDE test as the intervention. The course took place in six different Mexican states from October to December 2013. The same questions were used before and after. There were 394 participants included. Distribution according to professional profile was as follows: general physicians 73.4%, nursing 7.7%, psychology 7.1%, nutrition 6.1% and other professions 5.6%. The questions with the lowest correct answer rates were associated with the scoring of the CDE test. In the initial evaluation, 64.9% obtained a grade lower than 20 compared with 1.8% in the final evaluation. In the initial evaluation only 1.8% passed compared with 75.15% in the final evaluation. The proposed model allows the participants to acquire general knowledge about the CDE Test. To improve the general results in future training courses, it is required to reinforce during training the scoring and interpretation of the test together with the previous lecture of the material by the participants. Copyright © 2015 Hospital Infantil de México Federico Gómez. Publicado por Masson Doyma México S.A. All rights reserved.

Chlorella vulgaris triggers apoptosis in hepatocarcinogenesis-induced rats*

Science.gov (United States)

Mohd Azamai, Emey Suhana; Sulaiman, Suhaniza; Mohd Habib, Shafina Hanim; Looi, Mee Lee; Das, Srijit; Abdul Hamid, Nor Aini; Wan Ngah, Wan Zurinah; Mohd Yusof, Yasmin Anum

2009-01-01

Chlorella vulgaris (CV) has been reported to have antioxidant and anticancer properties. We evaluated the effect of CV on apoptotic regulator protein expression in liver cancer-induced rats. Male Wistar rats (200~250 g) were divided into eight groups: control group (normal diet), CDE group (choline deficient diet supplemented with ethionine in drinking water to induce hepatocarcinogenesis), CV groups with three different doses of CV (50, 150, and 300 mg/kg body weight), and CDE groups treated with different doses of CV (50, 150, and 300 mg/kg body weight). Rats were sacrificed at various weeks and liver tissues were embedded in paraffin blocks for immunohistochemistry studies. CV, at increasing doses, decreased the expression of anti-apoptotic protein, Bcl-2, but increased the expression of pro-apoptotic protein, caspase 8, in CDE rats, which was correlated with decreased hepatoctyes proliferation and increased apoptosis as determined by bromodeoxy-uridine (BrdU) labeling and terminal deoxynucleotidyl transferase mediated dUTP nick-end labeling (TUNEL) assay, respectively. Our study shows that CV has definite chemopreventive effect by inducing apoptosis via decreasing the expression of Bcl-2 and increasing the expression of caspase 8 in hepatocarcinogenesis-induced rats. PMID:19198018

Design and implementation of a computer based site operations log for the ARM Program

International Nuclear Information System (INIS)

Tichler, J.L.; Bernstein, H.J.; Bobrowski, S.F.; Melton, R.B.; Campbell, A.P.; Edwards, D.M.; Kanciruk, P.; Singley, P.T.

1992-01-01

The Atmospheric Radiation Measurement (ARM) Program is a Department of Energy (DOE) research effort to reduce the uncertainties found in general circulation and other models due to the effects of clouds and solar radiation. ARM will provide an experimental testbed for the study of important atmospheric effects, particularly cloud and radiative processes, and testing of parameterizations of the processes for use in atmospheric models. The design of the testbed known as the Clouds and Radiation Testbed (CART), calls for five, long-term field data collection sites. The first site, located in the Southern Great Plains (SGP) in Lamont, OK began operation in the spring of 1992. The CART Data Environment (CDE) is the element of the testbed which acquires the basic observations from the instruments and processes them to meet the ARM requirements. A formal design was used to develop a description of the logical requirements for the CDE. This paper discusses the design and prototype implementation of a part of the CDE known as the site operations log, which records metadata defining the environment within which the data produced by the instruments is collected

The GPlates Portal: Cloud-Based Interactive 3D Visualization of Global Geophysical and Geological Data in a Web Browser.

Directory of Open Access Journals (Sweden)

R Dietmar Müller

Full Text Available The pace of scientific discovery is being transformed by the availability of 'big data' and open access, open source software tools. These innovations open up new avenues for how scientists communicate and share data and ideas with each other and with the general public. Here, we describe our efforts to bring to life our studies of the Earth system, both at present day and through deep geological time. The GPlates Portal (portal.gplates.org is a gateway to a series of virtual globes based on the Cesium Javascript library. The portal allows fast interactive visualization of global geophysical and geological data sets, draped over digital terrain models. The globes use WebGL for hardware-accelerated graphics and are cross-platform and cross-browser compatible with complete camera control. The globes include a visualization of a high-resolution global digital elevation model and the vertical gradient of the global gravity field, highlighting small-scale seafloor fabric such as abyssal hills, fracture zones and seamounts in unprecedented detail. The portal also features globes portraying seafloor geology and a global data set of marine magnetic anomaly identifications. The portal is specifically designed to visualize models of the Earth through geological time. These space-time globes include tectonic reconstructions of the Earth's gravity and magnetic fields, and several models of long-wavelength surface dynamic topography through time, including the interactive plotting of vertical motion histories at selected locations. The globes put the on-the-fly visualization of massive data sets at the fingertips of end-users to stimulate teaching and learning and novel avenues of inquiry.

Evaluation of radiological workstations and web-browser-based image distribution clients for a PACS project in hands-on workshops

International Nuclear Information System (INIS)

Boehm, Thomas; Handgraetinger, Oliver; Voellmy, Daniel R.; Marincek, Borut; Wildermuth, Simon; Link, Juergen; Ploner, Ricardo

2004-01-01

The methodology and outcome of a hands-on workshop for the evaluation of PACS (picture archiving and communication system) software for a multihospital PACS project are described. The following radiological workstations and web-browser-based image distribution software clients were evaluated as part of a multistep evaluation of PACS vendors in March 2001: Impax DS 3000 V 4.1/Impax Web1000 (Agfa-Gevaert, Mortsel, Belgium); PathSpeed V 8.0/PathSpeed Web (GE Medical Systems, Milwaukee, Wis., USA); ID Report/ID Web (Image Devices, Idstein, Germany); EasyVision DX/EasyWeb (Philips Medical Systems, Eindhoven, Netherlands); and MagicView 1000 VB33a/MagicWeb (Siemens Medical Systems, Erlangen, Germany). A set of anonymized DICOM test data was provided to enable direct image comparison. Radiologists (n=44) evaluated the radiological workstations and nonradiologists (n=53) evaluated the image distribution software clients using different questionnaires. One vendor was not able to import the provided DICOM data set. Another vendor had problems in displaying imported cross-sectional studies in the correct stack order. Three vendors (Agfa-Gevaert, GE, Philips) presented server-client solutions with web access. Two (Siemens, Image Devices) presented stand-alone solutions. The highest scores in the class of radiological workstations were achieved by ID Report from Image Devices (p<0.005). In the class of image distribution clients, the differences were statistically not significant. Questionnaire-based evaluation was shown to be useful for guaranteeing systematic assessment. The workshop was a great success in raising interest in the PACS project in a large group of future clinical users. The methodology used in the present study may be useful for other hospitals evaluating PACS. (orig.)

Computational analysis in support of the SSTO flowpath test

Science.gov (United States)

Duncan, Beverly S.; Trefny, Charles J.

1994-10-01

A synergistic approach of combining computational methods and experimental measurements is used in the analysis of a hypersonic inlet. There are four major focal points within this study which examine the boundary layer growth on a compression ramp upstream of the cowl lip of a scramjet inlet. Initially, the boundary layer growth on the NASP Concept Demonstrator Engine (CDE) is examined. The follow-up study determines the optimum diverter height required by the SSTO Flowpath test to best duplicate the CDE results. These flow field computations are then compared to the experimental measurements and the mass average Mach number is determined for this inlet.

Role of Tellurite Resistance Operon in Filamentous Growth of Yersinia pestis in Macrophages.

Science.gov (United States)

Ponnusamy, Duraisamy; Clinkenbeard, Kenneth D

2015-01-01

Yersinia pestis initiates infection by parasitism of host macrophages. In response to macrophage infections, intracellular Y. pestis can assume a filamentous cellular morphology which may mediate resistance to host cell innate immune responses. We previously observed the expression of Y. pestis tellurite resistance proteins TerD and TerE from the terZABCDE operon during macrophage infections. Others have observed a filamentous response associated with expression of tellurite resistance operon in Escherichia coli exposed to tellurite. Therefore, in this study we examine the potential role of Y. pestis tellurite resistance operon in filamentous cellular morphology during macrophage infections. In vitro treatment of Y. pestis culture with sodium tellurite (Na2TeO3) caused the bacterial cells to assume a filamentous phenotype similar to the filamentous phenotype observed during macrophage infections. A deletion mutant for genes terZAB abolished the filamentous morphologic response to tellurite exposure or intracellular parasitism, but without affecting tellurite resistance. However, a terZABCDE deletion mutant abolished both filamentous morphologic response and tellurite resistance. Complementation of the terZABCDE deletion mutant with terCDE, but not terZAB, partially restored tellurite resistance. When the terZABCDE deletion mutant was complemented with terZAB or terCDE, Y. pestis exhibited filamentous morphology during macrophage infections as well as while these complemented genes were being expressed under an in vitro condition. Further in E. coli, expression of Y. pestis terZAB, but not terCDE, conferred a filamentous phenotype. These findings support the role of Y. pestis terZAB mediation of the filamentous response phenotype; whereas, terCDE confers tellurite resistance. Although the beneficial role of filamentous morphological responses by Y. pestis during macrophage infections is yet to be fully defined, it may be a bacterial adaptive strategy to macrophage

[Diagnostic evaluation of the developmental level in children identified at risk of delay through the Child Development Evaluation Test].

Science.gov (United States)

Rizzoli-Córdoba, Antonio; Campos-Maldonado, Martha Carmen; Vélez-Andrade, Víctor Hugo; Delgado-Ginebra, Ismael; Baqueiro-Hernández, César Iván; Villasís-Keever, Miguel Ángel; Reyes-Morales, Hortensia; Ojeda-Lara, Lucía; Davis-Martínez, Erika Berenice; O'Shea-Cuevas, Gabriel; Aceves-Villagrán, Daniel; Carrasco-Mendoza, Joaquín; Villagrán-Muñoz, Víctor Manuel; Halley-Castillo, Elizabeth; Sidonio-Aguayo, Beatriz; Palma-Tavera, Josuha Alexander; Muñoz-Hernández, Onofre

The Child Development Evaluation (or CDE Test) was developed in Mexico as a screening tool for child developmental problems. It yields three possible results: normal, slow development or risk of delay. The modified version was elaborated using the information obtained during the validation study but its properties according to the base population are not known. The objective of this work was to establish diagnostic confirmation of developmental delay in children 16- to 59-months of age previously identified as having risk of delay through the CDE Test in primary care facilities. A population-based cross-sectional study was conducted in one Mexican state. CDE test was administered to 11,455 children 16- to 59-months of age from December/2013 to March/2014. The eligible population represented the 6.2% of the children (n=714) who were identified at risk of delay through the CDE Test. For inclusion in the study, a block randomization stratified by sex and age group was performed. Each participant included in the study had a diagnostic evaluation using the Battelle Development Inventory, 2 nd edition. From the 355 participants included with risk of delay, 65.9% were male and 80.2% were from rural areas; 6.5% were false positives (Total Development Quotient ˃90) and 6.8% did not have any domain with delay (Domain Developmental Quotient <80). The proportion of delay for each domain was as follows: communication 82.5%; cognitive 80.8%; social-personal 33.8%; motor 55.5%; and adaptive 41.7%. There were significant differences in the percentages of delay both by age and by domain/subdomain evaluated. In 93.2% of the participants, developmental delay was corroborated in at least one domain evaluated. Copyright © 2015 Hospital Infantil de México Federico Gómez. Publicado por Masson Doyma México S.A. All rights reserved.

Dry Eye Following Phacoemulsification Surgery and its Relation to Associated Intraoperative Risk Factors.

Science.gov (United States)

Sahu, P K; Das, G K; Malik, Aman; Biakthangi, Laura

2015-01-01

The purpose was to study dry eye following phacoemulsification surgery and analyze its relation to associated intra-operative risk factors. A prospective observational study was carried out on 100 eyes of 100 patients without preoperative dry eye. Schirmer's Test I, tear meniscus height, tear break-up time, and lissamine green staining of cornea and conjunctiva were performed preoperatively and at 5 days, 10 days, 1-month, and 2 months after phacoemulsification surgery, along with the assessment of subjective symptoms, using the dry eye questionnaire. The correlations between these values and the operating microscope light exposure time along with the cumulative dissipated energy (CDE) were investigated. There was a significant deterioration of all dry eye test values following phacoemulsification surgery along with an increase in subjective symptoms. These values started improving after 1-month postoperatively, but preoperative levels were not achieved till 2 months after surgery. Correlations of dry eye test values were noted with the operating microscope light exposure time and CDE, but they were not significant. Phacoemulsification surgery is capable of inducing dry eye, and patients should be informed accordingly prior to surgery. The clinician should also be cognizant that increased CDE can induce dry eyes even in eyes that were healthy preoperatively. In addition, intraoperative exposure to the microscopic light should be minimized.

A browser-based 3D Visualization Tool designed for comparing CERES/CALIOP/CloudSAT level-2 data sets.

Science.gov (United States)

Chu, C.; Sun-Mack, S.; Chen, Y.; Heckert, E.; Doelling, D. R.

2017-12-01

In Langley NASA, Clouds and the Earth's Radiant Energy System (CERES) and Moderate Resolution Imaging Spectroradiometer (MODIS) are merged with Cloud-Aerosol Lidar with Orthogonal Polarization (CALIOP) on the Cloud-Aerosol Lidar and Infrared Pathfinder Satellite Observation (CALIPSO) and CloudSat Cloud Profiling Radar (CPR). The CERES merged product (C3M) matches up to three CALIPSO footprints with each MODIS pixel along its ground track. It then assigns the nearest CloudSat footprint to each of those MODIS pixels. The cloud properties from MODIS, retrieved using the CERES algorithms, are included in C3M with the matched CALIPSO and CloudSat products along with radiances from 18 MODIS channels. The dataset is used to validate the CERES retrieved MODIS cloud properties and the computed TOA and surface flux difference using MODIS or CALIOP/CloudSAT retrieved clouds. This information is then used to tune the computed fluxes to match the CERES observed TOA flux. A visualization tool will be invaluable to determine the cause of these large cloud and flux differences in order to improve the methodology. This effort is part of larger effort to allow users to order the CERES C3M product sub-setted by time and parameter as well as the previously mentioned visualization capabilities. This presentation will show a new graphical 3D-interface, 3D-CERESVis, that allows users to view both passive remote sensing satellites (MODIS and CERES) and active satellites (CALIPSO and CloudSat), such that the detailed vertical structures of cloud properties from CALIPSO and CloudSat are displayed side by side with horizontally retrieved cloud properties from MODIS and CERES. Similarly, the CERES computed profile fluxes whether using MODIS or CALIPSO and CloudSat clouds can also be compared. 3D-CERESVis is a browser-based visualization tool that makes uses of techniques such as multiple synchronized cursors, COLLADA format data and Cesium.

Journal of Earth System Science | Indian Academy of Sciences

Indian Academy of Sciences (India)

Solute transport; convection–dispersion equation; boundary layer theory; ... to convection–dispersion equation (CDE) based on boundary layer theory has been ... Sciences and Natural Resources Research, Chinese Academy of Sciences, ...

Ladda

DEFF Research Database (Denmark)

Grall, Arnaud; Folz, Pauline; Montoya, Gabriela

2017-01-01

of browsers where end-user devices collaborate to process SPARQL queries over TPF servers. In this demo, we present Ladda: a framework for query execution in a fog of browsers. Thanks to client-side inter-query parallelism, Ladda reduces the makespan of the workload and improves the overall throughput......Clients of Triple Pattern Fragments (TPF) interfaces demonstrate how a SPARQL query engine can run within a browser and re-balance the load from the server to the clients. Imagine connecting these browsers using a browser-to-browser connection, sharing bandwidth and CPU. This builds a fog...

Design limits for HT9 cladding using stress-induced aging data

International Nuclear Information System (INIS)

Fox, G.L.

1986-04-01

Stress-temperature design guidelines are developed for the ferritic/martensitic cladding material HT9. High temperature operation for HT9 may cause microstructural changes/aging which softens the structure and causes increased creep rates. Higher creep strains means cladding breech becomes more probable before the end of the expected pin lifetime. Tertiary creep is considered an indication of microstructural changes and is to be avoided in fuel pin operation. The creep rate correlation, which includes tertiary creep, is examined for information on stress-temperature relationships which promote aging. This approach leads to design limits for HT9 which are compared with expected hot channel conditions for fuel pins in the Core Demonstration Experiment (CDE) planned for FFTF. The results show aging should not be significant for CDE

Defending dreamer’s rock

OpenAIRE

Beck, Günter U.

2007-01-01

Defending dreamer’s rock : Geschichte, Geschichtsbewusstsein und Geschichtskultur im Native drama der USA und Kanadas. - Trier : WVT Wiss. Verl. Trier, 2007. - 445 S. - (CDE - Studies ; 14). - Zugl.: Augsburg, Univ., Diss., 2006

NIH Common Data Elements Repository

Data.gov (United States)

U.S. Department of Health & Human Services — The NIH Common Data Elements (CDE) Repository has been designed to provide access to structured human and machine-readable definitions of data elements that have...

Clinical study using a new phacoemulsification system with surgical intraocular pressure control.

Science.gov (United States)

Solomon, Kerry D; Lorente, Ramón; Fanney, Doug; Cionni, Robert J

2016-04-01

To compare cumulative dissipated energy (CDE), aspiration fluid used, and aspiration time during phacoemulsification cataract extraction using 2 surgical configurations. Two clinical sites in the United States and 1 in Spain. Prospective randomized clinical case series. For each patient, the first eye having surgery was randomized to the active-fluidics configuration (Centurion Vision System with Active Fluidics, 0.9 mm 45-degree Intrepid Balanced tip, and 0.9 mm Intrepid Ultra infusion sleeve) or the gravity-fluidics configuration (Infiniti Vision System with gravity fluidics, 0.9 mm 45-degree Mini-Flared Kelman tip, and 0.9 mm Ultra infusion sleeve). Second-eye surgery was completed within 14 days after first-eye surgery using the alternate configuration. The CDE, aspiration fluid used, and aspiration time were compared between configurations, and adverse events were summarized. Patient demographics and cataract characteristics were similar between configurations (100 per group). The CDE was significantly lower with the active-fluidics configuration than with the gravity-fluidics configuration (mean ± standard error, 4.32 ± 0.28 percent-seconds) (P < .001). The active-fluidics configuration used significantly less aspiration fluid than the gravity-fluidics configuration (mean 46.56 ± 1.39 mL versus 52.68 ± 1.40 mL) (P < .001) and required significantly shorter aspiration time (mean 151.9 ± 4.1 seconds versus 167.6 ± 4.1 seconds) (P < .001). No serious ocular adverse events related to the study devices or device deficiencies were observed. Significantly less CDE, aspiration fluid used, and aspiration time were observed with the active-fluidics configuration than with the gravity-fluidics configuration, showing improved surgical efficiency. Drs. Solomon and Cionni are consultants to Alcon Research, Ltd., and received compensation for conduct of the study. Dr. Lorente received compensation for clinical work in the study. Mr. Fanney is an

Regulation of the Min Cell Division Inhibition Complex by the Rcs Phosphorelay in Proteus mirabilis.

Science.gov (United States)

Howery, Kristen E; Clemmer, Katy M; Şimşek, Emrah; Kim, Minsu; Rather, Philip N

2015-08-01

A key regulator of swarming in Proteus mirabilis is the Rcs phosphorelay, which represses flhDC, encoding the master flagellar regulator FlhD4C2. Mutants in rcsB, the response regulator in the Rcs phosphorelay, hyperswarm on solid agar and differentiate into swarmer cells in liquid, demonstrating that this system also influences the expression of genes central to differentiation. To gain a further understanding of RcsB-regulated genes involved in swarmer cell differentiation, transcriptome sequencing (RNA-Seq) was used to examine the RcsB regulon. Among the 133 genes identified, minC and minD, encoding cell division inhibitors, were identified as RcsB-activated genes. A third gene, minE, was shown to be part of an operon with minCD. To examine minCDE regulation, the min promoter was identified by 5' rapid amplification of cDNA ends (5'-RACE), and both transcriptional lacZ fusions and quantitative real-time reverse transcriptase (qRT) PCR were used to confirm that the minCDE operon was RcsB activated. Purified RcsB was capable of directly binding the minC promoter region. To determine the role of RcsB-mediated activation of minCDE in swarmer cell differentiation, a polar minC mutation was constructed. This mutant formed minicells during growth in liquid, produced shortened swarmer cells during differentiation, and exhibited decreased swarming motility. This work describes the regulation and role of the MinCDE cell division system in P. mirabilis swarming and swarmer cell elongation. Prior to this study, the mechanisms that inhibit cell division and allow swarmer cell elongation were unknown. In addition, this work outlines for the first time the RcsB regulon in P. mirabilis. Taken together, the data presented in this study begin to address how P. mirabilis elongates upon contact with a solid surface. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

IDRC Login

International Development Research Centre (IDRC) Digital Library (Canada)

JavaScript required. JavaScript is required. This web browser does not support JavaScript or JavaScript in this web browser is not enabled. To find out if your web browser supports JavaScript or to enable JavaScript, see web browser help. IDRC. Sign in with your organizational account. Keep me signed in. Sign in.

77 FR 59705 - Submission for OMB Review; Comment Request

Science.gov (United States)

2012-09-28

... to investors in the form of a tax credit, which is expected to stimulate investment in new private capital in low income communities. Applicants must be a CDE to apply for allocation. Affected Public...

A simple method for estimating the convection- dispersion equation ...

African Journals Online (AJOL)

Jane

2011-08-31

Aug 31, 2011 ... approach of modeling solute transport in porous media uses the deterministic ... Methods of estimating CDE transport parameters can be divided into statistical ..... diffusion-type model for longitudinal mixing of fluids in flow.

Comparative Analysis of the ABO and Rh CDE Phenotype ...

African Journals Online (AJOL)

Data presented in this report further evaluate the distribution and inter-ethnic ... blood groups among the four ethnic groups within the students' population did not ... However, slight variations were observed with the B allele with Ijaws having a ...

Journal of Genetics | Indian Academy of Sciences

Indian Academy of Sciences (India)

... freshwater catfish, which is listed as endangered under A3cde+ 4acde ver. ... development of microsatellite loci in Indian catfish species,C. batrachus (magur) ... ICAR-National Bureau of Fish Genetic Resources, Lucknow 226 002, India ...

Determinations of 90Sr, 137Cs, 226Ra, 228Ra, 210Pb, 210Po contents in chinese diet and estimations of internal doses due to these radionuclides

International Nuclear Information System (INIS)

Zhu Hongda; Wang Shouliang; Meng Wei; Wang Daoping; Zheng Xiujun; Liu Qingfen; Liu Peng

1993-01-01

As a part of Chinese Total Diet Survey taken place in 1990, the authors report the determined results on 90 Sr, 137 Cs, 226 Ra, 228 Ra, 210 Pb and 210 Pb and 210 Po contents in various foods of Chinese total diet. Based on obtained dietary composition and the determined contents, the Annual Intakes (AI) and Committed Dose Equivalents (CDE) for the public by ingestion were estimated. It is shown that the total CDE for 6 radionuclides is about 0.24 mSv/a. The food categories and nuclides whose relative contributions to the total are dominant were vegetables, aquatic products and cereal, and 210 Pb, 210 Po, 228 Ra, respectively. The results have updated the data from 1982 survey and have complemented important information for water consumption. The regional difference of dietary compositions and resultant internal doses are discussed as well

Firefox add-ons for medical reference.

Science.gov (United States)

Hoy, Matthew B

2010-07-01

Firefox is a Web browser created by the Mozilla project, an open-source software group. Features of the browser include automated updates, advanced security and standards compliance, and the ability to add functionality through add-ons and extensions. First introduced in 2004, Firefox now accounts for roughly 30% of the browser market. This article will focus primarily on add-ons and extensions available for the browser that are useful to medical researchers.

AN INSECURE WILD WEB: A LARGE-SCALE STUDY OF EFFECTIVENESS OF WEB SECURITY MECHANISMS

Directory of Open Access Journals (Sweden)

Kailas Patil

2017-03-01

Full Text Available This research work presents a large-scale study of the problems in real-world web applications and widely-used mobile browsers. Through a large-scale experiment, we find inconsistencies in Secure Socket Layer (SSL warnings among popular mobile web browsers (over a billion users download. The majority of popular mobile browsers on the Google Play Store either provide incomplete information in SSL warnings shown to users or failed to provide SSL warnings in the presence of security certificate errors, thus making it a difficult task even for a security savvy user to make an informed decision. In addition, we find that 28% of websites are using mixed content. Mixed content means a secure website (https loads a sub resource using insecure HTTP protocol. The mixed content weakens the security of entire website and vulnerable to man-in-the-middle (MITM attacks. Furthermore, we inspected the default behavior of mobile web browsers and report that majority of mobile web browsers allow execution of mixed content in web applications, which implies billions of mobile browser users are vulnerable to eavesdropping and MITM attacks. Based on our findings, we make recommendations for website developers, users and browser vendors.

The rise of Chrome

OpenAIRE

Jonathan Tamary; Dror G. Feitelson

2015-01-01

Since Chrome’s initial release in 2008 it has grown in market share, and now controls roughly half of the desktop browsers market. In contrast with Internet Explorer, the previous dominant browser, this was not achieved by marketing practices such as bundling the browser with a pre-loaded operating system. This raises the question of how Chrome achieved this remarkable feat, while other browsers such as Firefox and Opera were left behind. We show that both the performance of Chrome and its co...

Beauty and the Beast: Diverting modern web browsers to build unique browser fingerprints

OpenAIRE

Laperdrix , Pierre; Rudametkin , Walter; Baudry , Benoit

2016-01-01

International audience; Worldwide, the number of people and the time spent browsing the web keeps increasing. Accordingly, the technologies to enrich the user experience are evolving at an amazing pace. Many of these evolutions provide for a more interactive web (e.g., boom of JavaScript libraries, weekly innovations in HTML5), a more available web (e.g., explosion of mobile devices), a more secure web (e.g., Flash is disappearing, NPAPI plugins are being deprecated), and a more private web (...

Knowledge and attitude about relining of complete dentures in clinical practice: A cross-sectional study

Directory of Open Access Journals (Sweden)

Akhil Rathi

2018-01-01

Conclusion: Awareness and scientific knowledge about the relining materials and procedure should be enhanced within general dental practitioners through CDE program and workshops. Steps should be taken to include relining procedure as a part of undergraduate clinical curriculum as well as internship program.

Common data elements for clinical research in mitochondrial disease: a National Institute for Neurological Disorders and Stroke project

NARCIS (Netherlands)

Karaa, A.; Rahman, S.; Lombes, A.; Yu-Wai-Man, P.; Sheikh, M.K.; Alai-Hansen, S.; Cohen, B.H.; Dimmock, D.; Emrick, L.; Falk, M.J.; McCormack, S.; Mirsky, D.; Moore, T.; Parikh, S.; Shoffner, J.; Taivassalo, T.; Tarnopolsky, M.; Tein, I.; Odenkirchen, J.C.; Goldstein, A.; Koene, S.; Smeitink, J.A.M.; et al.,

2017-01-01

OBJECTIVES: The common data elements (CDE) project was developed by the National Institute of Neurological Disorders and Stroke (NINDS) to provide clinical researchers with tools to improve data quality and allow for harmonization of data collected in different research studies. CDEs have been

Use of online sources of information by dental practitioners

DEFF Research Database (Denmark)

Funkhouser, Ellen; Agee, Bonita S; Gordan, Valeria V

2014-01-01

journals online, obtained continuing education (CDE) through online sources, rated an online source as most influential, and reported frequently using an online source for guidance. Demographics, journals read, and use of various sources of information for practice guidance in terms of frequency...

Leadership Curriculum and Materials Used by High School Agricultural Science Teachers: A National Study of the Pre-"LifeKnowledge" Days

Science.gov (United States)

Morgan, A. Christian; Fuhrman, Nicholas E.; King, Diana L.; Flanders, Frank B.; Rudd, Rick D.

2013-01-01

Agricultural science programs have provided many opportunities for leadership education through classroom, supervised agricultural experience (SAE), and FFA Organization activities. Past studies have focused on leadership developed through activities such as career development events (CDE), SAE activities, FFA Organization conventions, and other…

Biogenesis and Membrane Targeting of Lipoproteins.

Science.gov (United States)

Narita, Shin-Ichiro; Tokuda, Hajime

2010-09-01

Bacterial lipoproteins represent a unique class of membrane proteins, which are anchored to membranes through triacyl chains attached to the amino-terminal cysteine. They are involved in various functions localized in cell envelope. Escherichia coli possesses more than 90 species of lipoproteins, most of which are localized in the outer membrane, with others being in the inner membrane. All lipoproteins are synthesized in the cytoplasm with an N-terminal signal peptide, translocated across the inner membrane by the Sec translocon to the periplasmic surface of the inner membrane, and converted to mature lipoproteins through sequential reactions catalyzed by three lipoprotein-processing enzymes: Lgt, LspA, and Lnt. The sorting of lipoproteins to the outer membrane requires a system comprising five Lol proteins. An ATP-binding cassette transporter, LolCDE, initiates the sorting by mediating the detachment of lipoproteins from the inner membrane. Formation of the LolA-lipoprotein complex is coupled to this LolCDE-dependent release reaction. LolA accommodates the amino-terminal acyl chain of lipoproteins in its hydrophobic cavity, thereby generating a hydrophilic complex that can traverse the periplasmic space by diffusion. Lipoproteins are then transferred to LolB on the outer membrane and anchored to the inner leaflet of the outer membrane by the action of LolB. In contrast, since LolCDE does not recognize lipoproteins possessing Asp at position +2, these lipoproteins remain anchored to the inner membrane. Genes for Lol proteins are widely conserved among gram-negative bacteria, and Lol-mediated outer membrane targeting of lipoproteins is considered to be the general lipoprotein localization mechanism.

Simulation of chloride transport based description soil structure

International Nuclear Information System (INIS)

Mahmood-ul-Hassan, M.; Akhtar, M.S.; Gill, S.M.; Nabi, G.

2003-01-01

There is a need of environmental implications of rapid appearance of surface by applying chemical at depths below the vadose zone (tile line or shallow groundwater) for developing better insight into solute flow mechanism through the arable lands. Transport of chloride, a representative non-adsorbing solute, through a moderately structured silty clay loam soil (Gujranwala series, Typic Ustochrepts) and an un-structured sandy loam soil (Nabipur series, Typic Camborthid) was characterized and two existing models viz. convection dispersion equation (CDE) and preferential flow models were tested. The flux average of solute concentration in the outflow as a function of cumulative drainage was fitted to the models. The CDE fitted, relatively, better in the non-structured soil than in the moderately structured soil. Dispersivity value determined by CDE was very high for the structured soil which is physically not possible. The preferential flow model fitted well in the Gujranwala soil, but not in the Nabipur soil. The breakthrough characteristics i.e. drainage to peak concentration (Dp), symmetry coefficient (SC), skewness, and kurtosis were compared. Chloride breakthrough was earlier than expected based on piston flow. It indicated preferential flow in both the soils, yet, immediate appearance of the tracer in the Gujranwala soil demonstrated even larger magnitude of the preferential flow. Breakthrough curves' parameters indicated a large amount of the solute movement through the preferred pathways by passing the soil matrix in the Gujranwala soil. The study suggests that some soil structure parameters (size/shape and degree of aggregation) should be incorporated in the solute transport models.(author)

Enabling remote access to projects in a large collaborative environment

International Nuclear Information System (INIS)

Pais, V.F.; Balme, S.; Akpangny, H.S.; Iannone, F.; Strand, P.

2010-01-01

In the context of the Integrated Tokamak Modelling Task Force, a large number of software projects are made available to the task force members, including developers and end-users. This has been achieved through a combination of tools and technologies. The front-end is represented by a Java based portal system exposing a PHP project management system, GForge. These two applications are linked by a single sign-on mechanism, Shibboleth , and through secure HTTP request rewriting, where appropriate. Furthermore, the underlying storage facility is an OpenAFS distributed file system and the user base comes from both a network information server and an LDAP directory. Security mechanisms are those of a distributed system, with multiple access points and protocols used for reading and writing data. The present paper presents the challenges of integrating these different technologies and programming languages into a single, working, application presented to its users as a web portal. Chaining of the tools is explored through the user perspective, with an in-depth overview of the background transitions between the various systems involved with regard to security requirements for the front-end nodes and the policies as seen by the users.

Enabling remote access to projects in a large collaborative environment

Energy Technology Data Exchange (ETDEWEB)

Pais, V.F., E-mail: pvf2005@gmail.co [Laser Department, National Institute for Laser, Plasma and Radiation Physics, P.O. Box MG-36, Bucharest 077125, Association EURATOM/MEdC (Romania); Balme, S.; Akpangny, H.S. [Association EURATOM CEA/IRFM CEA-Cadarache (France); Iannone, F. [Associazione EURATOM-ENEA sulla Fusione, C.R.ENEA Frascati, via E.Fermi 45, 00044 Frascati, Rome (Italy); Strand, P. [Department of Radio and Space Science, Chalmers University of Technology, SE-412 96 Goteborg (Sweden)

2010-07-15

In the context of the Integrated Tokamak Modelling Task Force, a large number of software projects are made available to the task force members, including developers and end-users. This has been achieved through a combination of tools and technologies. The front-end is represented by a Java based portal system exposing a PHP project management system, GForge. These two applications are linked by a single sign-on mechanism, Shibboleth , and through secure HTTP request rewriting, where appropriate. Furthermore, the underlying storage facility is an OpenAFS distributed file system and the user base comes from both a network information server and an LDAP directory. Security mechanisms are those of a distributed system, with multiple access points and protocols used for reading and writing data. The present paper presents the challenges of integrating these different technologies and programming languages into a single, working, application presented to its users as a web portal. Chaining of the tools is explored through the user perspective, with an in-depth overview of the background transitions between the various systems involved with regard to security requirements for the front-end nodes and the policies as seen by the users.

Retrieving high-resolution images over the Internet from an anatomical image database

Science.gov (United States)

Strupp-Adams, Annette; Henderson, Earl

1999-12-01

The Visible Human Data set is an important contribution to the national collection of anatomical images. To enhance the availability of these images, the National Library of Medicine has supported the design and development of a prototype object-oriented image database which imports, stores, and distributes high resolution anatomical images in both pixel and voxel formats. One of the key database modules is its client-server Internet interface. This Web interface provides a query engine with retrieval access to high-resolution anatomical images that range in size from 100KB for browser viewable rendered images, to 1GB for anatomical structures in voxel file formats. The Web query and retrieval client-server system is composed of applet GUIs, servlets, and RMI application modules which communicate with each other to allow users to query for specific anatomical structures, and retrieve image data as well as associated anatomical images from the database. Selected images can be downloaded individually as single files via HTTP or downloaded in batch-mode over the Internet to the user's machine through an applet that uses Netscape's Object Signing mechanism. The image database uses ObjectDesign's object-oriented DBMS, ObjectStore that has a Java interface. The query and retrieval systems has been tested with a Java-CDE window system, and on the x86 architecture using Windows NT 4.0. This paper describes the Java applet client search engine that queries the database; the Java client module that enables users to view anatomical images online; the Java application server interface to the database which organizes data returned to the user, and its distribution engine that allow users to download image files individually and/or in batch-mode.

ORiON - Vol 20, No 2 (2004)

African Journals Online (AJOL)

A single product perishing inventory model with demand interaction · EMAIL FREE FULL TEXT EMAIL FREE FULL TEXT · DOWNLOAD FULL TEXT DOWNLOAD FULL TEXT. VSS Yadavalli, CdeW van Schoor, JJ Strasheim, S Udayabaskaran, 109-124. http://dx.doi.org/10.5784/20-2-10 ...

78 FR 19074 - Proposed Collection: Comment Request

Science.gov (United States)

2013-03-28

... Community Development Entity (CDE)/New Markets Tax Credit material events, as well as Community Development... specific questions, whether or not the event will have an impact on areas of operations that are of.... Estimated Number of Respondents: 200. Estimated Annual Time per Respondent: .25 Hours. Estimated Total...

75 FR 11993 - Submission for OMB Review; Comment Request

Science.gov (United States)

2010-03-12

... before April 12, 2010 to be assured of consideration. Community Development Financial Institutions (CDFI... related to Community Development Entity (CDE)/New Markets Tax Credit material events, as well as Community Development Financial Institutions (CDFI) material events in a single form. The form will provide a more...

PACS on mobile devices

Science.gov (United States)

Parikh, Ashesh; Mehta, Nihal

2015-03-01

Recent advances in internet browser technologies makes it possible to incorporate advanced functionality of a traditional PACS for viewing DICOM medical images on standard web browsers without the need to pre-install any plug-ins, apps or software. We demonstrate some of the capabilities of standard web browsers setting the stage for a cloud-based PACS.

Herbivores shape woody plant communities in the Kruger National Park: Lessons from three long-term exclosures

Directory of Open Access Journals (Sweden)

Benjamin J. Wigley

2014-03-01

Full Text Available The role of grazers in determining vegetation community compositions and structuring plant communities is well recognised in grassy systems. The role of browsers in affecting savanna woody plant communities is less clear. We used three long-term exclosures in the Kruger National Park to determine the effect of browsers on species compositions and population structures of woody communities. Species assemblages, plant traits relating to browsing and soil nutrients were compared inside and outside of the exclosures. Our results showed that browsers directly impact plant species distributions, densities and population structures by actively selecting for species with traits which make them desirable to browsers. Species with high leaf nitrogen, low total phenolic content and low acid detergent lignin appeared to be favoured by herbivores and therefore tend to be rare outside of the exclosures. This study also suggested that browsers have important indirect effects on savanna functioning, as the reduction of woody cover can result in less litter of lower quality, which in turn can result in lower soil fertility. However, the magnitude of browser effects appeared to depend on inherent soil fertility and climate. Conservation implications: Browsers were shown to have significant impacts on plant communities. They have noticeable effects on local species diversity and population structure, as well as soil nutrients. These impacts are shown to be related to the underlying geology and climate. The effects of browsers on woody communities were shown to be greater in low rainfall, fertile areas compared to high rainfall, infertile soils.

Determinations of [sup 90]Sr, [sup 137]Cs, [sup 226]Ra, [sup 228]Ra, [sup 210]Pb, [sup 210]Po contents in chinese diet and estimations of internal doses due to these radionuclides

Energy Technology Data Exchange (ETDEWEB)

Hongda, Zhu; Shouliang, Wang; Wei, Meng; Daoping, Wang; Xiujun, Zheng; Qingfen, Liu; Peng, Liu [Chinese Academy of Medical Sciences, Tianjin, TJ (China). Inst. of Radiomedicine

1993-03-01

As a part of Chinese Total Diet Survey taken place in 1990, the authors report the determined results on [sup 90]Sr, [sup 137]Cs, [sup 226]Ra, [sup 228]Ra, [sup 210]Pb and [sup 210]Pb and [sup 210]Po contents in various foods of Chinese total diet. Based on obtained dietary composition and the determined contents, the Annual Intakes (AI) and Committed Dose Equivalents (CDE) for the public by ingestion were estimated. It is shown that the total CDE for 6 radionuclides is about 0.24 mSv/a. The food categories and nuclides whose relative contributions to the total are dominant were vegetables, aquatic products and cereal, and [sup 210]Pb, [sup 210]Po, [sup 228]Ra, respectively. The results have updated the data from 1982 survey and have complemented important information for water consumption. The regional difference of dietary compositions and resultant internal doses are discussed as well.

Characterizing pesticide sorption and degradation in microscale biopurification systems using column displacement experiments

International Nuclear Information System (INIS)

Wilde, Tineke de; Mertens, Jan; Simunek, Jirka; Sniegowksi, Kristel; Ryckeboer, Jaak; Jaeken, Peter; Springael, Dirk; Spanoghe, Pieter

2009-01-01

Biopurification systems treating pesticide contaminated water are very efficient, however they operate as a black box. Processes inside the system are not yet characterized. To optimize the performance, knowledge of degradation and retention processes needs to be generated. Therefore, displacement experiments were carried out for four pesticides (isoproturon, bentazone, metalaxyl, linuron) in columns containing different organic mixtures. Bromide, isoproturon and bentazone breakthrough curves (BTCs) were well described using the convection-dispersion equation (CDE) and a first-order degradation kinetic approach. Metalaxyl and linuron BTCs were well described using the CDE model expanded with Monod-type kinetics. Freundlich sorption, first-order degradation and Monod kinetics coefficients were fitted to the BTCs. Fitted values of the distribution coefficient K f,column were much lower than those determined from batch experiments. Based on mobility, pesticides were ranked as: bentazone > metalaxyl - isoproturon > linuron. Based on degradability, pesticides were ranked as: linuron > metalaxyl - isoproturon > bentazone. - Transport of pesticides in column experiments containing organic substrates

Characterizing pesticide sorption and degradation in microscale biopurification systems using column displacement experiments

Energy Technology Data Exchange (ETDEWEB)

Wilde, Tineke de [Laboratory of Crop Protection Chemistry, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, B-9000 Ghent (Belgium)], E-mail: tineke.dewilde@UGent.be; Mertens, Jan [Division Soil and Water Management, Faculty of Bioscience Engineering, K.U. Leuven, Kasteelpark Arenberg 20, B-3001 Heverlee (Belgium); Simunek, Jirka [Department of Environmental Sciences, University of California, Riverside, CA (United States); Sniegowksi, Kristel; Ryckeboer, Jaak [Division Soil and Water Management, Faculty of Bioscience Engineering, K.U. Leuven, Kasteelpark Arenberg 20, B-3001 Heverlee (Belgium); Jaeken, Peter [PCF-Royal Research Station of Gorsem, De Brede Akker 13, 3800 Sint-Truiden (Belgium); Springael, Dirk [Division Soil and Water Management, Faculty of Bioscience Engineering, K.U. Leuven, Kasteelpark Arenberg 20, B-3001 Heverlee (Belgium); Spanoghe, Pieter [Laboratory of Crop Protection Chemistry, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, B-9000 Ghent (Belgium)

2009-02-15

Biopurification systems treating pesticide contaminated water are very efficient, however they operate as a black box. Processes inside the system are not yet characterized. To optimize the performance, knowledge of degradation and retention processes needs to be generated. Therefore, displacement experiments were carried out for four pesticides (isoproturon, bentazone, metalaxyl, linuron) in columns containing different organic mixtures. Bromide, isoproturon and bentazone breakthrough curves (BTCs) were well described using the convection-dispersion equation (CDE) and a first-order degradation kinetic approach. Metalaxyl and linuron BTCs were well described using the CDE model expanded with Monod-type kinetics. Freundlich sorption, first-order degradation and Monod kinetics coefficients were fitted to the BTCs. Fitted values of the distribution coefficient K{sub f,column} were much lower than those determined from batch experiments. Based on mobility, pesticides were ranked as: bentazone > metalaxyl - isoproturon > linuron. Based on degradability, pesticides were ranked as: linuron > metalaxyl - isoproturon > bentazone. - Transport of pesticides in column experiments containing organic substrates.

78 FR 32302 - Submission for OMB Review; Comment Request

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2013-05-29

... burden estimate, or any other aspect of the information collection, including suggestion for reducing the... capture information related to Community Development Entity (CDE)/New Markets Tax Credit material events... indicate, through a series of specific questions, whether or not the event will have an impact on areas of...

Effect of lineage-specific metabolic traits of Lactobacillus reuteri on sourdough microbial ecology.

Science.gov (United States)

Lin, Xiaoxi B; Gänzle, Michael G

2014-09-01

This study determined the effects of specific metabolic traits of Lactobacillus reuteri on its competitiveness in sourdoughs. The competitiveness of lactobacilli in sourdough generally depends on their growth rate; acid resistance additionally contributes to competitiveness in sourdoughs with long fermentation times. Glycerol metabolism via glycerol dehydratase (gupCDE) accelerates growth by the regeneration of reduced cofactors; glutamate metabolism via glutamate decarboxylase (gadB) increases acid resistance by generating a proton motive force. Glycerol and glutamate metabolisms are lineage-specific traits in L. reuteri; therefore, this study employed glycerol dehydratase-positive sourdough isolates of human-adapted L. reuteri lineage I, glutamate decarboxylase-positive strains of rodent-adapted L. reuteri lineage II, as well as mutants with deletions in gadB or gupCDE. The competitivenesses of the strains were quantified by inoculation of wheat and sorghum sourdoughs with defined strains, followed by propagation of doughs with a 10% inoculum and 12-h or 72-h fermentation cycles. Lineage I L. reuteri strains dominated sourdoughs propagated with 12-h fermentation cycles; lineage II L. reuteri strains dominated sourdoughs propagated with 72-h fermentation cycles. L. reuteri 100-23ΔgadB was outcompeted by its wild-type strain in sourdoughs fermented with 72-h fermentation cycles; L. reuteri FUA3400ΔgupCDE was outcompeted by its wild-type strain in sourdoughs fermented with both 12-h and 72-h fermentation cycles. Competition experiments with isogenic pairs of strains resulted in a constant rate of strain displacement of the less competitive mutant strain. In conclusion, lineage-specific traits of L. reuteri determine the competitiveness of this species in sourdough fermentations. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Solute transport in aggregated and layered porous media

International Nuclear Information System (INIS)

Koch, S.

1993-01-01

This work is a contribution to research in soil physics dealing with solute transport in porous media. The influence of structural inhomogeneities on solute transport is investigated. Detailed experiments at the laboratory scale are used to enlighten distinct processes which cannot be studied separately at field scale. Two main aspects are followed up: (i) to show the influence of aggregation of a porous medium on breakthrough time and spreading of an inert tracer and consequences on the estimation of parameter values of models describing solute transport in aggregated systems, (ii) to investigate the influences on the dispersion process when stratification is perpendicular to the direction of flow. Several concepts of modelling solute transport in soil are discussed. Models based on the convection-dispersion equation (CDE) are emphasized because they are used here to model solute transport experiments conducted with aggregated porous media. Stochastic concepts are introduced to show the limitations of the deterministic CDE approaches. Experiments are done in columns containing two kinds of solid phases and were saturated with water. The solid phases are porous and solid glass beads exhibiting a distinctly unimodal or bimodal pore size distribution. Experimental breakthrough curves (BTCs) are modelled with the CDE, a bicontinuum model with a phenomenological mass transfer rate and a bicontinuum spherical diffusion model. Experiments are also done in columns that are unsaturated containing porous materials that are layered. Flow is made at a steady rate. It is shown that layer boundaries have a severe influence on lateral mixing. They may force streamlines to converge or cause a lateral redistribution of solutes. (author) figs., tabs., 122 refs

The rise of Chrome

Directory of Open Access Journals (Sweden)

Jonathan Tamary

2015-10-01

Full Text Available Since Chrome’s initial release in 2008 it has grown in market share, and now controls roughly half of the desktop browsers market. In contrast with Internet Explorer, the previous dominant browser, this was not achieved by marketing practices such as bundling the browser with a pre-loaded operating system. This raises the question of how Chrome achieved this remarkable feat, while other browsers such as Firefox and Opera were left behind. We show that both the performance of Chrome and its conformance with relevant standards are typically better than those of the two main contending browsers, Internet Explorer and Firefox. In addition, based on a survey of the importance of 25 major features, Chrome product managers seem to have made somewhat better decisions in selecting where to put effort. Thus the rise of Chrome is consistent with technical superiority over the competition.

Survey of Michigan dentists and radiation oncologists on oral care of patients undergoing head and neck radiation therapy.

Science.gov (United States)

Patel, Yoshita; Bahlhorn, Hannah; Zafar, Saniya; Zwetchkenbaum, Samuel; Eisbruch, Avraham; Murdoch-Kinch, Carol Anne

2012-07-01

Oral complications of radiation therapy for head and neck cancer (HNC) are associated with a significant decline in oral health-related quality of life (OHQOL). The dentist, working with the radiation oncologist and the rest of the health care team, plays an important role in the prevention and management of these complications, but patients do not always receive care consistent with current guidelines. This study investigated barriers to recommended care. There is variability in knowledge and practice among dentists and radiation oncologists regarding the dental management of patients treated with head and neck radiotherapy (HNRT), and inadequate communication and collaboration between members of the patient's health care team contribute to inconsistencies in application of clinical care guidelines. There is on interest and need for continuing dental (CDE) and medical education (CME) on this topic. A questionnaire was developed to assess dentists' knowledge and practice of dental management of HNC patients and their interest in CDE on this topic. All members of the Michigan Dental Association (MDA) with email addresses were asked to complete the survey online, and a random sample of MDA members without email addresses was invited to complete a paper version of the same survey. All Michigan members of the American Society for Radiation Oncology (ASTRO) were invited to complete an online version of the survey modified for radiation oncologists. The response rate for dentists was 47.9% and radiation oncologists was 22.3%. Of the dentists who responded, 81% reported that a major barrier to providing dental treatment before radiotherapy was a lack of time between initial dental consultation and the start of radiation; inadequate communication between health care providers was blamed most frequently for this. Ten percent of the dentists and 25% of the radiation oncologists reported that they did not treat HNC patients because they lacked adequate training, and 55% of

Development of a Web-Based Distributed Interactive Simulation (DIS) Environment Using JavaScript

Science.gov (United States)

2014-09-01

availability, versioning control, etc. Modern browser companies provide browser installers for different operating systems, and most modern browsers support...GB memory, NVIDIA Quadro 4000 graphics card, and Windows 7 64-bit operating system. The specifications of the server are as follow: Intel® Core™2 Duo...CPU L9400 @ 1.86 GHz, 2 GB memory, NVIDIA GeForce 320 M graphics card and Windows 7 32-bit operating system. A. NETWORKING FRAMEWORK There are

Torsional ultrasound mode versus combined torsional and conventional ultrasound mode phacoemulsification for eyes with hard cataract.

Science.gov (United States)

Fakhry, Mohamed A; El Shazly, Malak I

2011-01-01

To compare torsional versus combined torsional and conventional ultrasound modes in hard cataract surgery regarding ultrasound energy and time and effect on corneal endothelium. Kasr El Aini hospital, Cairo University, and International Eye Hospital, Cairo, Egypt. Ninety-eight eyes of 63 patients were enrolled in this prospective comparative randomized masked clinical study. All eyes had nuclear cataracts of grades III and IV using the Lens Opacities Classification System III (LOCS III). Two groups were included, each having an equal number of eyes (49). The treatment for group A was combined torsional and conventional US mode phacoemulsification, and for group B torsional US mode phacoemulsification only. Pre- and post-operative assessments included best corrected visual acuity (BCVA), intraocular pressure (IOP), slit-lamp evaluation, and fundoscopic evaluation. Endothelial cell density (ECD) and central corneal thickness (CCT) were measured preoperatively, 1 day, 7 days, and 1 month postoperatively. All eyes were operated on using the Alcon Infiniti System (Alcon, Fort Worth, TX) with the quick chop technique. All eyes were implanted with AcrySof SA60AT (Alcon) intraocular lens (IOL). The main phaco outcome parameters included the mean ultrasound time (UST), the mean cumulative dissipated energy (CDE), and the percent of average torsional amplitude in position 3 (%TUSiP3). Improvement in BCVA was statistically significant in both groups (P < 0.001). Comparing UST and CDE for both groups revealed results favoring the pure torsional group (P = 0.002 and P < 0.001 for UST; P = 0.058 and P = 0.009 for CDE). As for %TUSiP3, readings were higher for the pure torsional group (P = 0.03 and P = 0.01). All changes of CCT, and ECD over time were found statistically significant using one-way ANOVA testing (P < 0.001). Both modes are safe in hard cataract surgery, however the pure torsional mode showed less US energy used.

Children Designing & Engineering: Contextual Learning Units in Primary Design and Technology

Science.gov (United States)

Hutchinson, Patricia

2002-01-01

The Children Designing & Engineering (CD&E) Project at the College of New Jersey is a collaborative effort of the College's Center for Design and Technology and the New Jersey Chamber of Commerce. The Project, funded by the National Science Foundation (NSF), has been charged to develop instructional materials for grades K-5. The twelve…

Mechanism underlying the inner membrane retention of Escherichia coli lipoproteins caused by Lol avoidance signals.

Science.gov (United States)

Hara, Takashi; Matsuyama, Shin-ichi; Tokuda, Hajime

2003-10-10

Escherichia coli lipoproteins are localized to either the inner or outer membrane depending on the residue at position 2. The inner membrane retention signal, Asp at position 2 in combination with certain residues at position 3, functions as a Lol avoidance signal, i.e. the signal inhibits the recognition of lipoproteins by LolCDE that releases lipoproteins from the inner membrane. To understand the role of the residue at position 2, outer membrane-specific lipoproteins with Cys at position 2 were subjected to chemical modification followed by the release reaction in reconstituted proteoliposomes. Sulfhydryl-specific introduction of nonprotein molecules or a negative charge to Cys did not inhibit the LolCDE-dependent release. In contrast, oxidation of Cys to cysteic acid resulted in generation of the Lol avoidance signal, indicating that the Lol avoidance signal requires a critical length of negative charge at the second residue. Furthermore, not only modification of the carboxylic acid of Asp at position 2 but also that of the amine of phosphatidylethanolamine abolished the Lol avoidance function. Based on these results, the Lol avoidance mechanism is discussed.

Identification of the DNA-Binding Domains of Human Replication Protein A That Recognize G-Quadruplex DNA

Directory of Open Access Journals (Sweden)

Aishwarya Prakash

2011-01-01

Full Text Available Replication protein A (RPA, a key player in DNA metabolism, has 6 single-stranded DNA-(ssDNA- binding domains (DBDs A-F. SELEX experiments with the DBDs-C, -D, and -E retrieve a 20-nt G-quadruplex forming sequence. Binding studies show that RPA-DE binds preferentially to the G-quadruplex DNA, a unique preference not observed with other RPA constructs. Circular dichroism experiments show that RPA-CDE-core can unfold the G-quadruplex while RPA-DE stabilizes it. Binding studies show that RPA-C binds pyrimidine- and purine-rich sequences similarly. This difference between RPA-C and RPA-DE binding was also indicated by the inability of RPA-CDE-core to unfold an oligonucleotide containing a TC-region 5′ to the G-quadruplex. Molecular modeling studies of RPA-DE and telomere-binding proteins Pot1 and Stn1 reveal structural similarities between the proteins and illuminate potential DNA-binding sites for RPA-DE and Stn1. These data indicate that DBDs of RPA have different ssDNA recognition properties.

Division site selection in Escherichia coli involves dynamic redistribution of Min proteins within coiled structures that extend between the two cell poles

Science.gov (United States)

Shih, Yu-Ling; Le, Trung; Rothfield, Lawrence

2003-06-01

The MinCDE proteins of Escherichia coli are required for proper placement of the division septum at midcell. The site selection process requires the rapid oscillatory redistribution of the proteins from pole to pole. We report that the three Min proteins are organized into extended membrane-associated coiled structures that wind around the cell between the two poles. The pole-to-pole oscillation of the proteins reflects oscillatory changes in their distribution within the coiled structure. We also report that the E. coli MreB protein, which is required for maintaining the rod shape of the cell, also forms extended coiled structures, which are similar to the MreB structures that have previously been reported in Bacillus subtilis. The MreB and MinCDE coiled arrays do not appear identical. The results suggest that at least two functionally distinct cytoskeletal-like elements are present in E. coli and that structures of this type can undergo dynamic changes that play important roles in division site placement and possibly other aspects of the life of the cell.

[Computer-assisted phacoemulsification for hard cataracts].

Science.gov (United States)

Zemba, M; Papadatu, Adriana-Camelia; Sîrbu, Laura-Nicoleta; Avram, Corina

2012-01-01

to evaluate the efficiency of new torsional phacoemulsification software (Ozil IP system) in hard nucleus cataract extraction. 45 eyes with hard senile cataract (degree III and IV) underwent phacoemulsification performed by the same surgeon, using the same technique (stop and chop). Infiniti (Alcon) platform was used, with Ozil IP software and Kelman phaco tip miniflared, 45 degrees. The nucleus was split into two and after that the first half was phacoemulsificated with IP-on (group 1) and the second half with IP-off (group 2). For every group we measured: cumulative dissipated energy (CDE), numbers of tip closure that needed manual desobstruction the amount of BSS used. The mean CDE was the same in group 1 and in group 2 (between 6.2 and 14.9). The incidence of occlusion that needed manual desobstruction was lower in group 1 (5 times) than in group 2 (13 times). Group 2 used more BSS compared to group 1. The new torsional software (IP system) significantly decreased occlusion time and balanced salt solution use over standard torsional software, particularly with denser cataracts.

The Streptococcus sanguinis competence regulon is not required for infective endocarditis virulence in a rabbit model.

Science.gov (United States)

Callahan, Jill E; Munro, Cindy L; Kitten, Todd

2011-01-01

Streptococcus sanguinis is an important component of dental plaque and a leading cause of infective endocarditis. Genetic competence in S. sanguinis requires a quorum sensing system encoded by the early comCDE genes, as well as late genes controlled by the alternative sigma factor, ComX. Previous studies of Streptococcus pneumoniae and Streptococcus mutans have identified functions for the >100-gene com regulon in addition to DNA uptake, including virulence. We investigated this possibility in S. sanguinis. Strains deleted for the comCDE or comX master regulatory genes were created. Using a rabbit endocarditis model in conjunction with a variety of virulence assays, we determined that both mutants possessed infectivity equivalent to that of a virulent control strain, and that measures of disease were similar in rabbits infected with each strain. These results suggest that the com regulon is not required for S. sanguinis infective endocarditis virulence in this model. We propose that the different roles of the S. sanguinis, S. pneumoniae, and S. mutans com regulons in virulence can be understood in relation to the pathogenic mechanisms employed by each species.

Enabling remote access to projects in a large collaborative environment

Energy Technology Data Exchange (ETDEWEB)

Pais, V. [INFLPR National Institute for Laser, Plasma and Radiation Physics, Magurele (Romania); Balme, S. [CEA Cadarache, IRFM, 13 - Saint-Paul-lez-Durance (France); Iannonec, F. [Associazione EURATOM-ENEA sulla Fusione, Frascati (Italy); Strand, P. [Department of Radio and Space Science, Chalmers University of Technology, Goteborg (Sweden)

2009-07-01

In the context of the Integrated Tokamak Modeling Task Force, a large number of software projects are made available to the task force members, including developers and end-users. This has been achieved through a combination of tools and technologies. The front-end is represented by a Java based portal system exposing a PHP project management system, Gforge. These two applications are linked by a single sign-on mechanism, Shibboleth, and through secure HTTP request rewriting, where appropriate. Furthermore, the underlying storage facility is an OpenAFS distributed file system and the user base comes from both a network information server and an LDAP directory. Security mechanisms are those of a distributed system, with multiple access points and protocols used for reading and writing data. This document presents the challenges of integrating these different technologies and programming languages into a single, working, application presented to its users as a web portal. The chaining of the tools is explored through the user perspective, with an in-depth overview of the background transitions between the various systems involved with regard to security requirements for the front-end nodes and the policies as seen by the users. This document is composed of a poster and its abstract. (authors)

Computer Security: Competing Concepts

OpenAIRE

Nissenbaum, Helen; Friedman, Batya; Felten, Edward

2001-01-01

This paper focuses on a tension we discovered in the philosophical part of our multidisciplinary project on values in web-browser security. Our project draws on the methods and perspectives of empirical social science, computer science, and philosophy to identify values embodied in existing web-browser security and also to prescribe changes to existing systems (in particular, Mozilla) so that values relevant to web-browser systems are better served than presently they are. The tension, which ...

Proximate Composition and Mineral Content in Different ,Types of

African Journals Online (AJOL)

The: concentration of protein in traditional and ... resuiis:in d;je~t types o[togwa wjth yariatiOl? in proximate comfX?sition, energy density and~mirieral content. " . ..... hi the preparation of simulated togwa l .,. "'.' .. IngredientS ,Dtj<: "\\C!~de P~o-.' Ct;ude fi-. Fat: --Ash. Caroo-. Energy matte; r tein (0/0) . ,; bee hydrate value .: (%).

Bistand til risikovurdering (evt. ændringer af konklusioner af tidligere risikovurdering) . Zea mays (MON863; MON863x810). Opdateret rammenotat samt supplerende oplysninger til sagen. Modtaget 28-10-2004, deadline: snarest muligt, svar 01-11-2004

DEFF Research Database (Denmark)

Strandberg, Morten Tune; Damgaard, Christian; Kjellsson, Gøsta

2004-01-01

"Vedr. C/DE/02/09: Om Monsantos svar på Pusztai’s kritik giver anledning til ændring af DMU’s kommentarer til GM-majs MON863. Uanset om effekterne er tilfældige elller ej, er størrelsen af de mulige effekter på rotternes sundhed uden betydning i relation til den økologiske risikovurdering. Dermed...

Bistand til risikovurdering (evt. ændringer af tidligere risikovurdering). Zea mays (MON863; MON863x810). Supplerende materiale til ansøgningen. Modtaget 07-09-2004, deadline 19-09-2004, svar 17-09-2004

DEFF Research Database (Denmark)

Kjellsson, Gøsta; Strandberg, Morten Tune

2012-01-01

"DMU har modtaget og vurderet de supplerende oplysninger (mail fra Skov- og Naturstyrelsen d. 07-09-2004) til ansøgningen om tilladelse til markedsføring af genetisk modificeret majs C/DE/02/09 (MON863 og MON863 x MON810). Vi har gennemgået oplysningerne i det tilsendte materiale for at se om de ...

Impact of urbanisation on the Mingosso watershed in the Yaounde ...

African Journals Online (AJOL)

EJIRO

and 1999, the growth rate of the Yaounde urban popula- tion had passed from 3.5 to ... The objective in this case study was to quantify habitat, determine density and to ... bution network of concessionary CDE, to determine the drinking water type (spring ..... region (Olivié et al., 1999). But the pH ...... France p.780. Yonkeu S ...

26 CFR 1.45D-1 - New markets tax credit.

Science.gov (United States)

2010-04-01

... 26 Internal Revenue 1 2010-04-01 2010-04-01 true New markets tax credit. 1.45D-1 Section 1.45D-1... Computing Credit for Investment in Certain Depreciable Property § 1.45D-1 New markets tax credit. (a) Table... of new markets tax credit (B) Recapture event (ii) CDE reporting requirements to Secretary (iii...

State Cancer Profiles

Science.gov (United States)

... Name Indication (SNI), or is equipped with outdated SSL ciphers. Please upgrade to a modern web browser ... 7 Whatever browser or operating system you use, TLS 1.1 or better must be enabled. Please ...

WWW History Exhibition LEPFest 2000

CERN Multimedia

2000-01-01

1990 NeXT browser, editor, server 1991 Line Mode Browser 1992 HEP servers 1993 CERN software is put in public domain 1994 First Conference 1994 Founding of Consortium 1995 Transfer to INRIA - ACM Award

Diabetes HealthSense: Resources for Living Well

Medline Plus

Full Text Available ... your browser's File menu and select print. To email this page, please copy the link from your browser's address bar, open your email program, and paste the link. To bookmark this ...

Evaluating Internet Health Information

Science.gov (United States)

... content requires the Adobe Flash Player and a JavaScript-enabled browser. It seems JavaScript is disabled in your browser settings. Please enable JavaScript and reload this page, or use a different ...

Know How to Use Your Asthma Inhaler

Medline Plus

Full Text Available ... KB] Using a metered dose inhaler (inhaler in mouth) Your browser does not support iframes Using a metered dose inhaler (inhaler in mouth) [PDF – 370 KB] Your browser does not support ...

Diabetes HealthSense: Resources for Living Well

Medline Plus

Full Text Available ... please copy the link from your browser's address bar, open your email program, and paste the link. ... and paste the link from your browser's address bar, then use your "Bookmarks" or "Favorites" menu to ...

Dynamic HTML The Definitive Reference

CERN Document Server

Goodman, Danny

2007-01-01

Packed with information on the latest web specifications and browser features, this new edition is your ultimate one-stop resource for HTML, XHTML, CSS, Document Object Model (DOM), and JavaScript development. Here is the comprehensive reference for designers of Rich Internet Applications who need to operate in all modern browsers, including Internet Explorer 7, Firefox 2, Safari, and Opera. With this book, you can instantly see browser support for the latest standards-based technologies, including CSS Level 3, DOM Level 3, Web Forms 2.0, XMLHttpRequest for AJAX applications, JavaScript 1.7

US NDC Modernization Iteration E2 Prototyping Report: User Interface Framework

Energy Technology Data Exchange (ETDEWEB)

Lewis, Jennifer E. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Palmer, Melanie A. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Vickers, James Wallace [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Voegtli, Ellen M. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2014-12-01

During the second iteration of the US NDC Modernization Elaboration phase (E2), the SNL US NDC Modernization project team completed follow-on Rich Client Platform (RCP) exploratory prototyping related to the User Interface Framework (UIF). The team also developed a survey of browser-based User Interface solutions and completed exploratory prototyping for selected solutions. This report presents the results of the browser-based UI survey, summarizes the E2 browser-based UI and RCP prototyping work, and outlines a path forward for the third iteration of the Elaboration phase (E3).

A Finite Element Versus Analytical Approach to the Solution of the Current Diffusion Equation in Tokamaks

Czech Academy of Sciences Publication Activity Database

Šesnic, S.; Dorić, V.; Poljak, D.; Šušnjara, A.; Artaud, J.F.

2018-01-01

Roč. 46, č. 4 (2018), s. 1027-1034 ISSN 0093-3813 R&D Projects: GA MŠk(CZ) 8D15001 Institutional support: RVO:61389021 Keywords : Finite element analysis * Tokamaks * current diffusion equation (CDE) * finite-element method (FEM) Subject RIV: BL - Plasma and Gas Discharge Physics OBOR OECD: Fluids and plasma physics (including surface physics) Impact factor: 1.052, year: 2016

Determining the signalling overhead of two common WebRTC methods:JSON via XMLHttpRequest and SIP over WebSocket

CSIR Research Space (South Africa)

Adeyeye, M

2013-09-01

Full Text Available Web Real-Time Communication (WebRTC) introduces real-time multimedia communication as native capabilities of Web browsers. With the adoption of WebRTC the Web browsers will be able to use WebRTC to communicate with one another (peer...

Network Security Risks of Online Social Networking in the Workplace

Science.gov (United States)

2013-11-01

Facebook explains pornographic shock spam, hints at browser vulnera- bility, nakedsecurity. URL – http://nakedsecurity.sophos.com/2011/11/16/ facebook...explains- pornographic -shock-spam-hints-at-browser-vul nerability/. 22 UNCLASSIFIED UNCLASSIFIED DSTO–GD–0772 44. Blatz, J. (2011) CSRF: attack and

Substance Abuse Screening

Science.gov (United States)

... information is collected, stored or sent over the Internet. To ensure complete privacy, exit your web browser after completing this screening. ... information is collected, stored or sent over the Internet. To ensure complete privacy, exit your web browser after completing this screening. ...

WebRTC using JSON via XMLHttpRequest and SIP over WebSocket: initial signalling overhead findings

CSIR Research Space (South Africa)

Adeyeye, M

2013-08-01

Full Text Available Web Real-Time Communication (WebRTC) introduces real-time multimedia communication as native capabilities of Web browsers. With the adoption of WebRTC the Web browsers will be able to use WebRTC to communicate with one another (peer...

One-loop matching and running with covariant derivative expansion

Science.gov (United States)

Henning, Brian; Lu, Xiaochuan; Murayama, Hitoshi

2018-01-01

We develop tools for performing effective field theory (EFT) calculations in a manifestly gauge-covariant fashion. We clarify how functional methods account for one-loop diagrams resulting from the exchange of both heavy and light fields, as some confusion has recently arisen in the literature. To efficiently evaluate functional traces containing these "mixed" one-loop terms, we develop a new covariant derivative expansion (CDE) technique that is capable of evaluating a much wider class of traces than previous methods. The technique is detailed in an appendix, so that it can be read independently from the rest of this work. We review the well-known matching procedure to one-loop order with functional methods. What we add to this story is showing how to isolate one-loop terms coming from diagrams involving only heavy propagators from diagrams with mixed heavy and light propagators. This is done using a non-local effective action, which physically connects to the notion of "integrating out" heavy fields. Lastly, we show how to use a CDE to do running analyses in EFTs, i.e. to obtain the anomalous dimension matrix. We demonstrate the methodologies by several explicit example calculations.

Estimation of Genetic and Phenotypic Parameters for Udder Morphology Traits in Different Dairy Sheep Genotypes

Directory of Open Access Journals (Sweden)

Pavol Makovický

2017-01-01

Full Text Available Knowledge of genetic parameters is the basis of sound livestock improvement programmes. Genetic parameters have been estimated for linear udder traits: Udder depth (UD, Cistern depth (CD, Teat position (TP, Teat size (TS and external udder measurements: Rear udder depth (RUD, Cistern depth (CDe, Teat length (TL and Teat angle (TA – 1275 linear assessments (381 ewes and 1185 external udder measurements (355 ewes were included in the analysis for each character of 9 genotypes. Nine breeds and genotypes were included in these experiments: purebred Improved Valachian (IV, Tsigai (T, Lacaune (LC ewes, and IV and T crosses with genetic portion of Lacaune and East Friesian (EF – 25 %, 50 % and 75 %. Primary data were processed using restricted maximum likelihood (REML methodology and the multiple‑trait animal model, using programs REMLF90 and VCE 4.0. High genetic correlations were found between UD and RUD (0.86, CD and CD(e (0.93, TP and TA (0.90, TS and TL (0.94. The highest heritabilities were estimated for exact measurements of TL and CD (0.35–0.39 and subjectively assessed TA and TS (0.32 – 0.33.

A benchmark of co-flow and cyclic deposition/etch approaches for the selective epitaxial growth of tensile-strained Si:P

Science.gov (United States)

Hartmann, J. M.; Veillerot, M.; Prévitali, B.

2017-10-01

We have compared co-flow and cyclic deposition/etch processes for the selective epitaxial growth of Si:P layers. High growth rates, relatively low resistivities and significant amounts of tensile strain (up to 10 nm min-1, 0.55 mOhm cm and a strain equivalent to 1.06% of substitutional C in Si:C layers) were obtained at 700 °C, 760 Torr with a co-flow approach and a SiH2Cl2 + PH3 + HCl chemistry. This approach was successfully used to thicken the sources and drains regions of n-type fin-shaped Field Effect Transistors. Meanwhile, the (Si2H6 + PH3/HCl + GeH4) CDE process evaluated yielded at 600 °C, 80 Torr even lower resistivities (0.4 mOhm cm, typically), at the cost however of the tensile strain which was lost due to (i) the incorporation of Ge atoms (1.5%, typically) into the lattice during the selective etch steps and (ii) a reduction by a factor of two of the P atomic concentration in CDE layers compared to that in layers grown in a single step (5 × 1020 cm-3 compared to 1021 cm-3).

Conditioned inhibition in the spatial domain.

Science.gov (United States)

Sansa, J; Rodrigo, T; Santamaría, J J; Manteiga, R D; Chamizo, V D

2009-10-01

Using a variation on the standard procedure of conditioned inhibition (Trials A+ and AX-), rats (Rattus norvegicus) in a circular pool were trained to find a hidden platform that was located in a specific spatial position in relation to 2 individual landmarks (Trials A --> platform and B --> platform; Experiments 1a and 1b) and to 2 configurations of landmarks (Trials ABC --> platform and FGH --> platform; Experiment 2a). The rats also underwent inhibitory trials (Experiment 1: Trials AZ --> no platform; Experiment 2a: Trials CDE --> no platform) interspersed with these excitatory trials. In both experiments, subsequent test trials without the platform showed both a summation effect and retardation of excitatory conditioning, and in Experiment 2a rats learned to avoid the CDE quadrant over the course of the experiment. Two further experiments established that these results could not be attributed to any difference in salience between the conditioned inhibitors and the control stimuli. All these results contribute to the growing body of evidence consistent with the idea that there is a general mechanism of learning that is associative in nature. PsycINFO Database Record (c) 2009 APA, all rights reserved.

Spin and isospin modes

International Nuclear Information System (INIS)

Suzuki, T.; Sagawa, H.

2000-01-01

Complete text of publication follows. Spin and isospin modes in nuclei are investigated. We discuss some of the following topics. 1. Spin-dipole excitations in 12 C and 16 O are studied (1). Effects of tensor and spin-orbit interactions on the distribution of the strengths are investigated, and neutral current neutrino scattering cross sections in 16 O are obtained for heavy-flavor neutrinos from the supernovae. 2. Gamow-Teller (GT) and spin-dipole (SD) modes in 208 Bi are investigated. Quenching and fragmentation of the GT strength are discussed (2). SD excitations and electric dipole (E1) transitions between the GT and SD states are studied (3). Calculated E1 strengths are compared with the sum rule values obtained within the 1p-1h and 1p-1h + 2p-2h configuration spaces. 3. Coulomb displacement energy (CDE) of the IAS of 14 Be is calculated, and the effects of the halo on the CDE and the configuration of the halo state are investigated. 4. Spreading width of IAS and isospin dependence of the width are investigated (4). Our formula for the width explains very well the observed isospin dependence (5). (author)

The Streptococcus sanguinis competence regulon is not required for infective endocarditis virulence in a rabbit model.

Directory of Open Access Journals (Sweden)

Jill E Callahan

Full Text Available Streptococcus sanguinis is an important component of dental plaque and a leading cause of infective endocarditis. Genetic competence in S. sanguinis requires a quorum sensing system encoded by the early comCDE genes, as well as late genes controlled by the alternative sigma factor, ComX. Previous studies of Streptococcus pneumoniae and Streptococcus mutans have identified functions for the >100-gene com regulon in addition to DNA uptake, including virulence. We investigated this possibility in S. sanguinis. Strains deleted for the comCDE or comX master regulatory genes were created. Using a rabbit endocarditis model in conjunction with a variety of virulence assays, we determined that both mutants possessed infectivity equivalent to that of a virulent control strain, and that measures of disease were similar in rabbits infected with each strain. These results suggest that the com regulon is not required for S. sanguinis infective endocarditis virulence in this model. We propose that the different roles of the S. sanguinis, S. pneumoniae, and S. mutans com regulons in virulence can be understood in relation to the pathogenic mechanisms employed by each species.

Neues Suchportal mit Aquabrowser in der Vorarlberger Landesbibliothek

OpenAIRE

Rädler, Karl

2011-01-01

The regional library of Vorarlberg implements AquaBrowser from Serials Solutions of Bowker Company. From the user's view the search engine should be integrated with the homepage to a homogeneous search portal. Beginning with deficits of traditional OPACs the decision for AquaBrowser is explained.

Pro HTML 5 programming powerful APIs for richer internet application development

CERN Document Server

Lubbers, Peter; Salim, Frank

2010-01-01

HTML5 is here, and with it, web applications take on a power, ease, scalability, and responsiveness like never before. In this book, developers will learn how to use the latest cutting-edge HTML5 web technology - available in the most recent versions of modern browsers - to build web applications with unparalleled functionality, speed, and responsiveness. * Explains how you can create real-time HTML5 applications that tap the full potential of modern browsers * Provides practical, real-world examples of HTML5 features in action * Shows which HTML5 features are supported in current browsers * C

USAF Aircraft Maintenance Officer Knowledge, Skills and Abilities and Commonalities among the Logistics Officer Corps

Science.gov (United States)

2013-02-01

distribution managemen t operations to include managing cargo distribution functions such as receiving, inspecting, tracing, tracking, packaging, and...Production Management DE CDE ABCDEFG Scheduling DE ADEF ABCDEF T ie r 2 Flightline Operations E BDE Systems Engineering D ABDEG Table 19: 21R...logistics units/ elements and as members of general or executive s t affs in t he operating forces, supporting establishment, and joint staffs . They

Integrating Traumatic Brain Injury Model Systems Data into the Federal InteragencyTraumatic Brain Injury Research Informatics Systems

Science.gov (United States)

2017-12-01

strongest psychometric properties (NSI) was found to be too long for inclusion in TBIMS follow-up. For these reasons, all CDEs were rejected as...Revised Date: Forms: Last Reviewed Date: Introduction: The National Institute on Disability , Independent Living, and Rehabilitation Research... disabled pre-injury 4.8% Unemployed 0.8% Other 0.3% Unknown 2.2% Missing This CDE variable differs from the current TBIMS Primary

Effect of Lineage-Specific Metabolic Traits of Lactobacillus reuteri on Sourdough Microbial Ecology

OpenAIRE

Lin, Xiaoxi B.; Gänzle, Michael G.

2014-01-01

This study determined the effects of specific metabolic traits of Lactobacillus reuteri on its competitiveness in sourdoughs. The competitiveness of lactobacilli in sourdough generally depends on their growth rate; acid resistance additionally contributes to competitiveness in sourdoughs with long fermentation times. Glycerol metabolism via glycerol dehydratase (gupCDE) accelerates growth by the regeneration of reduced cofactors; glutamate metabolism via glutamate decarboxylase (gadB) increas...

A knowledge base browser using hypermedia

Science.gov (United States)

Pocklington, Tony; Wang, Lui

1990-01-01

A hypermedia system is being developed to browse CLIPS (C Language Integrated Production System) knowledge bases. This system will be used to help train flight controllers for the Mission Control Center. Browsing this knowledge base will be accomplished either by having navigating through the various collection nodes that have already been defined, or through the query languages.

Distance Estimation Using Handheld Devices

Science.gov (United States)

2013-06-01

applications developed in HTML5) is browser dependent, unlike native programming languages (like Java) which are OS dependent. HTML5 introduces a number...means we need to implement the Gecko engine for Firefox , Trident for Internet Explorer, and Blink for Google browsers. The compass direction is

Data-driven prediction of adverse drug reactions induced by drug drug interactions

Science.gov (United States)

2017-06-08

oped the AVOID-DB and Web-based graphical user interface (GUI) by using a three-tier software architec- ture comprising a backend database, controller... mobile device Web-browsers. The GUI uses stan- dards supported by modern Web browsers. Results and Discussion As described above (see Methods), we

Human exposure to PCDDs and their precursors from heron and tern eggs in the Yangtze River Delta indicate PCP origin.

Science.gov (United States)

Zhou, Yihui; Yin, Ge; Asplund, Lillemor; Stewart, Kathryn; Rantakokko, Panu; Bignert, Anders; Ruokojärvi, Päivi; Kiviranta, Hannu; Qiu, Yanling; Ma, Zhijun; Bergman, Åke

2017-06-01

Polychlorinated dibenzo-p-dioxins (PCDDs) and polychlorinated dibenzofurans (PCDFs) are highly toxic to humans and wildlife. In the present study, PCDD/Fs were analyzed in the eggs of whiskered terns (Chlidonias hybrida), and genetically identified eggs from black-crowned night herons (Nycticorax nycticorax) sampled from two lakes in the Yangtze River Delta area, China. The median toxic equivalent (TEQ) of PCDD/Fs were 280 (range: 95-1500) and 400 (range: 220-1100) pg TEQ g -1 lw (WHO, 1998 for birds) in the eggs of black-crowned night heron and whiskered tern, respectively. Compared to known sources, concentrations of PCDDs relative to the sum of PCDD/Fs in bird eggs, demonstrated high abundance of octachlorodibenzo-p-dioxin (OCDD), 1,2,3,4,6,7,8-heptaCDD and 1,2,3,6,7,8-hexaCDD indicating pentachlorophenol (PCP), and/or sodium pentachlorophenolate (Na-PCP) as significant sources of the PCDD/Fs. The presence of polychlorinated diphenyl ethers (PCDEs), hydroxylated and methoxylated polychlorinated diphenyl ethers (OH- and MeO-PCDEs, known impurities in PCP products), corroborates this hypothesis. Further, significant correlations were found between the predominant congener CDE-206, 3'-OH-CDE-207, 2'-MeO-CDE-206 and OCDD, indicating a common origin. Eggs from the two lakes are sometimes used for human consumption. The WHO health-based tolerable intake of PCDD/Fs is exceeded if eggs from the two lakes are consumed regularly on a weekly basis, particularly for children. The TEQs extensively exceed maximum levels for PCDD/Fs in hen eggs and egg products according to EU legislation (2.5 pg TEQ g -1 lw). The results suggest immediate action should be taken to manage the contamination, and further studies evaluating the impacts of egg consumption from wild birds in China. Likewise, studies on dioxins and other POPs in common eggs need to be initiated around China. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

WEBSLIDE: A "Virtual" Slide Projector Based on World Wide Web

Science.gov (United States)

Barra, Maria; Ferrandino, Salvatore; Scarano, Vittorio

1999-03-01

We present here the design key concepts of WEBSLIDE, a software project whose objective is to provide a simple, cheap and efficient solution for showing slides during lessons in computer labs. In fact, WEBSLIDE allows the video monitors of several client machines (the "STUDENTS") to be synchronously updated by the actions of a particular client machine, called the "INSTRUCTOR." The system is based on the World Wide Web and the software components of WEBSLIDE mainly consists in a WWW server, browsers and small Cgi-Bill scripts. What makes WEBSLIDE particularly appealing for small educational institutions is that WEBSLIDE is built with "off the shelf" products: it does not involve using a specifically designed program but any Netscape browser, one of the most popular browsers available on the market, is sufficient. Another possible use is to use our system to implement "guided automatic tours" through several pages or Intranets internal news bulletins: the company Web server can broadcast to all employees relevant information on their browser.

Application of different Scheimpflug-based lens densitometry methods in phacodynamics prediction

Directory of Open Access Journals (Sweden)

Faria-Correia F

2016-04-01

Full Text Available Fernando Faria-Correia,1–5 Bernardo T Lopes,5,6 Isaac C Ramos,5,6 Tiago Monteiro,1,2 Nuno Franqueira,1 Renato Ambrósio Jr5–8 1Ophthalmology Department, Hospital de Braga, Braga, Portugal; 2Life and Health Sciences Research Institute (ICVS, School of Health Sciences, University of Minho, Braga, Portugal; 3ICVS/3B’s - PT Government Associate Laboratory, Braga, Portugal; 4ICVS/3B’s - PT Government Associate Laboratory, Guimarães, Portugal; 5Rio de Janeiro Corneal Tomography and Biomechanics Study Group, Rio de Janeiro, Brazil; 6Instituto de Olhos Renato Ambrósio, Rio de Janeiro, Brazil; 7VisareRio, Rio de Janeiro, Brazil; 8Department of Ophthalmology and Visual Sciences, Federal University of São Paulo, São Paulo, Brazil Purpose: To evaluate the correlations between preoperative Scheimpflug-based lens densitometry metrics and phacodynamics. Methods: The Lens Opacities Classification System III (LOCS III was used to grade nuclear opalescence (NO, along with different methods of lens densitometry evaluation (absolute scale from 0% to 100%: three-dimensional (3D, linear, and region of interest (ROI modes. Cumulative dissipated energy (CDE and total ultrasound (US time were recorded and correlated with the different methods of cataract grading. Significant correlations were evaluated using Pearson or Spearman correlation coefficients according to data normality. Results: A positive correlation was detected between the NO score and the average density and the maximum density derived from the 3D mode (r=0.624, P<0.001; r=0.619, P<0.001, respectively and the ROI mode (r=0.600, P<0.001; r=0.642, P<0.001, respectively. Regarding the linear mode, only the average density parameter presented a significant relationship with the NO score (r=0.569, P<0.001. The 3D-derived average density and maximum density were positively correlated with CDE (rho =0.682, P<0.001; rho =0.683, P<0.001, respectively and total US time (rho =0.631 and rho =0

Cyber Exercise Playbook

Science.gov (United States)

2014-11-01

the signature database. Mozilla and Firefox Web Browsers (http://www.mozilla.org) – freeware Web browsers used to manually browse and inspect the Web...what operating systems ( OS ) and OS versions they run, what type of packet filters/firewalls are in use, and dozens of other characteristics. Nikto

Fingerprinting Reverse Proxies Using Timing Analysis of TCP Flows

Science.gov (United States)

2013-09-01

Message Protocol IG Information Grid IP Internet Protocol ISP Internet Service Provider IT Information Technology MITM Man-in-the-middle NAT Network...Unsuspecting users could be vulnerable to man-in-the-middle ( MITM ) attacks or web-based attacks [2] against web browsers and browser plug-ins. There is no

4DGeoBrowser: A Web-Based Data Browser and Server for Accessing and Analyzing Multi-Disciplinary Data

National Research Council Canada - National Science Library

Lerner, Steven

2001-01-01

.... Once the information is loaded onto a Geobrowser server the investigator-user is able to login to the website and use a set of data access and analysis tools to search, plot, and display this information...

Releasing CSS

CERN Document Server

Schmitt, Christopher

2006-01-01

In an industry that communicates with terms such as "Browser Hell" and "browser wars," a web designer can be excused for having some anxiety over Microsoft's recent upgrade of Internet Explorer 6 (IE6) to Internet Explorer 7 (IE7). Web designers should ask the following questions: What problems does IE6 possess and what fixes does IE7 provide? What part of the Cascading Style Sheets (CSS) specification does IE7 for Windows support? How can web designers work around any problems that exist within IE7's support for CSS? While web designers are testing their designs on the latest browser, how f

Toward Exposing Timing-Based Probing Attacks in Web Applications

Directory of Open Access Journals (Sweden)

Jian Mao

2017-02-01

Full Text Available Web applications have become the foundation of many types of systems, ranging from cloud services to Internet of Things (IoT systems. Due to the large amount of sensitive data processed by web applications, user privacy emerges as a major concern in web security. Existing protection mechanisms in modern browsers, e.g., the same origin policy, prevent the users’ browsing information on one website from being directly accessed by another website. However, web applications executed in the same browser share the same runtime environment. Such shared states provide side channels for malicious websites to indirectly figure out the information of other origins. Timing is a classic side channel and the root cause of many recent attacks, which rely on the variations in the time taken by the systems to process different inputs. In this paper, we propose an approach to expose the timing-based probing attacks in web applications. It monitors the browser behaviors and identifies anomalous timing behaviors to detect browser probing attacks. We have prototyped our system in the Google Chrome browser and evaluated the effectiveness of our approach by using known probing techniques. We have applied our approach on a large number of top Alexa sites and reported the suspicious behavior patterns with corresponding analysis results. Our theoretical analysis illustrates that the effectiveness of the timing-based probing attacks is dramatically limited by our approach.

Toward Exposing Timing-Based Probing Attacks in Web Applications.

Science.gov (United States)

Mao, Jian; Chen, Yue; Shi, Futian; Jia, Yaoqi; Liang, Zhenkai

2017-02-25

Web applications have become the foundation of many types of systems, ranging from cloud services to Internet of Things (IoT) systems. Due to the large amount of sensitive data processed by web applications, user privacy emerges as a major concern in web security. Existing protection mechanisms in modern browsers, e.g., the same origin policy, prevent the users' browsing information on one website from being directly accessed by another website. However, web applications executed in the same browser share the same runtime environment. Such shared states provide side channels for malicious websites to indirectly figure out the information of other origins. Timing is a classic side channel and the root cause of many recent attacks, which rely on the variations in the time taken by the systems to process different inputs. In this paper, we propose an approach to expose the timing-based probing attacks in web applications. It monitors the browser behaviors and identifies anomalous timing behaviors to detect browser probing attacks. We have prototyped our system in the Google Chrome browser and evaluated the effectiveness of our approach by using known probing techniques. We have applied our approach on a large number of top Alexa sites and reported the suspicious behavior patterns with corresponding analysis results. Our theoretical analysis illustrates that the effectiveness of the timing-based probing attacks is dramatically limited by our approach.

Toward Exposing Timing-Based Probing Attacks in Web Applications †

Science.gov (United States)

Mao, Jian; Chen, Yue; Shi, Futian; Jia, Yaoqi; Liang, Zhenkai

2017-01-01

Web applications have become the foundation of many types of systems, ranging from cloud services to Internet of Things (IoT) systems. Due to the large amount of sensitive data processed by web applications, user privacy emerges as a major concern in web security. Existing protection mechanisms in modern browsers, e.g., the same origin policy, prevent the users’ browsing information on one website from being directly accessed by another website. However, web applications executed in the same browser share the same runtime environment. Such shared states provide side channels for malicious websites to indirectly figure out the information of other origins. Timing is a classic side channel and the root cause of many recent attacks, which rely on the variations in the time taken by the systems to process different inputs. In this paper, we propose an approach to expose the timing-based probing attacks in web applications. It monitors the browser behaviors and identifies anomalous timing behaviors to detect browser probing attacks. We have prototyped our system in the Google Chrome browser and evaluated the effectiveness of our approach by using known probing techniques. We have applied our approach on a large number of top Alexa sites and reported the suspicious behavior patterns with corresponding analysis results. Our theoretical analysis illustrates that the effectiveness of the timing-based probing attacks is dramatically limited by our approach. PMID:28245610

Factors associated with suicidal ideation in college students

OpenAIRE

Siabato Macias, Elsa Fernanda; Grupo de Investigación Clínica y Salud, Universidad Pedagógica y Tecnológica de Colombia; Salamanca Camargo, Yenny; Grupo de Investigación Clínica y Salud, Universidad Pedagógica y Tecnológica de Colombia

2015-01-01

Transactional descriptive non-experimental study aimed to identify factors associated with suicidal ideation in a sample of 258 collegestudents aged between 18 and 24 years old, belonging to a university located in the Boyacá state; through the Positive and Negative SuicideIdeation Inventory (PANSI), the Zung Self-Rating Depression Scale (SDS), the Barratt Impulsiveness Scale (BIS), Emotional DependencyQuestionnaire (CDE), Stressful Life Events Scale (EEVA) and a socio-demographic questionnai...

The Causal Mediation Formula - A Guide to the Assessment of Pathways and Mechanisms

Science.gov (United States)

2011-10-01

for estimating CDE(z) in observational studies (in the presence of unobserved confounders) can be derived using do- calculus (Pearl, 2009, pp. 85–88...2011; Albert and Nelson , 2011). 7In the presence of measured and unmeasured confounders, the general conditions under which NDE is estimable from...achieve this independence (see footnote 7), that Z may represent a vector of variables, and that integrals should replace summations when dealing with

JSXGraph--Dynamic Mathematics with JavaScript

Science.gov (United States)

Gerhauser, Michael; Valentin, Bianca; Wassermann, Alfred

2010-01-01

Since Java applets seem to be on the retreat in web application, other approaches for displaying interactive mathematics in the web browser are needed. One such alternative could be our open-source project JSXGraph. It is a cross-browser library for displaying interactive geometry, function plotting, graphs, and data visualization in a web…

Your Life in Web Apps

CERN Document Server

Turnbull, Giles

2008-01-01

What is a web app? It's software that you use right in your web browser. Rather than installing an application on your computer, you visit a web site and sign up as a new user of its software. Instead of storing your files on your own hard disk, the web app stores them for you, online. Is it possible to switch entirely to web apps? To run nothing but a browser for an entire day? In this PDF we'll take you through one day in the life of a web apps-only user and chronicle the pros and cons of living by browser. And if the idea of switching, fully or partially, to web apps sounds appealing to

Quorum Sensing Regulation of Competence and Bacteriocins in Streptococcus pneumoniae and mutans

Science.gov (United States)

Shanker, Erin; Federle, Michael J.

2017-01-01

The human pathogens Streptococcus pneumoniae and Streptococcus mutans have both evolved complex quorum sensing (QS) systems that regulate the production of bacteriocins and the entry into the competent state, a requirement for natural transformation. Natural transformation provides bacteria with a mechanism to repair damaged genes or as a source of new advantageous traits. In S. pneumoniae, the competence pathway is controlled by the two-component signal transduction pathway ComCDE, which directly regulates SigX, the alternative sigma factor required for the initiation into competence. Over the past two decades, effectors of cellular killing (i.e., fratricides) have been recognized as important targets of the pneumococcal competence QS pathway. Recently, direct interactions between the ComCDE and the paralogous BlpRH pathway, regulating bacteriocin production, were identified, further strengthening the interconnections between these two QS systems. Interestingly, a similar theme is being revealed in S. mutans, the primary etiological agent of dental caries. This review compares the relationship between the bacteriocin and the competence QS pathways in both S. pneumoniae and S. mutans, and hopes to provide clues to regulatory pathways across the genus Streptococcus as a potential tool to efficiently investigate putative competence pathways in nontransformable streptococci. PMID:28067778

Information-Seeking Behaviors of Dental Practitioners in Three Practice-Based Research Networks

Science.gov (United States)

Botello-Harbaum, Maria T.; Demko, Catherine A.; Curro, Frederick A.; Rindal, D. Brad; Collie, Damon; Gilbert, Gregg H.; Hilton, Thomas J.; Craig, Ronald G.; Wu, Juliann; Funkhouser, Ellen; Lehman, Maryann; McBride, Ruth; Thompson, Van; Lindblad, Anne

2013-01-01

Research on the information-seeking behaviors of dental practitioners is scarce. Knowledge of dentists’ information-seeking behaviors should advance the translational gap between clinical dental research and dental practice. A cross-sectional survey was conducted to examine the self-reported information-seeking behaviors of dentists in three dental practice-based research networks (PBRNs). A total of 950 dentists (65 percent response rate) completed the survey. Dental journals and continuing dental education (CDE) sources used and their influence on practice guidance were assessed. PBRN participation level and years since dental degree were measured. Full-participant dentists reported reading the Journal of the American Dental Association and General Dentistry more frequently than did their reference counterparts. Printed journals were preferred by most dentists. A lower proportion of full participants obtained their CDE credits at dental meetings compared to partial participants. Experienced dentists read other dental information sources more frequently than did less experienced dentists. Practitioners involved in a PBRN differed in their approaches to accessing information sources. Peer-reviewed sources were more frequently used by full participants and dentists with fifteen years of experience or more. Dental PBRNs potentially play a significant role in the dissemination of evidence-based information. This study found that specific educational sources might increase and disseminate knowledge among dentists. PMID:23382524

Disentangling interacting dark energy cosmologies with the three-point correlation function

Science.gov (United States)

Moresco, Michele; Marulli, Federico; Baldi, Marco; Moscardini, Lauro; Cimatti, Andrea

2014-10-01

We investigate the possibility of constraining coupled dark energy (cDE) cosmologies using the three-point correlation function (3PCF). Making use of the CODECS N-body simulations, we study the statistical properties of cold dark matter (CDM) haloes for a variety of models, including a fiducial ΛCDM scenario and five models in which dark energy (DE) and CDM mutually interact. We measure both the halo 3PCF, ζ(θ), and the reduced 3PCF, Q(θ), at different scales (2 values of the halo 3PCF for perpendicular (elongated) configurations. The effect is also scale-dependent, with differences between ΛCDM and cDE models that increase at large scales. We made use of these measurements to estimate the halo bias, that results in fair agreement with the one computed from the two-point correlation function (2PCF). The main advantage of using both the 2PCF and 3PCF is to break the bias-σ8 degeneracy. Moreover, we find that our bias estimates are approximately independent of the assumed strength of DE coupling. This study demonstrates the power of a higher order clustering analysis in discriminating between alternative cosmological scenarios, for both present and forthcoming galaxy surveys, such as e.g. Baryon Oscillation Spectroscopic Survey and Euclid.

The use of tracer techniques in the study of soil water flows and contaminant transport

International Nuclear Information System (INIS)

Reeves, A.D.; Beven, K.J.

1990-04-01

This report reviews the use of different types of tracers in the characterisation of soil water flows and the implications of tracer studies for modelling contaminant transport. The tracers considered are a number of different anions, stable isotopes, radioactive tracers, organic dyes, fluorocarbons, gases, solid particles and water temperature. The theoretical basis for modelling the results of tracer experiments in terms of the traditional convective-dispersion equation (CDE) is outlined. A number of alternative modelling strategies are reviewed: the mobile/immobile water extension of the CDE; the Jury Transfer Function Model (TFM); the Aggregated Mixing Zone (AMZ) model and Random Particle Tracking models. The first will form the basis of the Systeme Hydrologique Europeen (SHE) contaminant transport component. The Jury and AMZ models are both linear models and are consequently limited to applications in which the flows may be considered to be quasi-steady or repeatable. Random particle tracking models have the advantage of both flexibility and applicability to transient and spatially variable flow domains. A random particle model is being implemented on a transputer workstation at Lancaster and will be used to explore the effect of sub-grid scale complexities on effective grid-scale parameter values for distributed models such as SHE. (author)

Research Note A novel method for estimating tree dimensions and ...

African Journals Online (AJOL)

The two objects must be adjacent to one another in the photograph. For rapid analysis, multiple photographs of different objects can be taken over a short period of time using the measuring staff. The method is not limited to plants and can be used to determine, for example, browser height, height at which browsers feed, ...

Metadata aided run selection at ATLAS

International Nuclear Information System (INIS)

Buckingham, R M; Gallas, E J; Tseng, J C-L; Viegas, F; Vinek, E

2011-01-01

Management of the large volume of data collected by any large scale scientific experiment requires the collection of coherent metadata quantities, which can be used by reconstruction or analysis programs and/or user interfaces, to pinpoint collections of data needed for specific purposes. In the ATLAS experiment at the LHC, we have collected metadata from systems storing non-event-wise data (Conditions) into a relational database. The Conditions metadata (COMA) database tables not only contain conditions known at the time of event recording, but also allow for the addition of conditions data collected as a result of later analysis of the data (such as improved measurements of beam conditions or assessments of data quality). A new web based interface called 'runBrowser' makes these Conditions Metadata available as a Run based selection service. runBrowser, based on PHP and JavaScript, uses jQuery to present selection criteria and report results. It not only facilitates data selection by conditions attributes, but also gives the user information at each stage about the relationship between the conditions chosen and the remaining conditions criteria available. When a set of COMA selections are complete, runBrowser produces a human readable report as well as an XML file in a standardized ATLAS format. This XML can be saved for later use or refinement in a future runBrowser session, shared with physics/detector groups, or used as input to ELSSI (event level Metadata browser) or other ATLAS run or event processing services.

Model of mouth-to-mouth transfer of bacterial lipoproteins through inner membrane LolC, periplasmic LolA, and outer membrane LolB

OpenAIRE

Okuda, Suguru; Tokuda, Hajime

2009-01-01

Outer membrane-specific lipoproteins in Escherichia coli are released from the inner membrane by an ATP-binding cassette transporter, the LolCDE complex, which causes the formation of a soluble complex with a periplasmic molecular chaperone, LolA. LolA then transports lipoproteins to the outer membrane where an outer membrane receptor, LolB, incorporates lipoproteins into the outer membrane. The molecular mechanisms underlying the Lol-dependent lipoprotein sorting have been clarified in detai...

Depth of Cure of New Flowable Composite Resins

Science.gov (United States)

2012-03-30

we met. His encouragement and undiminished love for the past 20 years has been my motivation. This thesis is also dedicated to my four children ...assessed to be the most commonly used by dentists. Therefore, the depths of cure data from this study are pertinent to the practice of dentistry ...Continuing Education in Dentistry . Http://cde.dentalaegis.com Dai Q, Bertrand S. Wear resistance of Surefil SDR Flow posterior flowable base. JDR

The Streptococcus sanguinis Competence Regulon Is Not Required for Infective Endocarditis Virulence in a Rabbit Model

OpenAIRE

Callahan, Jill E.; Munro, Cindy L.; Kitten, Todd

2011-01-01

Streptococcus sanguinis is an important component of dental plaque and a leading cause of infective endocarditis. Genetic competence in S. sanguinis requires a quorum sensing system encoded by the early comCDE genes, as well as late genes controlled by the alternative sigma factor, ComX. Previous studies of Streptococcus pneumoniae and Streptococcus mutans have identified functions for the >100-gene com regulon in addition to DNA uptake, including virulence. We investigated this possibility i...

Transporte do paclobutrazol em colunas de solos Paclobutrazol transport in soil columns

Directory of Open Access Journals (Sweden)

Mônica Lúcia Milfont

2008-10-01

Full Text Available O paclobutrazol (PBZ é um regulador de crescimento utilizado em sistemas agrícolas com o propósito de controlar o crescimento vegetativo, estimulando a capacidade reprodutiva das plantas. Esse regulador de crescimento permanece ativo no solo por muito tempo, e sua meia-vida varia com o tipo de solo e as condições climáticas, podendo afetar severamente o desenvolvimento dos cultivos subseqüentes e, por lixiviação, contaminar os aqüíferos. Este trabalho teve como objetivo estudar os mecanismos envolvidos no transporte e na sorção do PBZ em colunas, utilizando amostras de um Argissolo Amarelo eutrófico e de um Vertissolo Háplico órtico, ambos da região do Vale do Rio São Francisco. Os ensaios de deslocamento miscível do traçador (solução de KBr e do paclobutrazol foram realizados considerando duas vazões (0,4 e 1,6 cm³ min-1 para ambos os solos. As variáveis hidrodispersivas foram obtidas pelo ajuste do modelo convecção dispersão (CDE às curvas de eluição experimentais do KBr, e as variáveis do modelo CDE-2 sítios de sorção, às curvas de eluição experimentais do PBZ por intermédio do programa CXTFIT 2.0. O paclobutrazol foi mais facilmente transportado no Vertissolo Háplico que no Argissolo Amarelo. A taxa de recuperação foi menor para a menor vazão para ambos os solos. A quantidade de PBZ não recuperada pode ser atribuída, sobretudo, à histerese no processo de sorção irreversível. O modelo CDE a dois sítios de sorção representa adequadamente os dados experimentais das curvas de eluição do paclobutrazol. Os resultados obtidos evidenciam que o paclobutrazol, utilizado em pomares com manga irrigada cujos solos são o Argissolo Amarelo e o Vertissolo Háplico, oferece risco real de contaminação das águas subterrâneas da região.Paclobutrazol (PBZ is a post-emergence plant growth regulator used in agricultural systems with the objective of vegetative control growth, thereby increasing the

Challenges in the Development and Evolution of Secure Open Architecture Command and Control Systems (Briefing Charts)

Science.gov (United States)

2013-06-01

widgets for an OA system Design-time architecture: Browser, email, widget, DB, OS Go ogle Instance architecture: Chrome, Gmail, Google...provides functionally similar components or applications compatible with an OA system design Firefox Browser, WP, calendar Opera Instance...architecture: Firefox , AbiWord, Evolution, Fedora GPL Ab1Word Google Docs Instance ardlitecture: Fire fox, OR Google cal., Google Docs, Fedora

Does partner selection mediate the relationship between school attendance and HIV/HSV-2 among adolescent girls and young women in South Africa: An analysis of HPTN 068 data.

Science.gov (United States)

Stoner, Marie Cd; Edwards, Jessie K; Miller, William C; Aiello, Allison E; Halpern, Carolyn T; Julien, Aimée; Rucinski, Katherine B; Selin, Amanda; Twine, Rhian; Hughes, James P; Wang, Jing; Agyei, Yaw; Gómez-Olivé, F Xavier; Wagner, Ryan G; Laeyendecker, Oliver; Macphail, Catherine; Kahn, Kathleen; Pettifor, Audrey

2018-05-22

Similar prior publications by the first author using the same data source include: Stoner M.C.D, Edwards J, Miller W, Aiello A, Halpern C, Selin A, Hughes J, Wang J, Laeyendecker O, Agyei Y, McPhail C, Kahn K, Pettifor A.(2017) The effect of schooling on incident HIV and HSV-2 infection in young South African women enrolled in HPTN 068. AIDS. 24;31(15):2127-213. PMC5599334. Stoner M.C.D, Edwards J, Miller W, Aiello A, Halpern C, Julien Suarez, Selin A, Hughes J, Wang J, McPhail C, Kahn K, Pettifor A. (2017) The effect of schooling on age-disparate relationships and number of sexual partners among young women in rural South Africa enrolled in HPTN 068. J Acquir Immune Defic Syndr. 76 (5):e107-e114. PMC56801112This is an open-access article distributed under the terms of the Creative Commons Attribution-Non Commercial License 4.0 (CCBY-NC), where it is permissible to download, share, remix, transform, and buildup the work provided it is properly cited. The work cannot be used commercially without permission from the journal.Abstract OBJECTIVE:: School attendance prevents HIV and HSV-2 in adolescent girls and young women (AGYW) but the mechanisms to explain this relationship remain unclear. Our study assesses the extent to which characteristics of sex partners, partner age and number, mediate the relationship between attendance and risk of infection in AGYW in South Africa. We use longitudinal data from the HPTN 068 randomized controlled trial in rural South Africa where girls were enrolled in early adolescence and followed in the main trial for over three years. We examined older partners and number of partners as possible mediators. We use the parametric g-formula to estimate 4-year risk differences for the effect of school attendance on cumulative incidence of HIV/HSV-2 overall and the controlled direct effect (CDE) for mediation. We examined mediation separately and jointly for the mediators of interest. We found that young women with high attendance in school had

Rweb:Web-based Statistical Analysis

Directory of Open Access Journals (Sweden)

Jeff Banfield

1999-03-01

Full Text Available Rweb is a freely accessible statistical analysis environment that is delivered through the World Wide Web (WWW. It is based on R, a well known statistical analysis package. The only requirement to run the basic Rweb interface is a WWW browser that supports forms. If you want graphical output you must, of course, have a browser that supports graphics. The interface provides access to WWW accessible data sets, so you may run Rweb on your own data. Rweb can provide a four window statistical computing environment (code input, text output, graphical output, and error information through browsers that support Javascript. There is also a set of point and click modules under development for use in introductory statistics courses.

Digital Forensic Analysis Of Malware Infected Machine- Case Study

Directory of Open Access Journals (Sweden)

Amulya Podile

2015-08-01

Full Text Available Abstract Internet banking has created a convenient way for us to handle our business without leaving our home. Man-in-the-Browser is a special case of Man-in-the-middle attack targeted against customers of Internet banking. One of the capabilities of Man-in-the-Browser Trojan is modification of html referred to as html injection that allows the attacker to alter the html of a page before it is sent to the browser for interpretation. In this paper the authors discussed about forensic analysis of RAM Volatile data system logs and registry collected from bank customer computer infected with Trojan and confirmed the source of attack time-stamps and the behavior of the malware by using open source and commercial tools.

Quantification of Soil Physical Properties by Using X-Ray Computerized Tomography (CT) and Standard Laboratory (STD) Methods

Energy Technology Data Exchange (ETDEWEB)

Sanchez, Maria Ambert [Iowa State Univ., Ames, IA (United States)

2003-12-12

The implementation of x-ray computerized tomography (CT) on agricultural soils has been used in this research to quantify soil physical properties to be compared with standard laboratory (STD) methods. The overall research objective was to more accurately quantify soil physical properties for long-term management systems. Two field studies were conducted at Iowa State University's Northeast Research and Demonstration Farm near Nashua, IA using two different soil management strategies. The first field study was conducted in 1999 using continuous corn crop rotation for soil under chisel plow with no-till treatments. The second study was conducted in 2001 and on soybean crop rotation for the same soil but under chisel plow and no-till practices with wheel track and no-wheel track compaction treatments induced by a tractor-manure wagon. In addition, saturated hydraulic (K{sub s}) conductivity and the convection-dispersion (CDE) model were also applied using long-term soil management systems only during 2001. The results obtained for the 1999 field study revealed no significant differences between treatments and laboratory methods, but significant differences were found at deeper depths of the soil column for tillage treatments. The results for standard laboratory procedure versus CT method showed significant differences at deeper depths for the chisel plow treatment and at the second lower depth for no-till treatment for both laboratory methods. The macroporosity distribution experiment showed significant differences at the two lower depths between tillage practices. Bulk density and percent porosity had significant differences at the two lower depths of the soil column. The results obtained for the 2001 field study showed no significant differences between tillage practices and compaction practices for both laboratory methods, but significant differences between tillage practices with wheel track and no-wheel compaction treatments were found along the soil

Torsional ultrasound mode versus combined torsional and conventional ultrasound mode phacoemulsification for eyes with hard cataract

Directory of Open Access Journals (Sweden)

Fakhry MA

2011-07-01

Full Text Available Mohamed A Fakhry1,2, Malak I El Shazly11Department of Ophthalmology, Kasr El Aini Hospital, Cairo University, Cairo, Egypt; 2Cataract and Refractive Consultant, International Eye Hospital, Cairo, EgyptPurpose: To compare torsional versus combined torsional and conventional ultrasound modes in hard cataract surgery regarding ultrasound energy and time and effect on corneal endothelium.Settings: Kasr El Aini hospital, Cairo University, and International Eye Hospital, Cairo, Egypt.Methodology: Ninety-eight eyes of 63 patients were enrolled in this prospective comparative randomized masked clinical study. All eyes had nuclear cataracts of grades III and IV using the Lens Opacities Classification System III (LOCS III. Two groups were included, each having an equal number of eyes (49. The treatment for group A was combined torsional and conventional US mode phacoemulsification, and for group B torsional US mode phacoemulsification only. Pre- and post-operative assessments included best corrected visual acuity (BCVA, intraocular pressure (IOP, slit-lamp evaluation, and fundoscopic evaluation. Endothelial cell density (ECD and central corneal thickness (CCT were measured preoperatively, 1 day, 7 days, and 1 month postoperatively. All eyes were operated on using the Alcon Infiniti System (Alcon, Fort Worth, TX with the quick chop technique. All eyes were implanted with AcrySof SA60AT (Alcon intraocular lens (IOL. The main phaco outcome parameters included the mean ultrasound time (UST, the mean cumulative dissipated energy (CDE, and the percent of average torsional amplitude in position 3 (%TUSiP3.Results: Improvement in BCVA was statistically significant in both groups (P < 0.001. Comparing UST and CDE for both groups revealed results favoring the pure torsional group (P = 0.002 and P < 0.001 for UST; P = 0.058 and P = 0.009 for CDE. As for %TUSiP3, readings were higher for the pure torsional group (P = 0.03 and P = 0.01. All changes of CCT, and ECD

The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation.

Science.gov (United States)

Engels, Christina; Ruscheweyh, Hans-Joachim; Beerenwinkel, Niko; Lacroix, Christophe; Schwab, Clarissa

2016-01-01

Eubacterium hallii is considered an important microbe in regard to intestinal metabolic balance due to its ability to utilize glucose and the fermentation intermediates acetate and lactate, to form butyrate and hydrogen. Recently, we observed that E. hallii is capable of metabolizing glycerol to 3-hydroxypropionaldehyde (3-HPA, reuterin) with reported antimicrobial properties. The key enzyme for glycerol to 3-HPA conversion is the cobalamin-dependent glycerol/diol dehydratase PduCDE which also utilizes 1,2-propanediol (1,2-PD) to form propionate. Therefore our primary goal was to investigate glycerol to 3-HPA metabolism and 1,2-PD utilization by E. hallii along with its ability to produce cobalamin. We also investigated the relative abundance of E. hallii in stool of adults using 16S rRNA and pduCDE based gene screening to determine the contribution of E. hallii to intestinal propionate formation. We found that E. hallii utilizes glycerol to produce up to 9 mM 3-HPA but did not further metabolize 3-HPA to 1,3-propanediol. Utilization of 1,2-PD in the presence and absence of glucose led to the formation of propanal, propanol and propionate. E. hallii formed cobalamin and was detected in stool of 74% of adults using 16S rRNA gene as marker gene (n = 325). Relative abundance of the E. hallii 16S rRNA gene ranged from 0 to 0.59% with a mean relative abundance of 0.044%. E. hallii PduCDE was detected in 63 to 81% of the metagenomes depending on which subunit was investigated beside other taxons such as Ruminococcus obeum, R. gnavus, Flavonifractor plautii, Intestinimonas butyriciproducens, and Veillonella spp. In conclusion, we identified E. hallii as a common gut microbe with the ability to convert glycerol to 3-HPA, a step that requires the production of cobalamin, and to utilize 1,2-PD to form propionate. Our results along with its ability to use a broad range of substrates point at E. hallii as a key species within the intestinal trophic chain with the potential to

The common gut microbe Eubacterium hallii also contributes to intestinal propionate formation

Directory of Open Access Journals (Sweden)

Christina eEngels

2016-05-01

Full Text Available Eubacterium hallii is considered an important microbe in regard to intestinal metabolic balance due to its ability to utilize glucose and the fermentation intermediates acetate and lactate, to form butyrate and hydrogen. Recently, we observed that E. hallii is capable of metabolizing glycerol to 3-hydroxypropionaldehyde (3-HPA, reuterin with reported antimicrobial properties. The key enzyme for glycerol to 3-HPA conversion is the cobalamin-dependent glycerol/diol dehydratase PduCDE which also utilizes 1,2-propanediol (1,2-PD to form propionate. Therefore our primary goal was to investigate glycerol to 3-HPA metabolism and 1,2-PD utilization by E. hallii along with its ability to produce cobalamin. We also investigated the relative abundance of E. hallii in stool of adults using 16S rRNA and pduCDE based gene screening to determine the contribution of E. hallii to intestinal propionate formation. We found that E. hallii utilizes glycerol to produce up to 9 mM 3-HPA but did not further metabolize 3-HPA to 1,3-propanediol (1,3-PD. Utilization of 1,2-PD in the presence and absence of glucose led to the formation of propanal, propanol and propionate. E. hallii formed cobalamin and was detected in stool of 74% of adults using 16S rRNA gene as marker gene (n = 325. Relative abundance of the E. hallii 16S rRNA gene ranged from 0 to 0.59% with a mean relative abundance of 0.044%. E. hallii PduCDE was detected in 63 to 81% of the metagenomes depending on which subunit was investigated beside other taxons such as Ruminococcus obeum, Ruminococcus gnavus, Flavonifractor prautii, Intestinimonas butyriciproducens, and Veillonella spp. In conclusion, we identified E. hallii as a common gut microbe with the ability to convert glycerol to 3-HPA, a step that requires the production of cobalamin, and to utilize 1,2-PD to form propionate. Our results along with its ability to use a broad range of substrates point at E. hallii as a key species within the intestinal

Addressing an I/O Bottleneck in a Web-Based CERES QC Tool

Science.gov (United States)

Heckert, E.; Sun-Mack, S.; Chen, Y.; Chu, C.; Smith, R. A.

2016-12-01

In this poster, we explore the technologies we have used to overcome the problem of transmitting and analyzing large datasets in our web-based CERES Quality Control tool and consider four technologies to potentially adopt for future performance improvements. The CERES team uses this tool to validate pixel-level data from Terra, Aqua, SNPP, MSG, MTSAT, and many geostationary GOES satellites, as well as to develop cloud retrieval algorithms. The tool includes a histogram feature that allows the user to aggregate data from many different timestamps and different scenes globally or locally selected by the user by drawing bounding boxes. In order to provide a better user experience, the tool passes a large amount of data to the user's browser. The browser then processes the data in order to present it to users in various formats, for example as a histogram. In addition to using multiple servers to subset data and pass a smaller set of data to the browser, the tool also makes use of a compression technology, Gzip, to reduce the size of the data. However, sometimes the application in the browser is still slow when dealing with these large sets of data due to the delay in the browser receiving the server's response. To address this I/O bottleneck, we will investigate four alternatives and present the results in this poster: 1) sending uncompressed data, 2) ESRI's Limited Error Raster Compression (LERC), 3) Gzip, and 4) WebSocket protocol. These approaches are compared to each other and to the uncompressed control to determine the optimal solution.

75 FR 44053 - Proposed Collection; Comment Request: CDFI/CDE Project Profiles Web Form

Science.gov (United States)

2010-07-27

... provide loans, investments, financial services and technical assistance to underserved populations and... DEPARTMENT OF THE TREASURY Community Development Financial Institutions Fund Proposed Collection.... 3506(c)(2)(A). Currently, the Community Development Financial Institutions (CDFI) Fund, Department of...

An ancestral bacterial division system is widespread in eukaryotic mitochondria

Czech Academy of Sciences Publication Activity Database

Leger, M.M.; Petrů, M.; Žárský, V.; Eme, L.; Vlček, Čestmír; Harding, T.; Lang, B.F.; Eliáš, M.; Doležal, P.; Roger, A. J.

2015-01-01

Roč. 112, č. 33 (2015), s. 10239-10246 ISSN 0027-8424 R&D Projects: GA ČR GA13-24983S; GA MŠk(CZ) ED1.1.00/02.0109 Grant - others:GA ČR GA13-29423S; GA MŠk(CZ) CZ.1.05/1.1.00/02.0109 Institutional support: RVO:68378050 Keywords : mitochondria * Min proteins * MinCDE * mitochondrial fission * mitochondrial division Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 9.423, year: 2015

If DSME Were a Pill, Would You Prescribe It?

OpenAIRE

Powers, Margaret A.

2017-01-01

EDITOR’S NOTE: This address was delivered by Margaret A. Powers, PhD, RD, CDE, President, Health Care & Education, of the American Diabetes Association (ADA), at the ADA’s 76th Scientific Sessions in New Orleans, La., on 11 June 2016. Dr. Powers conducts research and has a clinical practice as a registered dietitian and diabetes educator at the International Diabetes Center at Park Nicollet in Minneapolis, Minn. Her research focuses on improving diabetes outcomes, including factors that affec...

Defending against Browser Based Data Exfiltration Attacks

Science.gov (United States)

Sood, Aditya

2013-01-01

The global nature of Internet has revolutionized cultural and commercial interactions while at the same time it has provided opportunities for cyber criminals. Crimeware services now exist that have transformed the nature of cyber crime by making it more automated and robust. Furthermore, these crimeware services are sold as a part of a growing…

Feicim: A browser for data and algorithms

International Nuclear Information System (INIS)

Lazar, Z I; McNulty, R; Kechadi, T

2008-01-01

As programming and programming environments become increasingly complex, more effort must be invested in presenting the user with a simple yet comprehensive interface. Feicim is a tool that unifies the representation of data and algorithms. It provides resource discovery of data-files, data-content and algorithm implementation through an intuitive graphical user interface. It allows local or remote data stored on Grid type platforms to be accessed by the users, the viewing and creation of user-defined or collaboration-defined algorithms, the implementation of algorithms, and the production of output data-files and/or histograms. An application of Feicim is illustrated using the LHCb data. It provides a graphical view of the Gaudi architecture, LHCb event data model, and interfaces to the file catalogue. Feicim is particularly suited to such frameworks as Gaudi which consider algorithms as objects [2]. Instant viewing of any LHCb data will be of particular value in the commissioning of the detector and for quickly familiarizing newcomers to the data and software environment

Microincision versus small-incision coaxial cataract surgery using different power modes for hard nuclear cataract.

Science.gov (United States)

Kim, Eun Chul; Byun, Yong Soo; Kim, Man Soo

2011-10-01

To compare the efficacy of microincision and small-incision coaxial phacoemulsification in treating hard cataracts using different ultrasound power modes. Department of Ophthalmology, Seoul St. Mary's Hospital, College of Medicine, Catholic University of Korea, Seoul, Korea. Randomized clinical trial. Eyes with hard cataract were randomized to have an initial incision of 1.80 mm, 2.20 mm, or 2.75 mm. The eyes in each group were equally randomized to treatment with burst, pulse, or continuous mode. Ultrasound time (UST), mean cumulative dissipated energy (CDE), corrected distance visual acuity (CDVA), surgically induced corneal astigmatism, incisional and central corneal thickness (CCT), and endothelial cell counts were evaluated. The study enrolled 180 eyes, 60 in each group. Two months postoperatively, there were no statistically significant differences in UST, CDE, CDVA, CCT, or percentage endothelial cell loss between the 3 incision groups. The 2.75 mm incision induced more astigmatism at 2 months and less incisional corneal edema at 1 week than the 1.80 mm or 2.20 mm incision (Phard cataract. The intraoperative energy use and ocular damage was less with the pulse and burst modes than with the continuous mode. No author has a financial or proprietary interest in any material or method mentioned. Copyright © 2011 ASCRS and ESCRS. Published by Elsevier Inc. All rights reserved.

Comparison of torsional and longitudinal modes using phacoemulsification parameters.

Science.gov (United States)

Rekas, Marek; Montés-Micó, Robert; Krix-Jachym, Karolina; Kluś, Adam; Stankiewicz, Andrzej; Ferrer-Blasco, Teresa

2009-10-01

To compare phacoemulsification parameters of torsional and longitudinal ultrasound modes. Ophthalmology Department, Military Health Service Institute, Warsaw, Poland. This prospective study evaluated eyes 1, 7, and 30 days after phacoemulsification with an Infiniti Vision System using the torsional or longitudinal ultrasound (US) mode. Cataract classification was according to the Lens Opacities Classification System II. Nucleus fragmentation was by the phaco-chop and quick-chop methods. Primary outcome measures were phaco time, mean phaco power, mean torsional amplitude, and aspiration time. Total energy, defined as cumulative dissipated energy (CDE) x aspiration time, and the effective coefficient, defined as aspiration time/phaco time, were also calculated. Four hundred eyes were evaluated. The CDE was statistically significantly lower in the torsional mode for nucleus grades I, II, and III (P.05). Aspiration time was statistically significantly shorter in the torsional mode than in the longitudinal mode for nucleus grades III and IV (P<.05). Total energy was significantly lower in the torsional mode for all nucleus densities (P<.05). The effective coefficient was significantly lower in the longitudinal mode except for nucleus grade I (P<.05). Torsional phacoemulsification was more effective than longitudinal phacoemulsification in the amount of applied fluid and the quantity of US energy expended. With the torsional method, it was possible to maintain a constant ratio of amount of fluid flow to quantity of US energy used, regardless of nucleus density.

RadLex - German version: a radiological lexicon for indexing image and report information

International Nuclear Information System (INIS)

Marwede, D.; Lobsien, D.; Kahn, T.; Daumke, P.; Marko, K.; Schulz, S.

2009-01-01

Purpose: Since 2003 the Radiological Society of North America (RSNA) has been developing a lexicon of standardized radiological terms (RadLex) intended to support the structured reporting of imaging observations and the indexing of teaching cases. The aim of this study was to translate the first version of the lexicon (1 - 2007) into German and to implement a language-independent online term browser. Materials and Methods: RadLex version 1 - 2007 contains 6303 terms in nine main categories. Two radiologists independently translated the lexicon using medical dictionaries. Terms translated differently were revised and translated by consensus. For the development of an online term browser, a text processing algorithm called morphosemantic indexing was used which splits up words into small semantic units and compares those units to language-specific subword thesauri. Results: In total 6240 of 6303 terms (99 %) were translated. Of those terms 3965 were German, 1893 were Latin, 359 were multilingual, and 23 were English terms that are also used in German and were therefore maintained. The online term browser supports a language-independent term search in RadLex (German/English) and other common medical terminology (e.g., ICD 10). The term browser displays term hierarchies and translations in different frames and the complexity of the result lists can be adapted by the user. Conclusion: RadLex version 1 - 2007 developed by the RSNA is now available in German and can be accessed online through a term browser with an efficient search function. This is an important precondition for the future comparison of national and international indexed radiological examination results and the interoperability between digital teaching resources. (orig.)

RadLex - German version: a radiological lexicon for indexing image and report information; RadLex - deutsche Version: Ein radiologisches Lexikon zur Indexierung von Bild- und Befunddaten

Energy Technology Data Exchange (ETDEWEB)

Marwede, D.; Lobsien, D.; Kahn, T. [Universitaetsklinikum Leipzig (Germany). Klinik und Poliklinik fuer Diagnostische und Interventionelle Radiologie; Daumke, P.; Marko, K.; Schulz, S. [Universitaetsklinikum Freiburg (Germany). Inst. fuer Medizinische Biometrie und Medizinische Informatik

2009-01-15

Purpose: Since 2003 the Radiological Society of North America (RSNA) has been developing a lexicon of standardized radiological terms (RadLex) intended to support the structured reporting of imaging observations and the indexing of teaching cases. The aim of this study was to translate the first version of the lexicon (1 - 2007) into German and to implement a language-independent online term browser. Materials and Methods: RadLex version 1 - 2007 contains 6303 terms in nine main categories. Two radiologists independently translated the lexicon using medical dictionaries. Terms translated differently were revised and translated by consensus. For the development of an online term browser, a text processing algorithm called morphosemantic indexing was used which splits up words into small semantic units and compares those units to language-specific subword thesauri. Results: In total 6240 of 6303 terms (99 %) were translated. Of those terms 3965 were German, 1893 were Latin, 359 were multilingual, and 23 were English terms that are also used in German and were therefore maintained. The online term browser supports a language-independent term search in RadLex (German/English) and other common medical terminology (e.g., ICD 10). The term browser displays term hierarchies and translations in different frames and the complexity of the result lists can be adapted by the user. Conclusion: RadLex version 1 - 2007 developed by the RSNA is now available in German and can be accessed online through a term browser with an efficient search function. This is an important precondition for the future comparison of national and international indexed radiological examination results and the interoperability between digital teaching resources. (orig.)

Substructural Logical Specifications

Science.gov (United States)

2012-11-14

and independently in the context of CLF by Schack-Nielsen [SN07] and by Cruz and Hou [CH12]; Schack-Nielsen proves the equivalence of the two specifi...cations, whereas Cruz and Hou used the connection informally. The contribution of this section is to describe a general transformation (of which...Functional Programming (LFP’86), pages 13–27. ACM, 1986. 5.1 [CDE+11] Manuel Clavel, Francisco Durán, Steven Eker, Patrick Lincoln, Narciso Martı́- 290 Oliet

Testing - Smart strategy for safety and mission quality

Science.gov (United States)

Rodney, George A.

The paper is concerned with the need for a comprehensive test plan for the Space Station Freedom (SST) that would fully verify specification compliance and be based on an error budget. In particular, attention is given to some lessons learned from other NASA programs and the principal challenges for SSF testing, including phase C/D/E agreements, testing parameters, phase testing, and the human element. The importance of close teamwork between the NASA/Contractor systems engineers and assurance engineers is emphasized.

Educational simulator app and web page for exploring Nuclear and Compass Magnetic Resonance

OpenAIRE

Hanson, Lars G.

2016-01-01

A graphical app and browser-based simulator, CompassMR, was developed for initial Magnetic Resonance (MR) education. It is available at http://drcmr.dk/CompassMR/ and executes directly in most browsers with no further need for software. Easy access and a simple user interface invite student experimentation that improves understanding of basic MR phenomena. The simulator is used to introduce and explore electromagnetism, magnetic dipoles, static and radiofrequency fields, Compass MR, the free ...

Empreinte digitale d'appareil : exploration de la diversité des terminaux modernes pour renforcer l'authentification en ligne et construire des contremesures côté client

OpenAIRE

Laperdrix , Pierre

2017-01-01

Users are presented with an ever-increasing number of choices to connect to the Internet. From desktops, laptops, tablets and smartphones, anyone can find the perfect device that suits his or her needs while factoring mobility, size or processing power. Browser fingerprinting became a reality thanks to the software and hardware diversity that compose every single one of our modem devices. By collecting device-specific information with a simple script running in the browser, a server can fully...

Empreinte digitale d’appareil: exploration de la diversité des terminaux modernes pour renforcer l’authentification en ligne et construire descontremesures côté client

OpenAIRE

Laperdrix , Pierre

2017-01-01

Users are presented with an ever-increasing number of choices to connect to the Internet. From desktops, laptops, tablets and smartphones, anyone can find the perfect device that suits his or her needs while factoring mobility, size or processing power. Browser fingerprinting became a reality thanks to the software and hardware diversity that compose every single one of our modern devices. By collecting device-specific information with a simple script running in the browser, a server can full...

Use of mobile devices to answer online surveys: implications for research.

Science.gov (United States)

Cunningham, John A; Neighbors, Clayton; Bertholet, Nicolas; Hendershot, Christian S

2013-07-08

There is a growing use of mobile devices to access the Internet. We examined whether participants who used a mobile device to access a brief online survey were quicker to respond to the survey but also, less likely to complete it than participants using a traditional web browser. Using data from a recently completed online intervention trial, we found that participants using mobile devices were quicker to access the survey but less likely to complete it compared to participants using a traditional web browser. More concerning, mobile device users were also less likely to respond to a request to complete a six week follow-up survey compared to those using traditional web browsers. With roughly a third of participants using mobile devices to answer an online survey in this study, the impact of mobile device usage on survey completion rates is a concern. ClinicalTrials.gov: NCT01521078.

Defective Lipoprotein Sorting Induces lolA Expression through the Rcs Stress Response Phosphorelay System

OpenAIRE

Tao, Kazuyuki; Narita, Shin-ichiro; Tokuda, Hajime

2012-01-01

The Escherichia coli LolA protein is a lipoprotein-specific chaperone that carries lipoproteins from the inner to the outer membrane. A dominant negative LolA mutant, LolA(I93C/F140C), in which both 93Ile and 140Phe are replaced by Cys, binds tightly to the lipoprotein-dedicated ABC transporter LolCDE complex on the inner membrane and therefore inhibits the detachment of outer membrane-specific lipoproteins from the inner membrane. We found that the expression of this mutant strongly induced ...

Redefining the essential trafficking pathway for outer membrane lipoproteins

OpenAIRE

Grabowicz, Marcin; Silhavy, Thomas J.

2017-01-01

In Gram-negative bacteria, most lipoproteins synthesized in the inner membrane (IM) are trafficked to the outer membrane (OM). The Lol pathway is the trafficking paradigm: LolCDE releases lipoproteins from the IM; LolA shuttles them between membranes to LolB in the OM. Several OM lipoproteins are essential for viability. In apparent concordance, the Lol proteins are each essential in wild-type cells. However, we show that Escherichia coli grows well without LolA and LolB in the absence of one...

Real-time virtual EAST physical experiment system

Energy Technology Data Exchange (ETDEWEB)

Li, Dan, E-mail: lidan@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); Xiao, B.J., E-mail: bjxiao@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); School of Nuclear Science and Technology, University of Science and Technology of China, Hefei, Anhui (China); Xia, J.Y., E-mail: jyxia@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); Yang, Fei, E-mail: fyang@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); Department of Computer Science, Anhui Medical University, Hefei, Anhui (China)

2014-05-15

Graphical abstract: - Highlights: • 3D model of experimental advanced superconducting tokamak is established. • Interaction behavior is created that the users can get information from database. • The system integrates data acquisition, plasma shape visualization and simulation. • Browser-oriented system is web-based and more interactive, immersive and convenient. • The system provides the framework for virtual physical experimental environment. - Abstract: As a large fusion reaction device, experimental advanced superconducting tokamak (EAST)’s internal structure is complicated and not easily accessible. Moreover, various diagnostic systems and complicated configuration bring about the inconveniency to the scientists who are unfamiliar with the system but interested in the data. We propose a virtual system to display the 3D model of EAST facility and enable people to view its inner structure and get access to the information of its components in various view sights. We would also provide most of the diagnostic configuration details together with their signal names and physical properties. Compared to the previous ways of viewing information by reference to collected drawings and videos, virtual EAST system is more interactive and immersive. We constructed the browser-oriented virtual EAST physical experiment system, integrated real-time experiment data acquisition, plasma shape visualization and experiment result simulation in order to reproduce physical experiments in a web browser. This system used B/S (Browser/Server) structure in combination with the technology of virtual reality – VRML (Virtual Reality Modeling Language) and Java 3D. In order to avoid the bandwidth limit across internet, we balanced the rendering speed and the precision of the virtual model components. Any registered user can view the experimental information visually and efficiently by logining the system through a web browser. The establishment of the system provides the

Real-time virtual EAST physical experiment system

International Nuclear Information System (INIS)

Li, Dan; Xiao, B.J.; Xia, J.Y.; Yang, Fei

2014-01-01

Graphical abstract: - Highlights: • 3D model of experimental advanced superconducting tokamak is established. • Interaction behavior is created that the users can get information from database. • The system integrates data acquisition, plasma shape visualization and simulation. • Browser-oriented system is web-based and more interactive, immersive and convenient. • The system provides the framework for virtual physical experimental environment. - Abstract: As a large fusion reaction device, experimental advanced superconducting tokamak (EAST)’s internal structure is complicated and not easily accessible. Moreover, various diagnostic systems and complicated configuration bring about the inconveniency to the scientists who are unfamiliar with the system but interested in the data. We propose a virtual system to display the 3D model of EAST facility and enable people to view its inner structure and get access to the information of its components in various view sights. We would also provide most of the diagnostic configuration details together with their signal names and physical properties. Compared to the previous ways of viewing information by reference to collected drawings and videos, virtual EAST system is more interactive and immersive. We constructed the browser-oriented virtual EAST physical experiment system, integrated real-time experiment data acquisition, plasma shape visualization and experiment result simulation in order to reproduce physical experiments in a web browser. This system used B/S (Browser/Server) structure in combination with the technology of virtual reality – VRML (Virtual Reality Modeling Language) and Java 3D. In order to avoid the bandwidth limit across internet, we balanced the rendering speed and the precision of the virtual model components. Any registered user can view the experimental information visually and efficiently by logining the system through a web browser. The establishment of the system provides the

A web implementation: the good and the not-so-good.

Science.gov (United States)

Bergsneider, C; Piraino, D; Fuerst, M

2001-06-01

E-commerce, e-mail, e-greeting, e-this, and e-that everywhere you turn there is a new "e" word for an internet or Web application. We, at the Cleveland Clinic Foundation, have been "e-nlightened" and will discuss in this report the implementation of a web-based radiology information system (RIS) in our radiology division or "e-radiology" division. The application, IDXRad Version 10.0 from IDX Corp, Burlington, VT, is in use at the Cleveland Clinic Foundation and has both intranet (for use in Radiology) and internet (referring physician viewing) modules. We will concentrate on the features of using a web browser for the application's front-end, including easy prototyping for screen review, easier mock-ups of demonstrations by vendors and developers, and easier training as more people become web-addicted. Project communication can be facilitated with an internal project web page, and use of the web browser can accommodate quicker turnaround of software upgrades as the software code is centrally located. Compared with other technologies, including client/server, there is a smaller roll out cost when using a standard web browser. However, the new technology requires a change and changes are never implemented without challenges. A seasoned technologist using a legacy system can enter data quicker using function keys than using a graphical user interface and pointing and clicking through a series of pop-up windows. Also, effective use of a web browser depends on intuitive design for it to be easily implemented and accepted by the user. Some software packages will not work on both of the popular web browsers and then are tailored to specific release levels. As computer-based patient records become a standard, patient confidentiality must be enforced. The technical design and application security features that support the web-based software package will be discussed. Also web technologies have their own implementation issues.

jsPhyloSVG: a javascript library for visualizing interactive and vector-based phylogenetic trees on the web.

Science.gov (United States)

Smits, Samuel A; Ouverney, Cleber C

2010-08-18

Many software packages have been developed to address the need for generating phylogenetic trees intended for print. With an increased use of the web to disseminate scientific literature, there is a need for phylogenetic trees to be viewable across many types of devices and feature some of the interactive elements that are integral to the browsing experience. We propose a novel approach for publishing interactive phylogenetic trees. We present a javascript library, jsPhyloSVG, which facilitates constructing interactive phylogenetic trees from raw Newick or phyloXML formats directly within the browser in Scalable Vector Graphics (SVG) format. It is designed to work across all major browsers and renders an alternative format for those browsers that do not support SVG. The library provides tools for building rectangular and circular phylograms with integrated charting. Interactive features may be integrated and made to respond to events such as clicks on any element of the tree, including labels. jsPhyloSVG is an open-source solution for rendering dynamic phylogenetic trees. It is capable of generating complex and interactive phylogenetic trees across all major browsers without the need for plugins. It is novel in supporting the ability to interpret the tree inference formats directly, exposing the underlying markup to data-mining services. The library source code, extensive documentation and live examples are freely accessible at www.jsphylosvg.com.

The rendering context for stereoscopic 3D web

Science.gov (United States)

Chen, Qinshui; Wang, Wenmin; Wang, Ronggang

2014-03-01

3D technologies on the Web has been studied for many years, but they are basically monoscopic 3D. With the stereoscopic technology gradually maturing, we are researching to integrate the binocular 3D technology into the Web, creating a stereoscopic 3D browser that will provide users with a brand new experience of human-computer interaction. In this paper, we propose a novel approach to apply stereoscopy technologies to the CSS3 3D Transforms. Under our model, each element can create or participate in a stereoscopic 3D rendering context, in which 3D Transforms such as scaling, translation and rotation, can be applied and be perceived in a truly 3D space. We first discuss the underlying principles of stereoscopy. After that we discuss how these principles can be applied to the Web. A stereoscopic 3D browser with backward compatibility is also created for demonstration purposes. We take advantage of the open-source WebKit project, integrating the 3D display ability into the rendering engine of the web browser. For each 3D web page, our 3D browser will create two slightly different images, each representing the left-eye view and right-eye view, both to be combined on the 3D display to generate the illusion of depth. And as the result turns out, elements can be manipulated in a truly 3D space.

Effect of IOP based infusion system with and without balanced phaco tip on cumulative dissipated energy and estimated fluid usage in comparison to gravity fed infusion in torsional phacoemulsification.

Science.gov (United States)

Malik, Praveen K; Dewan, Taru; Patidar, Arun Kr; Sain, Ekta

2017-01-01

To evaluate the effect of three different combinations of tip designs and infusion systems in torsional phacoemulsification (INFINITI and CENTURION) in patients with cataract. According to the manufacturer, two unique improvements in the Centurion are: active fluid dynamic management system and use of an intrepid balanced tip. The study specifically aimed to evaluate the beneficial effects, if any, of change in tip design and infusion system individually and in combination on both per-operative parameters as well as endothelial health over 6 months. One hundred and twenty six consenting patients of grade 4.0-6.9 senile cataract were randomized into three groups for phacoemulsification: Group A ( n  = 42): Gravity fed infusion system and 45 0 Kelman miniflared ABS phaco tip; Group B ( n  = 42): intraocular pressure (IOP) based infusion system and 45 0 Kelman miniflared ABS phaco tip; Group C ( n  = 42): IOP based infusion system and 45 0 Intrepid balanced phaco tip. The cumulative dissipated energy (CDE), estimated fluid usage (EFU) and total aspiration time (TAT) were compared peroperatively. The endothelial parameters were followed up postoperatively for six months. The three arms were matched for age ( p  = 0.525), gender ( p  = 0.96) and grade of cataract ( p  = 0.177). Group C was associated with significant reductions in CDE ( p  = 0.001), EFU ( p  < 0.0005) as well as TAT ( p  = 0.001) in comparison to the other groups. All three groups had comparable baseline endothelial cell density ( p  = 0.876) and central corneal thickness ( p  = 0.561). On post-operative evaluation, although all groups were comparable till 3 months, by 6 months, the percentage losses in endothelial cell density were significantly lower in group C as compared to the other groups. Use of an IOP based phacoemulsification system in association with use of the Intrepid balanced tip reduces the CDE, EFU and TAT in comparison to a gravity fed system with a mini flared

Performance evaluation of a distance learning program.

OpenAIRE

Dailey, D. J.; Eno, K. R.; Brinkley, J. F.

1994-01-01

This paper presents a performance metric which uses a single number to characterize the response time for a non-deterministic client-server application operating over the Internet. When applied to a Macintosh-based distance learning application called the Digital Anatomist Browser, the metric allowed us to observe that "A typical student doing a typical mix of Browser commands on a typical data set will experience the same delay if they use a slow Macintosh on a local network or a fast Macint...

Certificate Transparency with Privacy

Directory of Open Access Journals (Sweden)

Eskandarian Saba

2017-10-01

Full Text Available Certificate transparency (CT is an elegant mechanism designed to detect when a certificate authority (CA has issued a certificate incorrectly. Many CAs now support CT and it is being actively deployed in browsers. However, a number of privacy-related challenges remain. In this paper we propose practical solutions to two issues. First, we develop a mechanism that enables web browsers to audit a CT log without violating user privacy. Second, we extend CT to support non-public subdomains.

A federated semantic metadata registry framework for enabling interoperability across clinical research and care domains.

Science.gov (United States)

Sinaci, A Anil; Laleci Erturkmen, Gokce B

2013-10-01

In order to enable secondary use of Electronic Health Records (EHRs) by bridging the interoperability gap between clinical care and research domains, in this paper, a unified methodology and the supporting framework is introduced which brings together the power of metadata registries (MDR) and semantic web technologies. We introduce a federated semantic metadata registry framework by extending the ISO/IEC 11179 standard, and enable integration of data element registries through Linked Open Data (LOD) principles where each Common Data Element (CDE) can be uniquely referenced, queried and processed to enable the syntactic and semantic interoperability. Each CDE and their components are maintained as LOD resources enabling semantic links with other CDEs, terminology systems and with implementation dependent content models; hence facilitating semantic search, much effective reuse and semantic interoperability across different application domains. There are several important efforts addressing the semantic interoperability in healthcare domain such as IHE DEX profile proposal, CDISC SHARE and CDISC2RDF. Our architecture complements these by providing a framework to interlink existing data element registries and repositories for multiplying their potential for semantic interoperability to a greater extent. Open source implementation of the federated semantic MDR framework presented in this paper is the core of the semantic interoperability layer of the SALUS project which enables the execution of the post marketing safety analysis studies on top of existing EHR systems. Copyright © 2013 Elsevier Inc. All rights reserved.

Results of endocapsular phacofracture debulking of hard cataracts.

Science.gov (United States)

Davison, James A

2015-01-01

To present a phacoemulsification technique for hard cataracts and compare postoperative results using two different ultrasonic tip motions during quadrant removal. A phacoemulsification technique which employs in situ fracture and endocapsular debulking for hard cataracts is presented. The prospective study included 56 consecutive cases of hard cataract (LOCS III NC [Lens Opacification Classification System III, nuclear color], average 4.26), which were operated using the Infiniti machine and the Partial Kelman tip. Longitudinal tip movement was used for sculpting for all cases which were randomized to receive longitudinal or torsional/interjected longitudinal (Intelligent Phaco [IP]) strategies for quadrant removal. Measurements included cumulative dissipated energy (CDE), 3 months postoperative surgically induced astigmatism (SIA), and corneal endothelial cell density (ECD) losses. No complications were recorded in any of the cases. Respective overall and longitudinal vs IP means were as follows: CDE, 51.6±15.6 and 55.7±15.5 vs 48.6±15.1; SIA, 0.36±0.2 D and 0.4±0.2 D vs 0.3±0.2 D; and mean ECD loss, 4.1%±10.8% and 5.9%±13.4% vs 2.7%±7.8%. The differences between longitudinal and IP were not significant for any of the three categories. The endocapsular phacofracture debulking technique is safe and effective for phacoemulsification of hard cataracts using longitudinal or torsional IP strategies for quadrant removal with the Infiniti machine and Partial Kelman tip.

Effects of Pisha sandstone content on solute transport in a sandy soil.

Science.gov (United States)

Zhen, Qing; Zheng, Jiyong; He, Honghua; Han, Fengpeng; Zhang, Xingchang

2016-02-01

In sandy soil, water, nutrients and even pollutants are easily leaching to deeper layers. The objective of this study was to assess the effects of Pisha sandstone on soil solute transport in a sandy soil. The miscible displacement technique was used to obtain breakthrough curves (BTCs) of Br(-) as an inert non-adsorbed tracer and Na(+) as an adsorbed tracer. The incorporation of Pisha sandstone into sandy soil was able to prevent the early breakthrough of both tracers by decreasing the saturated hydraulic conductivity compared to the controlled sandy soil column, and the impeding effects increased with Pisha sandstone content. The BTCs of Br(-) were accurately described by both the convection-dispersion equation (CDE) and the two-region model (T-R), and the T-R model fitted the experimental data slightly better than the CDE. The two-site nonequilibrium model (T-S) accurately fit the Na(+) transport data. Pisha sandstone impeded the breakthrough of Na(+) not only by decreasing the saturated hydraulic conductivity but also by increasing the adsorption capacity of the soil. The measured CEC values of Pisha sandstone were up to 11 times larger than those of the sandy soil. The retardation factors (R) determined by the T-S model increased with increasing Pisha sandstone content, and the partition coefficient (K(d)) showed a similar trend to R. According to the results of this study, Pisha sandstone can successfully impede solute transport in a sandy soil column. Copyright © 2015 Elsevier Ltd. All rights reserved.

[Design and validation of a questionnaire for psychosocial nursing diagnosis in Primary Care].

Science.gov (United States)

Brito-Brito, Pedro Ruymán; Rodríguez-Álvarez, Cristobalina; Sierra-López, Antonio; Rodríguez-Gómez, José Ángel; Aguirre-Jaime, Armando

2012-01-01

To develop a valid, reliable and easy-to-use questionnaire for a psychosocial nursing diagnosis. The study was performed in two phases: first phase, questionnaire design and construction; second phase, validity and reliability tests. A bank of items was constructed using the NANDA classification as a theoretical framework. Each item was assigned a Likert scale or dichotomous response. The combination of responses to the items constituted the diagnostic rules to assign up to 28 labels. A group of experts carried out the validity test for content. Other validated scales were used as reference standards for the criterion validity tests. Forty-five nurses provided the questionnaire to the patients on three separate occasions over a period of three weeks, and the other validated scales only once to 188 randomly selected patients in Primary Care centres in Tenerife (Spain). Validity tests for construct confirmed the six dimensions of the questionnaire with 91% of total variance explained. Validity tests for criterion showed a specificity of 66%-100%, and showed high correlations with the reference scales when the questionnaire was assigning nursing diagnoses. Reliability tests showed agreement of 56%-91% (PQuestionnaire for Psychosocial Nursing Diagnosis was called CdePS, and included 61 items. The CdePS is a valid, reliable and easy-to-use tool in Primary Care centres to improve the assigning of a psychosocial nursing diagnosis. Copyright © 2011 Elsevier España, S.L. All rights reserved.

BigWig and BigBed: enabling browsing of large distributed datasets.

Science.gov (United States)

Kent, W J; Zweig, A S; Barber, G; Hinrichs, A S; Karolchik, D

2010-09-01

BigWig and BigBed files are compressed binary indexed files containing data at several resolutions that allow the high-performance display of next-generation sequencing experiment results in the UCSC Genome Browser. The visualization is implemented using a multi-layered software approach that takes advantage of specific capabilities of web-based protocols and Linux and UNIX operating systems files, R trees and various indexing and compression tricks. As a result, only the data needed to support the current browser view is transmitted rather than the entire file, enabling fast remote access to large distributed data sets. Binaries for the BigWig and BigBed creation and parsing utilities may be downloaded at http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/. Source code for the creation and visualization software is freely available for non-commercial use at http://hgdownload.cse.ucsc.edu/admin/jksrc.zip, implemented in C and supported on Linux. The UCSC Genome Browser is available at http://genome.ucsc.edu.

Reducing Risky Security Behaviours: Utilising Affective Feedback to Educate Users

Directory of Open Access Journals (Sweden)

Lynsay A. Shepherd

2014-11-01

Full Text Available Despite the number of tools created to help end-users reduce risky security behaviours, users are still falling victim to online attacks. This paper proposes a browser extension utilising affective feedback to provide warnings on detection of risky behaviour. The paper provides an overview of behaviour considered to be risky, explaining potential threats users may face online. Existing tools developed to reduce risky security behaviours in end-users have been compared, discussing the success rates of various methodologies. Ongoing research is described which attempts to educate users regarding the risks and consequences of poor security behaviour by providing the appropriate feedback on the automatic recognition of risky behaviour. The paper concludes that a solution utilising a browser extension is a suitable method of monitoring potentially risky security behaviour. Ultimately, future work seeks to implement an affective feedback mechanism within the browser extension with the aim of improving security awareness.

Worldwide Research, Worldwide Participation: Web-Based Test Logger

Science.gov (United States)

Clark, David A.

1998-01-01

Thanks to the World Wide Web, a new paradigm has been born. ESCORT (steady state data system) facilities can now be configured to use a Web-based test logger, enabling worldwide participation in tests. NASA Lewis Research Center's new Web-based test logger for ESCORT automatically writes selected test and facility parameters to a browser and allows researchers to insert comments. All data can be viewed in real time via Internet connections, so anyone with a Web browser and the correct URL (universal resource locator, or Web address) can interactively participate. As the test proceeds and ESCORT data are taken, Web browsers connected to the logger are updated automatically. The use of this logger has demonstrated several benefits. First, researchers are free from manual data entry and are able to focus more on the tests. Second, research logs can be printed in report format immediately after (or during) a test. And finally, all test information is readily available to an international public.

Connecting YARP to the Web with Yarp.js

Directory of Open Access Journals (Sweden)

Carlo Ciliberto

2017-12-01

Full Text Available We present yarp.js, a JavaScript framework enabling robotics networks to interface and interact with external devices by exploiting modern Web communication protocols. By connecting a YARP server module with a browser client on any external device, yarp.js allows to access on board sensors using standard Web APIs and stream the acquired data through the yarp.js network without the need for any installation. Communication between YARP modules and yarp.js clients is bi-directional, opening also the possibility for robotics applications to exploit the capabilities of modern browsers to process external data, such as speech synthesis, 3D data visualization, or video streaming to name a few. Yarp.js requires only a browser installed on the client device, allowing for fast and easy deployment of novel applications. The code and sample applications to get started with the proposed framework are available for the community at the yarp.js GitHub repository.

Adobe acrobat: an alternative electronic teaching file construction methodology independent of HTML restrictions.

Science.gov (United States)

Katzman, G L

2001-03-01

The goal of the project was to create a method by which an in-house digital teaching file could be constructed that was simple, inexpensive, independent of hypertext markup language (HTML) restrictions, and appears identical on multiple platforms. To accomplish this, Microsoft PowerPoint and Adobe Acrobat were used in succession to assemble digital teaching files in the Acrobat portable document file format. They were then verified to appear identically on computers running Windows, Macintosh Operating Systems (OS), and the Silicon Graphics Unix-based OS as either a free-standing file using Acrobat Reader software or from within a browser window using the Acrobat browser plug-in. This latter display method yields a file viewed through a browser window, yet remains independent of underlying HTML restrictions, which may confer an advantage over simple HTML teaching file construction. Thus, a hybrid of HTML-distributed Adobe Acrobat generated WWW documents may be a viable alternative for digital teaching file construction and distribution.

A FRAMEWORK FOR ONLINE SPATIO-TEMPORAL DATA VISUALIZATION BASED ON HTML5

Directory of Open Access Journals (Sweden)

B. Mao

2012-07-01

Full Text Available Web is entering a new phase – HTML5. New features of HTML5 should be studied for online spatio-temporal data visualization. In the proposed framework, spatio-temporal data is stored in the data server and is sent to user browsers with WebSocket. Public geo-data such as Internet digital map is integrated into the browsers. Then animation is implemented through the canvas object defined by the HTML5 specification. To simulate the spatio-temporal data source, we collected the daily location of 15 users with GPS tracker. The current positions of the users are collected every minute and are recorded in a file. Based on this file, we generate a real time spatio-temporal data source which sends out current user location every second.By enlarging the real time scales by 60 times, we can observe the movement clearly. The data transmitted with WebSocket is the coordinates of users' current positions, which will can be demonstrated in client browsers.

Semiconductor/Insulator Films for Corrosion Protection.

Science.gov (United States)

1985-10-01

8217%, V -ED C~ SAVE AS RPP El Z)TC IjSERS I Unclassified V :.%- ES~YSB-D DA.22b TELEPH-ONE (Include 4rea Cde 2c JFFCE S’iMBOL V.Agarwaa DD FORM 1473, 4 VAP ...starting solution is aspirated through the injector nozzle using a high pressure nitrogen gas stream. The resultant mist is sprayed into the reactor where...approxi- mately 390-430 0C. The starting solution is aspirated with nitrogen and sprayed directly on the aluminum substrate. The height and angle of the

Estudio de los números racionales con KBruch

OpenAIRE

Real, Mariano

2012-01-01

La sección MatemásTiC de este número de SUMA la vamos a dedicar a una aplicación que se encuentra enmarcada dentro del proyecto KDe. KDe, K Desktop environment o entorno de escritorio K, es un entorno de escritorio e infraestructura de desarrollo para sistemas Unix/linux. Donde K es la sigla que corresponde a la palabra Kool, palabra que proviene de cool que, coloquialmente quiere decir algo bueno, guay. Por otra parte KDe, en un principio imitó a CDe (Common Desktop environment), por lo que ...

Beyond the browser web 2.0 and librarianship

CERN Document Server

Bridges, Karl

2012-01-01

""Offering concrete information on how librarians will need to respond to these rapid changes, the title first shares an overview of the history of libraries and the Internet. What follows is an easy-to-read investigation of the impact of second-generation web technologies on library organization and services."" - Library Media Connection

The DREO Elint Browser Utility (DEBU) reference manual

Science.gov (United States)

Ford, Barbara; Jones, David

1992-04-01

An electronic intelligent database browsing tool called DEBU has been developed that allows databases such as ELP, Kilting, EWIR, and AFEWC to be reviewed and analyzed from a user-friendly environment on a personal computer. DEBU's basic function is to allow users to examine the contents of user-selected subfiles of user-selected emitters of user-selected databases. DEBU augments this functionality with support for selecting (filtering) and combining subsets of emitters by user-selected attributes such as name, parameter type, or parameter value. DEBU provides facilities for examining histograms and x-y plots of selected parameters, for doing ambiguity analysis and mode level analysis, and for generating and printing a variety of reports. A manual is provided for users of DEBU, including descriptions and illustrations of menus and windows.

BIOME: A browser-aware search and order system

Science.gov (United States)

Grubb, Jon W.; Jennings, Sarah V.; Yow, Teresa G.; Daughterty, Patricia F.

1996-01-01

The Oak Ridge National Laboratory (ORNL) Distributed Active Archive Center (DAAC), which is associated with NASA's Earth Observing System Data and Information System (EOSDIS), provides access to a large number of tabular and imagery datasets used in ecological and environmental research. Because of its large and diverse data holdings, the challenge for the ORNL DAAC is to help users find data of interest from the hundreds of thousands of files available at the DAAC without overwhelming them. Therefore, the ORNL DAAC developed the Biogeochemical Information Ordering Management Environment (BIOME), a search and order system for the World Wide Web (WWW). The WWW provides a new vehicle that allows a wide range of users access to the data. This paper describes the specialized attributes incorporated into BIOME that allow researchers easy access to an otherwise bewildering array of data products.

A virtual reality browser for Space Station models

Science.gov (United States)

Goldsby, Michael; Pandya, Abhilash; Aldridge, Ann; Maida, James

1993-01-01

The Graphics Analysis Facility at NASA/JSC has created a visualization and learning tool by merging its database of detailed geometric models with a virtual reality system. The system allows an interactive walk-through of models of the Space Station and other structures, providing detailed realistic stereo images. The user can activate audio messages describing the function and connectivity of selected components within his field of view. This paper presents the issues and trade-offs involved in the implementation of the VR system and discusses its suitability for its intended purposes.

Introgression Browser: High throughput whole-genome SNP visualization

NARCIS (Netherlands)

Aflitos, S.A.; Sanchez Perez, G.F.; Ridder, de D.; Fransz, P.; Schranz, M.E.; Jong, de J.H.S.G.M.; Peters, S.A.

2015-01-01

Breeding by introgressive hybridization is a pivotal strategy to broaden the genetic basis of crops. Usually, the desired traits are monitored in consecutive crossing generations by marker-assisted selection, but their analyses fail in chromosome regions where crossover recombinants are rare or not

Introgression browser: high-throughput whole-genome SNP visualization

NARCIS (Netherlands)

Alves Aflitos, S.; Sanchez-Perez, G.; de Ridder, D.; Fransz, P.; Schranz, M.E.; de Jong, H.; Peters, S.A.

2015-01-01

Breeding by introgressive hybridization is a pivotal strategy to broaden the genetic basis of crops. Usually, the desired traits are monitored in consecutive crossing generations by marker-assisted selection, but their analyses fail in chromosome regions where crossover recombinants are rare or not

Mouse Resource Browser-a database of mouse databases

NARCIS (Netherlands)

Zouberakis, Michael; Chandras, Christina; Swertz, Morris; Smedley, Damian; Gruenberger, Michael; Bard, Jonathan; Schughart, Klaus; Rosenthal, Nadia; Hancock, John M.; Schofield, Paul N.; Kollias, George; Aidinis, Vassilis

2010-01-01

The laboratory mouse has become the organism of choice for discovering gene function and unravelling pathogenetic mechanisms of human diseases through the application of various functional genomic approaches. The resulting deluge of data has led to the deployment of numerous online resources and the

Internet Browser for Ice, Weather and Ocean Information

DEFF Research Database (Denmark)

Pedersen, Leif Toudal; Saldo, Roberto

2005-01-01

Abstract An Internet based distribution system for ice, weather and ocean information has been set up. The system provides near real time access to a large variety of data about the polar environment in a standard user environment. The system is freely available at: http://www.seaice.dk Specific...

Context Aware Concurrent Execution Framework for Web Browsers

DEFF Research Database (Denmark)

Saeed, Aamir; Erbad, Aiman; Olsen, Rasmus Løvenstein

2016-01-01

of load balancing algorithms. The preliminary results indicated that the performance of game improved with the proposed load-balancing across web workers. The load balancing algorithms were developed on top of DOHA, an open source JavaScript execution layer for multimedia applications. The load between...

GWIPS-viz: 2018 update

OpenAIRE

Michel, Audrey M.; Kiniry, Stephen J.; O'Connor, Patrick B. F.; Mullan, James P.; Baranov, Pavel V.

2017-01-01

Abstract The GWIPS-viz browser (http://gwips.ucc.ie/) is an on-line genome browser which is tailored for exploring ribosome profiling (Ribo-seq) data. Since its publication in 2014, GWIPS-viz provides Ribo-seq data for an additional 14 genomes bringing the current total to 23. The integration of new Ribo-seq data has been automated thereby increasing the number of available tracks to 1792, a 10-fold increase in the last three years. The increase is particularly substantial for data derived fr...

KOMPONEN WEB DATA ANALYZER PADA IE STUDI KASUS: AKSES WEB TERFAVORIT LABORATORIUM IBS TEKNIK INFORMATIKA - ITS

Directory of Open Access Journals (Sweden)

Darlis Heru Murti

2005-07-01

Full Text Available Normal 0 false false false IN X-NONE X-NONE MicrosoftInternetExplorer4 /* Style Definitions */ table.MsoNormalTable {mso-style-name:"Table Normal"; mso-tstyle-rowband-size:0; mso-tstyle-colband-size:0; mso-style-noshow:yes; mso-style-priority:99; mso-style-qformat:yes; mso-style-parent:""; mso-padding-alt:0cm 5.4pt 0cm 5.4pt; mso-para-margin:0cm; mso-para-margin-bottom:.0001pt; mso-pagination:widow-orphan; font-size:11.0pt; font-family:"Calibri","sans-serif"; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:"Times New Roman"; mso-fareast-theme-font:minor-fareast; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:"Times New Roman"; mso-bidi-theme-font:minor-bidi;} Perkembangan dunia internet baik dari segi teknologi maupun jumlah pengguna yang mengakses kian lama semakin bertambah. Hal ini juga berdampak dengan munculnya berbagai situs internet yang menawarkan berbagai hal serta tujuan yang berbeda. Untuk mengakses situs-situs tersebut diperlukan suatu alat yang disebut browser. Salah satu browser yang paling terkenal dan banyak digunakan saat ini adalah Microsoft Internet Explorer (IE. Kalau diperhatikan sebenarnya browser Internet Explorer telah menyediakan fitur khusus bernama Favorites (dapat diakses melalui menu atau toolbar untuk mencatat dan mengorganisasi web-web yang menjadi favorit user. Tetapi fitur Favorites ini kurang fleksibel karena pemasukan data maupun pengorganisasiannya masih bersifat manual oleh user. Untuk itu perlu diimplementasikan perangkat lunak dengan fitur Favorites yang bersifat otomatis dan dinamis sehingga untuk periode waktu maupun lokasi akses workstation tertentu bisa memiliki informasi favorit website yang berbeda-beda. Sebagai solusi yang dapat digunakan adalah dengan memanfaatkan teknologi rekayasa perangkat lunak yaitu pembuatan komponen yang melekat pada browser Internet Explorer atau lebih dikenal dengan istilah plugin Internet

Arachne - A web-based event viewer for MINERvA

International Nuclear Information System (INIS)

Tagg, N.; Brangham, J.; Chvojka, J.; Clairemont, M.; Day, M.; Eberly, B.; Felix, J.; Fields, L.; Gago, A.M.; Gran, R.; Harris, D.A.

2011-01-01

Neutrino interaction events in the MINERvA detector are visually represented with a web-based tool called Arachne. Data are retrieved from a central server via AJAX, and client-side JavaScript draws images into the user's browser window using the draft HTML 5 standard. These technologies allow neutrino interactions to be viewed by anyone with a web browser, allowing for easy hand-scanning of particle interactions. Arachne has been used in MINERvA to evaluate neutrino data in a prototype detector, to tune reconstruction algorithms, and for public outreach and education.

HTML5 mobile websites turbocharging HTML5 with jQuery, Sencha Touch, and other frameworks

CERN Document Server

David, Matthew

2013-01-01

Build HTML5-powered mobile web experiences with the aid of development frameworks that speed the development of Native App-like experiences. Build on your foundation of HTML and JavaScript with a complete understanding of the different mobile Web browser technologies. You get carefully detailed techniques that are illustrated in full color so you can leverage the Web technologies unique to each mobile browser, apply frameworks such as Sencha Touch to rapidly build out your designs, and design techniques expressly suited for tablet devices. Projects provide hands-on practice and code is prov

Avatar Web-Based Self-Report Survey System Technology for Public Health Research: Technical Outcome Results and Lessons Learned.

Science.gov (United States)

Savel, Craig; Mierzwa, Stan; Gorbach, Pamina M; Souidi, Samir; Lally, Michelle; Zimet, Gregory; Interventions, Aids

2016-01-01

This paper reports on a specific Web-based self-report data collection system that was developed for a public health research study in the United States. Our focus is on technical outcome results and lessons learned that may be useful to other projects requiring such a solution. The system was accessible from any device that had a browser that supported HTML5. Report findings include: which hardware devices, Web browsers, and operating systems were used; the rate of survey completion; and key considerations for employing Web-based surveys in a clinical trial setting.

Professional ASPNET 35 AJAX

CERN Document Server

Evjen, Bill; Wahlin, Dan; Reed, Dave

2011-01-01

ASP.NET revolutionized Web application development. The platform handles many of the complexities of creating Web applications. Now ASP.NET AJAX takes the development platform even further. The lines between rich client applications and traditionally less interactive browser-based applications are being further blurred with the use of this technology. The ASP.NET AJAX Library brings object-oriented programming to JavaScript development for modern browsers, and the ASP.NET AJAX Extensions makes it easy to write rich Web applications that communicate with the Web server asynchronously. Again, th

The RNAsnp web server

DEFF Research Database (Denmark)

Radhakrishnan, Sabarinathan; Tafer, Hakim; Seemann, Ernst Stefan

2013-01-01

, are derived from extensive pre-computed tables of distributions of substitution effects as a function of gene length and GC content. Here, we present a web service that not only provides an interface for RNAsnp but also features a graphical output representation. In addition, the web server is connected...... to a local mirror of the UCSC genome browser database that enables the users to select the genomic sequences for analysis and visualize the results directly in the UCSC genome browser. The RNAsnp web server is freely available at: http://rth.dk/resources/rnasnp/....

Pro Internet Explorer 8 & 9 Development Developing Powerful Applications for the Next Generation of IE

CERN Document Server

Crowley, Matthew

2010-01-01

This book is an in-depth guide to writing applications that embrace and extend the new features and capabilities of Windows Internet Explorer 8 and 9. With solid instruction, hands-on examples, and expert insight direct from the source into extending the browser, you'll learn how to create and maintain powerful applications for Microsoft's next-generation Internet platform. Join author Matthew Crowley as you discover how to take advantage of new features like accelerators, WebSlices, and search providers, and create intense web experiences for the browser that ships by default with the popular

Arachne—A web-based event viewer for MINERνA

International Nuclear Information System (INIS)

Tagg, N.; Brangham, J.; Chvojka, J.; Clairemont, M.; Day, M.; Eberly, B.; Felix, J.; Fields, L.; Gago, A.M.; Gran, R.; Harris, D.A.; Kordosky, M.; Lee, H.; Maggi, G.; Maher, E.; Mann, W.A.; Marshall, C.M.; McFarland, K.S.; McGowan, A.M.; Mislivec, A.

2012-01-01

Neutrino interaction events in the MINERνA detector are visually represented with a web-based tool called Arachne. Data are retrieved from a central server via AJAX, and client-side JavaScript draws images into the user's browser window using the draft HTML 5 standard. These technologies allow neutrino interactions to be viewed by anyone with a web browser, allowing for easy hand-scanning of particle interactions. Arachne has been used in MINERνA to evaluate neutrino data in a prototype detector, to tune reconstruction algorithms, and for public outreach and education.

Crouching tiger - Hidden payload

DEFF Research Database (Denmark)

Heiderich, Mario; Frosch, Tilman; Jensen, Meiko

2011-01-01

functional, one-file web applications potentially containing HTML, JavaScript, Flash, and other interactive code structures. We found that even more severe problems have resulted from the often improper handling of complex and maliciously prepared SVG files by the browsers. In this paper, we introduce...... several novel attack techniques targeted at major websites, as well as modern browsers, email clients and other comparable tools. In particular, we illustrate that SVG images embedded via tag and CSS can execute arbitrary JavaScript code. We examine and present how current filtering techniques...

Arachne - A web-based event viewer for MINERvA

Energy Technology Data Exchange (ETDEWEB)

Tagg, N.; /Otterbein Coll.; Brangham, J.; /Otterbein Coll.; Chvojka, J.; /Rochester U.; Clairemont, M.; /Otterbein Coll.; Day, M.; /Rochester U.; Eberly, B.; /Pittsburgh U.; Felix, J.; /Guanajuato U.; Fields, L.; /Northwestern U.; Gago, A.M.; /Lima, Pont. U. Catolica; Gran, R.; /Maryland U.; Harris, D.A.; /Fermilab /William-Mary Coll.

2011-11-01

Neutrino interaction events in the MINERvA detector are visually represented with a web-based tool called Arachne. Data are retrieved from a central server via AJAX, and client-side JavaScript draws images into the user's browser window using the draft HTML 5 standard. These technologies allow neutrino interactions to be viewed by anyone with a web browser, allowing for easy hand-scanning of particle interactions. Arachne has been used in MINERvA to evaluate neutrino data in a prototype detector, to tune reconstruction algorithms, and for public outreach and education.

Validating Multidimensional Outcome Assessment Using the TBI Common Data Elements: An Analysis of the TRACK-TBI Pilot Sample.

Science.gov (United States)

Nelson, Lindsay D; Ranson, Jana; Ferguson, Adam R; Giacino, Joseph; Okonkwo, David O; Valadka, Alex; Manley, Geoffrey; McCrea, Michael

2017-06-08

The Glasgow Outcome Scale-Extended (GOSE) is often the primary outcome measure in clinical trials for traumatic brain injury (TBI). Although the GOSE's capture of global function outcome has several strengths, concerns have been raised about its limited ability to identify mild disability and failure to capture the full scope of problems patients exhibit after TBI. This analysis examined the convergence of disability ratings across a multidimensional set of outcome domains in the Transforming Research and Clinical Knowledge in Traumatic Brain Injury (TRACK-TBI) Pilot study. The study collected measures recommended by the TBI Common Data Elements (CDE) Workgroup. Patients presenting to 3 emergency departments with a TBI of any severity enrolled in TRACK-TBI prospectively after injury; outcome measures were collected at 3 and six months postinjury. Analyses examined frequency of impairment and overlap between impairment status across the CDE outcome domains of Global Level of Functioning (GOSE), Neuropsychological (cognitive) Impairment, Psychological Status, TBI Symptoms, and Quality of Life. GOSE score correlated in the expected direction with other outcomes (M Spearman's rho = .21 and .49 with neurocognitive and self-report outcomes, respectively). The subsample in the Upper Good Recovery (GOSE 8) category appeared quite healthy across most other outcomes, although 19.0% had impaired executive functioning (Trail Making Test Part B). A significant minority of participants in the Lower Good Recovery subgroup (GOSE 7) met criteria for impairment across numerous other outcome measures. The findings highlight the multidimensional nature of TBI recovery and the limitations of applying only a single outcome measure.

Mortality from non-malignant respiratory diseases among people with silicosis in Hong Kong: exposure-response analyses for exposure to silica dust.

Science.gov (United States)

Tse, L A; Yu, I T S; Leung, C C; Tam, W; Wong, T W

2007-02-01

To examine the exposure-response relationships between various indices of exposure to silica dust and the mortality from non-malignant respiratory diseases (NMRDs) or chronic obstructive pulmonary diseases (COPDs) among a cohort of workers with silicosis in Hong Kong. The concentrations of respirable silica dust were assigned to each industry and job task according to historical industrial hygiene measurements documented previously in Hong Kong. Exposure indices included cumulative dust exposure (CDE) and mean dust concentration (MDC). Penalised smoothing spline models were used as a preliminary step to detect outliers and guide further analyses. Multiple Cox's proportional hazard models were used to estimate the dust effects on the risk of mortality from NMRDs or COPDs after truncating the highest exposures. 371 of the 853 (43.49%) deaths occurring among 2789 workers with silicosis during 1981-99 were from NMRDs, and 101 (27.22%) NMRDs were COPDs. Multiple Cox's proportional hazard models showed that CDE (p = 0.009) and MDC (pcaisson workers and among those ever employed in other occupations with high exposure to silica dust. No exposure-response relationship was observed for surface construction workers with low exposures. A clear upward trend for both NMRDs and COPDs mortality was found with increasing severity of radiological silicosis. This study documented an exposure-response relationship between exposure to silica dust and the risk of death from NMRDs or COPDs among workers with silicosis, except for surface construction workers with low exposures. The risk of mortality from NMRDs increased significantly with the progression of International Labor Organization categories, independent of dust effects.

Comparison of endothelial changes and power settings between torsional and longitudinal phacoemulsification.

Science.gov (United States)

Reuschel, Anna; Bogatsch, Holger; Barth, Thomas; Wiedemann, Renate

2010-11-01

To compare the intraoperative and postoperative outcomes of conventional longitudinal phacoemulsification and torsional phacoemulsification. Department of Ophthalmology, University of Leipzig, Germany. Randomized single-center clinical trial. Eyes with senile cataract were randomized to have phacoemulsification using the Infiniti Vision System and the torsional mode (OZil) or conventional longitudinal mode. Primary outcomes were corrected distance visual acuity (CDVA) and central endothelial cell density (ECD), calculated according to the Conference on Harmonisation-E9 Guidelines in which missing values were substituted by the median in each group (primary analysis) and the loss was then calculated using actual data (secondary analysis). Secondary outcomes were ultrasound (US) time, cumulative dissipated energy (CDE), and percentage total equivalent power in position 3. Postoperative follow-up was at 3 months. The mean preoperative CDVA was 0.41 logMAR in the torsional group and 0.38 logMAR in the longitudinal group, improving to 0.07 logMAR postoperatively in both groups. The mean ECD loss was 7.2% ± 4.6% in the torsional group (72 patients) and 7.1% ± 4.4% in the longitudinal group (76 patients), with no statistically significant differences in the primary analysis (P = .342) or secondary analysis (P = .906). The mean US time, CDE, and percentage total equivalent power in position 3 were statistically significantly lower in the torsional group (98 patients) than in the longitudinal group (94 patients) (P<.001). The torsional mode was as safe as the longitudinal mode in phacoemulsification for age-related cataract. Copyright © 2010 ASCRS and ESCRS. Published by Elsevier Inc. All rights reserved.

Microcoaxial cataract surgery outcomes: comparison of 1.8 mm system and 2.2 mm system.

Science.gov (United States)

Lee, Kyung-Min; Kwon, Hyung-Goo; Joo, Choun-Ki

2009-05-01

To compare clinical outcomes of a 1.8 mm and a 2.2 mm microcoaxial cataract surgery system. Department of Ophthalmology and Visual Science, Kangnam St. Mary's Hospital, College of Medicine, Catholic University of Korea, Seoul, Korea. In a prospective study, eyes were randomly selected to have phacoemulsification using a Stellaris system or an Intrepid Infiniti system. The initial incision size was 1.8 mm and 2.2 mm, respectively. Measured intraoperative parameters included phacoemulsification time, mean cumulative dissipated ultrasound energy (CDE), change in incision size at each step of surgery, and total volume of balanced salt solution (BSS) used. The best corrected visual acuity (BCVA), corneal astigmatism, corneal thickness, and endothelial cell count were evaluated preoperatively and postoperatively. The study evaluated 86 eyes of 78 patients (43 eyes in each group). There were no significant differences in postoperative BCVA, surgically induced astigmatism, or amount of BSS used between the 2 systems (P >.05). However, for high-density cataracts, the 1.8 mm group had a greater change between the initial incision size and the incision size after phacoemulsification (P = .019, nuclear opalescence [NO] NO3; P = .001, NO4), a longer phacoemulsification time (P = .013, NO3), greater mean CDE (P = .005, NO3; P = .001, NO4), and greater corneal endothelial cell loss (P = .003, NO4). Both systems were safe and effective in microcoaxial phacoemulsification. The 1.8 mm system performed better with cortical-type cataract and the 2.2 mm system, with high-density nuclear-type cataract.

The comparison between torsional and conventional mode phacoemulsification in moderate and hard cataracts.

Science.gov (United States)

Kim, Dong-Hyun; Wee, Won-Ryang; Lee, Jin-Hak; Kim, Mee-Kum

2010-12-01

To compare the intraoperative performances and postoperative outcomes of cataract surgery performed with longitudinal phacoemulsification and torsional phacoemulsification in moderate and hard cataracts. Of 85 patients who had senile cataracts, 102 eyes were operated on using the Infiniti Vision System. Preoperative examinations (slit lamp examination, mean central corneal thickness, and central endothelial cell counts) were performed for each patient. Cataracts were subdivided into moderate and hard, according to the Lens Opacities Classification System III grading of nucleus opalescence (NO). Eyes in each cataract group were randomly assigned to conventional and torsional phaco-mode. Intraoperative parameters, including ultrasound time (UST), cumulative dissipated energy (CDE), and the balanced salt solution plus (BSSP) volume utilized were evaluated. Best corrected visual acuity (BCVA) was checked on postoperative day 30; mean central corneal thickness and central endothelial cell counts were investigated on postoperative days 7 and 30. Preoperative BCVA and mean grading of NO showed no difference in both groups. Preoperative endothelial cell count and central corneal thickness also showed no significant difference in both groups. In the moderate cataract group, the CDE, UST, and BSSP volume were significantly lower in the torsional mode than the longitudinal mode, but they did not show any difference in the hard cataract group. Torsional group showed less endothelial cell loss and central corneal thickening at postoperative day seven in moderate cataracts but showed no significant differences, as compared with the longitudinal group, by postoperative day 30. Torsional phacoemulsification showed superior efficiency for moderate cataracts, as compared with longitudinal phacoemulsification, in the early postoperative stage.

Ozil IP torsional mode versus combined torsional/longitudinal microcoaxial phacoemulsification.

Science.gov (United States)

Helvacioglu, Firat; Tunc, Zeki; Yeter, Celal; Oguzhan, Hasan; Sencan, Sadik

2012-01-01

To compare the safety and efficacy of microcoaxial phacoemulsification surgeries performed with the Ozil Intelligent Phaco (IP) torsional mode and combined torsional/longitudinal ultrasound (US) mode using the Infiniti Vision System (Alcon Laboratories). In this prospective randomized comparative study, 60 eyes were assigned to 2.2-mm microcoaxial phacoemulsification using the Ozil IP torsional mode (group 1) or combined torsional/longitudinal US mode (group 2). The primary outcome measures were US time (UST), cumulative dissipated energy (CDE), longitudinal and torsional ultrasound amplitudes, mean operation time, mean volume of balanced salt solution (BSS) used, and surgical complications. Both groups included 30 eyes. Mean UST, CDE, and longitudinal and torsional ultrasound amplitudes in group 1 were 1 minute 15±34.33 seconds, 8.74±5.64, 0.43±0.74, and 25.56±8.56, respectively, and these parameters in group 2 were 1 minute 40±51.44 seconds, 9.28±5.99, 3.64±1.55, and 3.71±1.34, respectively. UST and longitudinal amplitudes were found to be significantly low in group 1 (p<0.001, p<0.001), whereas torsional amplitude was found to be significantly high in this group (p=0.001). Mean volumes of BSS used in groups 1 and 2 were 63.30±18.00 cc and 84.50±28.65 cc, respectively (p=0.001). The Ozil IP torsional mode may provide more effective lens removal than the combined torsional/longitudinal US mode with a lower UST and volume of BSS used.

The Comparison between Torsional and Conventional Mode Phacoemulsification in Moderate and Hard Cataracts

Science.gov (United States)

Kim, Dong-Hyun; Wee, Won-Ryang; Lee, Jin-Hak

2010-01-01

Purpose To compare the intraoperative performances and postoperative outcomes of cataract surgery performed with longitudinal phacoemulsification and torsional phacoemulsification in moderate and hard cataracts. Methods Of 85 patients who had senile cataracts, 102 eyes were operated on using the Infiniti Vision System. Preoperative examinations (slit lamp examination, mean central corneal thickness, and central endothelial cell counts) were performed for each patient. Cataracts were subdivided into moderate and hard, according to the Lens Opacities Classification System III grading of nucleus opalescence (NO). Eyes in each cataract group were randomly assigned to conventional and torsional phaco-mode. Intraoperative parameters, including ultrasound time (UST), cumulative dissipated energy (CDE), and the balanced salt solution plus (BSSP) volume utilized were evaluated. Best corrected visual acuity (BCVA) was checked on postoperative day 30; mean central corneal thickness and central endothelial cell counts were investigated on postoperative days 7 and 30. Results Preoperative BCVA and mean grading of NO showed no difference in both groups. Preoperative endothelial cell count and central corneal thickness also showed no significant difference in both groups. In the moderate cataract group, the CDE, UST, and BSSP volume were significantly lower in the torsional mode than the longitudinal mode, but they did not show any difference in the hard cataract group. Torsional group showed less endothelial cell loss and central corneal thickening at postoperative day seven in moderate cataracts but showed no significant differences, as compared with the longitudinal group, by postoperative day 30. Conclusions Torsional phacoemulsification showed superior efficiency for moderate cataracts, as compared with longitudinal phacoemulsification, in the early postoperative stage. PMID:21165231

Using a mentoring approach to implement an inpatient glycemic control program in United States hospitals.

Science.gov (United States)

Rushakoff, Robert J; Sullivan, Mary M; Seley, Jane Jeffrie; Sadhu, Archana; O'Malley, Cheryl W; Manchester, Carol; Peterson, Eric; Rogers, Kendall M

2014-09-01

establishing an inpatient glycemic control program is challenging, requires years of work, significant education and coordination of medical, nursing, dietary, and pharmacy staff, and support from administration and Performance Improvement departments. We undertook a 2 year quality improvement project assisting 10 medical centers (academic and community) across the US to implement inpatient glycemic control programs. the project was comprised of 3 interventions. (1) One day site visit with a faculty team (MD and CDE) to meet with key personnel, identify deficiencies and barriers to change, set site specific goals and develop strategies and timelines for performance improvement. (2) Three webinar follow-up sessions. (3) Web site for educational resources. Updates, challenges, and accomplishments for each site were reviewed at the time of each webinar and progress measured at the completion of the project with an evaluation questionnaire. as a result of our intervention, institutions revised and simplified formularies and insulin order sets (with CHO counting options); implemented glucometrics and CDE monitoring of inpatient glucoses (assisting providers with orders); added new protocols for DKA and perinatal treatment; and implemented nursing, physician and patient education initiatives. Changes were institution specific, fitting the local needs and cultures. As to the extent to which Institution׳s goals were satisfied: 2 reported "completely", 4 "mostly," 3 "partially," and 1 "marginally". Institutions continue to move toward fulfilling their goals. an individualized, structured, performance improvement approach with expert faculty mentors can help facilitate change in an institution dedicated to implementing an inpatient glycemic control program. Copyright © 2014 Elsevier Inc. All rights reserved.

CDE Perspectives of Providing New-Onset Type 1 Diabetes Education Using Formal Vignettes and Simulation.

Science.gov (United States)

Ramchandani, Neesha; Johnson, Kim; Cullen, Karen; Hamm, Terri; Bisordi, Jean; Sullivan-Bolyai, Susan

2017-02-01

Purpose The purpose of this article is to describe the 4 Parent Education Through Simulation-Diabetes (PETS-D) nurse certified diabetes educators' (CDEs) perspectives of teaching parents of children with newly diagnosed type 1 diabetes mellitus (T1DM) early diabetes management skills using formal vignettes and a human patient simulator/human patient simulation (HPS) to augment/enhance the teaching-learning process. Methods A qualitative descriptive approach was used. Four CDEs were interviewed by phone about their teaching experiences. Meticulous notes were taken. Data were analyzed using qualitative content analysis. Results The vignettes (and use of HPS) provided structure, especially for parents who were struggling to learn. Certified diabetes educators described a short learning curve to master the use of the HPS manikin. Human patient simulation-enhanced education was described as helpful for teaching multiple caregivers about diabetes. Certified diabetes educators also described factors that affect parent learning, mechanical issues with the HPS, and additional space requirements for HPS-enhanced education. Conclusion Vignettes and HPS-enhanced education can successfully be used to educate parents of children with new-onset T1DM and were preferred by the CDEs when compared with previous teaching strategies. The results of this study support the use of both vignette-based and HPS-enhanced education when a child is newly diagnosed with T1DM. Further studies need to be done to see if these effects persist with different populations, during different stages of the disease, and for individuals with other chronic illnesses.

Household Composition Change and Economic Welfare Inequality: 1960 to 1980. CDE Working Paper 88-18.

Science.gov (United States)

Wojtkiewicz, Roger A.

This paper considers the following dimensions of the change in household composition of the United States population between 1960 and 1980: (1) a decrease in the number of households headed by a couple; and (2) a decrease in the number of children per household. Examination of census figures from 1960, 1970, and 1980 reveals that blacks and whites…

Engineering Competencies in International Development Co-operation - the Case of Capacity Development in Environment (CDE)

DEFF Research Database (Denmark)

Wangel, Arne

2001-01-01

The focus of the paper is the need for engineers to develop new competencies, when they are involved in international development cooperation. Drawing on the case of the Post-RIO strategy of capacity development in environment in developing countries, the paper reviews a recent response...... of such courses, which give emphasis to local views on institutional development and policy change. engineers from industrialised countries have a long tradition of working in the third world: building infrastructure to facilitate exports of raw materials during colonial times; implementing development aid...... on the transfer of managerial models across cultures, on how to develop inter-cultural competence in management, and on the significance of differences in engineering and industrial culture. Second, the concepts of dynamic assimilation and local learning processes and their implications for the practicing...

Comparative Genomics of Bacteriophage of the Genus Seuratvirus

DEFF Research Database (Denmark)

Sazinas, Pavelas; Redgwell, Tamsin; Rihtman, Branko

2017-01-01

polB and terL showed these bacteriophages to be closely related to members of the genus Seuratvirus. We performed a core-gene analysis using the 14 new and four closely related genomes. A total of 58 core genes were identified, the majority of which has no known function. These genes were used...... to construct a core-gene phylogeny, the results of which confirmed the new isolates to be part of the genus Seuratvirus and expanded the number of species within this genus to four. All bacteriophages within the genus contained the genes queCDE encoding enzymes involved in queuosine biosynthesis. We suggest...

Getting started with PhantomJS

CERN Document Server

Beltran, Aries

2013-01-01

The book will follow aA standard tutorial approach, and will beas a complete guide detailing the major aspects of PhantomJS with particular focus on Website website Testingtesting.This book is written forIf you are a JavaScript developers who are is interested in developing applications that interact with various web services, and doing that using a headless browser, then this book is ideal for you. This book iswill also be good for you if you are planning to create a headless browser testing for your web application. Basic understanding of JavaScript is assumed.

Arachne-A web-based event viewer for MINER{nu}A

Energy Technology Data Exchange (ETDEWEB)

Tagg, N., E-mail: ntagg@otterbein.edu [Department of Physics, Otterbein University, 1 South Grove Street, Westerville, OH 43081 (United States); Brangham, J. [Department of Physics, Otterbein University, 1 South Grove Street, Westerville, OH 43081 (United States); Chvojka, J. [Rochester, NY 14610 (United States); Clairemont, M. [Department of Physics, Otterbein University, 1 South Grove Street, Westerville, OH 43081 (United States); Day, M. [Rochester, NY 14610 (United States); Eberly, B. [Department of Physics and Astronomy, University of Pittsburgh, Pittsburgh, PA 15260 (United States); Felix, J. [Lascurain de Retana No. 5, Col. Centro. Guanajuato, Guanajuato 36000 (Mexico); Fields, L. [Northwestern University, Evanston, IL 60208 (United States); Gago, A.M. [Seccion Fisica, Departamento de Ciencias, Pontificia Universidad Catolica del Peru, Apartado 1761, Lima (Peru); Gran, R. [Department of Physics, University of Minnesota - Duluth, Duluth, MN 55812 (United States); Harris, D.A. [Fermi National Accelerator Laboratory, Batavia, IL 60510 (United States); Kordosky, M. [Department of Physics, College of William and Mary, Williamsburg, VA 23187 (United States); Lee, H. [Rochester, NY 14610 (United States); Maggi, G. [Departamento de Fisica, Universidad Tecnica Federico Santa Maria, Avda. Espana 1680 Casilla 110-V Valparaiso (Chile); Maher, E. [Massachusetts College of Liberal Arts, 375 Church Street, North Adams, MA 01247 (United States); Mann, W.A. [Physics Department, Tufts University, Medford, MA 02155 (United States); Marshall, C.M.; McFarland, K.S.; McGowan, A.M.; Mislivec, A. [Rochester, NY 14610 (United States); and others

2012-06-01

Neutrino interaction events in the MINER{nu}A detector are visually represented with a web-based tool called Arachne. Data are retrieved from a central server via AJAX, and client-side JavaScript draws images into the user's browser window using the draft HTML 5 standard. These technologies allow neutrino interactions to be viewed by anyone with a web browser, allowing for easy hand-scanning of particle interactions. Arachne has been used in MINER{nu}A to evaluate neutrino data in a prototype detector, to tune reconstruction algorithms, and for public outreach and education.

HTML 5 up and running

CERN Document Server

Pilgrim, Mark

2010-01-01

If you don't know about the new features available in HTML5, now's the time to find out. This book provides practical information about how and why the latest version of this markup language will significantly change the way you develop for the Web. HTML5 is still evolving, yet browsers such as Safari, Mozilla, Opera, and Chrome already support many of its features -- and mobile browsers are even farther ahead. HTML5: Up & Running carefully guides you though the important changes in this version with lots of hands-on examples, including markup, graphics, and screenshots. You'll learn how to

HTML5 Geolocation

CERN Document Server

Holdener, Anthony

2011-01-01

Truly revolutionary: now you can write geolocation applications directly in the browser, rather than develop native apps for particular devices. This concise book demonstrates the W3C Geolocation API in action, with code and examples to help you build HTML5 apps using the "write once, deploy everywhere" model. Along the way, you get a crash course in geolocation, browser support, and ways to integrate the API with common geo tools like Google Maps. Learn how geo information is gathered from different sources, depending on the deviceDiscover how coordinate systems work, including geodetic syst

Designing web-apps for smartphones can be easy as making slideshow presentations

DEFF Research Database (Denmark)

Subhi, Yousif; Todsen, Tobias; Ringsted, Charlotte

2014-01-01

BACKGROUND: Limited clinician involvement in smartphone application development poses problems considering the extensive use of smartphones among medical professionals and patients. FINDINGS: We present a simple method for the clinician to develop simple web-apps using only an Internet browser an...... and a text editor. CONCLUSIONS: This method may help clinicians develop simple web-apps and increase clinician involvement in smartphone content.......BACKGROUND: Limited clinician involvement in smartphone application development poses problems considering the extensive use of smartphones among medical professionals and patients. FINDINGS: We present a simple method for the clinician to develop simple web-apps using only an Internet browser...

Effects of diversity and procrastination in priority queuing theory: The different power law regimes

Science.gov (United States)

Saichev, A.; Sornette, D.

2010-01-01

Empirical analyses show that after the update of a browser, or the publication of the vulnerability of a software, or the discovery of a cyber worm, the fraction of computers still using the older browser or software version, or not yet patched, or exhibiting worm activity decays as a power law ˜1/tα with 0procrastination,” defined as the situation in which the target task may be postponed or delayed even after the individual has solved all other pending tasks. This regime provides an explanation for even slower apparent decay and longer persistence.

Communication of Science Plans in the Rosetta Mission

Science.gov (United States)

Schmidt, Albrecht; Grieger, Björn; Völk, Stefan

2014-05-01

Rosetta is a mission of the European Space Agency (ESA) to rendez-vous with comet Churyumov-Gerasimenko in mid-2014. The trajectories and their corresponding operations are both flexible and particularly complex. To make informed decisions among the many free parameters, novel ways to communicate operations to the community have been explored. To support science planning by communicating operational ideas and disseminating operational scenarios, the science ground segment makes use of Web-based visualisation technologies. To keep the threshold to analysing operations proposals as low as possible, various implementation techniques have been investigated. An important goal was to use the Web to make the content as accessible as possible. By adopting the recent standard WebGL and generating static pages of time-dependent three-dimensional views of the spacecraft as well as the corresponding field-of-views of instruments, directly from the operational and for-study files, users are given the opportunity to explore interactively in their Web browsers what is being proposed in addition to using the traditional file products and analysing them in detail. The scenes and animations can be viewed in any modern Web browser and be combined with other analyses. This is to facilitate verification and cross-validation of complex products, often done by comparing different independent analyses and studies. By providing different timesteps in animations, it is possible to focus on long-term planning or short-term planning without distracting the user from the essentials. This is particularly important since the information that can be displayed in a Web browser is somewhat related to data volume that can be transferred across the wire. In Web browsers, it is more challenging to do numerical calculations on demand. Since requests for additional data have to be passed through a Web server, they are more complex and also require a more complex infrastructure. The volume of data that

Science Plan Visualisation for Rosetta

Science.gov (United States)

Schmidt, A.; Grieger, B.; Völk, S.

2013-12-01

Rosetta is a mission of the European Space Agency (ESA) to rendez-vous with comet Churyumov-Gerasimenko in mid-2014. The trajectories and their corresponding operations are flexible and particularly complex. To make informed decisions among the many free parameters novel ways to communicate operations to the community have been explored. To support science planning by communicating operational ideas and disseminating operational scenarios, the science ground segment makes use of Web-based visualisation technologies. To keep the threshold to analysing operations proposals as low as possible, various implementation techniques have been investigated. An important goal was to use the Web to make the content as accessible as possible. By adopting the recent standard WebGL and generating static pages of time-dependent three-dimensional views of the spacecraft as well as the corresponding field-of-views of instruments, directly from the operational and for-study files, users are given the opportunity to explore interactively in their Web browsers what is being proposed in addition to using the traditional file products and analysing them in detail. The scenes and animations can be viewed in any modern Web browser and be combined with other analyses. This is to facilitate verification and cross-validation of complex products, often done by comparing different independent analyses and studies. By providing different timesteps in animations, it is possible to focus on long-term planning or short-term planning without distracting the user from the essentials. This is particularly important since the information that can be displayed in a Web browser is somewhat related to data volume that can be transferred across the wire. In Web browsers, it is more challenging to do numerical calculations on demand. Since requests for additional data have to be passed through a Web server, they are more complex and also require a more complex infrastructure. The volume of data that can be

Budding yeast cDNA sequencing project: S03036-05_I15 [Budding yeast cDNA sequencing project

Lifescience Database Archive (English)

Full Text Available EST - Link to UCSC Genome Browser - Sequence >S03036-05_I15.phd NNNTNNTNNNNCNCTCACATANAAGACGGANNAGNNNGCTGGGC...CAATGCGTTCCATATGCG AAAATTCTTGGNCAATGTATTCTCTAGCAATCTNTNCTTTTGTACANTCGGAGGNTTNTC ATGNTCCTTTCATANATTATANAAANNG

Breaking and Fixing Origin-Based Access Control in Hybrid Web/Mobile Application Frameworks.

Science.gov (United States)

Georgiev, Martin; Jana, Suman; Shmatikov, Vitaly

2014-02-01

Hybrid mobile applications (apps) combine the features of Web applications and "native" mobile apps. Like Web applications, they are implemented in portable, platform-independent languages such as HTML and JavaScript. Like native apps, they have direct access to local device resources-file system, location, camera, contacts, etc. Hybrid apps are typically developed using hybrid application frameworks such as PhoneGap. The purpose of the framework is twofold. First, it provides an embedded Web browser (for example, WebView on Android) that executes the app's Web code. Second, it supplies "bridges" that allow Web code to escape the browser and access local resources on the device. We analyze the software stack created by hybrid frameworks and demonstrate that it does not properly compose the access-control policies governing Web code and local code, respectively. Web code is governed by the same origin policy, whereas local code is governed by the access-control policy of the operating system (for example, user-granted permissions in Android). The bridges added by the framework to the browser have the same local access rights as the entire application, but are not correctly protected by the same origin policy. This opens the door to fracking attacks, which allow foreign-origin Web content included into a hybrid app (e.g., ads confined in iframes) to drill through the layers and directly access device resources. Fracking vulnerabilities are generic: they affect all hybrid frameworks, all embedded Web browsers, all bridge mechanisms, and all platforms on which these frameworks are deployed. We study the prevalence of fracking vulnerabilities in free Android apps based on the PhoneGap framework. Each vulnerability exposes sensitive local resources-the ability to read and write contacts list, local files, etc.-to dozens of potentially malicious Web domains. We also analyze the defenses deployed by hybrid frameworks to prevent resource access by foreign-origin Web content

Breaking and Fixing Origin-Based Access Control in Hybrid Web/Mobile Application Frameworks

Science.gov (United States)

Georgiev, Martin; Jana, Suman; Shmatikov, Vitaly

2014-01-01

Hybrid mobile applications (apps) combine the features of Web applications and “native” mobile apps. Like Web applications, they are implemented in portable, platform-independent languages such as HTML and JavaScript. Like native apps, they have direct access to local device resources—file system, location, camera, contacts, etc. Hybrid apps are typically developed using hybrid application frameworks such as PhoneGap. The purpose of the framework is twofold. First, it provides an embedded Web browser (for example, WebView on Android) that executes the app's Web code. Second, it supplies “bridges” that allow Web code to escape the browser and access local resources on the device. We analyze the software stack created by hybrid frameworks and demonstrate that it does not properly compose the access-control policies governing Web code and local code, respectively. Web code is governed by the same origin policy, whereas local code is governed by the access-control policy of the operating system (for example, user-granted permissions in Android). The bridges added by the framework to the browser have the same local access rights as the entire application, but are not correctly protected by the same origin policy. This opens the door to fracking attacks, which allow foreign-origin Web content included into a hybrid app (e.g., ads confined in iframes) to drill through the layers and directly access device resources. Fracking vulnerabilities are generic: they affect all hybrid frameworks, all embedded Web browsers, all bridge mechanisms, and all platforms on which these frameworks are deployed. We study the prevalence of fracking vulnerabilities in free Android apps based on the PhoneGap framework. Each vulnerability exposes sensitive local resources—the ability to read and write contacts list, local files, etc.—to dozens of potentially malicious Web domains. We also analyze the defenses deployed by hybrid frameworks to prevent resource access by foreign

PENGGUNAAN KONEKSI CORBA DENGAN PEMROGRAMAN MIDAS MULTI-TIER APPLICATION DALAM SISTEM RESERVASI HOTEL

Directory of Open Access Journals (Sweden)

Irwan Kristanto Julistiono

2001-01-01

Full Text Available This paper is made from a multi-tier system using corba technology for hotel reservation program for web browser and also client program. Client software is connected to application server with Corba Connection and client and application server connect to SQL server 7.0. via ODBC. The are 2 types of client: web client and delphi client. In making web browser client application, we use delphi activex from technology, in where in this system made like making the regular form, but it has shortage in integration with html language. Multi-pier application using corba system generally has another profit beside it could be developed, this system also stake with multi system database server, multi middle servers and multi client in which with these things all the system can system can be integrated. The weakness of this system is the complicated corba system, so it will be difficult to understand, while for multi-tier it self need a particular procedure to determine which server chossed by the client. Abstract in Bahasa Indonesia : Pada makalah ini dibuat suatu sistem multi-tier yang menggunakan teknologi CORBA untuk program reservasi hotel baik dengan web browser maupun program client. Perangkat lunak yang dipakai sebagai database server adalah SQL server 7.0. Program Client Delphi melalui Corba Connection akan dihubungkan ke Aplikasi server. Dan melalui ODBC Aplikasi Server akan dihubungkan ke SQL Server 7.0. Ada dua buah aplikasi client yaitu yang menggunakan lokal network dan yang menggunakan global network/web browser. Pada pembuatan aplikasi client untuk web browser. Digunakan teknologi activex form pada delphi dimana sistem ini dibuat seperti membuat form biasa, hanya saja memiliki kekurangan pada integrasi dengan bahasa html. Penggunaan sistem multi-tier dengan Corba ini secara umum memiliki keuntungan selain dapat dikembangkan lebih lanjut juga sistem ini dirancang dengan sistem multi database server, multi midle server, dan multi client dimana

openBEB: open biological experiment browser for correlative measurements

OpenAIRE

Ramakrishnan, Chandrasekhar; Bieri, Andrej; Sauter, Nora; Roizard, Sophie; Ringler, Philippe; Müller, Shirley A; Goldie, Kenneth N; Enimanev, Kaloyan; Stahlberg, Henning; Rinn, Bernd; Braun, Thomas

2014-01-01

Background: New experimental methods must be developed to study interaction networks in systems biology. To reduce biological noise, individual subjects, such as single cells, should be analyzed using high throughput approaches. The measurement of several correlative physical properties would further improve data consistency. Accordingly, a considerable quantity of data must be acquired, correlated, catalogued and stored in a database for subsequent analysis. Results: We have developed openBE...

CS Circles: An In-Browser Python Course for Beginners

OpenAIRE

Pritchard, David; Vasiga, Troy

2012-01-01

Computer Science Circles is a free programming website for beginners that is designed to be fun, easy to use, and accessible to the broadest possible audience. We teach Python since it is simple yet powerful, and the course content is well-structured but written in plain language. The website has over one hundred exercises in thirty lesson pages, plus special features to help teachers support their students. It is available in both English and French. We discuss the philosophy behind the cour...

Usability of Browser-Based Tools for Web-Search Privacy

Science.gov (United States)

2010-03-01

What might Italians call maize? — Polenta From which country do french fries originate? — Belgium In Peru, which color potatoes are grown, in addition...What is kartofflen? — Potato Dumplings What is the name of the flatbread eaten with most Indian cuisine ? — Naan What type of cuisine offers Dim Sum

The Multi-Sector Sustainability Browser (MSSB): A Tool for ...

Science.gov (United States)

The MSSB is the first and only decision support tool containing information from scientific literature and technical reports that can be used to develop and implement sustainability initiatives. The MSSB is designed to assist individuals and communities in understanding the impacts that the four key dimensions of sustainability - Land Use, Buildings and Infrastructure, Transportation, and Materials Management - can have on human health, the economy, the built environment and natural environments. The MSSB has the following capabilities: a. Displays and describes linkages between the four major sustainability concepts (Land Use, Buildings and Infrastructure, Transportation, and Materials Management) and their subordinate concepts. b. Displays and lists literature sources and references (including weblinks where applicable) providing information about each major sustainability concept and its associated subordinate concepts. c. Displays and lists quantitative data related to each major sustainability concept and its associated subordinate concepts, with weblinks where applicable.The MSSB serves as a ‘visual database’, allowing users to: investigate one or more of the four key sustainability dimensions; explore available scientific literature references, and; assess potential impacts of sustainability activities. The MSSB reduces the amount of time and effort required to assess the state of sustainability science and engineering research pertaining

The Ensembl Web site: mechanics of a genome browser.

Science.gov (United States)

Stalker, James; Gibbins, Brian; Meidl, Patrick; Smith, James; Spooner, William; Hotz, Hans-Rudolf; Cox, Antony V

2004-05-01

The Ensembl Web site (http://www.ensembl.org/) is the principal user interface to the data of the Ensembl project, and currently serves >500,000 pages (approximately 2.5 million hits) per week, providing access to >80 GB (gigabyte) of data to users in more than 80 countries. Built atop an open-source platform comprising Apache/mod_perl and the MySQL relational database management system, it is modular, extensible, and freely available. It is being actively reused and extended in several different projects, and has been downloaded and installed in companies and academic institutions worldwide. Here, we describe some of the technical features of the site, with particular reference to its dynamic configuration that enables it to handle disparate data from multiple species.

Toppar: an interactive browser for viewing association study results.

Science.gov (United States)

Juliusdottir, Thorhildur; Banasik, Karina; Robertson, Neil R; Mott, Richard; McCarthy, Mark I

2018-06-01

Data integration and visualization help geneticists make sense of large amounts of data. To help facilitate interpretation of genetic association data we developed Toppar, a customizable visualization tool that stores results from association studies and enables browsing over multiple results, by combining features from existing tools and linking to appropriate external databases. Detailed information on Toppar's features and functionality are on our website http://mccarthy.well.ox.ac.uk/toppar/docs along with instructions on how to download, install and run Toppar. Our online version of Toppar is accessible from the website and can be test-driven using Firefox, Safari or Chrome on sub-sets of publicly available genome-wide association study anthropometric waist and body mass index data (Locke et al., 2015; Shungin et al., 2015) from the Genetic Investigation of ANthropometric Traits consortium. totajuliusd@gmail.com.

Now playing in a browser near you: TEDxCERN

CERN Multimedia

Katarina Anthony

2013-01-01

Earlier this month, CERN played host to one of the hottest, hippest and most educational parties around: TEDx. The event brought together thousands of viewers, speakers and participants from around the world.   The TEDxCERN event was the hottest ticket in town – and those who couldn’t make the event in person turned up online! More than 1,000 TEDxCERN fans watched the event via simulcast at viewing parties held in 27 institutions, but dominating the audience were the 10,870 unique viewers who tuned in to the live webcast, along with over 300 people who joined the webcast from CERN and another 300 watching it live from the Globe of Science and Innovation at CERN. But if you missed the excitement, never fear. Videos of the talks, as well as the clips presented during the talks themselves, are now available online. Just head to the TEDxCERN homepage and catch up! Watch as researcher Maya Tolstoy discusses seafloor earthquakes, Google Science Fair winner Brittany Wengler ...

Lightweight genome viewer: portable software for browsing genomics data in its chromosomal context.

Science.gov (United States)

Faith, Jeremiah J; Olson, Andrew J; Gardner, Timothy S; Sachidanandam, Ravi

2007-09-18

Lightweight genome viewer (lwgv) is a web-based tool for visualization of sequence annotations in their chromosomal context. It performs most of the functions of larger genome browsers, while relying on standard flat-file formats and bypassing the database needs of most visualization tools. Visualization as an aide to discovery requires display of novel data in conjunction with static annotations in their chromosomal context. With database-based systems, displaying dynamic results requires temporary tables that need to be tracked for removal. lwgv simplifies the visualization of user-generated results on a local computer. The dynamic results of these analyses are written to transient files, which can import static content from a more permanent file. lwgv is currently used in many different applications, from whole genome browsers to single-gene RNAi design visualization, demonstrating its applicability in a large variety of contexts and scales. lwgv provides a lightweight alternative to large genome browsers for visualizing biological annotations and dynamic analyses in their chromosomal context. It is particularly suited for applications ranging from short sequences to medium-sized genomes when the creation and maintenance of a large software and database infrastructure is not necessary or desired.

Microprocessor-controlled wide-range streak camera

Science.gov (United States)

Lewis, Amy E.; Hollabaugh, Craig

2006-08-01

Bechtel Nevada/NSTec recently announced deployment of their fifth generation streak camera. This camera incorporates many advanced features beyond those currently available for streak cameras. The arc-resistant driver includes a trigger lockout mechanism, actively monitors input trigger levels, and incorporates a high-voltage fault interrupter for user safety and tube protection. The camera is completely modular and may deflect over a variable full-sweep time of 15 nanoseconds to 500 microseconds. The camera design is compatible with both large- and small-format commercial tubes from several vendors. The embedded microprocessor offers Ethernet connectivity, and XML [extensible markup language]-based configuration management with non-volatile parameter storage using flash-based storage media. The camera's user interface is platform-independent (Microsoft Windows, Unix, Linux, Macintosh OSX) and is accessible using an AJAX [asynchronous Javascript and XML]-equipped modem browser, such as Internet Explorer 6, Firefox, or Safari. User interface operation requires no installation of client software or browser plug-in technology. Automation software can also access the camera configuration and control using HTTP [hypertext transfer protocol]. The software architecture supports multiple-simultaneous clients, multiple cameras, and multiple module access with a standard browser. The entire user interface can be customized.

SoyFN: a knowledge database of soybean functional networks.

Science.gov (United States)

Xu, Yungang; Guo, Maozu; Liu, Xiaoyan; Wang, Chunyu; Liu, Yang

2014-01-01

Many databases for soybean genomic analysis have been built and made publicly available, but few of them contain knowledge specifically targeting the omics-level gene-gene, gene-microRNA (miRNA) and miRNA-miRNA interactions. Here, we present SoyFN, a knowledge database of soybean functional gene networks and miRNA functional networks. SoyFN provides user-friendly interfaces to retrieve, visualize, analyze and download the functional networks of soybean genes and miRNAs. In addition, it incorporates much information about KEGG pathways, gene ontology annotations and 3'-UTR sequences as well as many useful tools including SoySearch, ID mapping, Genome Browser, eFP Browser and promoter motif scan. SoyFN is a schema-free database that can be accessed as a Web service from any modern programming language using a simple Hypertext Transfer Protocol call. The Web site is implemented in Java, JavaScript, PHP, HTML and Apache, with all major browsers supported. We anticipate that this database will be useful for members of research communities both in soybean experimental science and bioinformatics. Database URL: http://nclab.hit.edu.cn/SoyFN.

Developing a Tile-Based Rendering Method to Improve Rendering Speed of 3D Geospatial Data with HTML5 and WebGL

Directory of Open Access Journals (Sweden)

Seokchan Kang

2017-01-01

Full Text Available A dedicated plug-in has been installed to visualize three-dimensional (3D city modeling spatial data in web-based applications. However, plug-in methods are gradually becoming obsolete, owing to their limited performance with respect to installation errors, unsupported cross-browsers, and security vulnerability. Particularly, in 2015, the NPAPI service was terminated in most existing web browsers except Internet Explorer. To overcome these problems, the HTML5/WebGL (next-generation web standard, confirmed in October 2014 technology emerged. In particular, WebGL is able to display 3D spatial data without plug-ins in browsers. In this study, we attempted to identify the requirements and limitations of displaying 3D city modeling spatial data using HTML5/WebGL, and we propose alternative ways based on the bin-packing algorithm that aggregates individual 3D city modeling data including buildings in tile units. The proposed method reduces the operational complexity and the number and volume of transmissions required for rendering processing to improve the speed of 3D data rendering. The proposed method was validated on real data for evaluating its effectiveness in 3D visualization of city modeling data in web-based applications.

Microprocessor-controlled, wide-range streak camera

International Nuclear Information System (INIS)

Amy E. Lewis; Craig Hollabaugh

2006-01-01

Bechtel Nevada/NSTec recently announced deployment of their fifth generation streak camera. This camera incorporates many advanced features beyond those currently available for streak cameras. The arc-resistant driver includes a trigger lockout mechanism, actively monitors input trigger levels, and incorporates a high-voltage fault interrupter for user safety and tube protection. The camera is completely modular and may deflect over a variable full-sweep time of 15 nanoseconds to 500 microseconds. The camera design is compatible with both large- and small-format commercial tubes from several vendors. The embedded microprocessor offers Ethernet connectivity, and XML [extensible markup language]-based configuration management with non-volatile parameter storage using flash-based storage media. The camera's user interface is platform-independent (Microsoft Windows, Unix, Linux, Macintosh OSX) and is accessible using an AJAX [asynchronous Javascript and XML]-equipped modem browser, such as Internet Explorer 6, Firefox, or Safari. User interface operation requires no installation of client software or browser plug-in technology. Automation software can also access the camera configuration and control using HTTP [hypertext transfer protocol]. The software architecture supports multiple-simultaneous clients, multiple cameras, and multiple module access with a standard browser. The entire user interface can be customized

Web Program for Development of GUIs for Cluster Computers

Science.gov (United States)

Czikmantory, Akos; Cwik, Thomas; Klimeck, Gerhard; Hua, Hook; Oyafuso, Fabiano; Vinyard, Edward

2003-01-01

WIGLAF (a Web Interface Generator and Legacy Application Facade) is a computer program that provides a Web-based, distributed, graphical-user-interface (GUI) framework that can be adapted to any of a broad range of application programs, written in any programming language, that are executed remotely on any cluster computer system. WIGLAF enables the rapid development of a GUI for controlling and monitoring a specific application program running on the cluster and for transferring data to and from the application program. The only prerequisite for the execution of WIGLAF is a Web-browser program on a user's personal computer connected with the cluster via the Internet. WIGLAF has a client/server architecture: The server component is executed on the cluster system, where it controls the application program and serves data to the client component. The client component is an applet that runs in the Web browser. WIGLAF utilizes the Extensible Markup Language to hold all data associated with the application software, Java to enable platform-independent execution on the cluster system and the display of a GUI generator through the browser, and the Java Remote Method Invocation software package to provide simple, effective client/server networking.

Web Extensible Display Manager

Energy Technology Data Exchange (ETDEWEB)

Slominski, Ryan [Thomas Jefferson National Accelerator Facility (TJNAF), Newport News, VA (United States); Larrieu, Theodore L. [Thomas Jefferson National Accelerator Facility (TJNAF), Newport News, VA (United States)

2018-02-01

Jefferson Lab's Web Extensible Display Manager (WEDM) allows staff to access EDM control system screens from a web browser in remote offices and from mobile devices. Native browser technologies are leveraged to avoid installing and managing software on remote clients such as browser plugins, tunnel applications, or an EDM environment. Since standard network ports are used firewall exceptions are minimized. To avoid security concerns from remote users modifying a control system, WEDM exposes read-only access and basic web authentication can be used to further restrict access. Updates of monitored EPICS channels are delivered via a Web Socket using a web gateway. The software translates EDM description files (denoted with the edl suffix) to HTML with Scalable Vector Graphics (SVG) following the EDM's edl file vector drawing rules to create faithful screen renderings. The WEDM server parses edl files and creates the HTML equivalent in real-time allowing existing screens to work without modification. Alternatively, the familiar drag and drop EDM screen creation tool can be used to create optimized screens sized specifically for smart phones and then rendered by WEDM.

Lotus Base

DEFF Research Database (Denmark)

Mun, Terry; Bachmann, Asger; Gupta, Vikas

2016-01-01

exploration of Lotus genomic and transcriptomic data. Equally important are user-friendly in-browser tools designed for data visualization and interpretation. Here, we present Lotus Base, which opens to the research community a large, established LORE1 insertion mutant population containing an excess of 120...... such data, allowing users to construct, visualize, and annotate co-expression gene networks. Lotus Base takes advantage of modern advances in browser technology to deliver powerful data interpretation for biologists. Its modular construction and publicly available application programming interface enable...... developers to tap into the wealth of integrated Lotus data. Lotus Base is freely accessible at: https://lotus.au.dk....

HTML5 Media

CERN Document Server

Powers, Shelley

2011-01-01

If you're a web developer or designer familiar with CSS and JavaScript, this tightly focused introduction shows you how to add HTML5 media elements to your web pages, and how to provide custom controls for letting web visitors interact with the content. You'll also learn how to provide subtitles and captions, using file formats that work in browsers now. This book includes code samples and downloadable examples to help you take full advantage of audio and video in your web pages. Ensure your audio or video works in all browsers that support HTML5 media elementsLearn about widely supported me

Evaluation of the performance of combined cooling, heating, and power systems with dual power generation units

International Nuclear Information System (INIS)

Knizley, Alta A.; Mago, Pedro J.; Smith, Amanda D.

2014-01-01

The benefits of using a combined cooling, heating, and power system with dual power generation units (D-CCHP) is examined in nine different U.S. locations. One power generation unit (PGU) is operated at base load while the other is operated following the electric load. The waste heat from both PGUs is used for heating and for cooling via an absorption chiller. The D-CCHP configuration is studied for a restaurant benchmark building, and its performance is quantified in terms of operational cost, primary energy consumption (PEC), and carbon dioxide emissions (CDE). Cost spark spread, PEC spark spread, and CDE spark spread are examined as performance indicators for the D-CCHP system. D-CCHP system performance correlates well with spark spreads, with higher spark spreads signifying greater savings through implementation of a D-CCHP system. A new parameter, thermal difference, is introduced to investigate the relative performance of a D-CCHP system compared to a dual PGU combined heat and power system (D-CHP). Thermal difference, together with spark spread, can explain the variation in savings of a D-CCHP system over a D-CHP system for each location. The effect of carbon credits on operational cost savings with respect to the reference case is shown for selected locations. - Highlights: • We investigate benefits from using combined cooling, heating, and power systems. • A dual power generation unit configuration is considered for CCHP and CHP. • Spark spreads for cost, energy, and emissions correlate with potential savings. • Thermal difference parameter helps to explain variations in potential savings. • Carbon credits may increase cost savings where emissions savings are possible

Preclinical evaluation of transcriptional targeting strategy for human hepatocellular carcinoma in an orthotopic xenograft mouse model.

Science.gov (United States)

Sia, Kian Chuan; Huynh, Hung; Chung, Alexander Yaw Fui; Ooi, London Lucien Peng Jin; Lim, Kiat Hon; Hui, Kam Man; Lam, Paula Yeng Po

2013-08-01

Gene regulation of many key cell-cycle players in S-, G(2) phase, and mitosis results from transcriptional repression in their respective promoter regions during the G(0) and G(1) phases of cell cycle. Within these promoter regions are phylogenetically conserved sequences known as the cell-cycle-dependent element (CDE) and cell-cycle genes homology regions (CHR) sites. Thus, we hypothesize that transcriptional regulation of cell-cycle regulation via the CDE/CHR region together with liver-specific apolipoprotein E (apoE)-hAAT promoter could bring about a selective transgene expression in proliferating human hepatocellular carcinoma. We show that the newly generated vector AH-6CC-L2C could mediate hepatocyte-targeted luciferase gene expression in tumor cells and freshly isolated short-term hepatocellular carcinoma cultures from patient biopsy. In contrast, normal murine and human hepatocytes infected with AH-6CC-L2C expressed minimal or low luciferase activities. In the presence of prodrug 5-fluorocytosine (5-FC), AH-6CC-L2C effectively suppressed the growth of orthotopic hepatocellular carcinoma patient-derived xenograft mouse model via the expression of yeast cytosine deaminase (yCD) that converts 5-FC to anticancer metabolite 5-fluoruracil. More importantly, we show that combination treatment of AH-6CC-L2C with an EZH2 inhibitor, DZNep, that targets EpCAM-positive hepatocellular carcinoma, can bring about a greater therapeutic efficacy compared with a single treatment of virus or inhibitor. Our study showed that targeting proliferating human hepatocellular carcinoma cells through the transcriptional control of therapeutic gene could represent a feasible approach against hepatocellular carcinoma.

Radiographic outcomes among South African coal miners.

Science.gov (United States)

Naidoo, Rajen N; Robins, Thomas G; Solomon, A; White, Neil; Franzblau, Alfred

2004-10-01

This study, the first to document the prevalence of pneumoconiosis among a living South African coal mining cohort, describes dose-response relationships between coal workers' pneumoconiosis and respirable dust exposure, and relationships between pneumoconiosis and both lung function deterioration and respiratory symptoms. A total of 684 current miners and 188 ex-miners from three bituminous-coal mines in Mpumalanga, South Africa, was studied. Chest radiographs were read according to the International Labour Organization (ILO) classification by two experienced readers, one an accredited National Institute for Occupational Safety and Health (NIOSH) "B" reader. Interviews were conducted to assess symptoms, work histories (also obtained from company records), smoking, and other risk factors. Spirometry was performed by trained technicians. Cumulative respirable dust exposure (CDE) estimates were constructed from historical company-collected sampling and researcher-collected personal dust measurements. kappa-Statistics compared the radiographic outcomes predicted by the two readers. An average profusion score was used in the analysis for the outcomes of interest. Because of possible confounding by employment status, most analyses were stratified on current and ex-miner status. The overall prevalence of pneumoconiosis was low (2%-4%). The degree of agreement between the two readers for profusion was moderate to high (kappa=0.58). A significant association (Pminers only. A significant (Pminers with pneumoconiosis than among those without. Logistic regression models showed no significant relationships between pneumoconiosis and symptoms. The overall prevalence of pneumoconiosis, although significantly associated with CDE, was low. The presence of pneumoconiosis is associated with meaningful health effects, including deterioration in lung function. Intervention measures that control exposure are indicated, to reduce these functional effects.

Mortality from non‐malignant respiratory diseases among people with silicosis in Hong Kong: exposure–response analyses for exposure to silica dust

Science.gov (United States)

Tse, L A; Yu, I T S; Leung, C C; Tam, W; Wong, T W

2007-01-01

Objectives To examine the exposure–response relationships between various indices of exposure to silica dust and the mortality from non‐malignant respiratory diseases (NMRDs) or chronic obstructive pulmonary diseases (COPDs) among a cohort of workers with silicosis in Hong Kong. Methods The concentrations of respirable silica dust were assigned to each industry and job task according to historical industrial hygiene measurements documented previously in Hong Kong. Exposure indices included cumulative dust exposure (CDE) and mean dust concentration (MDC). Penalised smoothing spline models were used as a preliminary step to detect outliers and guide further analyses. Multiple Cox's proportional hazard models were used to estimate the dust effects on the risk of mortality from NMRDs or COPDs after truncating the highest exposures. Results 371 of the 853 (43.49%) deaths occurring among 2789 workers with silicosis during 1981–99 were from NMRDs, and 101 (27.22%) NMRDs were COPDs. Multiple Cox's proportional hazard models showed that CDE (p = 0.009) and MDC (pcaisson workers and among those ever employed in other occupations with high exposure to silica dust. No exposure–response relationship was observed for surface construction workers with low exposures. A clear upward trend for both NMRDs and COPDs mortality was found with increasing severity of radiological silicosis. Conclusion This study documented an exposure–response relationship between exposure to silica dust and the risk of death from NMRDs or COPDs among workers with silicosis, except for surface construction workers with low exposures. The risk of mortality from NMRDs increased significantly with the progression of International Labor Organization categories, independent of dust effects. PMID:16973737

Results of endocapsular phacofracture debulking of hard cataracts

Directory of Open Access Journals (Sweden)

Davison JA

2015-07-01

Full Text Available James A Davison Wolfe Eye Clinic, Marshalltown, IA, USA Purpose/aim of the study: To present a phacoemulsification technique for hard cataracts and compare postoperative results using two different ultrasonic tip motions during quadrant removal.Materials and methods: A phacoemulsification technique which employs in situ fracture and endocapsular debulking for hard cataracts is presented. The prospective study included 56 consecutive cases of hard cataract (LOCS III NC [Lens Opacification Classification System III, nuclear color], average 4.26, which were operated using the Infiniti machine and the Partial Kelman tip. Longitudinal tip movement was used for sculpting for all cases which were randomized to receive longitudinal or torsional/interjected longitudinal (Intelligent Phaco [IP] strategies for quadrant removal. Measurements included cumulative dissipated energy (CDE, 3 months postoperative surgically induced astigmatism (SIA, and corneal endothelial cell density (ECD losses.Results: No complications were recorded in any of the cases. Respective overall and longitudinal vs IP means were as follows: CDE, 51.6±15.6 and 55.7±15.5 vs 48.6±15.1; SIA, 0.36±0.2 D and 0.4±0.2 D vs 0.3±0.2 D; and mean ECD loss, 4.1%±10.8% and 5.9%±13.4% vs 2.7%±7.8%. The differences between longitudinal and IP were not significant for any of the three categories.Conclusion: The endocapsular phacofracture debulking technique is safe and effective for phacoemulsification of hard cataracts using longitudinal or torsional IP strategies for quadrant removal with the Infiniti machine and Partial Kelman tip. Keywords: astigmatism, cataract, corneal endothelium, phacoemulsification, viscoelastic

Performance Evaluation of a Solar-Powered Regenerative Organic Rankine Cycle in Different Climate Conditions

Directory of Open Access Journals (Sweden)

Emily Spayde

2017-01-01

Full Text Available A model to evaluate the performance of a solar powered regenerative Organic Rankine Cycle (R-ORC using five dry organic fluids: RC318, R227ea, R236ea, R236fa, and R218, is presented in this paper. The system is evaluated in two locations in the U.S.: Jackson, MS and Tucson, AZ. The weather data for each location is used to determine the heat available from the solar collector that could be used by the R-ORC to generate power. Results from the R-ORC performance are compared with a basic ORC using first and second law criteria as well as primary energy consumption (PEC and carbon dioxide emission (CDE savings for both locations. An economic analysis to determine the maximum capital cost for a desired payback period is presented in this paper. A parametric analysis is also performed to study the effect of the turbine efficiency as well as the open feed organic fluid heater intermediate pressure on the system performance. Results indicate that the R-ORC is able to generate more power than the basic ORC for some of the selected working fluids. For the R-ORC, R236ea is the working fluid that show the best performance among the evaluated fluids under the modeled conditions. On the other hand, the basic ORC with R236ea as the working fluid outperformed three of the fluids in the R-ORC. Also, the R-ORC evaluated in Tucson, AZ is able to generate more power, to provide more PEC and CDE savings, and had a higher available capital cost than the R-ORC evaluated in in Jackson, MS.

Participação do conselho deliberativo escolar na democratização da gestão da escola

OpenAIRE

Santos, Tomaz Silveira dos

2006-01-01

A presente dissertação tem por objetivo conhecer em que medida o Conselho Deliberativo Escolar (CDE) participa da democratização da Gestão da escola, levando em consideração as relações sociais incentivadas ou tolhidas a partir da participação e da descentralização nas tomadas de decisão. Partindo do pressuposto de que o exercício da democracia é um processo em construção. Assim, em termos teóricos, discute-se a educação em uma perspectiva emancipadora e as formas de gestão que favorecem e...

Web application security: a beginner's guide

National Research Council Canada - National Science Library

Sullivan, Bryan; Liu, Vincent

2012-01-01

.... This practical resource includes chapters on authentication, authorization, and session management, along with browser, database, and file security--all supported by true stories from industry...

Data Exchange Inventory System for Telecommunications and Systems Operations (DEXI-OTSO)

Data.gov (United States)

Social Security Administration — This Data Exchange Inventory (DEXI) for the Office of Telecommunications and System Operations, (OTSO) Network Troubleshooting is a browser-based inventory database...

Modelling Safe Interface Interactions in Web Applications

Science.gov (United States)

Brambilla, Marco; Cabot, Jordi; Grossniklaus, Michael

Current Web applications embed sophisticated user interfaces and business logic. The original interaction paradigm of the Web based on static content pages that are browsed by hyperlinks is, therefore, not valid anymore. In this paper, we advocate a paradigm shift for browsers and Web applications, that improves the management of user interaction and browsing history. Pages are replaced by States as basic navigation nodes, and Back/Forward navigation along the browsing history is replaced by a full-fledged interactive application paradigm, supporting transactions at the interface level and featuring Undo/Redo capabilities. This new paradigm offers a safer and more precise interaction model, protecting the user from unexpected behaviours of the applications and the browser.

Performance evaluation of a distance learning program.

Science.gov (United States)

Dailey, D J; Eno, K R; Brinkley, J F

1994-01-01

This paper presents a performance metric which uses a single number to characterize the response time for a non-deterministic client-server application operating over the Internet. When applied to a Macintosh-based distance learning application called the Digital Anatomist Browser, the metric allowed us to observe that "A typical student doing a typical mix of Browser commands on a typical data set will experience the same delay if they use a slow Macintosh on a local network or a fast Macintosh on the other side of the country accessing the data over the Internet." The methodology presented is applicable to other client-server applications that are rapidly appearing on the Internet.

Virtual Earth System Laboratory (VESL): A Virtual Research Environment for The Visualization of Earth System Data and Process Simulations

Science.gov (United States)

Cheng, D. L. C.; Quinn, J. D.; Larour, E. Y.; Halkides, D. J.

2017-12-01

The Virtual Earth System Laboratory (VESL) is a Web application, under continued development at the Jet Propulsion Laboratory and UC Irvine, for the visualization of Earth System data and process simulations. As with any project of its size, we have encountered both successes and challenges during the course of development. Our principal point of success is the fact that VESL users can interact seamlessly with our earth science simulations within their own Web browser. Some of the challenges we have faced include retrofitting the VESL Web application to respond to touch gestures, reducing page load time (especially as the application has grown), and accounting for the differences between the various Web browsers and computing platforms.

Renewing library Web sites CMS at libraries

CERN Document Server

Vida, A

2006-01-01

The use of the Internet has a ten-year history in Hungary. In the beginning, users were surfing on textual Web sites with the browser Lynx (1991), then a range of graphic browsers appeared: Mosaic (1993) , Netscape (1994), and finally Internet Explorer (1995). More and more institutions, including libraries decided to enter the World Wide Web with their own homepage. The past ten years have brought enormous changes and new requirements in the way that institutional homepages are designed. This article offers an overview of the development phases of Web sites, presents the new tools necessary for the state-of-the-art design and gives advice on their up-to-date maintenance.

Exploring JavaScript and ROOT technologies to create Web-based ATLAS analysis and monitoring tools

CERN Document Server

Sanchez, Arturo; The ATLAS collaboration

2015-01-01

We explore the potentialities of current web applications to create online interfaces that allow the visualization, interaction and real physics cut-based analysis and monitoring of processes trough a web browser. The project consists in the initial development of web-based and cloud computing services to allow students and researches to perform fast and very useful cut-based analysis on a browser, reading and using real data and official Monte-Carlo simulations stored in ATLAS computing facilities. Several tools are considered: ROOT, JavaScript and HTML. Our study case is the current cut-based $H \\rightarrow ZZ \\rightarrow llqq$ analysis of the ATLAS experiment. Preliminary but satisfactory results have been obtained online.

Exploring JavaScript and ROOT technologies to create Web-based ATLAS analysis and monitoring tools

CERN Document Server

Pineda, A S

2015-01-01

We explore the potential of current web applications to create online interfaces that allow the visualization, interaction and real cut-based physics analysis and monitoring of processes through a web browser. The project consists in the initial development of web- based and cloud computing services to allow students and researchers to perform fast and very useful cut-based analysis on a browser, reading and using real data and official Monte- Carlo simulations stored in ATLAS computing facilities. Several tools are considered: ROOT, JavaScript and HTML. Our study case is the current cut-based H → ZZ → llqq analysis of the ATLAS experiment. Preliminary but satisfactory results have been obtained online.

The 2017 Diabetes Educator and the Diabetes Self-Management Education National Practice Survey.

Science.gov (United States)

Rinker, Joanne; Dickinson, Jane K; Litchman, Michelle L; Williams, Ann S; Kolb, Leslie E; Cox, Carla; Lipman, Ruth D

2018-06-01

Purpose The American Association of Diabetes Educators conducts the National Practice Survey (NPS) biennially to document current practice in diabetes education in the United States. The purpose of the study is to obtain insight about factors influencing the work of the diabetes educator. Method The 2017 NPS was comprised of 100 questions covering diabetes educator demographics, profile populations of people with diabetes, practice information, program accreditation, program curriculum, staffing, education delivery methods, data collection, and reporting. The basic survey consisted of 22 questions using branch logic, from which respondents were then directed to questions tailored to their particular practice setting, enabling them to answer only a relevant subset of the remaining questions. The web-based survey was sent to approximately 32 000 individuals who were either members of the American Association of Diabetes Educators (AADE) or Certified Diabetes Educators (CDE) with the National Certification Board for Diabetes Educators (NCBDE) but not AADE members. Weekly reminder e-mails were sent to recipients who had not yet responded. The outreach efforts resulted in the survey being completed by 4696 individuals, a 17% response rate yielding 95% confidence that these responses are within ±5% accuracy. Results Diabetes Self-Management Education and Support (DSMES) continues to be a field dominated by women (95%). Diabetes educators represent a diverse health care profession, with educators indicating most commonly that their primary discipline is nursing (48%), nutrition (38%), and pharmacy (7%). When asked about credentials, 82.6% indicated that they held a CDE, 3.8% held the Board Certified-Advanced Diabetes Management (BC-ADM) credential, and 16.5% held neither the CDE nor the BC-ADM. Nearly 75% characterized their role as a diabetes educator as providing direct patient care. DSMES continued to be provided in a varied array of settings to educationally

Lightweight genome viewer: portable software for browsing genomics data in its chromosomal context

Directory of Open Access Journals (Sweden)

Gardner Timothy S

2007-09-01

Full Text Available Abstract Background Lightweight genome viewer (lwgv is a web-based tool for visualization of sequence annotations in their chromosomal context. It performs most of the functions of larger genome browsers, while relying on standard flat-file formats and bypassing the database needs of most visualization tools. Visualization as an aide to discovery requires display of novel data in conjunction with static annotations in their chromosomal context. With database-based systems, displaying dynamic results requires temporary tables that need to be tracked for removal. Results lwgv simplifies the visualization of user-generated results on a local computer. The dynamic results of these analyses are written to transient files, which can import static content from a more permanent file. lwgv is currently used in many different applications, from whole genome browsers to single-gene RNAi design visualization, demonstrating its applicability in a large variety of contexts and scales. Conclusion lwgv provides a lightweight alternative to large genome browsers for visualizing biological annotations and dynamic analyses in their chromosomal context. It is particularly suited for applications ranging from short sequences to medium-sized genomes when the creation and maintenance of a large software and database infrastructure is not necessary or desired.

Microprocessor-controlled, wide-range streak camera

Energy Technology Data Exchange (ETDEWEB)

Amy E. Lewis, Craig Hollabaugh

2006-09-01

Bechtel Nevada/NSTec recently announced deployment of their fifth generation streak camera. This camera incorporates many advanced features beyond those currently available for streak cameras. The arc-resistant driver includes a trigger lockout mechanism, actively monitors input trigger levels, and incorporates a high-voltage fault interrupter for user safety and tube protection. The camera is completely modular and may deflect over a variable full-sweep time of 15 nanoseconds to 500 microseconds. The camera design is compatible with both large- and small-format commercial tubes from several vendors. The embedded microprocessor offers Ethernet connectivity, and XML [extensible markup language]-based configuration management with non-volatile parameter storage using flash-based storage media. The camera’s user interface is platform-independent (Microsoft Windows, Unix, Linux, Macintosh OSX) and is accessible using an AJAX [asynchronous Javascript and XML]-equipped modem browser, such as Internet Explorer 6, Firefox, or Safari. User interface operation requires no installation of client software or browser plug-in technology. Automation software can also access the camera configuration and control using HTTP [hypertext transfer protocol]. The software architecture supports multiple-simultaneous clients, multiple cameras, and multiple module access with a standard browser. The entire user interface can be customized.

Vcs.js - Visualization Control System for the Web

Science.gov (United States)

Chaudhary, A.; Lipsa, D.; Doutriaux, C.; Beezley, J. D.; Williams, D. N.; Fries, S.; Harris, M. B.

2016-12-01

VCS is a general purpose visualization library, optimized for climate data, which is part of the UV-CDAT system. It provides a Python API for drawing 2D plots such as lineplots, scatter plots, Taylor diagrams, data colored by scalar values, vector glyphs, isocontours and map projections. VCS is based on the VTK library. Vcs.js is the corresponding JavaScript API, designed to be as close as possible to the original VCS Python API and to provide similar functionality for the Web. Vcs.js includes additional functionality when compared with VCS. This additional API is used to introspect data files available on the server and variables available in a data file. Vcs.js can display plots in the browser window. It always works with a server that reads a data file, extracts variables from the file and subsets the data. From this point, two alternate paths are possible. First the system can render the data on the server using VCS producing an image which is send to the browser to be displayed. This path works for for all plot types and produces a reference image identical with the images produced by VCS. This path uses the VTK-Web library. As an optimization, usable in certain conditions, a second path is possible. Data is packed, and sent to the browser which uses a JavaScript plotting library, such as plotly, to display the data. Plots that work well in the browser are line-plots, scatter-plots for any data and many other plot types for small data and supported grid types. As web technology matures, more plots could be supported for rendering in the browser. Rendering can be done either on the client or on the server and we expect that the best place to render will change depending on the available web technology, data transfer costs, server management costs and value provided to users. We intend to provide a flexible solution that allows for both client and server side rendering and a meaningful way to choose between the two. We provide a web-based user interface called v

Taxonomy of Spyware and Empirical Study of Network Drive-By-Downloads

National Research Council Canada - National Science Library

Barwinski, Mark A

2005-01-01

.... Making use of browser vulnerabilities, spyware infection is wide-spread. This thesis considers common infection vectors and reviews current definitions in arriving at an improved definition of spyware...

Virginia Natural Heritage Program

Science.gov (United States)

Heritage About Natural Heritage Overview, Mission Natural Heritage Inventory Community Ecology Program ) | Strategic Plan (PDF) | Executive Progress Report (PDF) | Code of Ethics (PDF) Your browser does not support

Enumeration of minimal stoichiometric precursor sets in metabolic networks.

Science.gov (United States)

Andrade, Ricardo; Wannagat, Martin; Klein, Cecilia C; Acuña, Vicente; Marchetti-Spaccamela, Alberto; Milreu, Paulo V; Stougie, Leen; Sagot, Marie-France

2016-01-01

What an organism needs at least from its environment to produce a set of metabolites, e.g. target(s) of interest and/or biomass, has been called a minimal precursor set. Early approaches to enumerate all minimal precursor sets took into account only the topology of the metabolic network (topological precursor sets). Due to cycles and the stoichiometric values of the reactions, it is often not possible to produce the target(s) from a topological precursor set in the sense that there is no feasible flux. Although considering the stoichiometry makes the problem harder, it enables to obtain biologically reasonable precursor sets that we call stoichiometric. Recently a method to enumerate all minimal stoichiometric precursor sets was proposed in the literature. The relationship between topological and stoichiometric precursor sets had however not yet been studied. Such relationship between topological and stoichiometric precursor sets is highlighted. We also present two algorithms that enumerate all minimal stoichiometric precursor sets. The first one is of theoretical interest only and is based on the above mentioned relationship. The second approach solves a series of mixed integer linear programming problems. We compared the computed minimal precursor sets to experimentally obtained growth media of several Escherichia coli strains using genome-scale metabolic networks. The results show that the second approach efficiently enumerates minimal precursor sets taking stoichiometry into account, and allows for broad in silico studies of strains or species interactions that may help to understand e.g. pathotype and niche-specific metabolic capabilities. sasita is written in Java, uses cplex as LP solver and can be downloaded together with all networks and input files used in this paper at http://www.sasita.gforge.inria.fr.

77 FR 47867 - Agency Information Collection Activities: Comment Request

Science.gov (United States)

2012-08-10

... phenology information to Nature's Notebook through a browser-based web application or via mobile applications for iPhone and Android operating systems, meeting GPEA requirements. The web application interface...

Aspartate tightens the anchoring of staphylococcal lipoproteins to the cytoplasmic membrane.

Science.gov (United States)

Kumari, Nimerta; Götz, Friedrich; Nguyen, Minh-Thu

2017-12-01

In gram-negative bacteria, the ABC transporter LolCDE complex translocates outer membrane-specific lipoproteins (Lpp) from the inner membrane to the outer membrane. Lpp possessing aspartate (Asp) at position +2 are not translocated because it functions as a LolCDE avoidance signal. In gram-positive bacteria, lacking an outer membrane and the Lol system, Lpp are only anchored at the outer leaflet of the cytoplasmic membrane. However, the release of Lpp particularly in pathogenic or commensal species is crucial for immune modulation. Here, we provide evidence that in Staphylococcus aureus Asp at position +2 plays a role in withholding Lpp to the cytoplasmic membrane. Screening of published exoproteomic data of S. aureus revealed that Lpp mainly with Gly or Ser at position +2 were found in exoproteome, but there was no Lpp with Asp+2. The occurrence of Lpp with Asp+2 is infrequent in gram-positive bacteria. In S. aureus USA300 only seven of the 67 Lpp possess Asp+2; among them five Lpp represented Lpl lipoproteins involved in host cell invasion. Our study demonstrated that replacing the Asp+2 present in Lpl8 with a Ser enhances its release into the supernatant. However, there is no different release of Asp+2 and Ser+2 in mprF mutant that lacks the positive charge of lysyl-phosphatidylglycerol (Lys-PG). Moreover, substitution of Ser+2 by Asp in SitC (MntC) did not lead to a decreased release indicating that in staphylococci positions +3 and +4 might also be important for a tighter anchoring of Lpp. Here, we show that Asp in position +2 and adjacent amino acids contribute in tightening the anchoring of Lpp by interaction of the negative charged Asp with the positive charged Lys-PG. © 2017 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.

Epidemiological features and the neuropathological manifestations of canine distemper virus-induced infections in Brazil: a reviewAspectos epidemiológicos e as manifestações neuropatológicas associadas à infecção pelo vírus da cinomose canina no Brasil: uma revisão

Directory of Open Access Journals (Sweden)

Selwyn Arligton Headley

2012-10-01

Full Text Available This article provides a critical review of current epidemiological trends of canine distemper virus (CDV and syndromes related to canine distemper encephalitis (CDE with specific reference to the situation in Brazil. Epidemiological data relative to susceptible animal populations, prevalence, seasonal occurrence, and age-related patterns associated with CDV are discussed. The participation of mongrel dogs in maintaining CDV within rural and semi-urban canine populations and their importance in the epidemiology of canine distemper is highlighted. The economic impact of treating the clinical manifestations associated with CDV-induced infections in Brazil is estimated. Additionally, neurological and neuropathological manifestations of CDV in Brazil are discussed, and a novel manifestation of CDE is proposed. Esse manuscrito fornece uma revisão crítica das tendências epidemiológicas associadas ao vírus da cinomose canina (CDV e às síndromes relacionadas à encefalite por cinomose com referência específica à situação no Brasil. Os dados epidemiológicos relativos às populações de animais suscetíveis, prevalência, sazonalidade e os padrões relacionados à idade foram discutidos. Também é enfocada nessa revisão a participação de cães de rua na manutenção do CDV nas populações caninas nas áreas rurais e nas regiões semiurbanas e a sua importância na epidemiologia da cinomose. Foi ainda estimado o impacto econômico relacionado ao tratamento das manifestações clínicas associadas à cinomose no Brasil. Adicionalmente, as manifestações neurológicas e neuropatológicas da cinomose no Brasil são discutidas e uma manifestação neuropatológica inédita da infecção é sugerida.

Unexpected suppression of anti-Fya and prevention of hemolytic disease of the fetus and newborn after administration of Rh immune globulin.

Science.gov (United States)

Branch, Donald R; Scofield, Terry L; Moulds, John J; Swanson, Jane L

2011-04-01

Rh immune globulin (RhIG) has been used successfully for many years for the antenatal suppression of anti-D in D- mothers carrying D+ babies to prevent hemolytic disease of the fetus and newborn. Although the mechanism of RhIG-induced immunosuppression remains unknown, a recent report (TRANSFUSION 2006;46:1316-22) has shown that women receiving RhIG produce elevated levels of transforming growth factor (TGF)β-1, a powerful immunosuppressant cytokine. It was suggested that induction of TGFβ-1 and immunosuppression may be independent of cognate antigen recognition by RhIG. Herein, we present a description of a mother and baby that supports this hypothesis. Red blood cells and serum were analyzed using saline-tube indirect antiglobulin test methods. RhIG (RhoGAM) was administered after each amniocentesis performed at 28, 31, and 36 weeks' gestation. A group A, D-(cde), K+, Fy(a-b+), MNs, Jk(a+b+) mother with no detectable anti-D had an anti-Fy(a) titer of 4096 before RhIG but only 256 after RhIG. Mother gave birth to a group O, D-(cde), Fy(a+b+) healthy baby boy having a weak-positive direct antiglobulin test with anti-Fy(a) eluted from his cells and the titer in the cord serum was 4. This case demonstrates the potential immunosuppressive properties of RhIG for down regulation of a possible clinically significant alloantibody, not anti-D, where no D+ antigen is in the circulation of the mother. The case illustrates the potential utility for using RhIG to modulate antibody levels in situations other than for classical suppression of anti-D production. Although the mechanism in this case is unknown, TGFβ-1-mediated or antibody-mediated immunosuppression to soluble nonparticulate antigens are possible mechanisms. © 2010 American Association of Blood Banks.

Biological indicators capable of assessing thermal treatment efficiency of hydrocarbon mixture-contaminated soil.

Science.gov (United States)

Wang, Jiangang; Zhan, Xinhua; Zhou, Lixiang; Lin, Yusuo

2010-08-01

In China, there are many special sites for recycling and washing the used drums, which release a variety of C5-C40 hydrocarbon mixture into the soil around the site. The remediation of these contaminated sites by thermal treatment is adopted ubiquitously and needs to be assessed. Here we report the feasibility of biological indicators applied to assess thermal treatment efficiency in such contaminated soil. A series of biological indicators, including seed germination index (SGI), root elongation index (REI), plant growth height, biomass, carbon dioxide evolved (CDE), soil respiration inhibition (SRI) and soil enzymatic activities, were employed to monitor or assess hydrocarbon mixture removal in thermal treated soil. The results showed that residual hydrocarbon mixture content correlated strongly negatively with SGI for sesamum (Sesamum indicum L.), plant height, and biomass for ryegrass (Lolium perenne L.) in the concentration ranges of 0-3990, 0-3170 and 0-2910 mg kg(-1), respectively. In contrast, REI for sesamum was positively correlated with residual hydrocarbon mixture content from 0 to 1860 mg kg(-1). In addition, both CDE and SRI demonstrated that 600 mg kg(-1) of residual hydrocarbon mixture content caused the highest amount of soil carbon dioxide emission and inhabitation of soil respiration. The results of soil enzymes indicated that 1000 mg kg(-1) of residual hydrocarbon mixture content was the threshold value of stimulating or inhibiting the activities of phosphatase and catalase, or completely destroying the activities of dehydrogenase, invertase, and urease. In conclusion, these biological indicators can be used as a meaningful complementation for traditional chemical content measurement in evaluating the environmental risk of the contaminated sites before and after thermal treatment. (c) 2010 Elsevier Ltd. All rights reserved.

Pore-scale dynamics of salt transport and distribution in drying porous media

International Nuclear Information System (INIS)

Shokri, Nima

2014-01-01

Understanding the physics of water evaporation from saline porous media is important in many natural and engineering applications such as durability of building materials and preservation of monuments, water quality, and mineral-fluid interactions. We applied synchrotron x-ray micro-tomography to investigate the pore-scale dynamics of dissolved salt distribution in a three dimensional drying saline porous media using a cylindrical plastic column (15 mm in height and 8 mm in diameter) packed with sand particles saturated with CaI 2 solution (5% concentration by mass) with a spatial and temporal resolution of 12 μm and 30 min, respectively. Every time the drying sand column was set to be imaged, two different images were recorded using distinct synchrotron x-rays energies immediately above and below the K-edge value of Iodine. Taking the difference between pixel gray values enabled us to delineate the spatial and temporal distribution of CaI 2 concentration at pore scale. Results indicate that during early stages of evaporation, air preferentially invades large pores at the surface while finer pores remain saturated and connected to the wet zone at bottom via capillary-induced liquid flow acting as evaporating spots. Consequently, the salt concentration increases preferentially in finer pores where evaporation occurs. Higher salt concentration was observed close to the evaporating surface indicating a convection-driven process. The obtained salt profiles were used to evaluate the numerical solution of the convection-diffusion equation (CDE). Results show that the macro-scale CDE could capture the overall trend of the measured salt profiles but fail to produce the exact slope of the profiles. Our results shed new insight on the physics of salt transport and its complex dynamics in drying porous media and establish synchrotron x-ray tomography as an effective tool to investigate the dynamics of salt transport in porous media at high spatial and temporal resolution

77 FR 64521 - Announcement of Requirements and Registration for “Health Design Challenge”

Science.gov (United States)

2012-10-22

... expected to increase dramatically in the near future. Being able to access your health information on..., .PSD, .AI, and .PDF. The acceptable browser viewable format is .HTML. [ssquf] Feasibility: This...

Context Based Temporal Reasoning and Analysis of Vehicular Activities from SAR EO Imagery

National Research Council Canada - National Science Library

Bederson, Benjamin

2003-01-01

... are..Jazz toolkit to support ZUIs, Piccolo toolkit to support ZUIs, PhotoMesa image browser, CounterPoint presentation tool, OZONE ontology navigator and Fisheye menus for selection within long lists.

Private Web Browsing

National Research Council Canada - National Science Library

Syverson, Paul F; Reed, Michael G; Goldschlag, David M

1997-01-01

.... These are both kept confidential from network elements as well as external observers. Private Web browsing is achieved by unmodified Web browsers using anonymous connections by means of HTTP proxies...

78 FR 69853 - Meeting of the Chronic Fatigue Syndrome Advisory Committee

Science.gov (United States)

2013-11-21

... to participate in the webinar. Adobe Connect Pro is supported by many operating systems, including Windows, Macintosh, Linux, and Solaris as well as the most widely used browsers, including Internet...

Mirror displacement energies and neutron skins

International Nuclear Information System (INIS)

Duflo, J.; Zuker, A.P.

2002-01-01

A gross estimate of the neutron skin [0.80(5)(N-Z)/A fm] is extracted from experimental proton radii, represented by a four parameter fit, and observed mirror displacement energies (CDE). The calculation of the latter relies on an accurately derived Coulomb energy and smooth averages of the charge symmetry breaking potentials constrained to state of the art values. The only free parameter is the neutron skin itself. The Nolen Schiffer anomaly is reduced to small deviations (rms=127 keV) that exhibit a secular trend. It is argued that with state of the art shell model calculations the anomaly should disappear. Highly accurate fits to proton radii emerge as a fringe benefit

ADAM (Affordable Desktop Application Manager): a Unix desktop application manager

International Nuclear Information System (INIS)

Liebana, M.; Marquina, M.; Ramos, R.

1996-01-01

ADAM stands for Affordable Desktop Application Manager. It is a GUI developed at CERN with the aim to ease access to applications. The motivation to develop ADAM came from the unavailability of environments like COSE/CDE and their heavy resource consumption. ADAM has proven to be user friendly: new users are able to customize it to their needs in few minutes. Groups of users may share through ADAM a common application environment. ADAM also integrates the Unix and the PC world. PC users can excess Unix applications in the same way as their usual Windows applications. This paper describes all the ADAM features, how they are used at CERN Public Services, and the future plans for ADAM. (author)

Crystal structure of the Neisseria gonorrhoeae MtrD inner membrane multidrug efflux pump.

Directory of Open Access Journals (Sweden)

Jani Reddy Bolla

Full Text Available Neisseria gonorrhoeae is an obligate human pathogen and the causative agent of the sexually-transmitted disease gonorrhea. The control of this disease has been compromised by the increasing proportion of infections due to antibiotic-resistant strains, which are growing at an alarming rate. The MtrCDE tripartite multidrug efflux pump, belonging to the hydrophobic and amphiphilic efflux resistance-nodulation-cell division (HAE-RND family, spans both the inner and outer membranes of N. gonorrhoeae and confers resistance to a variety of antibiotics and toxic compounds. We here report the crystal structure of the inner membrane MtrD multidrug efflux pump, which reveals a novel structural feature that is not found in other RND efflux pumps.

Remarkable heterogeneity displayed by oval cells in rat and mouse models of stem cell-mediated liver regeneration

DEFF Research Database (Denmark)

Jelnes, Peter; Santoni-Rugiu, Eric; Rasmussen, Morten

2007-01-01

The experimental protocols used in the investigation of stem cell-mediated liver regeneration in rodents are characterized by activation of the hepatic stem cell compartment in the canals of Hering followed by transit amplification of oval cells and their subsequent differentiation along hepatic...... the molecular phenotypes of oval cells in several of the most commonly used protocols of stem cell-mediated liver regeneration-namely, treatment with 2-acetylaminofluorene and partial (70%) hepatectomy (AAF/PHx); a choline-deficient, ethionine-supplemented (CDE) diet; a 3,5-diethoxycarbonyl-1,4-dihydro...... remarkable phenotypic discrepancies exhibited by oval cells in stem cell-mediated liver regeneration between rats and mice and underline the importance of careful extrapolation between individual species....

Development of web database system for JAERI ERL-FEL

International Nuclear Information System (INIS)

Kikuzawa, Nobuhiro

2005-01-01

The accelerator control system for the JAERI ERL-FEL is a PC-based distributed control system. The accelerator status record is stored automatically through the control system to analyze the influence on the electron beam. In order to handle effectively a large number of stored data, it is necessary that the required data can be searched and visualized in easy operation. For this reason, a web database (DB) system which can search of the required data and display visually on a web browser was developed by using open source software. With introduction of this system, accelerator operators can monitor real-time information anytime, anywhere through a web browser. Development of the web DB system is described in this paper. (author)

Development of web database system for JAERI ERL-FEL

Energy Technology Data Exchange (ETDEWEB)

Kikuzawa, Nobuhiro [Japan Atomic Energy Research Inst., Kansai Research Establishment, Advanced Photon Research Center, Tokai, Ibaraki (Japan)

2005-06-01

The accelerator control system for the JAERI ERL-FEL is a PC-based distributed control system. The accelerator status record is stored automatically through the control system to analyze the influence on the electron beam. In order to handle effectively a large number of stored data, it is necessary that the required data can be searched and visualized in easy operation. For this reason, a web database (DB) system which can search of the required data and display visually on a web browser was developed by using open source software. With introduction of this system, accelerator operators can monitor real-time information anytime, anywhere through a web browser. Development of the web DB system is described in this paper. (author)

Development of Remote Inspection Systems with the Java Applet

International Nuclear Information System (INIS)

Choi, Yoo Rark; Lee, Jae Cheol; Kim, Jae Hee

2005-01-01

The world wide web and java are powerful networking technologies on the internet. An applet is a program written in the java programming language that can be included in an HTML page, much in the same way as an image is included. When we use a Java technology-enabled browser to view a page that contains an applet, the applet code is transferred to a client's system and executed by the browser's Java Virtual Machine (JVM). We have developed two remote inspection systems for a reactor wall inspection and guide tube spilt pin inspection based on the java and traditional programming language. The java is used on a GUI(graphic user interface) and the traditional visual C++ programming language is used to control the inspection equipments

Research and implementation of a Web-based remote desktop image monitoring system

International Nuclear Information System (INIS)

Ren Weijuan; Li Luofeng; Wang Chunhong

2010-01-01

It studied and implemented an ISS (Image Snapshot Server) system based on Web, using Java Web technology. The ISS system consisted of client web browser and server. The server part could be divided into three modules as the screen shots software, web server and Oracle database. Screen shots software intercepted the desktop environment of the remote monitored PC and sent these pictures to a Tomcat web server for displaying on the web at real time. At the same time, these pictures were also saved in an Oracle database. Through the web browser, monitor person can view the real-time and historical desktop pictures of the monitored PC during some period. It is very convenient for any user to monitor the desktop image of remote monitoring PC. (authors)

Exploring JavaScript and ROOT technologies to create Web-based ATLAS analysis and monitoring tools

CERN Document Server

Sanchez, Arturo; The ATLAS collaboration

2015-01-01

We explore the potentialities of current web applications to create online interfaces that allow the visualization, interaction and real physics cut-based analysis and monitoring of processes trough a web browser. The project consists in the initial development of web-based and cloud computing services to allow students and researches to perform fast and very useful cut-based analysis on a browser, reading and using real data and official Monte-Carlo simulations stored in ATLAS computing facilities. Several tools are considered: ROOT, JavaScript and HTML. Our study case is the current cut-based H->ZZ->llqq analysis of the ATLAS experiment. Preliminary but satisfactory results have been obtained online; this presentation describes the tests and plans and future upgrades.

Automated Smoke Testing on the JVM with Geb

CERN Multimedia

CERN. Geneva

2015-01-01

to prevent catastrophic failures from reaching the production environment. We will show how we have leveraged Geb -- a browser automation tool built on top of Selenium -- to develop a full suite of smoke tests for CERN's Electronic Document Handling (EDH) system -- a large web application with over 1 million lines of Java code, in production since 1998. Though the tool is aimed for use on the JVM, the concepts that will be presented can be applied in other languages that have wrappers for Selenium. In particular, patterns that can be used to better describe and structure functional/smoke tests, as well as how to integrate these tests with continuous integration systems, such as Atlassian Bamboo, using headless browsers (e.g. PhantomJS) or virtual frame buffers.

Eyes on the Earth 3D

Science.gov (United States)

Kulikov, anton I.; Doronila, Paul R.; Nguyen, Viet T.; Jackson, Randal K.; Greene, William M.; Hussey, Kevin J.; Garcia, Christopher M.; Lopez, Christian A.

2013-01-01

Eyes on the Earth 3D software gives scientists, and the general public, a realtime, 3D interactive means of accurately viewing the real-time locations, speed, and values of recently collected data from several of NASA's Earth Observing Satellites using a standard Web browser (climate.nasa.gov/eyes). Anyone with Web access can use this software to see where the NASA fleet of these satellites is now, or where they will be up to a year in the future. The software also displays several Earth Science Data sets that have been collected on a daily basis. This application uses a third-party, 3D, realtime, interactive game engine called Unity 3D to visualize the satellites and is accessible from a Web browser.

A Framework-Based Environment for Object-Oriented Scientific Codes

Directory of Open Access Journals (Sweden)

Robert A. Ballance

1993-01-01

Full Text Available Frameworks are reusable object-oriented designs for domain-specific programs. In our estimation, frameworks are the key to productivity and reuse. However, frameworks require increased support from the programming environment. A framework-based environment must include design aides and project browsers that can mediate between the user and the framework. A framework-based approach also places new requirements on conventional tools such as compilers. This article explores the impact of object-oriented frameworks upon a programming environment, in the context of object-oriented finite element and finite difference codes. The role of tools such as design aides and project browsers is discussed, and the impact of a framework-based approach upon compilers is examined. Examples are drawn from our prototype C++ based environment.

77 FR 3508 - Biweekly Notice; Applications and Amendments to Facility Operating Licenses Involving No...

Science.gov (United States)

2012-01-24

... the Electronic Information Exchange System, users will be required to install a Web browser plug-in... Logic and Actuation Relays (BOP ESFAS), and Function 3, Fuel Building Exhaust Radiation--Gaseous. In...

Dietary overlap between Boer goats and indigenous browsers in a ...

African Journals Online (AJOL)

Highly preferred species were Capparis sepiaria, Phyllanthus verrucosus and Scolopia zeyheri, while Rhoicissus tridentata, Calpurnia aurea, Acacia ataxacantha, Euclea natalensis, Clerodendrum glabrum, Zanthoxylum capense and Hippobromus paucifolia were strongly avoided. Goats fed between ground level and 1m, ...

CYCLOSA: Decentralizing Private Web Search Through SGX-Based Browser Extensions

OpenAIRE

Pires, Rafael; Goltzsche, David; Mokhtar, Sonia Ben; Bouchenak, Sara; Boutet, Antoine; Felber, Pascal; Kapitza, Rüdiger; Pasin, Marcelo; Schiavoni, Valerio

2018-01-01

By regularly querying Web search engines, users (unconsciously) disclose large amounts of their personal data as part of their search queries, among which some might reveal sensitive information (e.g. health issues, sexual, political or religious preferences). Several solutions exist to allow users querying search engines while improving privacy protection. However, these solutions suffer from a number of limitations: some are subject to user re-identification attacks, while others lack scala...

SMARTScience Tools: Interacting With Blazar Data In The Web Browser

Science.gov (United States)

Hasan, Imran; Isler, Jedidah; Urry, C. Megan; MacPherson, Emily; Buxton, Michelle; Bailyn, Charles D.; Coppi, Paolo S.

2014-08-01

The Yale-SMARTS blazar group has accumulated 6 years of optical-IR photometry of more than 70 blazars, mostly bright enough in gamma-rays to be detected with Fermi. Observations were done with the ANDICAM instrument on the SMARTS 1.3 m telescope at the Cerro Tololo Inter-American Observatory. As a result of this long-term, multiwavelength monitoring, we have produced a calibrated, publicly available data set (see www.astro.yale.edu/smarts/glast/home.php), which we have used to find that (i) optical-IR and gamma-ray light curves are well correlated, supporting inverse-Compton models for gamma-ray production (Bonning et al. 2009, 2012), (ii) at their brightest, blazar jets can contribute significantly to the photoionization of the broad-emission-line region, indicating that gamma-rays are produced within 0.1 pc of the black hole in at least some cases (Isler et al. 2014), and (iii) optical-IR and gamma-ray flares are symmetric, implying the time scales are dominated by light-travel-time effects rather than acceleration or cooling (Chatterjee et al. 2012). The volume of data and diversity of projects for which it is used calls out for an efficient means of visualization. To this end, we have developed a suite of visualization tools called SMARTScience Tools, which allow users to interact dynamically with our dataset. The SMARTScience Tools is publicly available via our webpage and can be used to customize multiwavelength light curves and color magnitude diagrams quickly and intuitively. Users can choose specific bands to construct plots, and the plots include features such as band-by-band panning, dynamic zooming, and direct mouse interaction with individual data points. Human and machine readable tables of the plotted data can be directly printed for the user's convenience and for further independent study. The SMARTScience Tools significantly improves the public’s ability to interact with the Yale-SMARTS 6-year data base of blazar photometry, and should make multiwavelength studies of blazars even more accessible, efficient, and community driven.

The forms open differently in different browsers and in different ...

International Development Research Centre (IDRC) Digital Library (Canada)

IDRC CRDI

i.e. for sending final narrative and financial reports to IDRC at times set out in the contract. In ... These could be of interest to those who have already applied, but ... this we do not mean a simple ex-post list of the numbers of people attending ...

A genome browser database for rice (Oryza sativa) and Chinese ...

African Journals Online (AJOL)

STORAGESEVER

2009-10-19

Oct 19, 2009 ... sativa) and Chinese cabbage (Brassica rapa) genomes. The genome ... tant staple food for a large part of the world's human population. .... some banding region for selection and the overview panel shows the location of ...

LookSeq: a browser-based viewer for deep sequencing data.

Science.gov (United States)

Manske, Heinrich Magnus; Kwiatkowski, Dominic P

2009-11-01

Sequencing a genome to great depth can be highly informative about heterogeneity within an individual or a population. Here we address the problem of how to visualize the multiple layers of information contained in deep sequencing data. We propose an interactive AJAX-based web viewer for browsing large data sets of aligned sequence reads. By enabling seamless browsing and fast zooming, the LookSeq program assists the user to assimilate information at different levels of resolution, from an overview of a genomic region to fine details such as heterogeneity within the sample. A specific problem, particularly if the sample is heterogeneous, is how to depict information about structural variation. LookSeq provides a simple graphical representation of paired sequence reads that is more revealing about potential insertions and deletions than are conventional methods.

LookSeq: A browser-based viewer for deep sequencing data

OpenAIRE

Manske, Heinrich Magnus; Kwiatkowski, Dominic P.

2009-01-01

Sequencing a genome to great depth can be highly informative about heterogeneity within an individual or a population. Here we address the problem of how to visualize the multiple layers of information contained in deep sequencing data. We propose an interactive AJAX-based web viewer for browsing large data sets of aligned sequence reads. By enabling seamless browsing and fast zooming, the LookSeq program assists the user to assimilate information at different levels of resolution, from an ov...

A Topological Framework for Interactive Queries on 3D Models in the Web

Science.gov (United States)

Figueiredo, Mauro; Rodrigues, José I.; Silvestre, Ivo; Veiga-Pires, Cristina

2014-01-01

Several technologies exist to create 3D content for the web. With X3D, WebGL, and X3DOM, it is possible to visualize and interact with 3D models in a web browser. Frequently, three-dimensional objects are stored using the X3D file format for the web. However, there is no explicit topological information, which makes it difficult to design fast algorithms for applications that require adjacency and incidence data. This paper presents a new open source toolkit TopTri (Topological model for Triangle meshes) for Web3D servers that builds the topological model for triangular meshes of manifold or nonmanifold models. Web3D client applications using this toolkit make queries to the web server to get adjacent and incidence information of vertices, edges, and faces. This paper shows the application of the topological information to get minimal local points and iso-lines in a 3D mesh in a web browser. As an application, we present also the interactive identification of stalactites in a cave chamber in a 3D web browser. Several tests show that even for large triangular meshes with millions of triangles, the adjacency and incidence information is returned in real time making the presented toolkit appropriate for interactive Web3D applications. PMID:24977236