Science.gov

Sample records for carotisendarterektomi erfaringer med

  1. MEDLI Animation

    NASA Video Gallery

    Animation of MEDLI, the Mars Science Laboratory Entry, Descent, and Landing Instrument, which contains multiple sophisticated temperature sensors to measure atmospheric conditions and performance o...

  2. The MedDRA paradox.

    PubMed

    Merrill, Gary H

    2008-01-01

    MedDRA (the Medical Dictionary for Regulatory Activities Terminology) is a controlled vocabulary widely used as a medical coding scheme. However, MedDRA's characterization of its structural hierarchy exhibits some confusing and paradoxical features. The goal of this paper is to examine these features, determine whether there is a coherent view of the MedDRA hierarchy that emerges, and explore what lessons are to be learned from this for using MedDRA and similar terminologies in a broad medical informatics context that includes relations among multiple disparate terminologies, thesauri, and ontologies. PMID:18998828

  3. MSL Launches With MEDLI Sensors

    NASA Video Gallery

    NASA engineers Michelle Munk and David Way explain the MEDLI -- Mars Science Laboratory (MSL) Entry, Descent and Landing Instrumentation -- package on the MSL aeroshell that will measure the heatin...

  4. The MedCLIVAR Network

    NASA Astrophysics Data System (ADS)

    Lionello, Piero; Medclivar Sc, The

    2014-05-01

    MedCLIVAR serves as a scientific network to promote interaction among different scientific disciplines and to develop a multidisciplinary vision of the evolution of the Mediterranean climate through studies that integrate atmospheric, marine, and terrestrial climate components at time scales ranging from paleoreconstructions to future climate scenarios. The network deals with scientific issues including past climate variability; connections between the Mediterranean and global climate; the Mediterranean Sea circulation and sea level; feedbacks on the global climate system; and regional responses to greenhouse gas, air pollution, and aerosols. The MedCLIVAR initiative was proposed at the 2003 European Geosciences Union assembly in Nice, France. In 2005, it was endorsed by the International Climate Variability and Predictability (CLIVAR) office. Subsequently, the MedCLIVAR Research Network Project was formally approved by the European Science Foundation and launched in May 2006 for a five year duration. Now MedCLIVAR is continuing with self supporting initiatives, such as the third MedCLIVAR conference, which will be held in June 2014 in Ankara (Turkey) , the publication of a special issue of Regional Environmental Change devoted to the climate of the Mediterranean region, and a newsletter, which is published every six months. More information available in Lionello, P., Gacic, M., Gomis, D., Garcia-Herrera, R., Giorgi, F., Planton, S., Trigo, R., (...), Xoplaki, E. (2012) Program focuses on climate of the Mediterranean region, Eos Trans. AGU 93:105-106

  5. Overview of the MEDLI Project

    NASA Technical Reports Server (NTRS)

    Gazarik, Michael J.; Little, Alan; Cheatwood, F. Neil; Wright, Michael J.; Herath, Jeff A.; Martinez, Edward R.; Munk, Michelle; Novak, Frank J.; Wright, Henry S.

    2008-01-01

    The Mars Science Laboratory Entry, Descent, and Landing Instrumentation (MEDLI) Project s objectives are to measure aerothermal environments, sub-surface heatshield material response, vehicle orientation, and atmospheric density for the atmospheric entry and descent phases of the Mars Science Laboratory (MSL) entry vehicle. The flight science objectives of MEDLI directly address the largest uncertainties in the ability to design and validate a robust Mars entry system, including aerothermal, aerodynamic and atmosphere models, and thermal protection system (TPS) design. The instrumentation suite will be installed in the heatshield of the MSL entry vehicle. The acquired data will support future Mars entry and aerocapture missions by providing measured atmospheric data to validate Mars atmosphere models and clarify the design margins for future Mars missions. MEDLI thermocouple and recession sensor data will significantly improve the understanding of aeroheating and TPS performance uncertainties for future missions. MEDLI pressure data will permit more accurate trajectory reconstruction, as well as separation of aerodynamic and atmospheric uncertainties in the hypersonic and supersonic regimes. This paper provides an overview of the project including the instrumentation design, system architecture, and expected measurement response.

  6. Overview of the MEDLI Project

    NASA Technical Reports Server (NTRS)

    Gazarik, Michael J.; Hwang, Helen; Little, Alan; Cheatwood, Neil; Wright, Michael; Herath, Jeff

    2007-01-01

    The Mars Science Laboratory Entry, Descent, and Landing Instrumentation (MEDLI) Project's objectives are to measure aerothermal environments, sub-surface heatshield material response, vehicle orientation, and atmospheric density for the atmospheric entry and descent phases of the Mars Science Laboratory (MSL) entry vehicle. The flight science objectives of MEDLI directly address the largest uncertainties in the ability to design and validate a robust Mars entry system, including aerothermal, aerodynamic and atmosphere models, and thermal protection system (TPS) design. The instrumentation suite will be installed in the heatshield of the MSL entry vehicle. The acquired data will support future Mars entry and aerocapture missions by providing measured atmospheric data to validate Mars atmosphere models and clarify the design margins for future Mars missions. MEDLI thermocouple and recession sensor data will significantly improve the understanding of aeroheating and TPS performance uncertainties for future missions. MEDLI pressure data will permit more accurate trajectory reconstruction, as well as separation of aerodynamic and atmospheric uncertainties in the hypersonic and supersonic regimes. This paper provides an overview of the project including the instrumentation design, system architecture, and expected measurement response.

  7. Mini-Med School Planning Guide

    ERIC Educational Resources Information Center

    National Institutes of Health, Office of Science Education, 2008

    2008-01-01

    Mini-Med Schools are public education programs now offered by more than 70 medical schools, universities, research institutions, and hospitals across the nation. There are even Mini-Med Schools in Ireland, Malta, and Canada! The program is typically a lecture series that meets once a week and provides "mini-med students" information on some of the…

  8. MED-SUV Data policy

    NASA Astrophysics Data System (ADS)

    Sangianantoni, Agata; Puglisi, Giuseppe

    2014-05-01

    MED-SUV proposes the development and implementation of a digital infrastructure for data access and for volcanic risk management aimed at applying the rationale of Supersites GEO initiative to Campi Flegrei/Vesuvius and Mt. Etna. It's fully recognized the clear need of an open data policy in order to ensure that data will be properly and in an ethical manner managed and can be used and accessed from its community. In MED-SUV there is a multitude of different partners with varying scientific, technical, legal and economical interests and therefore data and data products produced will be wide-ranging so it's necessary to set principles and legal arrangements. Within Europe several Directives and Regulations have brought into force which provide the leading guidelines in terms of the principle of openness to knowledge and access to scientific information. So in creating a suite policy the EC Supersites (MarSite and FutureVolc, under the EPOS umbrella) projects need to strength their efforts in defining a common data management strategy. In this presentation we will show the leading principles of the data policy, as for instance Open Access, flexibility of approach in order to harmonize the different methods of data distribution among its partners, Creative Commons licensing, data preservation and unique identification through Persistent Identifiers.

  9. Redefining the MED13L syndrome.

    PubMed

    Adegbola, Abidemi; Musante, Luciana; Callewaert, Bert; Maciel, Patricia; Hu, Hao; Isidor, Bertrand; Picker-Minh, Sylvie; Le Caignec, Cedric; Delle Chiaie, Barbara; Vanakker, Olivier; Menten, Björn; Dheedene, Annelies; Bockaert, Nele; Roelens, Filip; Decaestecker, Karin; Silva, João; Soares, Gabriela; Lopes, Fátima; Najmabadi, Hossein; Kahrizi, Kimia; Cox, Gerald F; Angus, Steven P; Staropoli, John F; Fischer, Ute; Suckow, Vanessa; Bartsch, Oliver; Chess, Andrew; Ropers, Hans-Hilger; Wienker, Thomas F; Hübner, Christoph; Kaindl, Angela M; Kalscheuer, Vera M

    2015-10-01

    Congenital cardiac and neurodevelopmental deficits have been recently linked to the mediator complex subunit 13-like protein MED13L, a subunit of the CDK8-associated mediator complex that functions in transcriptional regulation through DNA-binding transcription factors and RNA polymerase II. Heterozygous MED13L variants cause transposition of the great arteries and intellectual disability (ID). Here, we report eight patients with predominantly novel MED13L variants who lack such complex congenital heart malformations. Rather, they depict a syndromic form of ID characterized by facial dysmorphism, ID, speech impairment, motor developmental delay with muscular hypotonia and behavioral difficulties. We thereby define a novel syndrome and significantly broaden the clinical spectrum associated with MED13L variants. A prominent feature of the MED13L neurocognitive presentation is profound language impairment, often in combination with articulatory deficits. PMID:25758992

  10. [CanMEDS 2015: better doctors?].

    PubMed

    Borleffs, J C C; Mourits, M J E; Scheele, F

    2016-01-01

    Recently, the CanMEDS model, which forms the basis for competency-based learning in both undergraduate and postgraduate training, has been renewed by the introduction of CanMEDS 2015. The most prominent change is the emphasis on leadership skills, which is also reflected by the name change for the role of 'manager' to 'leader'. The addition of milestones provides clearly defined targets for learning and assessment, which facilitates the monitoring of the progression in competence. Furthermore, CanMEDS 2015 strongly focusses on the overall coherence of the separate competencies. CanMEDS, designed as a model that helps to train young doctors to become good doctors, also helps us - the trainers - to become better doctors ourselves. PMID:27438391

  11. MEDLI Will Aid in Understanding of Mars

    NASA Video Gallery

    The MEDLI instrument package, contained in the heat shield of the Mars Science Laboratory, will help scientists and engineers improve their computer models and simulations, and provide data to help...

  12. The MED-SUV Multidisciplinary Interoperability Infrastructure

    NASA Astrophysics Data System (ADS)

    Mazzetti, Paolo; D'Auria, Luca; Reitano, Danilo; Papeschi, Fabrizio; Roncella, Roberto; Puglisi, Giuseppe; Nativi, Stefano

    2016-04-01

    In accordance with the international Supersite initiative concept, the MED-SUV (MEDiterranean SUpersite Volcanoes) European project (http://med-suv.eu/) aims to enable long-term monitoring experiment in two relevant geologically active regions of Europe prone to natural hazards: Mt. Vesuvio/Campi Flegrei and Mt. Etna. This objective requires the integration of existing components, such as monitoring systems and data bases and novel sensors for the measurements of volcanic parameters. Moreover, MED-SUV is also a direct contribution to the Global Earth Observation System of Systems (GEOSS) as one the volcano Supersites recognized by the Group on Earth Observation (GEO). To achieve its goal, MED-SUV set up an advanced e-infrastructure allowing the discovery of and access to heterogeneous data for multidisciplinary applications, and the integration with external systems like GEOSS. The MED-SUV overall infrastructure is conceived as a three layer architecture with the lower layer (Data level) including the identified relevant data sources, the mid-tier (Supersite level) including components for mediation and harmonization , and the upper tier (Global level) composed of the systems that MED-SUV must serve, such as GEOSS and possibly other global/community systems. The Data level is mostly composed of existing data sources, such as space agencies satellite data archives, the UNAVCO system, the INGV-Rome data service. They share data according to different specifications for metadata, data and service interfaces, and cannot be changed. Thus, the only relevant MED-SUV activity at this level was the creation of a MED-SUV local repository based on Web Accessible Folder (WAF) technology, deployed in the INGV site in Catania, and hosting in-situ data and products collected and generated during the project. The Supersite level is at the core of the MED-SUV architecture, since it must mediate between the disparate data sources in the layer below, and provide a harmonized view to

  13. Human melioidosis reported by ProMED

    PubMed Central

    Nasner-Posso, Katherinn Melissa; Cruz-Calderón, Stefania; Montúfar-Andrade, Franco E.; Dance, David A.B.; Rodriguez-Morales, Alfonso J.

    2015-01-01

    Summary Objective There are limited sources describing the global burden of emerging diseases. A review of human melioidosis reported by ProMED was performed and the reliability of the data retrieved assessed in comparison to published reports. The effectiveness of ProMED was evaluated as a source of epidemiological data by focusing on melioidosis. Methods Using the keyword ‘melioidosis’ in the ProMED search engine, all of the information from the reports and collected data was reviewed using a structured form, including the year, country, gender, occupation, number of infected individuals, and number of fatal cases. Results One hundred and twenty-four entries reported between January 1995 and October 2014 were identified. A total of 4630 cases were reported, with death reported in 505 cases, suggesting a misleadingly low overall case fatality rate (CFR) of 11%. Of 20 cases for which the gender was reported, 12 (60%) were male. Most of the cases were reported from Australia, Thailand, Singapore, Vietnam, and Malaysia, with sporadic reports from other countries. Conclusions Internet-based reporting systems such as ProMED are useful to gather information and synthesize knowledge on emerging infections. Although certain areas need to be improved, ProMED provided good information about melioidosis. PMID:25975651

  14. BALANCE AND PIPETTE CALIBRATION AT MED

    EPA Science Inventory

    Yearly, every MED analytical balance and automatic pipette inventoried is certified as working or it is repaired to working condition. - - - The QA office maintains three sets of standard weights that can be used by the staff to verify balance operation routinely after the yearly...

  15. MED-SUV Data Life Cycle

    NASA Astrophysics Data System (ADS)

    Sangianantoni, Agata; Puglisi, Giuseppe; Spampinato, Letizia; Tulino, Sabrina

    2015-04-01

    The MED-SUV project aims to implement a digital e-infrastructure for data access in order to promote the monitoring and study of key volcanic regions prone to volcanic hazards, and thus improve hazard assessment, according to the rationale of Supersite GEO initiative to Vesuvius- Campi Flegrei and Mt Etna, currently identified as Permanent Supersites. The present study focuses on the life cycle of MED-SUV data generated in the first period of the project and highlights the managing approach, as well as the crucial steps to be implemented for ensuring that data will be properly and ethically managed and can be used and accessed from both MED-SUV and the external community. The process is conceived outlining how research data being handled as the project progresses, describing what data are collected, processed or generated and how these data are going to be shared and made available through Open Access. Data cycle begins with their generation and ends with the deposit in the digital infrastructure, its key series of stages through which MED-SUV data passes are Collection, Data citation, Categorization of data, Approval procedure, Registration of datasets, Application of licensing models, and PID assignment. This involves a combination of procedures and practices taking into account the scientific core mission and the priorities of the project as well as the potential legal issues related to the management and protection of the Intellectual Property. We believe that the implementation of this process constitutes a significant encouragement in MED-SUV data sharing and as a consequence a better understanding on the volcanic processes, hazard assessment and a better integration with other Supersites projects.

  16. MED-SUV final strategic issues

    NASA Astrophysics Data System (ADS)

    Spampinato, Letizia; Puglisi, Giuseppe; Sangianantoni, Agata

    2016-04-01

    Aside the scientific, technical and financial aspects managed by the "Project Management" Work Package (WP1), the great challenge and more time consuming task of this WP has surely been the definition and application of some strategic guidelines crucial to trace the project right path to its final success and for the project outcome sustainability after month 36. In particular, given that one of the main objectives of MED-SUV is that to be compliant with the GEO initiative, particularly concerning the data sharing, great efforts have been made by WP1 at first to define the MED-SUV Data Policy Guidelines, and currently to make it suitable for the EU Supersites. At present, WP1 is also dealing with the exploitation of the achieved foreground among the project's participant and to define a Memorandum of Understanding to sustain the monitoring systems and e-infrastructure developed in the project framework. Whilst the Data Policy guidelines document was implemented in the first year of MED-SUV, WP1 is now focused on the last deliverable 'Strategic and Legal deliverables', which includes the remaining issues. To the aim, WP1 has strategically separated the Exploitation of Foreground document preparation from the Memorandum of Understanding definition. The Exploitation of Foreground process has regarded the identification of Foreground, the exploitable results, the purpose of such Foreground, the collection of information from either the scientific community of MED-SUV or industrial participants; to this aim WP1 circulated an ad hoc questionnaire to put together information on (the) every kind of MED-SUV outcome, on their owners, on the kind of ownership (single/joint), on the outcome exploitation, and on proposals for its sustainability. While the first information will allow us to prepare the final Exploitation Agreement among the project's participant, the information on the exploitation of the outcome and likely sustainability proposals will contribute to the

  17. LactMed: New NLM Database on Drugs and Lactation

    MedlinePlus

    ... Issues Research News From NIH LactMed: New NLM Database on Drugs and Lactation Past Issues / Summer 2006 ... Javascript on. Photo: Comstock LactMed, a free online database with information on drugs and lactation, is one ...

  18. Technical development of PubMed Interact: an improved interface for MEDLINE/PubMed searches

    PubMed Central

    Muin, Michael; Fontelo, Paul

    2006-01-01

    Background The project aims to create an alternative search interface for MEDLINE/PubMed that may provide assistance to the novice user and added convenience to the advanced user. An earlier version of the project was the 'Slider Interface for MEDLINE/PubMed searches' (SLIM) which provided JavaScript slider bars to control search parameters. In this new version, recent developments in Web-based technologies were implemented. These changes may prove to be even more valuable in enhancing user interactivity through client-side manipulation and management of results. Results PubMed Interact is a Web-based MEDLINE/PubMed search application built with HTML, JavaScript and PHP. It is implemented on a Windows Server 2003 with Apache 2.0.52, PHP 4.4.1 and MySQL 4.1.18. PHP scripts provide the backend engine that connects with E-Utilities and parses XML files. JavaScript manages client-side functionalities and converts Web pages into interactive platforms using dynamic HTML (DHTML), Document Object Model (DOM) tree manipulation and Ajax methods. With PubMed Interact, users can limit searches with JavaScript slider bars, preview result counts, delete citations from the list, display and add related articles and create relevance lists. Many interactive features occur at client-side, which allow instant feedback without reloading or refreshing the page resulting in a more efficient user experience. Conclusion PubMed Interact is a highly interactive Web-based search application for MEDLINE/PubMed that explores recent trends in Web technologies like DOM tree manipulation and Ajax. It may become a valuable technical development for online medical search applications. PMID:17083729

  19. PubMedMiner: Mining and Visualizing MeSH-based Associations in PubMed.

    PubMed

    Zhang, Yucan; Sarkar, Indra Neil; Chen, Elizabeth S

    2014-01-01

    The exponential growth of biomedical literature provides the opportunity to develop approaches for facilitating the identification of possible relationships between biomedical concepts. Indexing by Medical Subject Headings (MeSH) represent high-quality summaries of much of this literature that can be used to support hypothesis generation and knowledge discovery tasks using techniques such as association rule mining. Based on a survey of literature mining tools, a tool implemented using Ruby and R - PubMedMiner - was developed in this study for mining and visualizing MeSH-based associations for a set of MEDLINE articles. To demonstrate PubMedMiner's functionality, a case study was conducted that focused on identifying and comparing comorbidities for asthma in children and adults. Relative to the tools surveyed, the initial results suggest that PubMedMiner provides complementary functionality for summarizing and comparing topics as well as identifying potentially new knowledge. PMID:25954472

  20. PubMedMiner: Mining and Visualizing MeSH-based Associations in PubMed

    PubMed Central

    Zhang, Yucan; Sarkar, Indra Neil; Chen, Elizabeth S.

    2014-01-01

    The exponential growth of biomedical literature provides the opportunity to develop approaches for facilitating the identification of possible relationships between biomedical concepts. Indexing by Medical Subject Headings (MeSH) represent high-quality summaries of much of this literature that can be used to support hypothesis generation and knowledge discovery tasks using techniques such as association rule mining. Based on a survey of literature mining tools, a tool implemented using Ruby and R – PubMedMiner – was developed in this study for mining and visualizing MeSH-based associations for a set of MEDLINE articles. To demonstrate PubMedMiner’s functionality, a case study was conducted that focused on identifying and comparing comorbidities for asthma in children and adults. Relative to the tools surveyed, the initial results suggest that PubMedMiner provides complementary functionality for summarizing and comparing topics as well as identifying potentially new knowledge. PMID:25954472

  1. Pub-Med-dot-com, here we come!

    PubMed

    Pulst, Stefan M

    2016-08-01

    As of April 8, 2016, articles in Neurology® Genetics can be searched using PubMed. Launched in 1996, PubMed is a search engine that accesses citations and abstracts of more than 26 million articles. Its primary sources include the MEDLINE database, which was started in the 1960s, and biomedical and life sciences journal articles that date back to 1946. In addition, PubMed accesses other sources, for example, citations to those life sciences journals that submit full-text articles to PubMed Central (PMC). PubMed Central was launched in 2000 as a free archive of biomedical and life science journals. PMID:27583303

  2. COSMO-SkyMed and GIS applications

    NASA Astrophysics Data System (ADS)

    Milillo, Pietro; Sole, Aurelia; Serio, Carmine

    2013-04-01

    Geographic Information Systems (GIS) and Remote Sensing have become key technology tools for the collection, storage and analysis of spatially referenced data. Industries that utilise these spatial technologies include agriculture, forestry, mining, market research as well as the environmental analysis . Synthetic Aperture Radar (SAR) is a coherent active sensor operating in the microwave band which exploits relative motion between antenna and target in order to obtain a finer spatial resolution in the flight direction exploiting the Doppler effect. SAR have wide applications in Remote Sensing such as cartography, surface deformation detection, forest cover mapping, urban planning, disasters monitoring , surveillance etc… The utilization of satellite remote sensing and GIS technology for this applications has proven to be a powerful and effective tool for environmental monitoring. Remote sensing techniques are often less costly and time-consuming for large geographic areas compared to conventional methods, moreover GIS technology provides a flexible environment for, analyzing and displaying digital data from various sources necessary for classification, change detection and database development. The aim of this work si to illustrate the potential of COSMO-SkyMed data and SAR applications in a GIS environment, in particular a demostration of the operational use of COSMO-SkyMed SAR data and GIS in real cases will be provided for what concern DEM validation, river basin estimation, flood mapping and landslide monitoring.

  3. COSMO-SkyMed Second Generation planner

    NASA Astrophysics Data System (ADS)

    Covello, Fabio; Scopa, Tiziana; Serva, Stefano; Caltagirone, Francesco; De Luca, Giuseppe Francesco; Pacaccio, Alessandro; Profili, Mario

    2014-10-01

    COSMO-SkyMed Second Generation (CSG) system has been conceived, according to Italian Space Agency (ASI) and Italian Ministry of Defence (It-MoD) requirements, at the twofold objective of ensuring operational continuity to the current constellation (COSMO-SkyMed - CSK), while improving functionality and performances. It is an "end-to-end" Italian Earth Observation Dual-Use (Civilian and Defence) Space System with Synthetic Aperture Radar (SAR) operating in X-Band. CSG mission planning purpose is to fully employ the system resources, shared between partners with very different needs, producing a mission plan that satisfies the higher priority requests and optimizes the overall plan with the remaining requests according to the users programming rights consumption. CSG Mission Planning tool provides new performances in terms of adaptability and flexibility of the planning and scheduling algorithms conceived to select and synchronize data acquisition and downloading activities. CSG planning and scheduling problem is characterized by a large size of research space and a particular structure of technical and managerial constraints that has led to the implementation of innovative design of the planning algorithms based on both priority criteria and saturation of system resources. This approach envisages two scheduling strategies: the rank-based and the optimization-based. The former strategy is firstly applied to the most important request categories, with an associated rank value or priority level; the latter is subsequently applied to the unranked or lower priority requests. This is an iterative dynamic process of finding optimal solutions able to better answer the demanding requirements coming from the needs of heterogeneous users.

  4. PubMed Informer: Monitoring MEDLINE/PubMed through E-mail Alerts, SMS, PDA downloads and RSS feeds

    PubMed Central

    Muin, Michael; Fontelo, Paul; Ackerman, Michael

    2005-01-01

    Summary PubMed Informer is a Web-based monitoring tool for topics of interest from MEDLINE/PubMed primarily designed for healthcare professionals. Five tracking methods are available: Web access, e-mail, Short Message Service (SMS), PDA downloads and RSS feeds. PubMed Informer delivers focused search updates and specific information to users with varying information-seeking practices. PMID:16779344

  5. Mars 2020 Entry, Descent and Landing Instrumentation (MEDLI2)

    NASA Technical Reports Server (NTRS)

    Bose, Deepak; Wright, Henry; White, Todd; Schoenenberger, Mark; Santos, Jose; Karlgaard, Chris; Kuhl, Chris; Oishi, TOmo; Trombetta, Dominic

    2016-01-01

    This paper will introduce Mars Entry Descent and Landing Instrumentation (MEDLI2) on NASA's Mars2020 mission. Mars2020 is a flagship NASA mission with science and technology objectives to help answer questions about possibility of life on Mars as well as to demonstrate technologies for future human expedition. Mars2020 is scheduled for launch in 2020. MEDLI2 is a suite of instruments embedded in the heatshield and backshell thermal protection systems of Mars2020 entry vehicle. The objectives of MEDLI2 are to gather critical aerodynamics, aerothermodynamics and TPS performance data during EDL phase of the mission. MEDLI2 builds up the success of MEDLI flight instrumentation on Mars Science Laboratory mission in 2012. MEDLI instrumentation suite measured surface pressure and TPS temperature on the heatshield during MSL entry into Mars. MEDLI data has since been used for unprecedented reconstruction of aerodynamic drag, vehicle attitude, in-situ atmospheric density, aerothermal heating, transition to turbulence, in-depth TPS performance and TPS ablation. [1,2] In addition to validating predictive models, MEDLI data has highlighted extra margin available in the MSL forebody TPS, which can potentially be used to reduce vehicle parasitic mass. MEDLI2 expands the scope of instrumentation by focusing on quantities of interest not addressed in MEDLI suite. The type the sensors are expanded and their layout on the TPS modified to meet these new objectives. The paper will provide key motivation and governing requirements that drive the choice and the implementation of the new sensor suite. The implementation considerations of sensor selection, qualification, and demonstration of minimal risk to the host mission will be described. The additional challenges associated with mechanical accommodation, electrical impact, data storage and retrieval for MEDLI2 system, which extends sensors to backshell will also be described.

  6. Using MedDRA: implications for risk management.

    PubMed

    Brown, Elliot G

    2004-01-01

    The introduction of MedDRA, the Medical Dictionary for Regulatory Activities, as a standardised terminology may have a major impact on the performance of risk management. Thus, MedDRA is likely to have an important effect on the analysis of clinical trial safety data. Review of the most commonly used terms in clinical trial tables from the labelling of ten products indicated that each adverse event could be represented by many MedDRA preferred terms; this might theoretically lead to failure to identify differences in adverse event incidence between treatment arms. Possible solutions are proposed. The use of MedDRA in spontaneous reporting systems is a regulatory requirement in some countries. Variability in modes of implementation and use of the terminology are discussed; these may impose additional limitations on any use of spontaneous data for comparative purposes. There are important differences in the ways that safety databases interface with MedDRA and uncertainty about the most appropriate way to manage version changes. The characteristics of MedDRA must be taken into account when establishing methods for signal detection and its use will affect the retrieval of similar cases as required for signal evaluation. The use of MedDRA in the periodic safety update report is discussed. The possible use of MedDRA in pharmacoepidemiology is highly relevant to risk management, and some issues are briefly outlined. With regard to communication of risk, if MedDRA is introduced into existing product labelling, care must be taken that the change itself does not cause misunderstanding; the most appropriate use of MedDRA in this regard remains to be determined. There is a need for careful evaluation of MedDRA in fulfilling its various functions in pharmacovigilance, followed by definitive regulatory guidance on its use. PMID:15154830

  7. Bosnian and Herzegovinian medical scientists in PubMed database.

    PubMed

    Masic, Izet

    2013-01-01

    In this paper it is shortly presented PubMed as one of the most important on-line databases of the scientific biomedical literature. Also, the author has analyzed the most cited authors, professors of the medical faculties in Bosnia and Herzegovina, from the published papers in the biomedical journals abstracted and indexed in PubMed. PMID:24341067

  8. MedEdPORTAL: Educational Scholarship for Teaching

    ERIC Educational Resources Information Center

    Reynolds, Robby J.; Candler, Christopher S.

    2008-01-01

    MedEdPORTAL is an online publication service provided at no charge by the Association of American Medical Colleges (AAMC). The intent is to promote collaboration and educational scholarship by helping educators publish and share educational resources. With MedEdPORTAL, users can quickly locate high-quality, peer-reviewed teaching materials in both…

  9. 47 CFR 95.628 - MedRadio transmitters.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 47 Telecommunication 5 2011-10-01 2011-10-01 false MedRadio transmitters. 95.628 Section 95.628 Telecommunication FEDERAL COMMUNICATIONS COMMISSION (CONTINUED) SAFETY AND SPECIAL RADIO SERVICES PERSONAL RADIO SERVICES Technical Regulations Technical Standards § 95.628 MedRadio transmitters. (a) Frequency...

  10. 75 FR 52304 - MedBow-Routt Resource Advisory Committee

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-08-25

    ... Forest Service MedBow-Routt Resource Advisory Committee AGENCY: Forest Service, USDA. ACTION: Notice of meeting. SUMMARY: The MedBow-Routt Resource Advisory Committee will meet in Saratoga, Wyoming. The... is for an update on projects proposed for funding, and selection of some projects. DATES: The...

  11. 75 FR 39201 - MedBow-Routt Resource Advisory Committee

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-07-08

    ... Forest Service MedBow-Routt Resource Advisory Committee AGENCY: Forest Service, USDA. ACTION: Notice of meeting. SUMMARY: The MedBow-Routt Resource Advisory Committee will meet in Steamboat Springs, Colorado... Act (Pub. L. 110-343) and in compliance with the Federal Advisory Committee Act. The purpose of...

  12. The Arabidopsis mediator complex subunits MED16, MED14, and MED2 regulate mediator and RNA polymerase II recruitment to CBF-responsive cold-regulated genes.

    PubMed

    Hemsley, Piers A; Hurst, Charlotte H; Kaliyadasa, Ewon; Lamb, Rebecca; Knight, Marc R; De Cothi, Elizabeth A; Steele, John F; Knight, Heather

    2014-01-01

    The Mediator16 (MED16; formerly termed SENSITIVE TO FREEZING6 [SFR6]) subunit of the plant Mediator transcriptional coactivator complex regulates cold-responsive gene expression in Arabidopsis thaliana, acting downstream of the C-repeat binding factor (CBF) transcription factors to recruit the core Mediator complex to cold-regulated genes. Here, we use loss-of-function mutants to show that RNA polymerase II recruitment to CBF-responsive cold-regulated genes requires MED16, MED2, and MED14 subunits. Transcription of genes known to be regulated via CBFs binding to the C-repeat motif/drought-responsive element promoter motif requires all three Mediator subunits, as does cold acclimation-induced freezing tolerance. In addition, these three subunits are required for low temperature-induced expression of some other, but not all, cold-responsive genes, including genes that are not known targets of CBFs. Genes inducible by darkness also required MED16 but required a different combination of Mediator subunits for their expression than the genes induced by cold. Together, our data illustrate that plants control transcription of specific genes through the action of subsets of Mediator subunits; the specific combination defined by the nature of the stimulus but also by the identity of the gene induced. PMID:24415770

  13. Many Addicts Going without Meds That Curb Opioid Abuse

    MedlinePlus

    ... html Many Addicts Going Without Meds That Curb Opioid Abuse In 2013, just 17 percent were given ... is in the grip of an epidemic of opioid abuse. However, new research suggests that drugs that ...

  14. Many Parents Ill-Informed about Kids' Asthma Meds

    MedlinePlus

    ... 159117.html Many Parents Ill-Informed About Kids' Asthma Meds Only half surveyed knew what drugs were ... News) -- Only half of parents of children with asthma fully understand the use of their youngsters' asthma ...

  15. ADHD Meds Tied to Lower Bone Density in Kids

    MedlinePlus

    ... nlm.nih.gov/medlineplus/news/fullstory_157591.html ADHD Meds Tied to Lower Bone Density in Kids ... 3, 2016 (HealthDay News) -- Children on medications for attention deficit hyperactivity disorder (ADHD) may have lower bone density than their ...

  16. Most Teens Who Abuse ADHD Meds Get Them from Others

    MedlinePlus

    ... news/fullstory_157662.html Most Teens Who Abuse ADHD Meds Get Them From Others Study finds 54 ... TUESDAY, March 8, 2016 (HealthDay News) -- Abuse of ADHD stimulant drugs such Ritalin or Adderall is on ...

  17. 1 in 4 Medicare Patients Uses Blood Pressure Meds Incorrectly

    MedlinePlus

    ... page: https://medlineplus.gov/news/fullstory_160930.html 1 in 4 Medicare Patients Uses Blood Pressure Meds ... year in the United States, accounting for about one out of every three deaths, Frieden said. Uncontrolled ...

  18. LactMed: New NLM Database on Drugs and Lactation

    MedlinePlus

    ... Current Issue Past Issues Research News From NIH LactMed: New NLM Database on Drugs and Lactation Past ... milk, infant levels in blood, potential effects in breast-feeding infants and on lactation itself. The American Academy ...

  19. Skipping Meds Greatly Ups Heart Patients' Risk of Stroke

    MedlinePlus

    ... Skipping Meds Greatly Ups Heart Patients' Risk of Stroke: Study Fatal strokes seven times more likely if drugs to control ... are much more likely to die from a stroke if they don't take cholesterol-lowering statin ...

  20. PubMed searches: overview and strategies for clinicians.

    PubMed

    Lindsey, Wesley T; Olin, Bernie R

    2013-04-01

    PubMed is a biomedical and life sciences database maintained by a division of the National Library of Medicine known as the National Center for Biotechnology Information (NCBI). It is a large resource with more than 5600 journals indexed and greater than 22 million total citations. Searches conducted in PubMed provide references that are more specific for the intended topic compared with other popular search engines. Effective PubMed searches allow the clinician to remain current on the latest clinical trials, systematic reviews, and practice guidelines. PubMed continues to evolve by allowing users to create a customized experience through the My NCBI portal, new arrangements and options in search filters, and supporting scholarly projects through exportation of citations to reference managing software. Prepackaged search options available in the Clinical Queries feature also allow users to efficiently search for clinical literature. PubMed also provides information regarding the source journals themselves through the Journals in NCBI Databases link. This article provides an overview of the PubMed database's structure and features as well as strategies for conducting an effective search. PMID:23442731

  1. Med1 regulates meiotic progression during spermatogenesis in mice

    PubMed Central

    Huszar, Jessica M.; Jia, Yuzhi; Reddy, Janardan K.; Payne, Christopher J.

    2015-01-01

    Spermatogenesis is a highly coordinated process. Signaling from nuclear hormone receptors, like those for retinoic acid, is important for normal spermatogenesis. However, the mechanisms regulating these signals are poorly understood. Mediator complex subunit 1 (MED1) is a transcriptional enhancer that directly modulates transcription from nuclear hormone receptors. MED1 is present in male germ cells throughout mammalian development, but its function during spermatogenesis is unknown. To determine its role, we generated mice lacking Med1 specifically in their germ cells beginning just before birth. Conditional Med1 knockout males are fertile, exhibiting normal testis weights and siring ordinary numbers of offspring. Retinoic acid-responsive gene products Stimulated by retinoic acid gene 8 (STRA8) and Synaptonemal complex protein 3 (SYCP3) are first detected in knockout spermatogonia at the expected time points during the first wave of spermatogenesis and persist with normal patterns of cellular distribution in adult knockout testes. Meiotic progression, however, is altered in the absence of Med1. At postnatal day 7 (P7), zygotene-stage knockout spermatocytes are already detected, unlike in control testes, with fewer pre-leptotene-stage cells and more leptotene spermatocytes observed in the knockouts. At P9, Med1 knockout spermatocytes prematurely enter pachynema. Once formed, greater numbers of knockout spermatocytes remain in pachynema relative to the other stages of meiosis throughout testis development and its maintenance in the adult. Meiotic exit is not inhibited. We conclude that MED1 regulates the temporal progression of primary spermatocytes through meiosis, with its absence resulting in abbreviated pre-leptotene, leptotene and zygotene stages, and a prolonged pachytene stage. PMID:25778538

  2. CoMed: a real-time collaborative medicine system.

    PubMed

    Sung, M Y; Kim, M S; Kim, E J; Yoo, J H; Sung, M W

    2000-07-01

    CoMed is a prototype of a real-time collaborative medicine system that allows medical specialists to share patient records and to communicate with each other on the Internet. CoMed consists of a multimedia medical database containing relevant information about laryngeal diseases and a real-time collaboration system including a teleconferencing system, a whiteboard and a chatting system. CoMed is web-based. We adopted the object database O2 and CORBA technologies for the multimedia medical database. Therefore, our system can provide the flexibility, extensibility and location transparency of patient databases. We developed a SeeYou Active X control for the teleconferencing system and a Java applet for the whiteboard and chatting system. CoMed improves the efficiency of the overall system by separating the servers on a UNIX machine and a Windows NT machine. CoMed can be utilized for stand-alone research, for collaborative consultations among medical specialists and for a telemedicine in participation with the patients and medical specialists. Our system can be extended easily into other types of the collaborative systems, such as collaborative distance learning, collaborative science system, etc. PMID:10961568

  3. A novel MED12 mutation: Evidence for a fourth phenotype.

    PubMed

    Prontera, Paolo; Ottaviani, Valentina; Rogaia, Daniela; Isidori, Ilenia; Mencarelli, Amedea; Malerba, Natascia; Cocciadiferro, Dario; Rolph, Pfundt; Stangoni, Gabriela; Vulto-van Silfhout, Anneke; Merla, Giuseppe

    2016-09-01

    Mutations of the MED12 gene have been reported mainly in males with FG (Opitz-Kaveggia), Lujan-Fryns, or X-linked Ohdo syndromes. Recently, a different phenotype characterized by minor anomalies, severe intellectual disability (ID), and absent language was reported in female and male patients belonging to the same family and carrying a frameshift MED12 mutation (c.5898dupC). Here, we report on two brothers and their niece affected by severe and mild ID, respectively, where whole exome sequencing combined with variant analysis within a panel of ID-related genes, disclosed a novel c.2312T>C (p.Ile771Thr) MED12 mutation. This variant, which has not been reported as a polymorphism, was not present in a third unaffected brother, and was predicted to be deleterious by five bioinformatic databases. This finding together with the phenotypic analogies shared with the carriers of c.5898dupC mutation suggests the existence of a fourth MED12-related disorder, characterized by severe ID, absent or deficient language and, milder, clinical manifestation in heterozygotes. We have reviewed the literature on MED12 heterozygotes, their clinical manifestations, and discuss the possible biological causes of this condition. © 2016 Wiley Periodicals, Inc. PMID:27312080

  4. A Model Expert System For Machine Failure Diagnosis (MED)

    NASA Astrophysics Data System (ADS)

    Liqun, Yin

    1987-05-01

    MED is a model expert system for machine failure diagnosis. MED can help the repairer quickly determine milling machine electrical failure. The key points in MED are a simple method to deal with the "subsequent visit" problem in machine failure diagnosis, a weighted list to interfere in the control of AGENDA to imitate an expert's continuous thinking process and to keep away erratic questioning and problem running away caused by probabilistic reasoning, the structuralized AGENDA, the characteristics of machine failure diagnosis and people's thinking pattern in faulure diagnosis. The structuralized AGENDA gives an idea to supply a more powerful as well as flexible control strategy in best-first search by using AGENDA. The "subsequent visit" problem is a very complicated task to solve, it will be convenient to deal with it by using a simple method to keep from consuming too much time in urgent situations. Weighted list also gives a method to improve control in inference of expert system. The characteristics of machine failure diagnosis and people's thinking pattern are both important for building a machine failure diagnosis expert system. When being told failure phenomena, MED can determine failure causes through dialogue. MED is written in LISP and run in UNIVAC 1100/10 and IBM PC/XT computers. The average diagnosis time per failure is 11 seconds to CPU, 2 minites to terminal operation, and 11 minites to a skilful repairer.

  5. MedAustron: The Austrian ion therapy facility

    NASA Astrophysics Data System (ADS)

    Benedikt, Michael

    MedAustron is a synchrotron-based light-ion beam therapy center for cancer treatment as well as for clinical and non-clinical research in Wiener Neustadt, Austria. The center is designed for the treatment of up to 1200 patients per year and for non-clinical research in the areas of radiobiology and medical radiation physics, as well as in experimental physics. MedAustron is an interdisciplinary project, benefiting from close cooperation and knowledge transfer with medical, scientific and research institutes on the national and international level. Three medical irradiation rooms will allow quasi-permanent patient treatment during two shifts on working days. The remaining beam time will be used for non-clinical research applications in a dedicated fourth irradiation room. The expected start of operation of MedAustron is mid-2016...

  6. Gaps in affiliation indexing in Scopus and PubMed

    PubMed Central

    Schmidt, Cynthia M.; Cox, Roxanne; Fial, Alissa V.; Hartman, Teresa L.; Magee, Martha L.

    2016-01-01

    Objective The authors sought to determine whether unexpected gaps existed in Scopus's author affiliation indexing of publications written by the University of Nebraska Medical Center or Nebraska Medicine (UNMC/NM) authors during 2014. Methods First, we compared Scopus affiliation identifier search results to PubMed affiliation keyword search results. Then, we searched Scopus using affiliation keywords (UNMC, etc.) and compared the results to PubMed affiliation keyword and Scopus affiliation identifier searches. Results We found that Scopus's records for approximately 7% of UNMC/NM authors' publications lacked appropriate UNMC/NM author affiliation identifiers, and many journals' publishers were supplying incomplete author affiliation information to PubMed. Conclusions Institutions relying on Scopus to track their impact should determine whether Scopus's affiliation identifiers will, in fact, identify all articles published by their authors and investigators. PMID:27076801

  7. Death, dying and informatics: misrepresenting religion on MedLine

    PubMed Central

    Rodríguez del Pozo, Pablo; Fins, Joseph J

    2005-01-01

    Background The globalization of medical science carries for doctors worldwide a correlative duty to deepen their understanding of patients' cultural contexts and religious backgrounds, in order to satisfy each as a unique individual. To become better informed, practitioners may turn to MedLine, but it is unclear whether the information found there is an accurate representation of culture and religion. To test MedLine's representation of this field, we chose the topic of death and dying in the three major monotheistic religions. Methods We searched MedLine using PubMed in order to retrieve and thematically analyze full-length scholarly journal papers or case reports dealing with religious traditions and end-of-life care. Our search consisted of a string of words that included the most common denominations of the three religions, the standard heading terms used by the National Reference Center for Bioethics Literature (NRCBL), and the Medical Subject Headings (MeSH) used by the National Library of Medicine. Eligible articles were limited to English-language papers with an abstract. Results We found that while a bibliographic search in MedLine on this topic produced instant results and some valuable literature, the aggregate reflected a selection bias. American writers were over-represented given the global prevalence of these religious traditions. Denominationally affiliated authors predominated in representing the Christian traditions. The Islamic tradition was under-represented. Conclusion MedLine's capability to identify the most current, reliable and accurate information about purely scientific topics should not be assumed to be the same case when considering the interface of religion, culture and end-of-life care. PMID:15992401

  8. UCSD's MedPics: implementation and impact on the curriculum.

    PubMed Central

    Hoffman, H. M.; Irwin, A. E.; Baird, S.; Bloor, C. M.; Miyai, K.; Savoia, M. C.

    1993-01-01

    MedPics is a computer-based image delivery system with supporting text fields and on-screen graphics to assist in key feature identification. It has been used by the University of California, San Diego as an integral part of the Human Disease course since 1992. Initially created to support pathology and histology, the program has now expanded to include hematology. MedPics has had a positive impact on the second year curriculum for which it was created. Moreover, use of this program has improved student attitudes toward computer-based resources and increased faculty interest in instructional development. Images Figure 1 PMID:8130582

  9. Student employment opportunities within ORD, with an emphasis on MED

    EPA Science Inventory

    This is a talk to undergraduate Juniors and Seniors in the UW-Madison School of Pharmacy's Pharm/Tox program about student employment opportunities w/in ORD such as SSC, ORISE, etc. wtih an emphasis on MED. I would classify as this as Outreach: how to navigate EPA websites to f...

  10. 76 FR 12016 - MedBow-Routt Resource Advisory Committee

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-03-04

    ...The MedBow-Routt Resource Advisory Committee will meet in Walden, Colorado. The committee is meeting as authorized under the Secure Rural Schools and Community Self-Determination Act (Pub. L. 110- 343) and in compliance with the Federal Advisory Committee Act. The purpose of the meeting is to review new project proposals and update RAC members on the progress of previously approved...

  11. ADHD Meds May Pose Heart Risks for Some Kids

    MedlinePlus

    ... page: https://medlineplus.gov/news/fullstory_159140.html ADHD Meds May Pose Heart Risks for Some Kids ... HealthDay News) -- Ritalin, a popular drug for treating attention-deficit hyperactivity disorder (ADHD), might increase the risk of an abnormal ...

  12. PubMed Central Canada: Beyond an Open Access Repository?

    ERIC Educational Resources Information Center

    Nariani, Rajiv

    2013-01-01

    PubMed Central Canada (PMC Canada) represents a partnership between the Canadian Institutes of Health Research (CIHR), the National Research Council's Canada Institute for Scientific and Technical Information (NRC-CISTI), and the National Library of Medicine of the US. The present study was done to gauge faculty awareness about the CIHR Policy on…

  13. How Complementary and Alternative Medicine Practitioners Use PubMed

    PubMed Central

    Quint-Rapoport, Mia

    2007-01-01

    Background PubMed is the largest bibliographic index in the life sciences. It is freely available online and is used by professionals and the public to learn more about medical research. While primarily intended to serve researchers, PubMed provides an array of tools and services that can help a wider readership in the location, comprehension, evaluation, and utilization of medical research. Objective This study sought to establish the potential contributions made by a range of PubMed tools and services to the use of the database by complementary and alternative medicine practitioners. Methods In this study, 10 chiropractors, 7 registered massage therapists, and a homeopath (N = 18), 11 with prior research training and 7 without, were taken through a 2-hour introductory session with PubMed. The 10 PubMed tools and services considered in this study can be divided into three functions: (1) information retrieval (Boolean Search, Limits, Related Articles, Author Links, MeSH), (2) information access (Publisher Link, LinkOut, Bookshelf ), and (3) information management (History, Send To, Email Alert). Participants were introduced to between six and 10 of these tools and services. The participants were asked to provide feedback on the value of each tool or service in terms of their information needs, which was ranked as positive, positive with emphasis, negative, or indifferent. Results The participants in this study expressed an interest in the three types of PubMed tools and services (information retrieval, access, and management), with less well-regarded tools including MeSH Database and Bookshelf. In terms of their comprehension of the research, the tools and services led the participants to reflect on their understanding as well as their critical reading and use of the research. There was universal support among the participants for greater access to complete articles, beyond the approximately 15% that are currently open access. The abstracts provided by PubMed were

  14. TeleMed: A distributed virtual patient record system

    SciTech Connect

    Forslund, D.W.; Phillips, R.L.; Kilman, D.G.; Cook, J.L.

    1996-06-01

    TeleMed is a distributed diagnosis and analysis system, which permits physicians who are not collocated to consult on the status of a patient. The patient`s record is dynamically constructed from data that may reside at several sites but which can be quickly assembled for viewing by pointing to the patient`s name. Then, a graphical patient record appears, through which consulting physicians can retrieve textual and radiographic data with a single mouse click. TeleMed uses modern distributed object technology and emerging telecollaboration tools. The authors describe in this paper some of the motivation for this change, what they mean by a virtual patient record, and some results of some early implementations of a virtual patient record.

  15. The medical dictionary for regulatory activities (MedDRA).

    PubMed

    Brown, E G; Wood, L; Wood, S

    1999-02-01

    The International Conference on Harmonisation has agreed upon the structure and content of the Medical Dictionary for Regulatory Activities (MedDRA) version 2.0 which should become available in the early part of 1999. This medical terminology is intended for use in the pre- and postmarketing phases of the medicines regulatory process, covering diagnoses, symptoms and signs, adverse drug reactions and therapeutic indications, the names and qualitative results of investigations, surgical and medical procedures, and medical/social history. It can be used for recording adverse events and medical history in clinical trials, in the analysis and tabulations of data from these trials and in the expedited submission of safety data to government regulatory authorities, as well as in constructing standard product information and documentation for applications for marketing authorisation. After licensing of a medicine, it may be used in pharmacovigilance and is expected to be the preferred terminology for international electronic regulatory communication. MedDRA is a hierarchical terminology with 5 levels and is multiaxial: terms may exist in more than 1 vertical axis, providing specificity of terms for data entry and flexibility in data retrieval. Terms in MedDRA were derived from several sources including the WHO's adverse reaction terminology (WHO-ART), Coding Symbols for a Thesaurus of Adverse Reaction Terms (COSTART), International Classification of Diseases (ICD) 9 and ICD9-CM. It will be maintained, further developed and distributed by a Maintenance Support Services Organisation (MSSO). It is anticipated that using MedDRA will improve the quality of data captured on databases, support effective analysis by providing clinically relevant groupings of terms and facilitate electronic communication of data, although as a new tool, users will need to invest time in gaining expertise in its use. PMID:10082069

  16. The MEDiterranean SUpersite Volcanoes (MED-SUV) project

    NASA Astrophysics Data System (ADS)

    Puglisi, Giuseppe

    2014-05-01

    The MEDiterranean SUpersite Volcanoes (MED-SUV) project aims at gaining new insights in the knowledge of the processes on the base of the volcanic phenomena observable at the surface by using the broad inventory of multidisciplinary data available for Mt. Etna and Campi Flegrei/Vesuvius. These active volcanic areas, which have been here considered as a cluster of supersites, represent test cases since they embrace the main characteristics typical of both "opened- and closed-conduit" volcanic systems. For the purpose, MED-SUV objectives focus on the (i) development of novel monitoring instrumentations and data collection methods, (ii) implementation of the current observation infrastructures, (iii) better constraint of crucial volcanic parameters by integration of in-situ and satellite data, and (iv) the development of an e-infrastructure for data sharing. In this framework, MED-SUV is a great opportunity for scientific collaboration among diverse research institutions and industrial sectors. MED-SUV aims to use the achieved results to gain robust sets of multi-parametric observations using the most advanced analytic data processing techniques and volcanic process and hazard modelling methods. These will provide new insights in the current and past eruptive activity of the three test case volcanoes that will increase our technical-scientific ability of tracking volcanic-related hazards in the targeted areas, and of communicating with the proper decision-maker bodies. The implementation of an e-infrastructure compliant with EPOS and the other two supersite projects, MARsite and FUTUREVOLC, will contribute to the GEO/GEOSS interoperability principles and to the GEO 2012-15 work plan.

  17. Mars 2020 Entry, Descent and Landing Instrumentation 2 (MEDLI2)

    NASA Technical Reports Server (NTRS)

    Hwang, Helen H.; Bose, Deepak; White, Todd R.; Wright, Henry S.; Schoenenberger, Mark; Kuhl, Christopher A.; Trombetta, Dominic; Santos, Jose A.; Oishi, Tomomi; Karlgaard, Christopher D.; Mahzari, Milad; Pennington, Steven P.

    2016-01-01

    The Mars Entry Descent and Landing Instrumentation 2 (MEDLI2) sensor suite will measure aerodynamic, aerothermodynamic, and TPS performance during the atmospheric entry, descent, and landing phases of the Mars 2020 mission. The key objectives are to reduce design margin and prediction uncertainties for the aerothermal environments and aerodynamic database. For MEDLI2, the sensors are installed on both the heatshield and backshell, and include 7 pressure transducers, 17 thermal plugs, and 3 heat flux sensors (including a radiometer). These sensors will expand the set of measurements collected by the highly successful MEDLI suite, collecting supersonic pressure measurements on the forebody, a pressure measurement on the aftbody, direct heat flux measurements on the aftbody, a radiative heating measurement on the aftbody, and multiple near-surface thermal measurements on the thermal protection system (TPS) materials on both the forebody and aftbody. To meet the science objectives, supersonic pressure transducers and heat flux sensors are currently being developed and their qualification and calibration plans are presented. Finally, the reconstruction targets for data accuracy are presented, along with the planned methodologies for achieving the targets.

  18. Complex event extraction at PubMed scale

    PubMed Central

    Björne, Jari; Ginter, Filip; Pyysalo, Sampo; Tsujii, Jun'ichi; Salakoski, Tapio

    2010-01-01

    Motivation: There has recently been a notable shift in biomedical information extraction (IE) from relation models toward the more expressive event model, facilitated by the maturation of basic tools for biomedical text analysis and the availability of manually annotated resources. The event model allows detailed representation of complex natural language statements and can support a number of advanced text mining applications ranging from semantic search to pathway extraction. A recent collaborative evaluation demonstrated the potential of event extraction systems, yet there have so far been no studies of the generalization ability of the systems nor the feasibility of large-scale extraction. Results: This study considers event-based IE at PubMed scale. We introduce a system combining publicly available, state-of-the-art methods for domain parsing, named entity recognition and event extraction, and test the system on a representative 1% sample of all PubMed citations. We present the first evaluation of the generalization performance of event extraction systems to this scale and show that despite its computational complexity, event extraction from the entire PubMed is feasible. We further illustrate the value of the extraction approach through a number of analyses of the extracted information. Availability: The event detection system and extracted data are open source licensed and available at http://bionlp.utu.fi/. Contact: jari.bjorne@utu.fi PMID:20529932

  19. Overview of the SkyMed/COSMO mission

    NASA Astrophysics Data System (ADS)

    Caltagirone, Francesco; Spera, Paolo; Vigliotti, R.; Manoni, Gemma

    1998-12-01

    The impact of natural and man-made disasters on the social and economic progress is going to become more significant, making necessary to consider natural disasters reduction. Therefore civil protection and resource managers need elements to make quicker and better decisions on a day-to-day basis, so giving the start to an emerging world-wide remote sensing market. A deep analysis on the potential users, mainly devoted to Mediterranean basin, highlights that existing and/or planned systems are not able to completely satisfy their requirements. To fulfill this gap, Italy decided to promote the SkyMed/COSMO system, presently financed by the Italian Space Agency. SkyMed/COSMO is a constellation of small satellites for observation, remote sensing and data exploitation for risks management and coastal zone monitoring, conceived to provide products, services and logistics to both institutional and commercial remote sensing users on global scale. Furthermore the system is able to satisfy a broad spectrum of important applications also in the field of the resource management, land use and law enforcement. The SkyMed/COSMO current system architecture foresees a constellation of small satellites in two different orbit planes composed by 4 satellite equipped with X-band SAR and 3 satellites equipped with optical sensors. The system is characterized by good spatial resolution, day and night/all-weather imaging capability and by a very good revisit time. The program, currently in phase B, is carried out by an industrial consortium lead by Alenia Aerospazio.

  20. Mitigation of Volcanic Risk: The COSMO-SkyMed Contribution

    NASA Astrophysics Data System (ADS)

    Sacco, Patrizia; Daraio, Maria Girolamo; Battagliere, Maria Libera; Coletta, Alessandro

    2015-05-01

    The Italian Space Agency (ASI) promotes Earth Observation (EO) applications related to themes such as the prediction, monitoring, management and mitigation of natural and anthropogenic hazards. The approach generally followed is the development and demonstration of prototype services, using currently available data from space missions, in particular the COSMO-SkyMed (Constellation of Small Satellites for Mediterranean basin observation) mission, which represents the largest Italian investment in Space System for EO and thanks to which Italy plays a key role worldwide. Projects funded by ASI provide the convergence of various national industry expertise, research and institutional reference users. In this context a significant example is represented by the ASI Pilot Projects, recently concluded, dealing with various thematic, such as volcanoes. In this paper a special focus will be addressed to the volcanic risk management and the contribution provided in this field by COSMO-SkyMed satellite constellation during the last years. A comprehensive overview of the various national and international projects using COSMO-SkyMed data for the volcanic risk mitigation will be given, highlighting the Italian contribution provided worldwide in this operational framework.

  1. Mediator MED23 cooperates with RUNX2 to drive osteoblast differentiation and bone development

    PubMed Central

    Liu, Zhen; Yao, Xiao; Yan, Guang; Xu, YiChi; Yan, Jun; Zou, Weiguo; Wang, Gang

    2016-01-01

    How lineage specifiers are regulated during development is an outstanding question, and the molecular regulation of osteogenic factor RUNX2 remains to be fully understood. Here we report that the Mediator subunit MED23 cooperates with RUNX2 to regulate osteoblast differentiation and bone development. Med23 deletion in mesenchymal stem cells or osteoblast precursors results in multiple bone defects similar to those observed in Runx2+/− mice. In vitro, Med23-deficient progenitor cells are refractory to osteoblast differentiation, and Med23 deficiency reduces Runx2-target gene activity without changing Runx2 expression. Mechanistically, MED23 binds to RUNX2 and modulates its transcriptional activity. Moreover, Med23 deficiency in osteoprogenitor cells exacerbates the skeletal abnormalities observed in Runx2+/− mice. Collectively, our results establish a genetic and physical interaction between RUNX2 and MED23, suggesting that MED23 constitutes a molecular node in the regulatory network of anabolic bone formation and related diseases. PMID:27033977

  2. MedlinePlus FAQ: MedlinePlus and MEDLINE/PubMed

    MedlinePlus

    ... links to preformulated searches of the MEDLINE/PubMed database, allowing you to find references to latest health ... articles on your topic. MEDLINE/PubMed: Is a database of professional biomedical literature Is a Web-based, ...

  3. 77 FR 65438 - MedLink International, Inc.; Order of Suspension of Trading

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-10-26

    ... From the Federal Register Online via the Government Publishing Office SECURITIES AND EXCHANGE COMMISSION MedLink International, Inc.; Order of Suspension of Trading October 24, 2012. It appears to the... securities of MedLink International, Inc. (``MedLink''). Questions have arisen concerning the accuracy...

  4. 47 CFR 95.627 - MedRadio transmitters in the 401-406 MHz band.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 47 Telecommunication 5 2014-10-01 2014-10-01 false MedRadio transmitters in the 401-406 MHz band... SPECIAL RADIO SERVICES PERSONAL RADIO SERVICES Technical Regulations Technical Standards § 95.627 MedRadio transmitters in the 401-406 MHz band. The following provisions apply only to MedRadio transmitters operating...

  5. 47 CFR 95.627 - MedRadio transmitters in the 401-406 MHz band.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 47 Telecommunication 5 2012-10-01 2012-10-01 false MedRadio transmitters in the 401-406 MHz band... SPECIAL RADIO SERVICES PERSONAL RADIO SERVICES Technical Regulations Technical Standards § 95.627 MedRadio transmitters in the 401-406 MHz band. The following provisions apply only to MedRadio transmitters operating...

  6. Frequency of MED12 mutations in phyllodes tumors: Inverse correlation with histologic grade.

    PubMed

    Yoon, Nara; Bae, Go Eun; Kang, So Young; Choi, Mi Sun; Hwang, Hye Won; Kim, Seok Won; Lee, Jeong Eon; Nam, Seok Jin; Gong, Gyungyub; Lee, Hee Jin; Bae, Young Kyung; Lee, Ahwon; Cho, Eun Yoon

    2016-06-01

    Phyllodes tumor (PT) is a rare breast biphasic tumor with a potential risk of recurrence and metastasis. In this study, the frequency of MED12 mutations in 176 PTs (49 benign, 49 borderline, and 78 malignant) was determined and the prognostic effect of these mutations in malignant type PT was evaluated. Analysis of MED12 mutations was performed by Sanger sequencing targeting the hotspot mutation region (exon 2) of MED12. Immunohistochemistry was also applied for evaluation of MED12 protein expression on tissue microarray blocks for 133 PTs including 50 benign, 50 borderline, and 33 malignant cases. A notable difference in the frequency of MED12 mutations was found according to histologic grade (71.4% of benign PTs, 51% of borderline PTs, 26.9% of malignant PTs; P < 0.001). MED12 protein expression was not correlated with MED12 mutation status. Patients with malignant PTs that harbored MED12 mutations demonstrated improved disease-free survival (DFS) compared with those without MED12 mutation (P = 0.07). MED12 mutation was a common molecular alteration in PT and the frequency of MED12 mutation decreased with increasing histologic grade. In malignant PT, MED12 exon 2 mutations showed improved DFS but without significance. © 2016 Wiley Periodicals, Inc. PMID:26856273

  7. MED23: a new Mediator of H2B monoubiquitylation.

    PubMed

    Streubel, Gundula; Bracken, Adrian P

    2015-12-01

    The Mediator multiprotein complex physically links transcription factors to RNA polymerase II and the basal transcription machinery. While the Mediator complex has been shown to be required for transcriptional initiation and elongation, the understanding of its interplay with histone modifying enzymes and post‐translational modifications remains elusive. In this issue of The EMBO Journal, Yao et al (2015) report that the MED23 subunit of the Mediator complex physically associates with the heterodimeric RNF20/40 E3‐ligase complex to facilitate the monoubiquitylation of histone H2B on gene bodies of actively transcribed genes. PMID:26438725

  8. Cohort profile: Greifswald approach to individualized medicine (GANI_MED)

    PubMed Central

    2014-01-01

    Background Individualized Medicine aims at providing optimal treatment for an individual patient at a given time based on his specific genetic and molecular characteristics. This requires excellent clinical stratification of patients as well as the availability of genomic data and biomarkers as prerequisites for the development of novel diagnostic tools and therapeutic strategies. The University Medicine Greifswald, Germany, has launched the “Greifswald Approach to Individualized Medicine” (GANI_MED) project to address major challenges of Individualized Medicine. Herein, we describe the implementation of the scientific and clinical infrastructure that allows future translation of findings relevant to Individualized Medicine into clinical practice. Methods/design Clinical patient cohorts (N > 5,000) with an emphasis on metabolic and cardiovascular diseases are being established following a standardized protocol for the assessment of medical history, laboratory biomarkers, and the collection of various biosamples for bio-banking purposes. A multi-omics based biomarker assessment including genome-wide genotyping, transcriptome, metabolome, and proteome analyses complements the multi-level approach of GANI_MED. Comparisons with the general background population as characterized by our Study of Health in Pomerania (SHIP) are performed. A central data management structure has been implemented to capture and integrate all relevant clinical data for research purposes. Ethical research projects on informed consent procedures, reporting of incidental findings, and economic evaluations were launched in parallel. PMID:24886498

  9. Ice Charting Services And Developments With COSMO-SkyMed

    NASA Astrophysics Data System (ADS)

    Angelucci, Maria; Karvonen, Juha; Eriksson, Patrick B.

    2013-12-01

    The use of satellites in ice detection and monitoring applications is a very efficient way to monitor wide sea areas and relevant ice conditions, independently from the day time and weather conditions. EO SAR(Synthetic Aperture RADAR) technology is more suitable with respect to optical sensors, as SAR provides information independently on the day time and weather and allows a more accurate ice classification into different classes. SAR data provide information on the ice coverage, the size of ice floes, the shape of ice floes and the edges of ice. The COSMO-SkyMed satellite constellation in particular contributes to support Ice Services' stakeholders, as it provides worldwide SAR data with an incomparable performance in terms of revisit time, image resolution, rapid coverage of huge areas and number of acquired scenes. It provides synoptic information during day and night and at all weather conditions. e-GEOS and FMI are partnering to exploit and develop COSMO-SkyMed capabilities (X-band), for operational Ice Charting services.

  10. MedCast: a discussion support system for cooperative work

    NASA Astrophysics Data System (ADS)

    Moreno, Ramon A.; Lima, Vinícius; Lopes, Isidro; Gutierrez, Marco A.

    2012-02-01

    The availability of low cost Internet connections and specialized hardware, like webcams and headsets, makes possible the development of solutions for remote collaborative work. These solutions can provide advantages compared to presential meetings, such as: availability of experts on remote locations; lower price compared to presential meetings; creation of online didactic material (e.g. video-classes); richer forms of interaction between participants. These technologies are particularly interesting for continent-sized countries where typically there is a short number of skilled people in remote areas. However, the application of these technologies in medical field represents a special challenge due to the more complex requirements of this area, such as: Provide confidentiality (patient de-identification) and integrity of patient data; Guarantee availability of the system; Guarantee authenticity of data and users; Provide simple and effective user interface; Be compliant with medical standards such as DICOM and HL7. In order to satisfy those requirements a prototype called MedCast is under development whose architecture allows the integration of the Hospital Information System (HIS) with a collaborative tool in compliance with the HIPAA rules. Some of the MedCast features are: videoconferencing, chat, recording of the sessions, sharing of documents and reports and still and dynamic images presentation. Its current version allows the remote discussion of clinical cases and the remote ECG evaluation.

  11. A link between the cytoplasmic engulfment protein Elmo1 and the Mediator complex subunit Med31.

    PubMed

    Mauldin, Joshua P; Lu, Mingjian; Das, Soumita; Park, Daeho; Ernst, Peter B; Ravichandran, Kodi S

    2013-01-21

    The cytoplasmic Elmo1:Dock180 complex acts as a guanine nucleotide exchange factor (GEF) for the small GTPase Rac and functions downstream of the phagocytic receptor BAI1 during apoptotic cell clearance, and in the entry of Salmonella and Shigella into cells. We discovered an unexpected binding between Elmo1 and the Mediator complex subunit Med31. The Mediator complex is a regulatory hub for nearly all gene transcription via RNA polymerase II, bridging the general transcription machinery with gene-specific regulatory proteins. Med31 is the smallest and the most evolutionarily conserved Mediator subunit, and knockout of Med31 results in embryonic lethality in mice; however, Med31 function in specific biological contexts is poorly understood. We observed that in primary macrophages, during Salmonella infection, Elmo1 and Med31 specifically affected expression of the cytokine genes Il10 and Il33 among the >25 genes monitored. Although endogenous Med31 is predominantly nuclear localized, Elmo1 increased the cytoplasmic localization of Med31. We identify ubiquitination as a novel posttranslational modification of Med31, with the cytoplasmic monoubiquitinated form of Med31 being enhanced by Elmo1. These data identify Elmo1 as a novel regulator of Med31, revealing a previously unrecognized link between cytoplasmic signaling proteins and the Mediator complex. PMID:23273896

  12. Mars Science Laboratory (MSL) Entry, Descent, and Landing Instrumentation (MEDLI): Complete Flight Data Set

    NASA Technical Reports Server (NTRS)

    Cheatwood, F. McNeil; Bose, Deepak; Karlgaard, Christopher D.; Kuhl, Christopher A.; Santos, Jose A.; Wright, Michael J.

    2014-01-01

    The Mars Science Laboratory (MSL) entry vehicle (EV) successfully entered the Mars atmosphere and landed the Curiosity rover safely on the surface of the planet in Gale crater on August 6, 2012. MSL carried the MSL Entry, Descent, and Landing (EDL) Instrumentation (MEDLI). MEDLI delivered the first in-depth understanding of the Mars entry environments and the response of the entry vehicle to those environments. MEDLI was comprised of three major subsystems: the Mars Entry Atmospheric Data System (MEADS), the MEDLI Integrated Sensor Plugs (MISP), and the Sensor Support Electronics (SSE). Ultimately, the entire MEDLI sensor suite consisting of both MEADS and MISP provided measurements that were used for trajectory reconstruction and engineering validation of aerodynamic, atmospheric, and thermal protection system (TPS) models in addition to Earth-based systems testing procedures. This report contains in-depth hardware descriptions, performance evaluation, and data information of the three MEDLI subsystems.

  13. The Mediterranean Supersite Volcanoes (MED-SUV) Project: an overview

    NASA Astrophysics Data System (ADS)

    Puglisi, Giuseppe

    2014-05-01

    The EC FP7 MEDiterranean SUpersite Volcanoes (MED-SUV) EC-FP7 Project, which started on June 2013, aims to improve the capacity of the scientific institutions, end users and SME forming the project consortium to assess the volcanic hazards at Italian Supersites, i.e. Mt. Etna and Campi Flegrei/Vesuvius. The Project activities will focus on the optimisation and integration of ground and space monitoring systems, the breakthrough in understanding of volcanic processes, and on the increase of the effectiveness of the coordination between the scientific and end-user communities in the hazard management. The overall goal of the project is to apply the rationale of the Supersites GEO initiative to Mt. Etna and Campi Flegrei/Vesuvius, considered as cluster of Supersites. For the purpose MED-SUV will integrate long-term observations of ground-based multidisciplinary data available for these volcanoes, i.e. geophysical, geochemical, and volcanological datasets, with Earth Observation (EO) data. Merging of different parameters over a long period will provide better understanding of the volcanic processes. In particular, given the variety of styles and intensities of the volcanic activity observed at these volcanoes, and which make them sort of archetypes for 'closed conduit ' and 'open conduit' volcanic systems, the combination of different data will allow discrimination between peculiar volcano behaviours associated with pre-, syn- and post-eruptive phases. Indeed, recognition of specific volcano patterns will allow broadening of the spectrum of knowledge of geo-hazards, as well as better parameterisation and modelling of the eruptive phenomena and of the processes occurring in the volcano supply system; thus improving the capability of carrying out volcano surveillance activities. Important impacts on the European industrial sector, arising from a partnership integrating the scientific community and SMEs to implement together new observation/monitoring sensors/systems, are

  14. The Mediterranean Supersite Volcanoes (MED-SUV) Project: an overview

    NASA Astrophysics Data System (ADS)

    Puglisi, G.

    2013-12-01

    The EC FP7 MEDiterranean SUpersite Volcanoes (MED-SUV) EC-FP7 Project, which started on June 2013, aims to improve the capacity of the scientific institutions, end users and SME forming the project consortium to assess the volcanic hazards at Italian Supersites, i.e. Mt. Etna and Campi Flegrei/Vesuvius. The Project activities will focus on the optimisation and integration of ground and space monitoring systems, the breakthrough in understanding of volcanic processes, and on the increase of the effectiveness of the coordination between the scientific and end-user communities in the hazard management. The overall goal of the project is to apply the rationale of the Supersites GEO initiative to Mt. Etna and Campi Flegrei/Vesuvius, considered as cluster of Supersites. For the purpose MED-SUV will integrate long-term observations of ground-based multidisciplinary data available for these volcanoes, i.e. geophysical, geochemical, and volcanological datasets, with Earth Observation (EO) data. Merging of different parameters over a long period will provide better understanding of the volcanic processes. In particular, given the variety of styles and intensities of the volcanic activity observed at these volcanoes, and which make them sort of archetypes for 'closed conduit '; and ';open conduit' volcanic systems, the combination of different data will allow discrimination between peculiar volcano behaviours associated with pre-, syn- and post-eruptive phases. Indeed, recognition of specific volcano patterns will allow broadening of the spectrum of knowledge of geo-hazards, as well as better parameterisation and modelling of the eruptive phenomena and of the processes occurring in the volcano supply system; thus improving the capability of carrying out volcano surveillance activities. Important impacts on the European industrial sector, arising from a partnership integrating the scientific community and SMEs to implement together new observation/monitoring sensors

  15. TERENO-MED: Terrestrial Environmental Observatories in the Mediterranean Region

    NASA Astrophysics Data System (ADS)

    Krueger, Elisabeth; Friesen, Jan; Kallioras, Andreas; Bogena, Heye; Devaraju, Anusuriya; Vereecken, Harry; Teutsch, Georg

    2013-04-01

    Centres and jointly operated with local partners across the Mediterranean region. In a number of Mediterranean mesoscale hydrological catchments TERENO-MED will investigate the long-term effects of global change on the quality and the dynamics of water resources in human-influenced environments under water scarcity. The Helmholtz Centres UFZ (overall coordinator) and FZJ have therefore initiated the set-up of a network of global change observatories in 5-10 Mediterranean river catchments. The TERENO-MED observatories will: - investigate societally relevant water problems in the context of 'typical' Mediterranean environments, - provide long-term and quality-controlled data available to the scientific community, - be operated and maintained through local research institutes and universities, - establish common monitoring platforms and foster synergies between research organizations, - provide solutions to pressing local and regional water problems by building partnerships between scientific partners and regional authorities.

  16. The Mediterranean Supersite Volcanoes (MED-SUV) Project: an overview

    NASA Astrophysics Data System (ADS)

    Puglisi, Giuseppe

    2013-04-01

    In response to the EC call ENV.2012.6.4-2 (Long-term monitoring experiments in geologically active regions of Europe prone to natural hazards: the Supersite concept - FP7-ENV-2012-two-stage) a wide community of volcanological institutions proposed the project Mediterranean Supersite Volcanoes (MED-SUV), which is in the negotiation phase at the time of writing. The Consortium is composed by 18 European University and research institutes, four Small or Medium Enterprises (SME) and two non-European University and research institutes. MED-SUV will improve the consortium capacity of assessment of volcanic hazards in Supersites of Southern Italy by optimising and integrating existing and new observation/monitoring systems, by a breakthrough in understanding of volcanic processes and by increasing the effectiveness of the coordination between the scientific and end-user communities. More than 3 million of people are exposed to potential volcanic hazards in a large region in the Mediterranean Sea, where two among the largest European volcanic areas are located: Mt. Etna and Campi Flegrei/Vesuvius. This project will fully exploit the unique detailed long-term in-situ monitoring data sets available for these volcanoes and integrate with Earth Observation (EO) data, setting the basic tools for a significant step ahead in the discrimination of pre-, syn- and post-eruptive phases. The wide range of styles and intensities of volcanic phenomena observed on these volcanoes, which can be assumed as archetypes of 'closed conduit ' and 'open conduit' volcano, together with the long-term multidisciplinary data sets give an exceptional opportunity to improve the understanding of a very wide spectrum of geo-hazards, as well as implementing and testing a large variety of innovative models of ground deformation and motion. Important impacts on the European industrial sector are expected, arising from a partnership integrating the scientific community and SMEs to implement together new

  17. Exploitation of a large COSMO-SkyMed interferometric dataset

    NASA Astrophysics Data System (ADS)

    Nutricato, Raffaele; Nitti, Davide O.; Bovenga, Fabio; Refice, Alberto; Chiaradia, Maria T.

    2014-10-01

    In this work we explored a dataset made by more than 100 images acquired by COSMO-SkyMed (CSK) constellation over the Port-au-Prince (Haiti) metropolitan and surrounding areas that were severely hit by the January 12th, 2010 earthquake. The images were acquired along ascending pass by all the four sensors of the constellation with a mean rate of 1 acquisition/week. This consistent CSK dataset was fully exploited by using the Persistent Scatterer Interferometry algorithm SPINUA with the aim of: i) providing a displacement map of the area; ii) assessing the use of CSK and PSI for ground elevation measurements; iii) exploring the CSK satellite orbital tube in terms of both precision and size. In particular, significant subsidence phenomena were detected affecting river deltas and coastal areas of the Port-au-Prince and Carrefour region, as well as very slow slope movements and local ground instabilities. Ground elevation was also measured on PS targets with resolution of 3m. The density of these measurable targets depends on the ground coverage, and reaches values higher than 4000 PS/km2 over urban areas, while it drops over vegetated areas or along slopes affected by layover and shadow. Heights values were compared with LIDAR data at 1m of resolution collected soon after the 2010 earthquake. Furthermore, by using geocoding procedures and the precise LIDAR data as reference, the orbital errors affecting CSK records were investigated. The results are in line with other recent studies.

  18. Performing Environmental Change: MED Theatre and the Changing Face of Community-Based Performance Research

    ERIC Educational Resources Information Center

    Schaefer, Kerrie

    2012-01-01

    This article examines a programme of work produced by community-based theatre company, Manaton and East Dartmoor (MED) Theatre, addressing issues of climate change as they impact on life in rural Devon, UK. After some discussion of MED Theatre's constitution as a community-based company and the group's long-term engagement with the place, history,…

  19. Insertional mutation of the motor endplate disease (med) locus on mouse chromosome 15

    SciTech Connect

    Kohrman, D.C.; Plummer, N.W.; Schuster, T.

    1995-03-20

    Homozygous transgenic mice from line A4 have an early-onset progressive neuromuscular disorder characterized by paralysis of the rear limbs, muscle atrophy, and lethality by 4 weeks of age. The transgene insertion site was mapped to distal chromosome 15 close to the locus motor endplate disease (med). The sequence of mouse DNA flanking the insertion site junctions was determined. A small (<20 kb) deletion was detected at the insertion site, with no evidence of additional rearrangement of the chromosomal DNA. Noncomplementation of the transgene-induced mutation and med was demonstrated in a cross with med{sup J}/ + mice. The new allele is designated med{sup TgNA4Bs}(med{sup tg}). The homologous human locus MED was assigned to chromosome 12. Synaptotagmin 1 and contactin 1 were eliminated as candidate genes for the med mutation. The transgene-induced allele provides molecular access to the med gene, whose function is required for synaptic transmission at the neuromuscular junction and long-term survival of cerebellar Purkinje cells. 49 refs., 5 figs., 1 tab.

  20. 47 CFR 95.627 - MedRadio transmitters in the 401-406 MHz band.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ...Radio programmer/control transmitters operating in the 401-406 MHz band must operate under the control... used by the programmer/control transmitter for a communications session. Before the monitoring system of a MedRadio programmer/control transmitter initiates a MedRadio communications session,...

  1. How to improve your PubMed/MEDLINE searches: 1. background and basic searching.

    PubMed

    Fatehi, Farhad; Gray, Leonard C; Wootton, Richard

    2013-12-01

    PubMed provides free access via the Internet to more than 23 million records, of which over 19 million are from the MEDLINE database of journal articles. PubMed also provides access to other databases, such as the NCBI Bookshelf. To perform a basic search, you can simply enter the search terms or the concept that you are looking for in the search box. However, taking care to clarify your key concepts may save much time later on, because a non-specific search is likely to produce an overwhelming number of result hits. One way to make your search more specific is to specify which field you want to search using field tags. By default, the results of a search are sorted by the date added to PubMed and displayed in summary format with 20 result hits (records) on each page. In summary format, the title of the article, list of authors, source of information (e.g., journal name followed by date of publication, volume, issue, pages) and the unique PubMed record number called the PubMed identifier (PMID) are shown. Although information is stored about the articles, PubMed/MEDLINE does not store the full text of the papers themselves. However, PubMedCentral (PMC) stores more than 2.8 million articles (roughly 10% of the articles in PubMed) and provides access to them for free to the users. PMID:24197398

  2. Formalizing MedDRA to support semantic reasoning on adverse drug reaction terms.

    PubMed

    Bousquet, Cédric; Sadou, Éric; Souvignet, Julien; Jaulent, Marie-Christine; Declerck, Gunnar

    2014-06-01

    Although MedDRA has obvious advantages over previous terminologies for coding adverse drug reactions and discovering potential signals using data mining techniques, its terminological organization constrains users to search terms according to predefined categories. Adding formal definitions to MedDRA would allow retrieval of terms according to a case definition that may correspond to novel categories that are not currently available in the terminology. To achieve semantic reasoning with MedDRA, we have associated formal definitions to MedDRA terms in an OWL file named OntoADR that is the result of our first step for providing an "ontologized" version of MedDRA. MedDRA five-levels original hierarchy was converted into a subsumption tree and formal definitions of MedDRA terms were designed using several methods: mappings to SNOMED-CT, semi-automatic definition algorithms or a fully manual way. This article presents the main steps of OntoADR conception process, its structure and content, and discusses problems and limits raised by this attempt to "ontologize" MedDRA. PMID:24680984

  3. MED12 methylation by CARM1 sensitizes human breast cancer cells to chemotherapy drugs

    PubMed Central

    Wang, Lu; Zeng, Hao; Wang, Qiang; Zhao, Zibo; Boyer, Thomas G.; Bian, Xiuwu; Xu, Wei

    2015-01-01

    The RNA polymerase II mediator complex subunit 12 (MED12) is frequently mutated in human cancers, and loss of MED12 has been shown to induce drug resistance through activation of transforming growth factor–β receptor (TGF-βR) signaling. We identified MED12 as a substrate for coactivator-associated arginine methyltransferase 1 (CARM1). Not only are the expression levels of CARM1 and MED12 positively correlated, but their high expression also predicts better prognosis in human breast cancers after chemotherapy. MED12 was methylated at R1862 and R1912 by CARM1, and mutation of these sites in cell lines resulted in resistance to chemotherapy drugs. Furthermore, we showed that the methylation-dependent drug response mechanism is distinct from activation of TGF-βR signaling, because methylated MED12 potently suppresses p21/WAF1 transcription. Cells defective in MED12 methylation have up-regulated p21 protein, which correlates with poor prognosis in breast cancer patients treated with chemotherapy. Collectively, this study identifies MED12 methylation as a sensor for predicting response to commonly used chemotherapy drugs in human cancers. PMID:26601288

  4. A Study of GRATEFUL MED Use in a Graduate Health Program.

    ERIC Educational Resources Information Center

    Henry, Marcia Klinger

    A study of "Grateful Med," an interface to Medline, was conducted at California State University/Northridge to discover how efficiently students enrolled in graduate-level research methods classes in health sciences and communicative disorders could access Medline using Grateful Med, what the average costs would be, and how frequently students…

  5. Ablation of Coactivator Med1 Switches the Cell Fate of Dental Epithelia to That Generating Hair

    PubMed Central

    Nguyen, Thai; Sakai, Kiyoshi; He, Bing; Fong, Chak; Oda, Yuko

    2014-01-01

    Cell fates are determined by specific transcriptional programs. Here we provide evidence that the transcriptional coactivator, Mediator 1 (Med1), is essential for the cell fate determination of ectodermal epithelia. Conditional deletion of Med1 in vivo converted dental epithelia into epidermal epithelia, causing defects in enamel organ development while promoting hair formation in the incisors. We identified multiple processes by which hairs are generated in Med1 deficient incisors: 1) dental epithelial stem cells lacking Med 1 fail to commit to the dental lineage, 2) Sox2-expressing stem cells extend into the differentiation zone and remain multi-potent due to reduced Notch1 signaling, and 3) epidermal fate is induced by calcium as demonstrated in dental epithelial cell cultures. These results demonstrate that Med1 is a master regulator in adult stem cells to govern epithelial cell fate. PMID:24949995

  6. The inclusion of an online journal in PubMed central - a difficult path.

    PubMed

    Grech, Victor

    2016-01-01

    The indexing of a journal in a prominent database (such as PubMed) is an important imprimatur. Journals accepted for inclusion in PubMed Central (PMC) are automatically indexed in PubMed but must provide the entire contents of their publications as XML-tagged (Extensible Markup Language) data files compliant with PubMed's document type definition (DTD). This paper describes the various attempts that the journal Images in Paediatric Cardiology made in its efforts to convert the journal contents (including all of the extant backlog) to PMC-compliant XML for archiving and indexing in PubMed after the journal was accepted for inclusion by the database. PMID:27244254

  7. Retrieving Clinical Evidence: A Comparison of PubMed and Google Scholar for Quick Clinical Searches

    PubMed Central

    Bejaimal, Shayna AD; Sontrop, Jessica M; Iansavichus, Arthur V; Haynes, R Brian; Weir, Matthew A; Garg, Amit X

    2013-01-01

    Background Physicians frequently search PubMed for information to guide patient care. More recently, Google Scholar has gained popularity as another freely accessible bibliographic database. Objective To compare the performance of searches in PubMed and Google Scholar. Methods We surveyed nephrologists (kidney specialists) and provided each with a unique clinical question derived from 100 renal therapy systematic reviews. Each physician provided the search terms they would type into a bibliographic database to locate evidence to answer the clinical question. We executed each of these searches in PubMed and Google Scholar and compared results for the first 40 records retrieved (equivalent to 2 default search pages in PubMed). We evaluated the recall (proportion of relevant articles found) and precision (ratio of relevant to nonrelevant articles) of the searches performed in PubMed and Google Scholar. Primary studies included in the systematic reviews served as the reference standard for relevant articles. We further documented whether relevant articles were available as free full-texts. Results Compared with PubMed, the average search in Google Scholar retrieved twice as many relevant articles (PubMed: 11%; Google Scholar: 22%; P<.001). Precision was similar in both databases (PubMed: 6%; Google Scholar: 8%; P=.07). Google Scholar provided significantly greater access to free full-text publications (PubMed: 5%; Google Scholar: 14%; P<.001). Conclusions For quick clinical searches, Google Scholar returns twice as many relevant articles as PubMed and provides greater access to free full-text articles. PMID:23948488

  8. Towards a multidisciplinary e-infrastructure for the Mediterranean Supersite Volcanoes (MED-SUV) project

    NASA Astrophysics Data System (ADS)

    Nativi, Stefano; Mathieu, Pierre Philippe; Cossu, Roberto; Santoto, Mattia; Martini, Marcello; Puglisi, Giuseppe

    2014-05-01

    The MED-SUV European project (http://med-suv.eu/) aims to design and implement a multidisciplinary infrastructure for the volcanic risk management life-cycle in southern Italy. The MED-SUV infrastructure will rely upon the improvements of the understanding of geophysical processes underlying the volcanic systems of Vesuvius / Campi Flegrei and Mt. Etna. It will also achieve the integration of existing components, such as monitoring systems and data bases, novel sensors for the measurements of volcanic parameters, and tools for data analysis and process modelling. This effort will contribute to GEOSS (Global Earth Observation System of Systems - http://www.earthobservations.org/geoss.shtml) as one the volcano Supersite recognized by GEO (Group on Earth Observation) -see http://supersites.earthobservations.org/. To achieve its goals, MED-SUV needs an advanced e-infrastructure allowing: (a) heterogeneous data and processing systems to provide and share their resources, and (b) supersite Users to run their workflows and generate significant products. This presentation discusses the general interoperability approach and architecture characterizing the MED-SUV e-infrastructure. The MED-SUV e-infrastructure considered the concepts and solutions adopted by the GEOSS Common Infrastructure (GCI). The architecture requirements and system technologies builds on the experience done by relevant European projects in the framework of GEOSS and ESFRI (e.g. EuroGEOSS, GENESI, GEOWOW). MED-SUV e-infrastructure adopts three-tiers approach distinguishing among: (a) local and distributed Data/Information Providers; (b) the MED-SUV Brokering framework for harmonization and interoperability; (c) the MED-SUV e-collaboration environment for the generation and publication of advanced products. MED-SUV e-infrastructure development considers interoperability with the other two FP7 supersite projects: MARSITE and FUTUREVOLC, as well as EPOS.

  9. Enhancement on spotlight COSMO-SkyMed SAR products

    NASA Astrophysics Data System (ADS)

    Lorusso, R.; Milillo, G.

    2015-10-01

    COSMO-SkyMed (CSK) satellites are providing images with a resolution in the meter regime using the sliding spotlight mode (SL). This is an imaging mode which can obtain better azimuth resolution at the expense of azimuth imaged area than stripmap mode .Spotlight SAR data processing is already an established topic; efficient and accurate solutions in frequency domain have been proposed over the last years. However, the assumptions of these algorithms start to be invalid when applied to high-resolution spotlight SAR data acquired in spaceborne low Earth orbit (LEO) configurations. The assumption of a hyperbolic range history is no longer accurate for sub-metric spatial resolutions due to the satellite curved orbit. Since velocity of a space-borne platform is quite uniform, a simple focusing scheme had been designed in order to handle no straight line trajectory, using both approximated and accurate ω-k focusing kernel. Moreover, when getting close to decimeter resolution (at X-band) other several effects appear; in particular the motion of the satellite during the transmission and reception of the chirp signal deteriorate the impulse response function (IRF), if not properly considered (so called stop-and-go approximation). This paper shows that also CSK SL SAR data, with a resolution close to 1 meter, are not immune to disturbance effects when the stop-and-go approximation is assumed. The ω-k algorithm with satellite curved orbit handling is used to focus CSK spotlight data, and the stop-and-go approximation correction is included in the data processing chain. Experimental results with CSK spotlight data are provided to show quality enhancement on SAR standard focused products.

  10. Connecting the Dots between PubMed Abstracts

    PubMed Central

    Hossain, M. Shahriar; Gresock, Joseph; Edmonds, Yvette; Helm, Richard; Potts, Malcolm; Ramakrishnan, Naren

    2012-01-01

    Background There are now a multitude of articles published in a diversity of journals providing information about genes, proteins, pathways, and diseases. Each article investigates subsets of a biological process, but to gain insight into the functioning of a system as a whole, we must integrate information from multiple publications. Particularly, unraveling relationships between extra-cellular inputs and downstream molecular response mechanisms requires integrating conclusions from diverse publications. Methodology We present an automated approach to biological knowledge discovery from PubMed abstracts, suitable for “connecting the dots” across the literature. We describe a storytelling algorithm that, given a start and end publication, typically with little or no overlap in content, identifies a chain of intermediate publications from one to the other, such that neighboring publications have significant content similarity. The quality of discovered stories is measured using local criteria such as the size of supporting neighborhoods for each link and the strength of individual links connecting publications, as well as global metrics of dispersion. To ensure that the story stays coherent as it meanders from one publication to another, we demonstrate the design of novel coherence and overlap filters for use as post-processing steps. Conclusions We demonstrate the application of our storytelling algorithm to three case studies: i) a many-one study exploring relationships between multiple cellular inputs and a molecule responsible for cell-fate decisions, ii) a many-many study exploring the relationships between multiple cytokines and multiple downstream transcription factors, and iii) a one-to-one study to showcase the ability to recover a cancer related association, viz. the Warburg effect, from past literature. The storytelling pipeline helps narrow down a scientist's focus from several hundreds of thousands of relevant documents to only around a hundred

  11. Aspergillus fumigatus MedA governs adherence, host cell interactions and virulence

    PubMed Central

    Gravelat, Fabrice N.; Ejzykowicz, Daniele E.; Chiang, Lisa Y.; Chabot, Josée C.; Urb, Mirjam; Macdonald, K. Denyese; al-Bader, Nadia; Filler, Scott G.; Sheppard, Donald C.

    2010-01-01

    In medically important fungi, regulatory elements that control development and asexual reproduction often govern the expression of virulence traits. We therefore cloned the Aspergillus fumigatus developmental modifier MedA and characterized its role in conidiation, host cell interactions and virulence. As in the model organism Aspergillus nidulans, disruption of medA in A. fumigatus dramatically reduced conidiation. However, the conidiophore morphology was markedly different between the two species. Further, gene expression analysis suggested that MedA governs conidiation through different pathways in A. fumigatus compared to A. nidulans. The A. fumigatus ΔmedA strain was impaired in biofilm production and adherence to plastic, as well as adherence to pulmonary epithelial cells, endothelial cells and fibronectin in vitro. The ΔmedA strain also had reduced capacity to damage pulmonary epithelial cells, and stimulate pro-inflammatory cytokine mRNA and protein expression. Consistent with these results, the A. fumigatus ΔmedA strain also exhibited reduced virulence in both an invertebrate and a mammalian model of invasive aspergillosis. Collectively these results suggest that the downstream targets of A. fumigatus MedA mediate virulence, and may provide novel therapeutic targets for invasive aspergillosis. PMID:19889083

  12. A Functional Portrait of Med7 and the Mediator Complex in Candida albicans

    PubMed Central

    Tebbji, Faiza; Chen, Yaolin; Richard Albert, Julien; Gunsalus, Kearney T. W.; Kumamoto, Carol A.; Nantel, André; Sellam, Adnane; Whiteway, Malcolm

    2014-01-01

    Mediator is a multi-subunit protein complex that regulates gene expression in eukaryotes by integrating physiological and developmental signals and transmitting them to the general RNA polymerase II machinery. We examined, in the fungal pathogen Candida albicans, a set of conditional alleles of genes encoding Mediator subunits of the head, middle, and tail modules that were found to be essential in the related ascomycete Saccharomyces cerevisiae. Intriguingly, while the Med4, 8, 10, 11, 14, 17, 21 and 22 subunits were essential in both fungi, the structurally highly conserved Med7 subunit was apparently non-essential in C. albicans. While loss of CaMed7 did not lead to loss of viability under normal growth conditions, it dramatically influenced the pathogen's ability to grow in different carbon sources, to form hyphae and biofilms, and to colonize the gastrointestinal tracts of mice. We used epitope tagging and location profiling of the Med7 subunit to examine the distribution of the DNA sites bound by Mediator during growth in either the yeast or the hyphal form, two distinct morphologies characterized by different transcription profiles. We observed a core set of 200 genes bound by Med7 under both conditions; this core set is expanded moderately during yeast growth, but is expanded considerably during hyphal growth, supporting the idea that Mediator binding correlates with changes in transcriptional activity and that this binding is condition specific. Med7 bound not only in the promoter regions of active genes but also within coding regions and at the 3′ ends of genes. By combining genome-wide location profiling, expression analyses and phenotyping, we have identified different Med7p-influenced regulons including genes related to glycolysis and the Filamentous Growth Regulator family. In the absence of Med7, the ribosomal regulon is de-repressed, suggesting Med7 is involved in central aspects of growth control. PMID:25375174

  13. HubMed: a web-based biomedical literature search interface

    PubMed Central

    Eaton, Alfred D.

    2006-01-01

    HubMed is an alternative search interface to the PubMed database of biomedical literature, incorporating external web services and providing functions to improve the efficiency of literature search, browsing and retrieval. Users can create and visualize clusters of related articles, export citation data in multiple formats, receive daily updates of publications in their areas of interest, navigate links to full text and other related resources, retrieve data from formatted bibliography lists, navigate citation links and store annotated metadata for articles of interest. HubMed is freely available at . PMID:16845111

  14. Roles of MED1 in quiescence of hair follicle stem cells and maintenance of normal hair cycling.

    PubMed

    Nakajima, Takeshi; Inui, Shigeki; Fushimi, Tomohiro; Noguchi, Fumihito; Kitagawa, Yutaka; Reddy, Janardan K; Itami, Satoshi

    2013-02-01

    MED1 (mediator complex subunit 1) is expressed by human epidermal keratinocytes and functions as a coactivator of several transcription factors. To elucidate the role of MED1 in keratinocytes, we established keratinocyte-specific Med1-null (Med1(epi-/-)) mice using the K5Cre/LoxP system. Development of the epidermis and appendages of Med1(epi-/-) mice were macroscopically and microscopically normal until the second catagen of the hair cycle. However, the hair cycle of Med1(epi-/-) mice was spontaneously repeated after the second telogen, which does not occur in wild-type (WT) mice. Hair follicles of Med1(epi-/-) mice could not enter anagen after 6 months of age, resulting in sparse pelage hair in older Med1(epi-/-) mice. Interfollicular epidermis (IFE) of Med1(epi-/-) mice was acanthotic and more proliferative than that of WT mice, whereas these findings were less evident in older Med1(epi-/-) mice. Flow cytometric analysis revealed that the numbers of hair follicle bulge stem cells were reduced in Med1(epi-/-) mice from a few months after birth. These results suggest that MED1 has roles in maintaining quiescence of keratinocytes and preventing depletion of the follicular stem cells. PMID:22931914

  15. Breast Cancer Meds Won't Raise Chances of Heart Attack, Stroke, Study Suggests

    MedlinePlus

    ... Breast Cancer Meds Won't Raise Chances of Heart Attack, Stroke, Study Suggests But there was a slightly ... aromatase inhibitors doesn't raise the risk of heart attacks and strokes among breast cancer survivors, a new ...

  16. Automatic annotation of ICD-to-MedDRA mappings with SKOS predicates.

    PubMed

    Declerck, Gunnar; Souvignet, Julien; Rodrigues, Jean-Marie; Jaulent, Marie-Christine

    2014-01-01

    Robust alignments between ICD and MedDRA are essential to enable the secondary use of clinical data for pharmacovigilance research. UMLS makes available ICD-to-MedDRA mappings, but they are only poorly specified, which introduces difficulties when exploited in an automatic way. SKOS vocabulary can help achieve quality and machine-processable mappings. We have developed an algorithm based on several simple rules which annotates automatically ICD-to-MedDRA mappings with SKOS predicates. The method was tested and evaluated on a sample of ICD-10-to MedDRA mappings extracted from UMLS. The algorithm demonstrated satisfying performances, especially for skos:exactMatch properties, which suggests that automatic methods can be used to improve the quality of terminology mappings. PMID:25160341

  17. How Safe Is Condomless Sex When Partner with HIV Takes Meds?

    MedlinePlus

    ... news/fullstory_159830.html How Safe Is Condomless Sex When Partner With HIV Takes Meds? Study suggests ... is highly unlikely among straight couples who have sex without condoms when one partner carries the virus ...

  18. EPA MED-DULUTH'S ECOTOX AND ECO-SSL WEB APPLICATIONS

    EPA Science Inventory

    The ECOTOX (ECOTOXicology Database) system developed by the USEPA, National Health and Environmental Effects Research Laboratory (NHEERL), Mid-Continent Ecology Division in Duluth, MN (MED-Duluth), provides a web browser search interface for locating aquatic and terrestrial toxic...

  19. MedlinePlus FAQ: MedlinePlus and MEDLINE/PubMed

    MedlinePlus

    ... topic. MEDLINE/PubMed: Is a database of professional biomedical literature Is a Web-based, searchable database of ... million article references published in more than 5600 biomedical journals. Can be searched for free Includes links ...

  20. Breast Cancer Meds Won't Raise Chances of Heart Attack, Stroke, Study Suggests

    MedlinePlus

    ... page: https://medlineplus.gov/news/fullstory_158441.html Breast Cancer Meds Won't Raise Chances of Heart Attack, ... the risk of heart attacks and strokes among breast cancer survivors, a new study suggests. However, the researchers ...

  1. Use and reported effectiveness of Tel-Med: a telephone health information system.

    PubMed Central

    Diseker, R A; Michielutte, R; Morrison, V

    1980-01-01

    In January 1977, a Telephone Information System (Tel-Med) was begun in Winston-Salem, North Carolina. A survey was conducted to determine how Tel-Med was meeting the community's need for health information and to see if program objectives were being met. Respondents in 3,005 randomly selected households were interviewed by telephone to determine user characteristics, user motivation, action taken, knowledge and information gained, and system improvements. A key finding indicated that larger percentages of adults with lower income and educational levels were not aware of the service than were the adults in upper income and educational levels. However, income and education are not related to use of Tel-Med among individuals who know of this service. This finding suggests that the poorer and lesser educated would use Tel-Med in a way similar to that of their more fortunate peers if efforts were made to inform them of the service. PMID:7356084

  2. [Use of PubMed to improve evidence-based medicine in routine urological practice].

    PubMed

    Rink, M; Kluth, L A; Shariat, S F; Chun, F K; Fisch, M; Dahm, P

    2013-03-01

    Applying evidence-based medicine in daily clinical practice is the basis of patient-centered medicine and knowledge of accurate literature acquisition skills is necessary for informed clinical decision-making. PubMed is an easy accessible, free bibliographic database comprising over 21 million citations from the medical field, life-science journals and online books. The article summarizes the effective use of PubMed in routine urological clinical practice based on a common case scenario. This article explains the simple use of PubMed to obtain the best search results with the highest evidence. Accurate knowledge about the use of PubMed in routine clinical practice can improve evidence-based medicine and also patient treatment. PMID:23503794

  3. High-Resolution Melting Analysis of MED12 Mutations in Uterine Leiomyomas in Chinese Patients

    PubMed Central

    Wang, Hua; Qian, Hua; Zhou, Ruifang; Jiang, Jun; Ye, Lihua

    2015-01-01

    Objectives: Somatic mutations in mediator complex subunit 12 (MED12) have emerged as a critical genetic change in the development of uterine leiomyomas. Studies, however, have focused largely on cohorts consisting of Caucasian patients. In this study, uterine leiomyomas from Chinese patients were examined for MED12 mutations. In addition, polymerase chain reaction (PCR)-based high-resolution melting analysis (HRMA) was compared with direct sequencing as a potentially more sensitive method for the detection of MED12 mutations. Methods: Tissue samples with the pathologies of uterine leiomyoma (n=181) and other endometrial diseases (n=157) were collected from Chinese patients at the Taizhou People's Hospital and Taizhou Polytechnic College (Taizhou City, China). Genomic DNA was prepared from all samples. Both PCR-based HRMA and PCR-based direct sequencing were used to detect MED12 mutations. Results: PCR-based HRMA and direct sequencing revealed MED12 mutations in 95/181 (52.5%) and 93/181 (51.4%) uterine leiomyomas, respectively. Nearly half of these mutations (46/93) were found in a single codon, codon 131. The coincidence rate between the two methods was 98.9% (179/181) so that no statistically significant difference was evident in the application of the methodologies (χ2=0.011, p=0.916). In addition, MED12 mutations were identified in 1/157 (4.17%) case of other endometrial pathologies by both methods. Conclusions: MED12 mutations were closely associated with the development of uterine leiomyomas, as opposed to other uterine pathologies in Chinese patients, and PCR-based HRMA was found to be a reliable method for the detection of MED12 mutations. PMID:25615570

  4. MED GATA factors promote robust development of the C. elegans endoderm

    PubMed Central

    Maduro, Morris F.; Broitman-Maduro, Gina; Choi, Hailey; Carranza, Francisco; Wu, Allison Chia-Yi; Rifkin, Scott A.

    2015-01-01

    The MED-1,2 GATA factors contribute to specification of E, the progenitor of the C. elegans endoderm, through the genes end-1 and end-3, and in parallel with the maternal factors SKN-1, POP-1 and PAL-1. END-1,3 activate elt-2 and elt-7 to initiate a program of intestinal development, which is maintained by positive autoregulation. Here, we advance the understanding of MED-1,2 in E specification. We find that expression of end-1 and end-3 is greatly reduced in med-1,2(−) embryos. We generated strains in which MED sites have been mutated in end-1 and end-3. Without MED input, gut specification relies primarily on POP-1 and PAL-1. 25% of embryos fail to make intestine, while those that do display abnormal numbers of gut cells due to a delayed and stochastic acquisition of intestine fate. Surviving adults exhibit phenotypes consistent with a primary defect in the intestine. Our results establish that MED-1,2 provide robustness to endoderm specification through end-1 and end-3, and reveal that gut differentiation may be more directly linked to specification than previously appreciated. The results argue against an “all-or-none” description of cell specification, and suggest that activation of tissue-specific master regulators, even when expression of these is maintained by positive autoregulation, does not guarantee proper function of differentiated cells. PMID:25959238

  5. MED23-associated refractory epilepsy successfully treated with the ketogenic diet.

    PubMed

    Lionel, Anath C; Monfared, Nasim; Scherer, Stephen W; Marshall, Christian R; Mercimek-Mahmutoglu, Saadet

    2016-09-01

    We report a new patient with refractory epilepsy associated with a novel pathogenic homozygous MED23 variant. This 7.5-year-old boy from consanguineous parents had infantile onset global developmental delay and refractory epilepsy. He was treated with the ketogenic diet at 2.5 years of age and became seizure free on the first day. He had microcephaly and truncal hypotonia. His brain MRI showed delayed myelination and thin corpus callosum. He was enrolled in a whole exome sequencing research study, which identified a novel, homozygous, likely pathogenic (c.1937A>G; p.Gln646Arg) variant in MED23. MED23 is a regulator of energy homeostasis and glucose production. Liver-specific Med23-knockout mice showed reduced liver gluconeogenesis and lower blood glucose levels compared to control mice. This is the first patient with documented refractory epilepsy caused by a novel homozygous pathogenic variant in MED23 expanding the phenotypic spectrum. Identification of the underlying genetic defect in MED23 sheds light on the possible mechanism of complete response to the ketogenic diet in this child. © 2016 Wiley Periodicals, Inc. PMID:27311965

  6. Two male sibs with severe micrognathia and a missense variant in MED12.

    PubMed

    Prescott, Trine E; Kulseth, Mari Ann; Heimdal, Ketil R; Stadheim, Barbro; Hopp, Einar; Gambin, Tomasz; Coban Akdemir, Zeynep H; Jhangiani, Shalini N; Muzny, Donna M; Gibbs, Richard A; Lupski, James R; Stray-Pedersen, Asbjørg

    2016-08-01

    Missense variants in MED12 cause three partially overlapping dysmorphic X-linked intellectual disability (XLID) syndromes: Lujan-Fryns syndrome (also known as Lujan syndrome), FG syndrome (also known as Opitz-Kaveggia syndrome) and X-linked Ohdo syndrome. We report a family with two severely micrognathic male sibs, a 10½ year old boy and a fetus, in which hemizygosity for a previously unreported missense variant in exon 13 of MED12 (NM_005120.2), c.1862G > A, p.(Arg621Gln) was detected by whole exome sequencing. The affected sibs shared no other rare variant with relevance to the phenotype. X-chromosome inactivation in blood was completely skewed (100:0) in the unaffected heterozygous mother, most likely as a result of preferential inactivation of the X-chromosome harbouring the missense variant in MED12. Neither the unaffected brother nor the unaffected maternal grandfather carried the missense variant in MED12. In the 10½ year old boy, upper airway obstruction secondary to Pierre Robin sequence necessitated a tracheostomy for the first 10 months of life. He has mild to moderate intellectual disability and some dysmorphic features seen in MED12-related syndromes. In addition, he has a horizontal gaze paresis, anomalies of the inner ear, and a cervical block vertebra. This report contributes to the expanding phenotypic range associated with MED12-mutations. PMID:27286923

  7. Software-Enabled Distributed Network Governance: The PopMedNet Experience

    PubMed Central

    Davies, Melanie; Erickson, Kyle; Wyner, Zachary; Malenfant, Jessica; Rosen, Rob; Brown, Jeffrey

    2016-01-01

    Introduction: The expanded availability of electronic health information has led to increased interest in distributed health data research networks. Distributed Research Network Model: The distributed research network model leaves data with and under the control of the data holder. Data holders, network coordinating centers, and researchers have distinct needs and challenges within this model. Software Enabled Governance: PopMedNet: The concerns of network stakeholders are addressed in the design and governance models of the PopMedNet software platform. PopMedNet features include distributed querying, customizable workflows, and auditing and search capabilities. Its flexible role-based access control system enables the enforcement of varying governance policies. Selected Case Studies: Four case studies describe how PopMedNet is used to enforce network governance models. Issues and Challenges: Trust is an essential component of a distributed research network and must be built before data partners may be willing to participate further. The complexity of the PopMedNet system must be managed as networks grow and new data, analytic methods, and querying approaches are developed. Conclusions: The PopMedNet software platform supports a variety of network structures, governance models, and research activities through customizable features designed to meet the needs of network stakeholders. PMID:27141522

  8. Extracting and standardizing medication information in clinical text – the MedEx-UIMA system

    PubMed Central

    Jiang, Min; Wu, Yonghui; Shah, Anushi; Priyanka, Priyanka; Denny, Joshua C.; Xu, Hua

    2014-01-01

    Extraction of medication information embedded in clinical text is important for research using electronic health records (EHRs). However, most of current medication information extraction systems identify drug and signature entities without mapping them to standard representation. In this study, we introduced the open source Java implementation of MedEx, an existing high-performance medication information extraction system, based on the Unstructured Information Management Architecture (UIMA) framework. In addition, we developed new encoding modules in the MedEx-UIMA system, which mapped an extracted drug name/dose/form to both generalized and specific RxNorm concepts and translated drug frequency information to ISO standard. We processed 826 documents by both systems and verified that MedEx-UIMA and MedEx (the Python version) performed similarly by comparing both results. Using two manually annotated test sets that contained 300 drug entries from medication list and 300 drug entries from narrative reports, the MedEx-UIMA system achieved F-measures of 98.5% and 97.5% respectively for encoding drug names to corresponding RxNorm generic drug ingredients, and F-measures of 85.4% and 88.1% respectively for mapping drug names/dose/form to the most specific RxNorm concepts. It also achieved an F-measure of 90.4% for normalizing frequency information to ISO standard. The open source MedEx-UIMA system is freely available online at http://code.google.com/p/medex-uima/. PMID:25954575

  9. The Mars Science Laboratory (MSL) Entry, Descent And Landing Instrumentation (MEDLI): Hardware Performance and Data Reconstruction

    NASA Technical Reports Server (NTRS)

    Little, Alan; Bose, Deepak; Karlgaard, Chris; Munk, Michelle; Kuhl, Chris; Schoenenberger, Mark; Antill, Chuck; Verhappen, Ron; Kutty, Prasad; White, Todd

    2013-01-01

    The Mars Science Laboratory (MSL) Entry, Descent and Landing Instrumentation (MEDLI) hardware was a first-of-its-kind sensor system that gathered temperature and pressure readings on the MSL heatshield during Mars entry on August 6, 2012. MEDLI began as challenging instrumentation problem, and has been a model of collaboration across multiple NASA organizations. After the culmination of almost 6 years of effort, the sensors performed extremely well, collecting data from before atmospheric interface through parachute deploy. This paper will summarize the history of the MEDLI project and hardware development, including key lessons learned that can apply to future instrumentation efforts. MEDLI returned an unprecedented amount of high-quality engineering data from a Mars entry vehicle. We will present the performance of the 3 sensor types: pressure, temperature, and isotherm tracking, as well as the performance of the custom-built sensor support electronics. A key component throughout the MEDLI project has been the ground testing and analysis effort required to understand the returned flight data. Although data analysis is ongoing through 2013, this paper will reveal some of the early findings on the aerothermodynamic environment that MSL encountered at Mars, the response of the heatshield material to that heating environment, and the aerodynamic performance of the entry vehicle. The MEDLI data results promise to challenge our engineering assumptions and revolutionize the way we account for margins in entry vehicle design.

  10. Rapid Estimation of TPH Reduction in Oil-Contaminated Soils Using the MED Method

    SciTech Connect

    Edenborn, H.M.; Zenone, V.A.

    2007-09-01

    Oil-contaminated soil and sludge generated during federal well plugging activities in northwestern Pennsylvania are currently remediated on small landfarm sites in lieu of more expensive landfill disposal. Bioremediation success at these sites in the past has been gauged by the decrease in total petroleum hydrocarbon (TPH) concentrations to less than 10,000 mg/kg measured using EPA Method 418.1. We tested the “molarity of ethanol droplet” (MED) water repellency test as a rapid indicator of TPH concentration in soil at one landfarm near Bradford, PA. MED was estimated by determining the minimum ethanol concentration (0 – 6 M) required to penetrate air-dried and sieved soil samples within 10 sec. TPH in soil was analyzed by rapid fluorometric analysis of methanol soil extracts, which correlated well with EPA Method 1664. Uncontaminated landfarm site soil amended with increasing concentrations of waste oil sludge showed a high correlation between MED and TPH. MED values exceeded the upper limit of 6 M as TPH estimates exceed ca. 25,000 mg/kg. MED and TPH at the land farm were sampled monthly during summer months over two years in a grid pattern that allowed spatial comparisons of site remediation effectiveness. MED and TPH decreased at a constant rate over time and remained highly correlated. Inexpensive alternatives to reagent-grade ethanol gave comparable results. The simple MED approach served as an inexpensive alternative to the routine laboratory analysis of TPH during the monitoring of oily waste bioremediation at this landfarm site.

  11. MED13-dependent signaling from the heart confers leanness by enhancing metabolism in adipose tissue and liver

    PubMed Central

    Baskin, Kedryn K; Grueter, Chad E; Kusminski, Christine M; Holland, William L; Bookout, Angie L; Satapati, Santosh; Kong, Y Megan; Burgess, Shawn C; Malloy, Craig R; Scherer, Philipp E; Newgard, Christopher B; Bassel-Duby, Rhonda; Olson, Eric N

    2014-01-01

    The heart requires a continuous supply of energy but has little capacity for energy storage and thus relies on exogenous metabolic sources. We previously showed that cardiac MED13 modulates systemic energy homeostasis in mice. Here, we sought to define the extra-cardiac tissue(s) that respond to cardiac MED13 signaling. We show that cardiac overexpression of MED13 in transgenic (MED13cTg) mice confers a lean phenotype that is associated with increased lipid uptake, beta-oxidation and mitochondrial content in white adipose tissue (WAT) and liver. Cardiac expression of MED13 decreases metabolic gene expression in the heart but enhances them in WAT. Although exhibiting increased energy expenditure in the fed state, MED13cTg mice metabolically adapt to fasting. Furthermore, MED13cTg hearts oxidize fuel that is readily available, rendering them more efficient in the fed state. Parabiosis experiments in which circulations of wild-type and MED13cTg mice are joined, reveal that circulating factor(s) in MED13cTg mice promote enhanced metabolism and leanness. These findings demonstrate that MED13 acts within the heart to promote systemic energy expenditure in extra-cardiac energy depots and point to an unexplored metabolic communication system between the heart and other tissues. See also: M Nakamura & J Sadoshima (December 2014) PMID:25422356

  12. PosMed: ranking genes and bioresources based on Semantic Web Association Study

    PubMed Central

    Makita, Yuko; Kobayashi, Norio; Yoshida, Yuko; Doi, Koji; Mochizuki, Yoshiki; Nishikata, Koro; Matsushima, Akihiro; Takahashi, Satoshi; Ishii, Manabu; Takatsuki, Terue; Bhatia, Rinki; Khadbaatar, Zolzaya; Watabe, Hajime; Masuya, Hiroshi; Toyoda, Tetsuro

    2013-01-01

    Positional MEDLINE (PosMed; http://biolod.org/PosMed) is a powerful Semantic Web Association Study engine that ranks biomedical resources such as genes, metabolites, diseases and drugs, based on the statistical significance of associations between user-specified phenotypic keywords and resources connected directly or inferentially through a Semantic Web of biological databases such as MEDLINE, OMIM, pathways, co-expressions, molecular interactions and ontology terms. Since 2005, PosMed has long been used for in silico positional cloning studies to infer candidate disease-responsible genes existing within chromosomal intervals. PosMed is redesigned as a workbench to discover possible functional interpretations for numerous genetic variants found from exome sequencing of human disease samples. We also show that the association search engine enhances the value of mouse bioresources because most knockout mouse resources have no phenotypic annotation, but can be associated inferentially to phenotypes via genes and biomedical documents. For this purpose, we established text-mining rules to the biomedical documents by careful human curation work, and created a huge amount of correct linking between genes and documents. PosMed associates any phenotypic keyword to mouse resources with 20 public databases and four original data sets as of May 2013. PMID:23761449

  13. PosMed: Ranking genes and bioresources based on Semantic Web Association Study.

    PubMed

    Makita, Yuko; Kobayashi, Norio; Yoshida, Yuko; Doi, Koji; Mochizuki, Yoshiki; Nishikata, Koro; Matsushima, Akihiro; Takahashi, Satoshi; Ishii, Manabu; Takatsuki, Terue; Bhatia, Rinki; Khadbaatar, Zolzaya; Watabe, Hajime; Masuya, Hiroshi; Toyoda, Tetsuro

    2013-07-01

    Positional MEDLINE (PosMed; http://biolod.org/PosMed) is a powerful Semantic Web Association Study engine that ranks biomedical resources such as genes, metabolites, diseases and drugs, based on the statistical significance of associations between user-specified phenotypic keywords and resources connected directly or inferentially through a Semantic Web of biological databases such as MEDLINE, OMIM, pathways, co-expressions, molecular interactions and ontology terms. Since 2005, PosMed has long been used for in silico positional cloning studies to infer candidate disease-responsible genes existing within chromosomal intervals. PosMed is redesigned as a workbench to discover possible functional interpretations for numerous genetic variants found from exome sequencing of human disease samples. We also show that the association search engine enhances the value of mouse bioresources because most knockout mouse resources have no phenotypic annotation, but can be associated inferentially to phenotypes via genes and biomedical documents. For this purpose, we established text-mining rules to the biomedical documents by careful human curation work, and created a huge amount of correct linking between genes and documents. PosMed associates any phenotypic keyword to mouse resources with 20 public databases and four original data sets as of May 2013. PMID:23761449

  14. Chemical discrimination between dC and 5MedC via their hydroxylamine adducts

    PubMed Central

    Münzel, Martin; Lercher, Lukas; Müller, Markus; Carell, Thomas

    2010-01-01

    The presence of the methylated nucleobase 5MedC in CpG islands is a key factor that determines gene silencing. False methylation patterns are responsible for deteriorated cellular development and are a hallmark of many cancers. Today genes can be sequenced for the content of 5MedC only with the help of the bisulfite reagent, which is based exclusively on chemical reactivity differences established by the additional methyl group. Despite intensive optimization of the bisulfite protocol, the method still has specificity problems. Most importantly ∼95% of the DNA analyte is degraded during the analysis procedure. We discovered that the reagent O-allylhydroxylamine is able to discriminate between dC and 5MedC. The reagent, in contrast to bisulfite, does not exploit reactivity differences but gives directly different reaction products. The reagent forms a stable mutagenic adduct with dC, which can exist in two states (E versus Z). In case of dC the allylhydroxylamine adduct switches into the E-isomeric form, which generates dC to dT transition mutations that can easily be detected by established methods. Significantly, the 5MedC-adduct adopts exclusively the Z-isomeric form, which causes the polymerase to stop. O-allylhydroxylamine does allow differentiation between dC and 5MedC with high accuracy, leading towards a novel and mild chemistry for methylation analysis. PMID:20813757

  15. MET network in PubMed: a text-mined network visualization and curation system

    PubMed Central

    Dai, Hong-Jie; Su, Chu-Hsien; Lai, Po-Ting; Huang, Ming-Siang; Jonnagaddala, Jitendra; Rose Jue, Toni; Rao, Shruti; Chou, Hui-Jou; Milacic, Marija; Singh, Onkar; Syed-Abdul, Shabbir; Hsu, Wen-Lian

    2016-01-01

    Metastasis is the dissemination of a cancer/tumor from one organ to another, and it is the most dangerous stage during cancer progression, causing more than 90% of cancer deaths. Improving the understanding of the complicated cellular mechanisms underlying metastasis requires investigations of the signaling pathways. To this end, we developed a METastasis (MET) network visualization and curation tool to assist metastasis researchers retrieve network information of interest while browsing through the large volume of studies in PubMed. MET can recognize relations among genes, cancers, tissues and organs of metastasis mentioned in the literature through text-mining techniques, and then produce a visualization of all mined relations in a metastasis network. To facilitate the curation process, MET is developed as a browser extension that allows curators to review and edit concepts and relations related to metastasis directly in PubMed. PubMed users can also view the metastatic networks integrated from the large collection of research papers directly through MET. For the BioCreative 2015 interactive track (IAT), a curation task was proposed to curate metastatic networks among PubMed abstracts. Six curators participated in the proposed task and a post-IAT task, curating 963 unique metastatic relations from 174 PubMed abstracts using MET. Database URL: http://btm.tmu.edu.tw/metastasisway PMID:27242035

  16. MET network in PubMed: a text-mined network visualization and curation system.

    PubMed

    Dai, Hong-Jie; Su, Chu-Hsien; Lai, Po-Ting; Huang, Ming-Siang; Jonnagaddala, Jitendra; Rose Jue, Toni; Rao, Shruti; Chou, Hui-Jou; Milacic, Marija; Singh, Onkar; Syed-Abdul, Shabbir; Hsu, Wen-Lian

    2016-01-01

    Metastasis is the dissemination of a cancer/tumor from one organ to another, and it is the most dangerous stage during cancer progression, causing more than 90% of cancer deaths. Improving the understanding of the complicated cellular mechanisms underlying metastasis requires investigations of the signaling pathways. To this end, we developed a METastasis (MET) network visualization and curation tool to assist metastasis researchers retrieve network information of interest while browsing through the large volume of studies in PubMed. MET can recognize relations among genes, cancers, tissues and organs of metastasis mentioned in the literature through text-mining techniques, and then produce a visualization of all mined relations in a metastasis network. To facilitate the curation process, MET is developed as a browser extension that allows curators to review and edit concepts and relations related to metastasis directly in PubMed. PubMed users can also view the metastatic networks integrated from the large collection of research papers directly through MET. For the BioCreative 2015 interactive track (IAT), a curation task was proposed to curate metastatic networks among PubMed abstracts. Six curators participated in the proposed task and a post-IAT task, curating 963 unique metastatic relations from 174 PubMed abstracts using MET.Database URL: http://btm.tmu.edu.tw/metastasisway. PMID:27242035

  17. MedReach: building an Area Health Education Center medical information outreach system for northwest Ohio.

    PubMed

    Steiner, Victoria; Hartmann, Jonathan; Ronau, Theodore

    2002-07-01

    In collaboration with regional partners in northwest Ohio, the Area Health Education Center (AHEC) program at the Medical College of Ohio (MCO) at Toledo is reaching out to underserved areas, helping to provide educational opportunities to health care professionals in these communities. This paper describes the development of MedReach, a medical information outreach system that connects regional AHEC sites to MCO via the Internet. MedReach provides physicians and other health care professionals access and support to search computerized textbooks and databases for current information on medical diagnoses, treatments, and research. A unique aspect of the MedReach project is that users are able to receive personal help with information retrieval by calling or emailing MCO's outreach librarian. Periodically, the AHEC program and the Mulford Library at MCO also sponsor an educational program, titled "Medical Applications of Computers," for regional practitioners. Current feedback on both the medical information outreach system and the educational program has been positive. PMID:12113517

  18. Specific erythroid-lineage defect in mice conditionally deficient for Mediator subunit Med1.

    PubMed

    Stumpf, Melanie; Yue, Xiaojing; Schmitz, Sandra; Luche, Hervé; Reddy, Janardan K; Borggrefe, Tilman

    2010-12-14

    The Mediator complex forms the bridge between transcriptional activators and the RNA polymerase II. Med1 (also known as PBP or TRAP220) is a key component of Mediator that interacts with nuclear hormone receptors and GATA transcription factors. Here, we show dynamic recruitment of GATA-1, TFIIB, Mediator, and RNA polymerase II to the β-globin locus in induced mouse erythroid leukemia cells and in an erythropoietin-inducible hematopoietic progenitor cell line. Using Med1 conditional knockout mice, we demonstrate a specific block in erythroid development but not in myeloid or lymphoid development, highlighted by the complete absence of β-globin gene expression. Thus, Mediator subunit Med1 plays a pivotal role in erythroid development and in β-globin gene activation. PMID:21098667

  19. [MedDRA and its applications in statistical analysis of adverse events].

    PubMed

    Lu, Meng-jie; Liu, Yu-xiu

    2015-11-01

    Safety assessment in clinical trials is dependent on an in-depth analysis of the adverse events to a great extent. However, there are difficulties in summary classification, data management and statistical analysis of the adverse events because of the different expressions on the same adverse events caused by regional, linguistic, ethnic, cultural and other differences. In order to ensure the normative expressions, it's necessary to standardize the terms in recording the adverse events. MedDRA (medical dictionary for regulatory activities) has been widely recommended and applied in the world as a powerful support for the adverse events reporting in clinical trials. In this paper, the development history, applicable scope, hierarchy structure, encoding term selection and standardized query strategies of the MedDRA is introduced. Furthermore, the practical process of adverse events encoding with MedDRA is proposed. Finally, the framework of statistical analysis about adverse events is discussed. PMID:26911031

  20. TeleMed: Wide-area, secure, collaborative object computing with Java and CORBA for healthcare

    SciTech Connect

    Forslund, D.W.; George, J.E.; Gavrilov, E.M.

    1998-12-31

    Distributed computing is becoming commonplace in a variety of industries with healthcare being a particularly important one for society. The authors describe the development and deployment of TeleMed in a few healthcare domains. TeleMed is a 100% Java distributed application build on CORBA and OMG standards enabling the collaboration on the treatment of chronically ill patients in a secure manner over the Internet. These standards enable other systems to work interoperably with TeleMed and provide transparent access to high performance distributed computing to the healthcare domain. The goal of wide scale integration of electronic medical records is a grand-challenge scale problem of global proportions with far-reaching social benefits.

  1. Genomics of the Proteorhodopsin-Containing Marine Flavobacterium Dokdonia sp. Strain MED134▿†

    PubMed Central

    González, José M.; Pinhassi, Jarone; Fernández-Gómez, Beatriz; Coll-Lladó, Montserrat; González-Velázquez, Mónica; Puigbò, Pere; Jaenicke, Sebastian; Gómez-Consarnau, Laura; Fernàndez-Guerra, Antoni; Goesmann, Alexander; Pedrós-Alió, Carlos

    2011-01-01

    Proteorhodopsin phototrophy is expected to have considerable impact on the ecology and biogeochemical roles of marine bacteria. However, the genetic features contributing to the success of proteorhodopsin-containing bacteria remain largely unknown. We investigated the genome of Dokdonia sp. strain MED134 (Bacteroidetes) for features potentially explaining its ability to grow better in light than darkness. MED134 has a relatively high number of peptidases, suggesting that amino acids are the main carbon and nitrogen sources. In addition, MED134 shares with other environmental genomes a reduction in gene copies at the expense of important ones, like membrane transporters, which might be compensated by the presence of the proteorhodopsin gene. The genome analyses suggest Dokdonia sp. MED134 is able to respond to light at least partly due to the presence of a strong flavobacterial consensus promoter sequence for the proteorhodopsin gene. Moreover, Dokdonia sp. MED134 has a complete set of anaplerotic enzymes likely to play a role in the adaptation of the carbon anabolism to the different sources of energy it can use, including light or various organic matter compounds. In addition to promoting growth, proteorhodopsin phototrophy could provide energy for the degradation of complex or recalcitrant organic matter, survival during periods of low nutrients, or uptake of amino acids and peptides at low concentrations. Our analysis suggests that the ability to harness light potentially makes MED134 less dependent on the amount and quality of organic matter or other nutrients. The genomic features reported here may well be among the keys to a successful photoheterotrophic lifestyle. PMID:22003006

  2. Understanding PubMed® user search behavior through log analysis

    PubMed Central

    Islamaj Dogan, Rezarta; Murray, G. Craig; Névéol, Aurélie; Lu, Zhiyong

    2009-01-01

    This article reports on a detailed investigation of PubMed users’ needs and behavior as a step toward improving biomedical information retrieval. PubMed is providing free service to researchers with access to more than 19 million citations for biomedical articles from MEDLINE and life science journals. It is accessed by millions of users each day. Efficient search tools are crucial for biomedical researchers to keep abreast of the biomedical literature relating to their own research. This study provides insight into PubMed users’ needs and their behavior. This investigation was conducted through the analysis of one month of log data, consisting of more than 23 million user sessions and more than 58 million user queries. Multiple aspects of users’ interactions with PubMed are characterized in detail with evidence from these logs. Despite having many features in common with general Web searches, biomedical information searches have unique characteristics that are made evident in this study. PubMed users are more persistent in seeking information and they reformulate queries often. The three most frequent types of search are search by author name, search by gene/protein, and search by disease. Use of abbreviation in queries is very frequent. Factors such as result set size influence users’ decisions. Analysis of characteristics such as these plays a critical role in identifying users’ information needs and their search habits. In turn, such an analysis also provides useful insight for improving biomedical information retrieval. Database URL: http://www.ncbi.nlm.nih.gov/PubMed PMID:20157491

  3. A Computational Protein Phenotype Prediction Approach to Analyze the Deleterious Mutations of Human MED12 Gene.

    PubMed

    Banaganapalli, Babajan; Mohammed, Kaleemuddin; Khan, Imran Ali; Al-Aama, Jumana Y; Elango, Ramu; Shaik, Noor Ahmad

    2016-09-01

    Genetic mutations in MED12, a subunit of Mediator complex are seen in a broad spectrum of human diseases. However, the underlying basis of how these pathogenic mutations elicit protein phenotype changes in terms of 3D structure, stability and protein binding sites remains unknown. Therefore, we aimed to investigate the structural and functional impacts of MED12 mutations, using computational methods as an alternate to traditional in vivo and in vitro approaches. The MED12 gene mutations details and their corresponding clinical associations were collected from different databases and by text-mining. Initially, diverse computational approaches were applied to categorize the different classes of mutations based on their deleterious impact to MED12. Then, protein structures for wild and mutant types built by integrative modeling were analyzed for structural divergence, solvent accessibility, stability, and functional interaction deformities. Finally, this study was able to identify that genetic mutations mapped to exon-2 region, highly conserved LCEWAV and Catenin domains induce biochemically severe amino acid changes which alters the protein phenotype as well as the stability of MED12-CYCC interactions. To better understand the deleterious nature of FS-IDs and Indels, this study asserts the utility of computational screening based on their propensity towards non-sense mediated decay. Current study findings may help to narrow down the number of MED12 mutations to be screened for mediator complex dysfunction associated genetic diseases. This study supports computational methods as a primary filter to verify the plausible impact of pathogenic mutations based on the perspective of evolution, expression and phenotype of proteins. J. Cell. Biochem. 117: 2023-2035, 2016. © 2016 Wiley Periodicals, Inc. PMID:26813965

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

    PubMed Central

    2012-01-01

    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 PubMed interface. It has

  5. PyMedTermino: an open-source generic API for advanced terminology services.

    PubMed

    Lamy, Jean-Baptiste; Venot, Alain; Duclos, Catherine

    2015-01-01

    The integration of terminologies is still a challenging problem in medical informatics research and software applications, due to the high number of heterogeneous terminologies. In this paper, we present a generic API (Application Programming Interface) for a multi-terminology multilingual terminology service, and PyMedTermino, its open-source implementation in Python with 5 terminological resources (ICD10, SNOMED CT, MedDRA, CDF, VCM iconic language) and the UMLS compendium. This service has been designed for research and educational purpose. It offers various advanced functionalities rarely present in terminology services. PMID:25991291

  6. Determining correspondences between high-frequency MedDRA concepts and SNOMED: a case study

    PubMed Central

    2010-01-01

    Background The Systematic Nomenclature of Medicine Clinical Terms (SNOMED CT) is being advocated as the foundation for encoding clinical documentation. While the electronic medical record is likely to play a critical role in pharmacovigilance - the detection of adverse events due to medications - classification and reporting of Adverse Events is currently based on the Medical Dictionary of Regulatory Activities (MedDRA). Complete and high-quality MedDRA-to-SNOMED CT mappings can therefore facilitate pharmacovigilance. The existing mappings, as determined through the Unified Medical Language System (UMLS), are partial, and record only one-to-one correspondences even though SNOMED CT can be used compositionally. Efforts to map previously unmapped MedDRA concepts would be most productive if focused on concepts that occur frequently in actual adverse event data. We aimed to identify aspects of MedDRA that complicate mapping to SNOMED CT, determine pattern in unmapped high-frequency MedDRA concepts, and to identify types of integration errors in the mapping of MedDRA to UMLS. Methods Using one years' data from the US Federal Drug Administrations Adverse Event Reporting System, we identified MedDRA preferred terms that collectively accounted for 95% of both Adverse Events and Therapeutic Indications records. After eliminating those already mapping to SNOMED CT, we attempted to map the remaining 645 Adverse-Event and 141 Therapeutic-Indications preferred terms with software assistance. Results All but 46 Adverse-Event and 7 Therapeutic-Indications preferred terms could be composed using SNOMED CT concepts: none of these required more than 3 SNOMED CT concepts to compose. We describe the common composition patterns in the paper. About 30% of both Adverse-Event and Therapeutic-Indications Preferred Terms corresponded to single SNOMED CT concepts: the correspondence was detectable by human inspection but had been missed during the integration process, which had created

  7. Can We CanMEDS? Intangible Learning Through Tangible Simulation Case Development.

    PubMed

    Alani, Sabrina; Black, Holly; Harty, Chris; Murphy, Justin; Whalen, Desmond; Williams, Kerry-Lynn

    2016-01-01

    The Royal College CanMEDS framework has become a guide for medical school curricula. This framework aims to improve patient care by identifying and explaining seven key roles that physicians must fulfill in order to deliver high-quality healthcare to their patients. While medical schools incorporate these roles in their teaching processes, students can also apply them outside the classroom. Here, we describe a unique model developed at Memorial University of Newfoundland's Tuckamore Simulation Research Collaborative (TSRC), where students develop simulation cases with the guidance of expert mentors and apply the Royal College CanMEDS framework to writing clinical simulations. PMID:27555983

  8. Can We CanMEDS? Intangible Learning Through Tangible Simulation Case Development

    PubMed Central

    Alani, Sabrina; Black, Holly; Harty, Chris; Murphy, Justin; Williams, Kerry-Lynn

    2016-01-01

    The Royal College CanMEDS framework has become a guide for medical school curricula. This framework aims to improve patient care by identifying and explaining seven key roles that physicians must fulfill in order to deliver high-quality healthcare to their patients. While medical schools incorporate these roles in their teaching processes, students can also apply them outside the classroom. Here, we describe a unique model developed at Memorial University of Newfoundland’s Tuckamore Simulation Research Collaborative (TSRC), where students develop simulation cases with the guidance of expert mentors and apply the Royal College CanMEDS framework to writing clinical simulations. PMID:27555983

  9. A Search Engine to Access PubMed Monolingual Subsets: Proof of Concept and Evaluation in French

    PubMed Central

    Schuers, Matthieu; Soualmia, Lina Fatima; Grosjean, Julien; Kerdelhué, Gaétan; Kergourlay, Ivan; Dahamna, Badisse; Darmoni, Stéfan Jacques

    2014-01-01

    Background PubMed contains numerous articles in languages other than English. However, existing solutions to access these articles in the language in which they were written remain unconvincing. Objective The aim of this study was to propose a practical search engine, called Multilingual PubMed, which will permit access to a PubMed subset in 1 language and to evaluate the precision and coverage for the French version (Multilingual PubMed-French). Methods To create this tool, translations of MeSH were enriched (eg, adding synonyms and translations in French) and integrated into a terminology portal. PubMed subsets in several European languages were also added to our database using a dedicated parser. The response time for the generic semantic search engine was evaluated for simple queries. BabelMeSH, Multilingual PubMed-French, and 3 different PubMed strategies were compared by searching for literature in French. Precision and coverage were measured for 20 randomly selected queries. The results were evaluated as relevant to title and abstract, the evaluator being blind to search strategy. Results More than 650,000 PubMed citations in French were integrated into the Multilingual PubMed-French information system. The response times were all below the threshold defined for usability (2 seconds). Two search strategies (Multilingual PubMed-French and 1 PubMed strategy) showed high precision (0.93 and 0.97, respectively), but coverage was 4 times higher for Multilingual PubMed-French. Conclusions It is now possible to freely access biomedical literature using a practical search tool in French. This tool will be of particular interest for health professionals and other end users who do not read or query sufficiently in English. The information system is theoretically well suited to expand the approach to other European languages, such as German, Spanish, Norwegian, and Portuguese. PMID:25448528

  10. MED15, encoding a subunit of the mediator complex, is overexpressed at high frequency in castration-resistant prostate cancer.

    PubMed

    Shaikhibrahim, Zaki; Menon, Roopika; Braun, Martin; Offermann, Anne; Queisser, Angela; Boehm, Diana; Vogel, Wenzel; Rüenauver, Kerstin; Ruiz, Christian; Zellweger, Tobias; Svensson, Maria; Andren, Ove; Kristiansen, Glen; Wernert, Nicolas; Bubendorf, Lukas; Kirfel, Jutta; Biskup, Saskia; Perner, Sven

    2014-07-01

    The mediator complex is an evolutionary conserved key regulator of transcription of protein-coding genes and an integrative hub for diverse signaling pathways. In this study, we investigated whether the mediator subunit MED15 is implicated in castration-resistant prostate cancer (CRPC). MED15 expression and copy number/rearrangement status were assessed by immunohistochemistry (IHC) and fluorescence in situ hybridization (FISH), respectively on 718 prostate cancer (PCa) specimens and sequenced by Sanger on a subset. Furthermore, SMAD3 phosphorylation, androgen receptor (AR) and proliferation markers were evaluated by IHC. In PCa cells, siRNA/shRNA knockdown of MED15 was followed by proliferation assays with/without dihydrotestosterone (DHT), and treatments with recombinant TGF-β3. Our results show that MED15 is overexpressed in 76% of distant metastatic CRPC (CRPC(MET) ) and 70% of local-recurrent CRPC (CRPC(LOC) ), in contrast to low frequencies in androgen-sensitive PCa, and no expression in benign prostatic tissue. Furthermore, MED15 overexpression correlates with worse clinical outcome thus defining a highly lethal phenotype. Moreover, TGF-β signaling activation associates with MED15 overexpression in PCa tissues, and leads to increased expression of MED15 in PCa cells. MED15 knockdown effects phosphorylation and shuttling of p-SMAD3 to the nucleus as well as TGF-β-enhanced proliferation. In PCa tissues, MED15 overexpression associates with AR overexpression/amplification and correlates with high proliferative activity. MED15 knockdown decreases both androgen-dependent and -independent proliferation in PCa cells. Taken together, these findings implicate MED15 in CRPC, and as MED15 is evolutionary conserved, it is likely to emerge as a lethal phenotype in other therapeutic-resistant diseases, and not restricted to our disease model. PMID:24374838

  11. Mediator subunit MED1 is a T3-dependent and T3-independent coactivator on the thyrotropin β gene promoter

    SciTech Connect

    Matsui, Keiji; Oda, Kasumi; Mizuta, Shumpei; Ishino, Ruri; Urahama, Norinaga; Hasegawa, Natsumi; Roeder, Robert G.; Ito, Mitsuhiro

    2013-10-11

    Highlights: •MED1 is a bona fide T3-dependent coactivator on TSHB promoter. •Mice with LxxLL-mutant MED1 have attenuated TSHβ mRNA and thyroid hormone levels. •MED1 activates TSHB promoter T3-dependently in cultured cells. •T3-dependent MED1 action is enhanced when SRC1/SRC2 or HDAC2 is downregulated. •MED1 is also a T3-independent GATA2/Pit1 coactivator on TSHB promoter. -- Abstract: The MED1 subunit of the Mediator transcriptional coregulator complex is a nuclear receptor-specific coactivator. A negative feedback mechanism of thyroid-stimulating hormone (TSH, or thyrotropin) expression in the thyrotroph in the presence of triiodothyronine (T3) is employed by liganded thyroid hormone receptor β (TRβ) on the TSHβ gene promoter, where conventional histone-modifying coactivators act as corepressors. We now provide evidence that MED1 is a ligand-dependent positive cofactor on this promoter. TSHβ gene transcription was attenuated in MED1 mutant mice in which the nuclear receptor-binding ability of MED1 was specifically disrupted. MED1 stimulated GATA2- and Pit1-mediated TSHβ gene promoter activity in a ligand-independent manner in cultured cells. MED1 also stimulated transcription from the TSHβ gene promoter in a T3-dependent manner. The transcription was further enhanced when the T3-dependent corepressors SRC1, SRC2, and HDAC2 were downregulated. Hence, MED1 is a T3-dependent and -independent coactivator on the TSHβ gene promoter.

  12. The Reliability of Encounter Cards to Assess the CanMEDs Roles

    ERIC Educational Resources Information Center

    Sherbino, Jonathan; Kulasegaram, Kulamakan; Worster, Andrew; Norman, Geoffrey R.

    2013-01-01

    The purpose of this study was to determine the reliability of a computer-based encounter card (EC) to assess medical students during an emergency medicine rotation. From April 2011 to March 2012, multiple physicians assessed an entire medical school class during their emergency medicine rotation using the CanMEDS framework. At the end of an…

  13. Risk Factors for Bladder Cancer: Challenges of Conducting a Literature Search Using PubMed

    PubMed Central

    Joshi, Ashish; Preslan, Elicia

    2011-01-01

    The objective of this study was to assess the risk factors for bladder cancer using PubMed articles from January 2000 to December 2009. The study also aimed to describe the challenges encountered in the methodology of a literature search for bladder cancer risk factors using PubMed. Twenty-six categories of risk factors for bladder cancer were identified using the National Cancer Institute Web site and the Medical Subject Headings (MeSH) Web site. A total of 1,338 PubMed searches were run using the term “urinary bladder cancer” and a risk factor term (e.g., “cigarette smoking”) and were screened to identify 260 articles for final analysis. The search strategy had an overall precision of 3.42 percent, relative recall of 12.64 percent, and an F -measure of 5.39 percent. Although search terms derived from MeSH had the highest overall precision and recall, the differences did not reach significance, which indicates that for generalized, free-text searches of the PubMed database, the searchers' own terms are generally as effective as MeSH terms. PMID:21464862

  14. Multi-lingual search engine to access PubMed monolingual subsets: a feasibility study.

    PubMed

    Darmoni, Stéfan J; Soualmia, Lina F; Griffon, Nicolas; Grosjean, Julien; Kerdelhué, Gaétan; Kergourlay, Ivan; Dahamna, Badisse

    2013-01-01

    PubMed contains many articles in languages other than English but it is difficult to find them using the English version of the Medical Subject Headings (MeSH) Thesaurus. The aim of this work is to propose a tool allowing access to a PubMed subset in one language, and to evaluate its performance. Translations of MeSH were enriched and gathered in the information system. PubMed subsets in main European languages were also added in our database, using a dedicated parser. The CISMeF generic semantic search engine was evaluated on the response time for simple queries. MeSH descriptors are currently available in 11 languages in the information system. All the 654,000 PubMed citations in French were integrated into CISMeF database. None of the response times exceed the threshold defined for usability (2 seconds). It is now possible to freely access biomedical literature in French using a tool in French; health professionals and lay people with a low English language may find it useful. It will be expended to several European languages: German, Spanish, Norwegian and Portuguese. PMID:23920740

  15. What Supervisors Say in Their Feedback: Construction of CanMEDS Roles in Workplace Settings

    ERIC Educational Resources Information Center

    Renting, Nienke; Dornan, Tim; Gans, Rijk O. B.; Borleffs, Jan C. C.; Cohen-Schotanus, Janke; Jaarsma, A. Debbie C.

    2016-01-01

    The CanMEDS framework has been widely adopted in residency education and feedback processes are guided by it. It is, however, only one of many influences on what is actually discussed in feedback. The sociohistorical culture of medicine and individual supervisors' contexts, experiences and beliefs are also influential. Our aim was to find how…

  16. Effect of dinotefuran on Bemisia tabaci (MED whitefly) and Amblyseius swirskii, 2016

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Bemisia tabaci is a polyphagous pest known to feed upon over 900 plant taxa, and is an effective vector of more than 100 plant damaging viruses. Among different biotypes of this cryptic species complex, MEAM1 and MED whitefly are the two most destructive members posing threats of several crops of ec...

  17. Current Status of the Matson Evaluation of Drug Side Effects (MEDS)

    ERIC Educational Resources Information Center

    Matson, Johnny L.; Cervantes, Paige E.

    2013-01-01

    The Matson Evaluation of Drug Side Effects (MEDS) is currently the best established and most researched measure of drug side effects in the intellectual disability (ID) literature. Initial research was conducted on its psychometric properties such as reliability and validity. More recent research studies have used the measure to determine the…

  18. Baclofen overdose from possible intrinsic malfunction of SynchroMed II pump.

    PubMed

    Davanzo, Justin R; Rizk, Elias

    2015-08-01

    This is a case report illustrating an overdose of baclofen in a 10-year-old boy due to a likely malfunction of a SynchroMed II pump. This ultimately necessitated a pump replacement. One-year follow-up showed no further incidents of baclofen overdose, with multiple pump refills. PMID:25978532

  19. Access to data: comparing AccessMed with Query by Review.

    PubMed Central

    Hripcsak, G; Allen, B; Cimino, J J; Lee, R

    1996-01-01

    OBJECTIVE: To evaluate the performance of tools for authoring patient database queries. DESIGN: Query by Review, a tool that exploits the training that users have undergone to master a result review system, was compared with AccessMed, a vocabulary browser that supports lexical matching and the traversal of hierarchical and semantic links. Seven subjects (Medical Logic Module authors) were asked to use both tools to gather the vocabulary terms necessary to perform each of eight laboratory queries. MEASUREMENTS: The proportion of queries that were correct; intersubject agreement. RESULTS: Query by Review had better performance than AccessMed (38% correct queries versus 18%, p = 0.002), but both figures were low. Poor intersubject agreement (28% for Query by Review and 21% for AccessMed) corroborated the relatively low performance. Subjects appeared to have trouble distinguishing laboratory tests from laboratory batteries, picking terms relevant to the particular data type required, and using classes in the vocabulary's hierarchy. CONCLUSION: Query by Review, with its more constrained user interface, performed somewhat better than AccessMed, a more general tool. Neither tool achieved adequate performance, however, which points to the difficulty of formulating a query for a clinical database and the need for further work. PMID:8816352

  20. Flower Power: The Armoured Expert in the CanMEDS Competency Framework?

    ERIC Educational Resources Information Center

    Whitehead, Cynthia R.; Austin, Zubin; Hodges, Brian D.

    2011-01-01

    Competency frameworks based on roles definitions are currently being used extensively in health professions education internationally. One of the most successful and widely used models is the CanMEDS Roles Framework. The medical literature has raised questions about both the theoretical underpinnings and the practical application of outcomes-based…

  1. Impact of Curricular Reforms on Educational Philosophy Courses in M.Ed Programmes

    ERIC Educational Resources Information Center

    Gafoor, K. Abdul; Remia, K. R.

    2014-01-01

    In the context of Vision of Teacher Education envisaged in National Curriculum Framework for Teacher Education, this study probes "Do M.Ed programmes provide for the prerequisites of educational philosophy for teacher educators?" and "whether the syllabi following credit and non credit pattern vary in their coverage of content of…

  2. Medline/PubMed revisited: new, semantic tools to explore the biomedical literature.

    PubMed

    Giglia, E

    2009-06-01

    The aim of this contribution was to present some new search engines developed upon the logic of the semantic Web to explore the worldwide known Medline database in a way alternative to the common PubMed interface, clustering the results and allowing a different search. PMID:19532114

  3. A Quantitative Content Analysis of Mercer University MEd, EdS, and Doctoral Theses

    ERIC Educational Resources Information Center

    Randolph, Justus J.; Gaiek, Lura S.; White, Torian A.; Slappey, Lisa A.; Chastain, Andrea; Harris, Rose Prejean

    2010-01-01

    Quantitative content analysis of a body of research not only helps budding researchers understand the culture, language, and expectations of scholarship, it helps identify deficiencies and inform policy and practice. Because of these benefits, an analysis of a census of 980 Mercer University MEd, EdS, and doctoral theses was conducted. Each thesis…

  4. BabelMeSH2 and PICO Linguist2: combined language search for MEDLINE/PubMed.

    PubMed

    Liu, Fang; Fontelo, Paul; Ackerman, Michael

    2007-01-01

    BabelMeSH2 is a transparent interface for searching MEDLINE/PubMed in one or a combination of nine currently supported languages. The search algorithm automatically detects mix language entries, finds the English equivalent, and retrieves the relevant PubMed citations. We believe this is the first search application that allows mixed language entries. PMID:18694134

  5. MED29, a component of the Mediator complex, possesses both oncogenic and tumor suppressive characteristics in pancreatic cancer

    PubMed Central

    Kuuselo, Riina; Savinainen, Kimmo; Sandström, Saana; Autio, Reija; Kallioniemi, Anne

    2011-01-01

    Mediator complex subunit 29 (MED29) is part of a large multiprotein coactivator complex that mediates regulatory signals from gene-specific activators to general transcription machinery in RNA polymerase II mediated transcription. We previously found that MED29 is amplified and overexpressed in pancreatic cancer and that MED29 silencing leads to decreased cell survival in PANC-1 pancreatic cancer cells with high MED29 expression. Here we further demonstrate decreased migration, invasion and colony formation in PANC-1 cells after MED29 silencing. Unexpectedly, lentiviral-based overexpression of MED29 led to decreased proliferation of NIH/3T3 cells as well as MIAPaCa-2 pancreatic cancer cells with low endogenous expression. More importantly, subcutaneous inoculation of the MED29-transduced pancreatic cancer cells into immuno-compromised mice resulted in dramatic tumor suppression. The mock-control mice developed large tumors, whereas the animals with MED29-xenografts showed both decreased tumor incidence and a major reduction in tumor size. Gene expression analysis in the MED29-transduced pancreatic cancer cells revealed differential expression of genes involved in control of cell cycle and cell division. The observed gene expression changes are expected to modulate the cell cycle in a way that leads to reduced cell growth, explaining the in vivo tumor suppressive phenotype. Taken together, these data implicate MED29 as an important regulator of key cellular functions in pancreatic cancer with both oncogenic and tumor suppressive characteristics. Such a dualistic role appears to be more common than previously thought and is likely to depend on the genetic background of the cancer cells and their surrounding environment. PMID:21225629

  6. GRATEFUL MED

    EPA Science Inventory

    Since the early 1970s, the National Library of Medicine (NLM) has made searching the biomedical literature faster and easier by providing online information on NLMs family of databases -- (currently 40 online databases). MEDLINE?, NLMs premier database, has over 8.5 million citat...

  7. Txt2MEDLINE: text-messaging access to MEDLINE/PubMed.

    PubMed

    Fontelo, Paul; Liu, Fang; Muin, Michael; Tolentino, Herman; Ackerman, Michael

    2006-01-01

    We developed a text messaging system for processing incoming Short Message Service (SMS) queries, retrieving medical journal citations from MEDLINE/PubMed and sending them back to the user in the text message format. A database of medical terminology abbreviations and acronyms was developed to reduce the size of text in journal citations and abstracts because of the 160-character per message limit of text messages. Queries may be sent as full-length terms or abbreviations. An algorithm transforms the citations into the SMS format. An abbreviated TBL (the bottom-line) summary instead of the full abstract is sent to the mobile device to shorten the resulting text. The system decreases citation size by 77.5+/-7.9%. Txt2MEDLINE provides physicians and healthcare personnel another rapid and convenient method for searching MEDLINE/PubMed through wireless mobile devices. It is accessible from any location worldwide where GSM wireless service is available. PMID:17238343

  8. Studying PubMed usages in the field for complex problem solving: Implications for tool design.

    PubMed

    Mirel, Barbara; Song, Jean; Tonks, Jennifer Steiner; Meng, Fan; Xuan, Weijian; Ameziane, Rafiqa

    2013-05-01

    Many recent studies on MEDLINE-based information seeking have shed light on scientists' behaviors and associated tool innovations that may improve efficiency and effectiveness. Few if any studies, however, examine scientists' problem-solving uses of PubMed in actual contexts of work and corresponding needs for better tool support. Addressing this gap, we conducted a field study of novice scientists (14 upper level undergraduate majors in molecular biology) as they engaged in a problem solving activity with PubMed in a laboratory setting. Findings reveal many common stages and patterns of information seeking across users as well as variations, especially variations in cognitive search styles. Based on findings, we suggest tool improvements that both confirm and qualify many results found in other recent studies. Our findings highlight the need to use results from context-rich studies to inform decisions in tool design about when to offer improved features to users. PMID:24376375

  9. COSMO-SkyMed Spotlight interometry over rural areas: the Slumgullion landslide in Colorado, USA

    USGS Publications Warehouse

    Milillo, Pietro; Fielding, Eric J.; Schulz, William H.; Delbridge, Brent; Burgmann, Roland

    2014-01-01

    In the last 7 years, spaceborne synthetic aperture radar (SAR) data with resolution of better than a meter acquired by satellites in spotlight mode offered an unprecedented improvement in SAR interferometry (InSAR). Most attention has been focused on monitoring urban areas and man-made infrastructure exploiting geometric accuracy, stability, and phase fidelity of the spotlight mode. In this paper, we explore the potential application of the COSMO-SkyMed® Spotlight mode to rural areas where decorrelation is substantial and rapidly increases with time. We focus on the rapid repeat times of as short as one day possible with the COSMO-SkyMed® constellation. We further present a qualitative analysis of spotlight interferometry over the Slumgullion landslide in southwest Colorado, which moves at rates of more than 1 cm/day.

  10. Improvements on the MedNet Broadband Network from the viewpoint of tomographic studies

    NASA Astrophysics Data System (ADS)

    Martínez, M. Dolores; Lana, Xavier; Badal, José; Canas, José A.

    Our work aims to provide a methodology to assess path coverage of a domain from a tomographic viewpoint, and for the design of an improved or new seismic network. This methodology permits different simulations through a rigorous procedure based on both mathematical and seismological aspects. In this sense, some concepts of mathematical information theory and Monte Carlo methods have been combined with the aim of improving the epicentre-station path coverage offered by the MedNet broadband seismic network in the Mediterranean area for a surface wave tomography problem. The best path coverage is obtained without the constraint of including locations of existing stations. Nevertheless, even in the case of a network already installed over a region, as is the case of MedNet, our technique allows new station sites to be assessed since, it predicts improvements in the path coverage.

  11. MED-EL Cochlear Implants: State of the Art and a Glimpse Into the Future

    PubMed Central

    Hochmair, Ingeborg; Nopp, Peter; Jolly, Claude; Schmidt, Marcus; Schößer, Hansjörg; Garnham, Carolyn; Anderson, Ilona

    2006-01-01

    Cochlear implantation is an accepted treatment method for adults and children with severe to profound hearing loss. Confidence in technology has led to changes in individuals who can receive a cochlear implant and changes in expected benefit with a cochlear implant. This article describes the research and development activities at MED-EL, which make possible the implementation of new speech-coding strategies as well as the application of acoustic and electric stimulation via a combined speech processor in MED-EL devices. Research on benefits from bilateral cochlear implantation and electric-acoustic stimulation are also reviewed. Finally, the potential of drug delivery systems is considered as a way to improve cochlear implant outcomes, and results from preliminary evaluations of a hybrid cochlear implant system with drug delivery capabilities are reported. PMID:17172548

  12. Research on Interactive Knowledge-Based Indexing: The MedIndEx Prototype

    PubMed Central

    Humphrey, Susanne M.

    1989-01-01

    The general purpose of the MedIndEx (Medical Indexing Expert) Project at the National Library of Medicine (NLM) is to design, develop, and test interactive knowledge-based systems for computer-assisted indexing of literature in the MEDLINE® database using terms from the MeSH® (Medical Subject Headings) thesaurus. In conventional MEDLINE indexing, although indexers enter MeSH descriptors at computer terminals, they consult the thesaurus, indexing manual, and other tools in published form. In the MedIndEx research prototype, the thesaurus and indexing rules are incorporated into a computerized knowledge base (KB) which provides specific assistance not possible in the conventional indexing system. We expect such a system, which combines principles and methods of artificial intelligence and information retrieval, will facilitate expert indexing that takes place at NLM.

  13. Studying PubMed usages in the field for complex problem solving: Implications for tool design

    PubMed Central

    Song, Jean; Tonks, Jennifer Steiner; Meng, Fan; Xuan, Weijian; Ameziane, Rafiqa

    2012-01-01

    Many recent studies on MEDLINE-based information seeking have shed light on scientists’ behaviors and associated tool innovations that may improve efficiency and effectiveness. Few if any studies, however, examine scientists’ problem-solving uses of PubMed in actual contexts of work and corresponding needs for better tool support. Addressing this gap, we conducted a field study of novice scientists (14 upper level undergraduate majors in molecular biology) as they engaged in a problem solving activity with PubMed in a laboratory setting. Findings reveal many common stages and patterns of information seeking across users as well as variations, especially variations in cognitive search styles. Based on findings, we suggest tool improvements that both confirm and qualify many results found in other recent studies. Our findings highlight the need to use results from context-rich studies to inform decisions in tool design about when to offer improved features to users. PMID:24376375

  14. MedMon: securing medical devices through wireless monitoring and anomaly detection.

    PubMed

    Zhang, Meng; Raghunathan, Anand; Jha, Niraj K

    2013-12-01

    Rapid advances in personal healthcare systems based on implantable and wearable medical devices promise to greatly improve the quality of diagnosis and treatment for a range of medical conditions. However, the increasing programmability and wireless connectivity of medical devices also open up opportunities for malicious attackers. Unfortunately, implantable/wearable medical devices come with extreme size and power constraints, and unique usage models, making it infeasible to simply borrow conventional security solutions such as cryptography. We propose a general framework for securing medical devices based on wireless channel monitoring and anomaly detection. Our proposal is based on a medical security monitor (MedMon) that snoops on all the radio-frequency wireless communications to/from medical devices and uses multi-layered anomaly detection to identify potentially malicious transactions. Upon detection of a malicious transaction, MedMon takes appropriate response actions, which could range from passive (notifying the user) to active (jamming the packets so that they do not reach the medical device). A key benefit of MedMon is that it is applicable to existing medical devices that are in use by patients, with no hardware or software modifications to them. Consequently, it also leads to zero power overheads on these devices. We demonstrate the feasibility of our proposal by developing a prototype implementation for an insulin delivery system using off-the-shelf components (USRP software-defined radio). We evaluate its effectiveness under several attack scenarios. Our results show that MedMon can detect virtually all naive attacks and a large fraction of more sophisticated attacks, suggesting that it is an effective approach to enhancing the security of medical devices. PMID:24473551

  15. Medical informatics on the Internet: creating the sci.med. informatics newsgroup.

    PubMed

    Zakaria, A M; Sittig, D F

    1995-01-01

    A Usenet newsgroup, sci.med.informatics, has been created to serve as an international electronic forum for discussion of issues related to medical informatics. The creation process follows a set of administrative rules set out by the Usenet administration on the Internet and consists of five steps: 1) informal discussion, 2) request for formal discussion, 3) formal discussion, 4) voting, and 5) posting of results. The newsgroup can be accessed using any news reader via the Internet. PMID:7583645

  16. Improving Performance through Motivation: Teaching Biology Pre-Med Students Physics

    NASA Astrophysics Data System (ADS)

    Gregg, Elena

    2013-03-01

    Several major factors which affect students' learning are assessed (curricula, different teaching approaches, assessment methods, engagement, and motivation). Direct connection between motivation, attitudes, self-confidence and achievement was established. It was demonstrated that improvement of motivation and self-confidence among students (particularly females, minorities and low achievers) is essential. Effectiveness of different instructional methods and motivational approaches was analyzed and evaluated in algebra-based Physics course for Biology pre-med undergraduate students.

  17. [Application analysis of adverse drug reaction terminology WHOART and MedDRA].

    PubMed

    Liu, Jing; Xie, Yan-ming; Gai, Guo-zhong; Liao, Xing

    2015-12-01

    Drug safety has always been a global focus. Discovery and accurate information acquisition of adverse drug reaction have been the most crucial concern. Terminology of adverse drug reaction makes adverse reaction medical report meaningful, standardized and accurate. This paper discussed the domestic use of the terminology WHOART and MedDRA in terms of content, structure, and application situation. It also analysed the differences between the two terminologies and discusses the future trend of application in our country PMID:27245013

  18. TeleMedMail: free software to facilitate telemedicine in developing countries.

    PubMed

    Fraser, H S; Jazayeri, D; Bannach, L; Szolovits, P; McGrath, S J

    2001-01-01

    Telemedicine offers the potential to alleviate the severe shortage of medical specialists in developing countries. However lack of equipment and poor network connections usually rule out video-conferencing systems. This paper describes a software application to facilitate store-and-forward telemedicine by email of images from digital cameras. TeleMedMail is written in Java and allows structured text entry, image processing, image and data compression, and data encryption. The design, implementation, and initial evaluation are described. PMID:11604848

  19. Teaching PubMed in cyberspace: the development of a self-learning package.

    PubMed

    King, Samuel; Kaplan, Richard; MacDonald, Kathleen

    2008-01-01

    This article discusses the development of a series of online modules for learning the PubMed version of MEDLINE. Funded by a National Library of Medicine grant and targeted initially to physician assistants practicing in New Hampshire, the project is approved for CE credit nationally by the American Association of Physician Assistants. The development of the project is described, the tutorial modules are reviewed, and issues encountered with technology and human factors are discussed and evaluated. PMID:19042708

  20. Somatic mutational analysis of MED12 exon 2 in uterine leiomyomas of Iranian women

    PubMed Central

    Shahbazi, Shirin; Fatahi, Neda; Amini-Moghaddam, Soheila

    2015-01-01

    Uterine leiomyomas are steroid-hormone dependent tumors of myometrial smooth muscle cells that affect numerous women throughout the world. Based on previous studies, we evaluated the mutations of MED12 gene which encodes a co-activator protein involved in transcription regulation of the vast majority of RNA polymerase II-dependent genes. Exon 2 of MED12 gene was genotyped by PCR-sequencing method. To determine the proportion of mutation-containing transcripts, RNA was extracted from the tissue samples and the corresponding amplified cDNA was sequenced. We observed 11 mutation positive lesions, 7 of them were located in codon 44. The c.131G>A was found to be the most common somatic mutation in this study. Our investigation also demonstrated two unreported mutations , one large deletion and one insertion. cDNA analyzing revealed that the mutated transcripts were predominantly expressed in almost all changes including the new insertion mutation c.122-123ins15. Our study provides further evidence that the MED12 somatic mutations occur in a heterozygous manner and are mostly missense mutations in codon 44. The results displayed 47.8% mutation positive lesions in Iranian patients confirming the diversity between the populations. PMID:26396919

  1. MED-SuMoLig: a new ligand-based screening tool for efficient scaffold hopping.

    PubMed

    Sperandio, Olivier; Andrieu, Olivier; Miteva, Maria A; Vo, Minh-Quang; Souaille, Marc; Delfaud, François; Villoutreix, Bruno O

    2007-01-01

    The identification of small molecules with selective bioactivity, whether intended as potential therapeutics or as tools for experimental research, is central to progress in medicine and in the life sciences. To facilitate such study, we have developed a ligand-based program well-suited for effective screening of large compound collections. This package, MED-SuMoLig, combines a SMARTS-driven substructure search aiming at 3D pharmacophore profiling and computation of the local atomic density of the compared molecules. The screening utility was then investigated using 52 diverse active molecules (against CDK2, Factor Xa, HIV-1 protease, neuraminidase, ribonuclease A, and thymidine kinase) merged to a library of about 40,000 putative inactive (druglike) compounds. In all cases, the program recovered more than half of the actives in the top 3% of the screened library. We also compared the performance of MED-SuMoLig with that of ChemMine or of ROCS and found that MED-SuMoLig outperformed both methods for CDK2 and Factor Xa in terms of enrichment rates or performed equally well for the other targets. PMID:17477521

  2. MedEvi: Retrieving textual evidence of relations between biomedical concepts from Medline

    PubMed Central

    Kim, Jung-jae; Pȩzik, Piotr; Rebholz-Schuhmann, Dietrich

    2008-01-01

    Summary: Search engines running on MEDLINE abstracts have been widely used by biologists to find publications that are related to their research. The existing search engines such as PubMed, however, have limitations when applied for the task of seeking textual evidence of relations between given concepts. The limitations are mainly due to the problem that the search engines do not effectively deal with multi-term queries which may imply semantic relations between the terms. To address this problem, we present MedEvi, a novel search engine that imposes positional restriction on occurrences matching multi-term queries, based on the observation that terms with semantic relations which are explicitly stated in text are not found too far from each other. MedEvi further identifies additional keywords of biological and statistical significance from local context of matching occurrences in order to help users reformulate their queries for better results. Availability: http://www.ebi.ac.uk/tc-test/textmining/medevi/ Contact: kim@ebi.ac.uk PMID:18400773

  3. MedIEQ-Quality labelling of medical web content using multilingual information extraction.

    PubMed

    Mayer, Miquel Angel; Karkaletsis, Vangelis; Stamatakis, Kostas; Leis, Angela; Villarroel, Dagmar; Thomeczek, Christian; Labský, Martin; López-Ostenero, Fernando; Honkela, Timo

    2006-01-01

    Quality of Internet health information is essential because it has the potential to benefit or harm a large number of people and it is therefore essential to provide consumers with some tools to aid them in assessing the nature of the information they are accessing and how they should use it without jeopardizing their relationship with their doctor. Organizations around the world are working on establishing standards of quality in the accreditation of health-related web content. For the full success of these initiatives, they must be equipped with technologies that enable the automation of the rating process and allow the continuous monitoring of labelled web sites alerting the labelling agency. In this paper we describe the European project MedIEQ (Quality Labelling of Medical Web Content Using Multilingual Information Extraction) that integrates the efforts of relevant organizations on medical quality labelling, multilingual information retrieval and extraction and semantic resources, from six different European countries (Spain, Germany, Greece, Finland, Czech Republic and Switzerland). The main objectives of MedIEQ are: first, to develop a scheme for the quality labelling of medical web content and provide the tools supporting the creation, maintenance and access of labelling data according to this scheme and second, to specify a methodology for the content analysis of medical web sites according to the MedIEQ scheme and develop the tools that will implement it. PMID:17095816

  4. Apnea MedAssist: real-time sleep apnea monitor using single-lead ECG.

    PubMed

    Bsoul, Majdi; Minn, Hlaing; Tamil, Lakshman

    2011-05-01

    We have developed a low-cost, real-time sleep apnea monitoring system ''Apnea MedAssist" for recognizing obstructive sleep apnea episodes with a high degree of accuracy for both home and clinical care applications. The fully automated system uses patient's single channel nocturnal ECG to extract feature sets, and uses the support vector classifier (SVC) to detect apnea episodes. "Apnea MedAssist" is implemented on Android operating system (OS) based smartphones, uses either the general adult subject-independent SVC model or subject-dependent SVC model, and achieves a classification F-measure of 90% and a sensitivity of 96% for the subject-independent SVC. The real-time capability comes from the use of 1-min segments of ECG epochs for feature extraction and classification. The reduced complexity of "Apnea MedAssist" comes from efficient optimization of the ECG processing, and use of techniques to reduce SVC model complexity by reducing the dimension of feature set from ECG and ECG-derived respiration signals and by reducing the number of support vectors. PMID:20952340

  5. TeleMed: An example of a new system developed with object technology

    SciTech Connect

    Forslund, D.; Phillips, R.; Tomlinson, B.

    1996-12-01

    Los Alamos National Laboratory has developed a virtual patient record system called TeleMed which is based on a distributed national radiographic and patient record repository located throughout the country. Without leaving their offices, participating doctors can view clinical drug and radiographic data via a sophisticated multimedia interface. For example, a doctor can match a patient`s radiographic information with the data in the repository, review treatment history and success, and then determine the best treatment. Furthermore, the features of TeleMed that make it attractive to clinicians and diagnosticians make it valuable for teaching and presentation as well. Thus, a resident can use TeleMed for self-training in diagnostic techniques and a physician can use it to explain to a patient the course of their illness. In fact, the data can be viewed simultaneously by users at two or more distant locations for consultation with specialists in different fields. This capability is of enormous value to a wide spectrum of healthcare providers. It is made possible by the integration of multimedia information using commercial CORBA technology linking object-enabled databases with client interfaces using a three-tiered architecture.

  6. The InterMed Approach to Sharable Computer-interpretable Guidelines: A Review

    PubMed Central

    Peleg, Mor; Boxwala, Aziz A.; Tu, Samson; Zeng, Qing; Ogunyemi, Omolola; Wang, Dongwen; Patel, Vimla L.; Greenes, Robert A.; Shortliffe, Edward H.

    2004-01-01

    InterMed is a collaboration among research groups from Stanford, Harvard, and Columbia Universities. The primary goal of InterMed has been to develop a sharable language that could serve as a standard for modeling computer-interpretable guidelines (CIGs). This language, called GuideLine Interchange Format (GLIF), has been developed in a collaborative manner and in an open process that has welcomed input from the larger community. The goals and experiences of the InterMed project and lessons that the authors have learned may contribute to the work of other researchers who are developing medical knowledge-based tools. The lessons described include (1) a work process for multi-institutional research and development that considers different viewpoints, (2) an evolutionary lifecycle process for developing medical knowledge representation formats, (3) the role of cognitive methodology to evaluate and assist in the evolutionary development process, (4) development of an architecture and (5) design principles for sharable medical knowledge representation formats, and (6) a process for standardization of a CIG modeling language. PMID:14527977

  7. What supervisors say in their feedback: construction of CanMEDS roles in workplace settings.

    PubMed

    Renting, Nienke; Dornan, Tim; Gans, Rijk O B; Borleffs, Jan C C; Cohen-Schotanus, Janke; Jaarsma, A Debbie C

    2016-05-01

    The CanMEDS framework has been widely adopted in residency education and feedback processes are guided by it. It is, however, only one of many influences on what is actually discussed in feedback. The sociohistorical culture of medicine and individual supervisors' contexts, experiences and beliefs are also influential. Our aim was to find how CanMEDS roles are constructed in feedback in a postgraduate curriculum-in-action. We applied a set of discourse analytic tools to written feedback from 591 feedback forms from 7 hospitals, including 3150 feedback comments in which 126 supervisors provided feedback to 120 residents after observing their performance in authentic settings. The role of Collaborator was constructed in two different ways: a cooperative discourse of equality with other workers and patients; and a discourse, which gave residents positions of power-delegating, asserting and 'taking a firm stance'. Efficiency-being fast and to the point emerged as an important attribute of physicians. Patients were seldom part of the discourses and, when they were, they were constructed as objects of communication and collaboration rather than partners. Although some of the discourses are in line with what might be expected, others were in striking contrast to the spirit of CanMEDS. This study's findings suggest that it takes more than a competency framework, evaluation instruments, and supervisor training to change the culture of workplaces. The impact on residents of training in such demanding, efficiency-focused clinical environments is an important topic for future research. PMID:26342599

  8. An analysis of gene/protein associations at PubMed scale

    PubMed Central

    2011-01-01

    Background Event extraction following the GENIA Event corpus and BioNLP shared task models has been a considerable focus of recent work in biomedical information extraction. This work includes efforts applying event extraction methods to the entire PubMed literature database, far beyond the narrow subdomains of biomedicine for which annotated resources for extraction method development are available. Results In the present study, our aim is to estimate the coverage of all statements of gene/protein associations in PubMed that existing resources for event extraction can provide. We base our analysis on a recently released corpus automatically annotated for gene/protein entities and syntactic analyses covering the entire PubMed, and use named entity co-occurrence, shortest dependency paths and an unlexicalized classifier to identify likely statements of gene/protein associations. A set of high-frequency/high-likelihood association statements are then manually analyzed with reference to the GENIA ontology. Conclusions We present a first estimate of the overall coverage of gene/protein associations provided by existing resources for event extraction. Our results suggest that for event-type associations this coverage may be over 90%. We also identify several biologically significant associations of genes and proteins that are not addressed by these resources, suggesting directions for further extension of extraction coverage. PMID:22166173

  9. Phosphorylation of Spo0A by the Histidine Kinase KinD Requires the Lipoprotein Med in Bacillus subtilis ▿

    PubMed Central

    Banse, Allison V.; Hobbs, Errett C.; Losick, Richard

    2011-01-01

    The response regulatory protein Spo0A of Bacillus subtilis is activated by phosphorylation by multiple histidine kinases via a multicomponent phosphorelay. Here we present evidence that the activity of one of the kinases, KinD, depends on the lipoprotein Med, a mutant of which has been known to cause a cannibalism phenotype. We show that the absence of Med impaired and the overproduction of Med stimulated the transcription of two operons (sdp and skf) involved in cannibalism whose transcription is known to depend on Spo0A in its phosphorylated state (Spo0A∼P). Further, these effects of Med were dependent on KinD but not on kinases KinA, KinB, and KinC. Additionally, we show that deletion or overproduction of Med impaired or enhanced, respectively, biofilm formation and that these effects, too, depended specifically on KinD. Finally, we report that overproduction of Med bypassed the dominant negative effect on transcription of sdp of a truncated KinD retaining the transmembrane segments but lacking the kinase domain. We propose that Med directly or indirectly interacts with KinD in the cytoplasmic membrane and that this interaction is required for KinD-dependent phosphorylation of Spo0A. PMID:21622736

  10. Phosphorylation of Spo0A by the histidine kinase KinD requires the lipoprotein med in Bacillus subtilis.

    PubMed

    Banse, Allison V; Hobbs, Errett C; Losick, Richard

    2011-08-01

    The response regulatory protein Spo0A of Bacillus subtilis is activated by phosphorylation by multiple histidine kinases via a multicomponent phosphorelay. Here we present evidence that the activity of one of the kinases, KinD, depends on the lipoprotein Med, a mutant of which has been known to cause a cannibalism phenotype. We show that the absence of Med impaired and the overproduction of Med stimulated the transcription of two operons (sdp and skf) involved in cannibalism whose transcription is known to depend on Spo0A in its phosphorylated state (Spo0A∼P). Further, these effects of Med were dependent on KinD but not on kinases KinA, KinB, and KinC. Additionally, we show that deletion or overproduction of Med impaired or enhanced, respectively, biofilm formation and that these effects, too, depended specifically on KinD. Finally, we report that overproduction of Med bypassed the dominant negative effect on transcription of sdp of a truncated KinD retaining the transmembrane segments but lacking the kinase domain. We propose that Med directly or indirectly interacts with KinD in the cytoplasmic membrane and that this interaction is required for KinD-dependent phosphorylation of Spo0A. PMID:21622736

  11. Cardiomyocyte-Specific Ablation of Med1 Subunit of the Mediator Complex Causes Lethal Dilated Cardiomyopathy in Mice

    PubMed Central

    Jia, Yuzhi; Chang, Hsiang-Chun; Schipma, Matthew J.; Liu, Jing; Shete, Varsha; Liu, Ning; Sato, Tatsuya; Thorp, Edward B.; Barger, Philip M.; Zhu, Yi-Jun; Viswakarma, Navin; Kanwar, Yashpal S.; Ardehali, Hossein; Thimmapaya, Bayar; Reddy, Janardan K.

    2016-01-01

    Mediator, an evolutionarily conserved multi-protein complex consisting of about 30 subunits, is a key component of the polymerase II mediated gene transcription. Germline deletion of the Mediator subunit 1 (Med1) of the Mediator in mice results in mid-gestational embryonic lethality with developmental impairment of multiple organs including heart. Here we show that cardiomyocyte-specific deletion of Med1 in mice (csMed1-/-) during late gestational and early postnatal development by intercrossing Med1fl/fl mice to α-MyHC-Cre transgenic mice results in lethality within 10 days after weaning due to dilated cardiomyopathy-related ventricular dilation and heart failure. The csMed1-/- mouse heart manifests mitochondrial damage, increased apoptosis and interstitial fibrosis. Global gene expression analysis revealed that loss of Med1 in heart down-regulates more than 200 genes including Acadm, Cacna1s, Atp2a2, Ryr2, Pde1c, Pln, PGC1α, and PGC1β that are critical for calcium signaling, cardiac muscle contraction, arrhythmogenic right ventricular cardiomyopathy, dilated cardiomyopathy and peroxisome proliferator-activated receptor regulated energy metabolism. Many genes essential for oxidative phosphorylation and proper mitochondrial function such as genes coding for the succinate dehydrogenase subunits of the mitochondrial complex II are also down-regulated in csMed1-/- heart contributing to myocardial injury. Data also showed up-regulation of about 180 genes including Tgfb2, Ace, Atf3, Ctgf, Angpt14, Col9a2, Wisp2, Nppa, Nppb, and Actn1 that are linked to cardiac muscle contraction, cardiac hypertrophy, cardiac fibrosis and myocardial injury. Furthermore, we demonstrate that cardiac specific deletion of Med1 in adult mice using tamoxifen-inducible Cre approach (TmcsMed1-/-), results in rapid development of cardiomyopathy and death within 4 weeks. We found that the key findings of the csMed1-/- studies described above are highly reproducible in TmcsMed1-/- mouse heart

  12. Discovering biomedical semantic relations in PubMed queries for information retrieval and database curation.

    PubMed

    Huang, Chung-Chi; Lu, Zhiyong

    2016-01-01

    Identifying relevant papers from the literature is a common task in biocuration. Most current biomedical literature search systems primarily rely on matching user keywords. Semantic search, on the other hand, seeks to improve search accuracy by understanding the entities and contextual relations in user keywords. However, past research has mostly focused on semantically identifying biological entities (e.g. chemicals, diseases and genes) with little effort on discovering semantic relations. In this work, we aim to discover biomedical semantic relations in PubMed queries in an automated and unsupervised fashion. Specifically, we focus on extracting and understanding the contextual information (or context patterns) that is used by PubMed users to represent semantic relations between entities such as 'CHEMICAL-1 compared to CHEMICAL-2' With the advances in automatic named entity recognition, we first tag entities in PubMed queries and then use tagged entities as knowledge to recognize pattern semantics. More specifically, we transform PubMed queries into context patterns involving participating entities, which are subsequently projected to latent topics via latent semantic analysis (LSA) to avoid the data sparseness and specificity issues. Finally, we mine semantically similar contextual patterns or semantic relations based on LSA topic distributions. Our two separate evaluation experiments of chemical-chemical (CC) and chemical-disease (CD) relations show that the proposed approach significantly outperforms a baseline method, which simply measures pattern semantics by similarity in participating entities. The highest performance achieved by our approach is nearly 0.9 and 0.85 respectively for the CC and CD task when compared against the ground truth in terms of normalized discounted cumulative gain (nDCG), a standard measure of ranking quality. These results suggest that our approach can effectively identify and return related semantic patterns in a ranked order

  13. Influenza virus vaccine live intranasal--MedImmune vaccines: CAIV-T, influenza vaccine live intranasal.

    PubMed

    2003-01-01

    MedImmune Vaccines (formerly Aviron) has developed a cold-adapted live influenza virus vaccine [FluMist] that can be administered by nasal spray. FluMist is the first live virus influenza vaccine and also the first nasally administered vaccine to be marketed in the US. The vaccine will be formulated to contain live attenuated (att) influenza virus reassortants of the strains recommended by the US Public Health Service for each 'flu season. The vaccine is termed cold-adapted (ca) because the virus has been adapted to replicate efficiently at 25 degrees C in the nasal passages, which are below normal body temperature. The strains used in the seasonal vaccine will also be made temperature sensitive (ts) so that their replication is restricted at 37 degrees C (Type B strains) and 39 degrees C (Type A strains). The combined effect of the antigenic properties and the att, ca and ts phenotypes of the influenza strains contained in the vaccine enables the viruses to replicate in the nasopharynx to produce protective immunity. The original formulation of FluMist requires freezer storage throughout distribution. Because many international markets do not have distribution channels well suited to the sale of frozen vaccines, Wyeth and MedImmune are collaborating to develop a second generation, refrigerator-stable, liquid trivalent cold-adapted influenza vaccine (CAIV-T), which is in phase III trials. Initially, the frozen formulation will only be available in the US. For the 2003-2004 season, FluMist will contain A/New Caledonia/20/99 (H1N1), A/Panama/2007/99 (H3N2) (A/Moscow/10/99-like) and B/Hong Kong/330/2001. Aviron was acquired by MedImmune on 15 January 2002. Aviron is now a wholly-owned subsidiary of MedImmune and is called MedImmune Vaccines. Aviron acquired FluMist in March 1995 through a Co-operative Research and Development Agreement (CRADA) with the US NIAID, and a licensing agreement with the University of Michigan, Ann Arbor, USA. In June 2000, the CRADA was

  14. Prognosis: the “missing link” within the CanMEDS competency framework

    PubMed Central

    2014-01-01

    Background The concept of prognosis dates back to antiquity. Quantum advances in diagnostics and therapeutics have relegated this once highly valued core competency to an almost negligible role in modern medical practice. Medical curricula are devoid of teaching opportunities focused on prognosis. This void is driven by a corresponding relative dearth within physician competency frameworks. This study aims to assess the level of content related to prognosis within CanMEDS (Canadian Medical Education Directives for Specialists), a leading and prototypical physician competency framework. Methods A quantitative content analysis of CanMEDS competency framework was carried out to measure the extent of this deficiency. Foxit Reader 5.1 (Foxit Corporation), a keyword scanning software, was used to assess the CanMEDS 2005 framework documents of 29 physician specialties and 37 subspecialties across the seven physician roles (medical expert, communicator, collaborator, manager, health advocate, scholar, and professional). The keywords used in the search included prognosis, prognostic, prognosticate, and prognostication. Results Of the 29 specialties six (20.7%) contained at least one citation of the keyword “prognosis”, and one (3.4%) contained one citation of the keyword “prognostic”. Of the 37 subspecialties, sixteen (43.2%) contained at least one citation of the keyword “prognosis”, and three (8.1%) contained at least one citation of the keyword “prognostic”. The terms “prognosticate” and “prognostication” were completely absent from all CanMEDS 2005 documents. Overall, the combined citations for “prognosis” and “prognostic” were linked with the following competency roles: Medical Expert (80.3%), Scholar (11.5%), and Communicator (8.2%). Conclusions Given the fundamental and foundational importance of prognosis within medical practice, it is recommended that physicians develop appropriate attitudes, skills and knowledge related to the

  15. Discovering biomedical semantic relations in PubMed queries for information retrieval and database curation

    PubMed Central

    Huang, Chung-Chi; Lu, Zhiyong

    2016-01-01

    Identifying relevant papers from the literature is a common task in biocuration. Most current biomedical literature search systems primarily rely on matching user keywords. Semantic search, on the other hand, seeks to improve search accuracy by understanding the entities and contextual relations in user keywords. However, past research has mostly focused on semantically identifying biological entities (e.g. chemicals, diseases and genes) with little effort on discovering semantic relations. In this work, we aim to discover biomedical semantic relations in PubMed queries in an automated and unsupervised fashion. Specifically, we focus on extracting and understanding the contextual information (or context patterns) that is used by PubMed users to represent semantic relations between entities such as ‘CHEMICAL-1 compared to CHEMICAL-2.’ With the advances in automatic named entity recognition, we first tag entities in PubMed queries and then use tagged entities as knowledge to recognize pattern semantics. More specifically, we transform PubMed queries into context patterns involving participating entities, which are subsequently projected to latent topics via latent semantic analysis (LSA) to avoid the data sparseness and specificity issues. Finally, we mine semantically similar contextual patterns or semantic relations based on LSA topic distributions. Our two separate evaluation experiments of chemical-chemical (CC) and chemical–disease (CD) relations show that the proposed approach significantly outperforms a baseline method, which simply measures pattern semantics by similarity in participating entities. The highest performance achieved by our approach is nearly 0.9 and 0.85 respectively for the CC and CD task when compared against the ground truth in terms of normalized discounted cumulative gain (nDCG), a standard measure of ranking quality. These results suggest that our approach can effectively identify and return related semantic patterns in a ranked

  16. NEMO: Extraction and normalization of organization names from PubMed affiliation strings

    PubMed Central

    Jonnalagadda, Siddhartha; Topham, Philip

    2010-01-01

    Background. We are witnessing an exponential increase in biomedical research citations in PubMed. However, translating biomedical discoveries into practical treatments is estimated to take around 17 years, according to the 2000 Yearbook of Medical Informatics, and much information is lost during this transition. Pharmaceutical companies spend huge sums to identify opinion leaders and centers of excellence. Conventional methods such as literature search, survey, observation, self-identification, expert opinion, and sociometry not only need much human effort, but are also noncomprehensive. Such huge delays and costs can be reduced by “connecting those who produce the knowledge with those who apply it”. A humble step in this direction is large scale discovery of persons and organizations involved in specific areas of research. This can be achieved by automatically extracting and disambiguating author names and affiliation strings retrieved through Medical Subject Heading (MeSH) terms and other keywords associated with articles in PubMed. In this study, we propose NEMO (Normalization Engine for Matching Organizations), a system for extracting organization names from the affiliation strings provided in PubMed abstracts, building a thesaurus (list of synonyms) of organization names, and subsequently normalizing them to a canonical organization name using the thesaurus. Results: We used a parsing process that involves multi-layered rule matching with multiple dictionaries. The normalization process involves clustering based on weighted local sequence alignment metrics to address synonymy at word level, and local learning based on finding connected components to address synonymy. The graphical user interface and java client library of NEMO are available at http://lnxnemo.sourceforge.net . Conclusion: NEMO is developed to associate each biomedical paper and its authors with a unique organization name and the geopolitical location of that organization. This system

  17. PubMed vs. HighWire Press: a head-to-head comparison of two medical literature search engines.

    PubMed

    Vanhecke, Thomas E; Barnes, Michael A; Zimmerman, Janet; Shoichet, Sandor

    2007-09-01

    PubMed and HighWire Press are both useful medical literature search engines available for free to anyone on the internet. We measured retrieval accuracy, number of results generated, retrieval speed, features and search tools on HighWire Press and PubMed using the quick search features of each. We found that using HighWire Press resulted in a higher likelihood of retrieving the desired article and higher number of search results than the same search on PubMed. PubMed was faster than HighWire Press in delivering search results regardless of search settings. There are considerable differences in search features between these two search engines. PMID:17184763

  18. MedCIRCLE: collaboration for Internet rating, certification, labelling and evaluation of health information on the World-Wide-Web.

    PubMed

    Mayer, M A; Darmoni, S J; Fiene, M; Köhler, C; Roth-Berghofer, Thomas R; Eysenbach, G

    2003-01-01

    We describe MedCIRCLE, an EU-funded semantic web project to implement the first steps towards a global, collaborative rating and guidance system for health information proposed in the MedCERTAIN project. In MedCIRCLE, three European gateway sites for consumer health information will implement the metadata vocabulary HIDDEL (Health Information Disclosure, Description and Evaluation Language). HIDDEL allows portals and gateways to make the results of their evaluations accessible as XML/RDF. The three participating national portals are: AQUMED (Agency for Quality in Medicine) patienten-information, de, COMB (Official Medical College of Barcelona) and CISMeF, a quality-controlled health gateway developed at Rouen University Hospital. Other health subject gateways, accreditation, or rating services are invited to join the collaboration simply by implementing HIDDEL on their gateways. Widespread implementation HIDDEL will allow intelligent agents or client-side software to harvest statements and opinions about the trustworthiness of other websites, assisting users in selecting trustworthy websites. The MedCIRCLE project builds on, expands and continues work on rating health information on the Internet piloted within the MedCERTAIN project. While MedCERTAIN provided the core technologies and software for rating and "trustmarking" health information, MedCIRCLE is built around these technologies and involves a wider medical community to assess health information, demonstrating the power of collaborative and interoperable evaluations in a semantic web environment. MedCIRCLE is a project with the overall objective to develop and promote technologies able to guide consumers to trustworthy health information on the Internet, to establish a global web of trust for networked health information, and to empower consumers to positively select high quality health information on the web. Other aims include refinement and expansion of HIDDEL, to become a standard vocabulary and

  19. Expression of AtMed15 of Arabidopsis in yeast causes flocculation and increases ethanol production in yeast culture

    PubMed Central

    Dahiya, Pradeep; Bhat, Divya S.; Thakur, Jitendra K.

    2016-01-01

    Mediator, a multiprotein complex involved in transcription of class II genes, was first discovered in yeast and then characterized in many metazoans revealing a striking structural conservation of the complex. However, sequences of Mediator subunits are not well conserved raising a question on the functional conservation of these individual subunits. In this study, expression of Med15 of Arabidopsis (AtMed15) in gal11∆ yeast could not complement the function of ScGal11 in galactose metabolism and resistance against cycloheximide. Surprisingly, AtMed15 changed the morphology of the yeast cells. The cells adhered strongly on the surface of the agar media, and showed robust flocculation in the liquid media without affecting the growth. The AtMed15-induced adhesion and flocculation were observed in different carbon sources. Calcium-assisted cell wall-bound mannan-binding proteins were found to be involved in this flocculation, which was unaffected by wide fluctuation of pH or temperatures revealing its constitutive robust nature. Expression of few flocculation related Flo genes was up-regulated in these cells. Interestingly, there was significant increase in ethanol production by the yeast expressing AtMed15. Robust and constitutive flocculation and increased ethanol production by yeast cells harbouring AtMed15 indicate an opportunity of its important usage in biotechnology industries. PMID:27306498

  20. Characterization of ERM transactivation domain binding to the ACID/PTOV domain of the Mediator subunit MED25

    PubMed Central

    Landrieu, Isabelle; Verger, Alexis; Baert, Jean-Luc; Rucktooa, Prakash; Cantrelle, François-Xavier; Dewitte, Frédérique; Ferreira, Elisabeth; Lens, Zoé; Villeret, Vincent; Monté, Didier

    2015-01-01

    The N-terminal acidic transactivation domain (TAD) of ERM/ETV5 (ERM38–68), a PEA3 group member of Ets-related transcription factors, directly interacts with the ACID/PTOV domain of the Mediator complex subunit MED25. Molecular details of this interaction were investigated using nuclear magnetic resonance (NMR) spectroscopy. The TAD is disordered in solution but has a propensity to adopt local transient secondary structure. We show that it folds upon binding to MED25 and that the resulting ERM–MED25 complex displays characteristics of a fuzzy complex. Mutational analysis further reveals that two aromatic residues in the ERM TAD (F47 and W57) are involved in the binding to MED25 and participate in the ability of ERM TAD to activate transcription. Mutation of a key residue Q451 in the VP16 H1 binding pocket of MED25 affects the binding of ERM. Furthermore, competition experiments show that ERM and VP16 H1 share a common binding interface on MED25. NMR data confirms the occupancy of this binding pocket by ERM TAD. Based on these experimental data, a structural model of a functional interaction is proposed. This study provides mechanistic insights into the Mediator–transactivator interactions. PMID:26130716

  1. Publication Productivity of Faculty of Medicine, Mansoura University Indexed in PubMed

    PubMed Central

    Helal, RM; Abou-ElWafa, HS; El-Gilany, AH

    2014-01-01

    Background: Analysis of PubMed publications as an indicator of the research productivity of individual countries, regions, or institutions has recently become a field of interest. Aim: The aim was to assess the past trends in PubMed-indexed medical publications from Mansoura Faculty of Medicine and to have an idea about the current situation in medical research. Materials and Methods: PubMed was searched for publications affiliated to Mansoura from the end of the calendar year 2012 and earlier. Results: Of 2798 papers related to Mansoura, 1756 publications were included in the analysis, and 1042 publications were excluded (false positives). The highest number of publications was in 2011 (10.6%, 187/1756) followed by 2012 (10.2%, 179/1756). There was an increase of the publication rate over 5-years period until it reaches 47.0% (826/1756) during the period from 2008 to 2012. The main high-producing department was Urology and Nephrology, which accounted for 35.9% (631/1756) of the total publications followed by Pediatrics and Parasitology. The median number of authors participated in the researches was four ranging from 1 to 23. Most of the publications were in the form of intervention/clinical trials (38.4%, 662/1756) followed by descriptive/cross-sectional study (38.3%, 659/1756). The median of the impact factor was 1.99 ranging from 0.27 to 53.3. Conclusion: The publication productivity of Mansoura Faculty of Medicine showed fluctuating pattern from the end of the calendar year 2012 and earlier. Future prospects for increasing research productivity should be considered to increase the number and quality of publications and academic staff participating in high-quality international researches. PMID:25364602

  2. MedXViewer: an extensible web-enabled software package for medical imaging

    NASA Astrophysics Data System (ADS)

    Looney, P. T.; Young, K. C.; Mackenzie, Alistair; Halling-Brown, Mark D.

    2014-03-01

    MedXViewer (Medical eXtensible Viewer) is an application designed to allow workstation-independent, PACS-less viewing and interaction with anonymised medical images (e.g. observer studies). The application was initially implemented for use in digital mammography and tomosynthesis but the flexible software design allows it to be easily extended to other imaging modalities. Regions of interest can be identified by a user and any associated information about a mark, an image or a study can be added. The questions and settings can be easily configured depending on the need of the research allowing both ROC and FROC studies to be performed. The extensible nature of the design allows for other functionality and hanging protocols to be available for each study. Panning, windowing, zooming and moving through slices are all available while modality-specific features can be easily enabled e.g. quadrant zooming in mammographic studies. MedXViewer can integrate with a web-based image database allowing results and images to be stored centrally. The software and images can be downloaded remotely from this centralised data-store. Alternatively, the software can run without a network connection where the images and results can be encrypted and stored locally on a machine or external drive. Due to the advanced workstation-style functionality, the simple deployment on heterogeneous systems over the internet without a requirement for administrative access and the ability to utilise a centralised database, MedXViewer has been used for running remote paper-less observer studies and is capable of providing a training infrastructure and co-ordinating remote collaborative viewing sessions (e.g. cancer reviews, interesting cases).

  3. Exome Sequencing of Uterine Leiomyosarcomas Identifies Frequent Mutations in TP53, ATRX, and MED12

    PubMed Central

    Mäkinen, Netta; Aavikko, Mervi; Heikkinen, Tuomas; Taipale, Minna; Taipale, Jussi; Koivisto-Korander, Riitta; Bützow, Ralf; Vahteristo, Pia

    2016-01-01

    Uterine leiomyosarcomas (ULMSs) are aggressive smooth muscle tumors associated with poor clinical outcome. Despite previous cytogenetic and molecular studies, their molecular background has remained elusive. To examine somatic variation in ULMS, we performed exome sequencing on 19 tumors. Altogether, 43 genes were mutated in at least two ULMSs. Most frequently mutated genes included tumor protein P53 (TP53; 6/19; 33%), alpha thalassemia/mental retardation syndrome X-linked (ATRX; 5/19; 26%), and mediator complex subunit 12 (MED12; 4/19; 21%). Unlike ATRX mutations, both TP53 and MED12 alterations have repeatedly been associated with ULMSs. All the observed ATRX alterations were either nonsense or frameshift mutations. ATRX protein levels were reliably analyzed by immunohistochemistry in altogether 44 ULMSs, and the majority of tumors (23/44; 52%) showed clearly reduced expression. Loss of ATRX expression has been associated with alternative lengthening of telomeres (ALT), and thus the telomere length was analyzed with telomere-specific fluorescence in situ hybridization. The ALT phenotype was confirmed in all ULMSs showing diminished ATRX expression. Exome data also revealed one nonsense mutation in death-domain associated protein (DAXX), another gene previously associated with ALT, and the tumor showed ALT positivity. In conclusion, exome sequencing revealed that TP53, ATRX, and MED12 are frequently mutated in ULMSs. ALT phenotype was commonly seen in tumors, indicating that ATR inhibitors, which were recently suggested as possible new drugs for ATRX-deficient tumors, could provide a potential novel therapeutic option for ULMS. PMID:26891131

  4. MedArgo: a drifting profiler program in the Mediterranean Sea

    NASA Astrophysics Data System (ADS)

    Poulain, P.-M.; Barbanti, R.; Font, J.; Cruzado, A.; Millot, C.; Gertman, I.; Griffa, A.; Molcard, A.; Rupolo, V.; Le Bras, S.; Petit de La Villeon, L.

    2007-08-01

    In the framework of the EU-funded MFSTEP project, autonomous drifting profilers were deployed throughout the Mediterranean Sea to collect temperature and salinity profile data and to measure subsurface currents. The realization of this profiler program in the Mediterranean, referred to as MedArgo, is described and assessed using data collected between June 2004 and December 2006 (including more than 2000 profiles). Recommendations are provided for the permanent future implementation of MedArgo in support of operational oceanography in the Mediterranean Sea. More than twenty drifting profilers were deployed from research vessels and ships-of-opportunity in most areas of the Mediterranean. They were all programmed to execute 5-day cycles with a drift at a parking depth of 350 m and CTD profiles from either 700 or 2000 m up to the surface. They stayed at the sea surface for about 6 h to be localised by, and transmit the data to, the Argos satellite system. The temperature and salinity data obtained with pumped Sea-Bird CTD instruments were processed and made available to the scientific community and to operational users in near-real time using standard Argo protocols, and were assimilated into Mediterranean numerical forecasting models. In general, the cycling and sampling characteristics chosen for the MedArgo profilers were found to be adequate for the Mediterranean. However, it is strongly advised to use GPS and global cellular phone telemetry or the future Argos bi-directional satellite system in order to avoid data compression and losses, for the continuation of the Mediterranean drifting profiler program.

  5. Using Support Vector Machines to Detect Therapeutically Incorrect Measurements by the MiniMed CGMS®

    PubMed Central

    Bondia, Jorge; Tarín, Cristina; García-Gabin, Winston; Esteve, Eduardo; Fernández-Real, José Manuel; Ricart, Wifredo; Vehí, Josep

    2008-01-01

    Background Current continuous glucose monitors have limited accuracy mainly in the low range of glucose measurements. This lack of accuracy is a limiting factor in their clinical use and in the development of the so-called artificial pancreas. The ability to detect incorrect readings provided by continuous glucose monitors from raw data and other information supplied by the monitor itself is of utmost clinical importance. In this study, support vector machines (SVMs), a powerful statistical learning technique, were used to detect therapeutically incorrect measurements made by the Medtronic MiniMed CGMS®. Methods Twenty patients were monitored for three days (first day at the hospital and two days at home) using the MiniMed CGMS. After the third day, the monitor data were downloaded to the physician's computer. During the first 12 hours, the patients stayed in the hospital, and blood samples were taken every 15 minutes for two hours after meals and every 30 minutes otherwise. Plasma glucose measurements were interpolated using a cubic method for time synchronization with simultaneous MiniMed CGMS measurements every five minutes, obtaining a total of 2281 samples. A Gaussian SVM classifier trained on the monitor's electrical signal and glucose estimation was tuned and validated using multiple runs of k-fold cross-validation. The classes considered were Clarke error grid zones A+B and C+D+E. Results After ten runs of ten-fold cross-validation, an average specificity and sensitivity of 92.74% and 75.49%, respectively, were obtained (see Figure 4). The average correct rate was 91.67%. Conclusions Overall, the SVM performed well, in spite of the somewhat low sensitivity. The classifier was able to detect the time intervals when the monitor's glucose profile could not be trusted due to incorrect measurements. As a result, hypoglycemic episodes missed by the monitor were detected. PMID:19885238

  6. Exome Sequencing of Uterine Leiomyosarcomas Identifies Frequent Mutations in TP53, ATRX, and MED12.

    PubMed

    Mäkinen, Netta; Aavikko, Mervi; Heikkinen, Tuomas; Taipale, Minna; Taipale, Jussi; Koivisto-Korander, Riitta; Bützow, Ralf; Vahteristo, Pia

    2016-02-01

    Uterine leiomyosarcomas (ULMSs) are aggressive smooth muscle tumors associated with poor clinical outcome. Despite previous cytogenetic and molecular studies, their molecular background has remained elusive. To examine somatic variation in ULMS, we performed exome sequencing on 19 tumors. Altogether, 43 genes were mutated in at least two ULMSs. Most frequently mutated genes included tumor protein P53 (TP53; 6/19; 33%), alpha thalassemia/mental retardation syndrome X-linked (ATRX; 5/19; 26%), and mediator complex subunit 12 (MED12; 4/19; 21%). Unlike ATRX mutations, both TP53 and MED12 alterations have repeatedly been associated with ULMSs. All the observed ATRX alterations were either nonsense or frameshift mutations. ATRX protein levels were reliably analyzed by immunohistochemistry in altogether 44 ULMSs, and the majority of tumors (23/44; 52%) showed clearly reduced expression. Loss of ATRX expression has been associated with alternative lengthening of telomeres (ALT), and thus the telomere length was analyzed with telomere-specific fluorescence in situ hybridization. The ALT phenotype was confirmed in all ULMSs showing diminished ATRX expression. Exome data also revealed one nonsense mutation in death-domain associated protein (DAXX), another gene previously associated with ALT, and the tumor showed ALT positivity. In conclusion, exome sequencing revealed that TP53, ATRX, and MED12 are frequently mutated in ULMSs. ALT phenotype was commonly seen in tumors, indicating that ATR inhibitors, which were recently suggested as possible new drugs for ATRX-deficient tumors, could provide a potential novel therapeutic option for ULMS. PMID:26891131

  7. SLIM: an alternative Web interface for MEDLINE/PubMed searches – a preliminary study

    PubMed Central

    Muin, Michael; Fontelo, Paul; Liu, Fang; Ackerman, Michael

    2005-01-01

    Background With the rapid growth of medical information and the pervasiveness of the Internet, online search and retrieval systems have become indispensable tools in medicine. The progress of Web technologies can provide expert searching capabilities to non-expert information seekers. The objective of the project is to create an alternative search interface for MEDLINE/PubMed searches using JavaScript slider bars. SLIM, or Slider Interface for MEDLINE/PubMed searches, was developed with PHP and JavaScript. Interactive slider bars in the search form controlled search parameters such as limits, filters and MeSH terminologies. Connections to PubMed were done using the Entrez Programming Utilities (E-Utilities). Custom scripts were created to mimic the automatic term mapping process of Entrez. Page generation times for both local and remote connections were recorded. Results Alpha testing by developers showed SLIM to be functionally stable. Page generation times to simulate loading times were recorded the first week of alpha and beta testing. Average page generation times for the index page, previews and searches were 2.94 milliseconds, 0.63 seconds and 3.84 seconds, respectively. Eighteen physicians from the US, Australia and the Philippines participated in the beta testing and provided feedback through an online survey. Most users found the search interface user-friendly and easy to use. Information on MeSH terms and the ability to instantly hide and display abstracts were identified as distinctive features. Conclusion SLIM can be an interactive time-saving tool for online medical literature research that improves user control and capability to instantly refine and refocus search strategies. With continued development and by integrating search limits, methodology filters, MeSH terms and levels of evidence, SLIM may be useful in the practice of evidence-based medicine. PMID:16321145

  8. Beyond PubMed: Searching the "Grey Literature" for Clinical Trial Results.

    PubMed

    Citrome, Leslie

    2014-07-01

    Clinical trial results have been traditionally communicated through the publication of scholarly reports and reviews in biomedical journals. However, this dissemination of information can be delayed or incomplete, making it difficult to appraise new treatments, or in the case of missing data, evaluate older interventions. Going beyond the routine search of PubMed, it is possible to discover additional information in the "grey literature." Examples of the grey literature include clinical trial registries, patent databases, company and industrywide repositories, regulatory agency digital archives, abstracts of paper and poster presentations on meeting/congress websites, industry investor reports and press releases, and institutional and personal websites. PMID:25337445

  9. BabelMeSH: development of a cross-language tool for MEDLINE/PubMed.

    PubMed

    Liu, Fang; Ackerman, Michael; Fontelo, Paul

    2006-01-01

    BabelMeSH is a cross-language tool for searching MEDLINE/PubMed. Queries can be submitted as single terms or complex phrases in French, Spanish and Portuguese. Citations will be sent to the user in English. It uses a smart parser interface with a medical terms database in MySQL. Preliminary evaluation using compound key words in foreign language medical journals showed an accuracy of 68%, 60% and 51% for French, Spanish and Portuguese, respectively. Development is continuing. PMID:17238631

  10. Crowdsourcing Diagnosis for Patients With Undiagnosed Illnesses: An Evaluation of CrowdMed

    PubMed Central

    Meyer, Ashley N.D; Longhurst, Christopher A

    2016-01-01

    Background Despite visits to multiple physicians, many patients remain undiagnosed. A new online program, CrowdMed, aims to leverage the “wisdom of the crowd” by giving patients an opportunity to submit their cases and interact with case solvers to obtain diagnostic possibilities. Objective To describe CrowdMed and provide an independent assessment of its impact. Methods Patients submit their cases online to CrowdMed and case solvers sign up to help diagnose patients. Case solvers attempt to solve patients’ diagnostic dilemmas and often have an interactive online discussion with patients, including an exchange of additional diagnostic details. At the end, patients receive detailed reports containing diagnostic suggestions to discuss with their physicians and fill out surveys about their outcomes. We independently analyzed data collected from cases between May 2013 and April 2015 to determine patient and case solver characteristics and case outcomes. Results During the study period, 397 cases were completed. These patients previously visited a median of 5 physicians, incurred a median of US $10,000 in medical expenses, spent a median of 50 hours researching their illnesses online, and had symptoms for a median of 2.6 years. During this period, 357 active case solvers participated, of which 37.9% (132/348) were male and 58.3% (208/357) worked or studied in the medical industry. About half (50.9%, 202/397) of patients were likely to recommend CrowdMed to a friend, 59.6% (233/391) reported that the process gave insights that led them closer to the correct diagnoses, 57% (52/92) reported estimated decreases in medical expenses, and 38% (29/77) reported estimated improvement in school or work productivity. Conclusions Some patients with undiagnosed illnesses reported receiving helpful guidance from crowdsourcing their diagnoses during their difficult diagnostic journeys. However, further development and use of crowdsourcing methods to facilitate diagnosis requires

  11. PubMed, The New York Times and The Chicago Tribune as Tools for Teaching Genetics

    PubMed Central

    Strauss, Bernard S.

    2005-01-01

    An elementary course in human heredity for students not planning to major in the sciences can be based on current scientific literature and on the popular media. Examinations are constructed from questions on recent abstracts obtained from PubMed. The course is designed to promote writing skills in the sciences, and students write two papers in the course of a quarter. In the first paper, students trace the primary source of media reports on genetics and attempt to evaluate the reporter's translation. In a second paper, students write popular articles on the basis of current primary sources. PMID:16143615

  12. Beyond PubMed: Searching the “Grey Literature” for Clinical Trial Results

    PubMed Central

    2014-01-01

    Clinical trial results have been traditionally communicated through the publication of scholarly reports and reviews in biomedical journals. However, this dissemination of information can be delayed or incomplete, making it difficult to appraise new treatments, or in the case of missing data, evaluate older interventions. Going beyond the routine search of PubMed, it is possible to discover additional information in the “grey literature.” Examples of the grey literature include clinical trial registries, patent databases, company and industrywide repositories, regulatory agency digital archives, abstracts of paper and poster presentations on meeting/congress websites, industry investor reports and press releases, and institutional and personal websites. PMID:25337445

  13. HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth.

    PubMed

    Chhun, Tory; Chong, Suet Yen; Park, Bong Soo; Wong, Eriko Chi Cheng; Yin, Jun-Lin; Kim, Mijung; Chua, Nam-Hai

    2016-08-01

    Arabidopsis HSI2 (HIGH-LEVEL EXPRESSION OF SUGAR-INDUCIBLE GENE 2) which carries a EAR (ERF-associated amphiphilic repression) motif acts as a repressor of seed maturation genes and lipid biosynthesis, whereas MEDIATOR (MED) is a conserved multiprotein complex linking DNA-bound transcription factors to RNA polymerase II transcription machinery. How HSI2 executes its repressive function through MED is hitherto unknown. Here, we show that HSI2 and its homolog, HSI2-lik (HSL1), are able to form homo- and heterocomplexes. Both factors bind to the TRAP240 domain of MED13, a subunit of the MED CDK8 module. Mutant alleles of the med13 mutant show elevated seed maturation gene expression and increased lipid accumulation in cotyledons; in contrast, HSI2- or MED13-overexpressing plants display the opposite phenotypes. The overexpression phenotypes of HSI2 and MED13 are abolished in med13 and hsi2 hsl1, respectively, indicating that HSI2 and MED13 together are required for these functions. The HSI2 C-terminal region interacts with HDA6, whose overexpression also reduces seed maturation gene expression and lipid accumulation. Moreover, HSI2, MED13 and HDA6 bind to the proximal promoter and 5'-coding regions of seed maturation genes. Taken together, our results suggest that HSI2 recruits MED13 and HDA6 to suppress directly a subset of seed maturation genes post-germination. PMID:27335347

  14. Distribution of MED12 mutations in fibroadenomas and phyllodes tumors of the breast--implications for tumor biology and pathological diagnosis.

    PubMed

    Pfarr, Nicole; Kriegsmann, Mark; Sinn, Peter; Klauschen, Frederick; Endris, Volker; Herpel, Esther; Muckenhuber, Alexander; Jesinghaus, Moritz; Klosterhalfen, Bernd; Penzel, Roland; Lennerz, Jochen K; Weichert, Wilko; Stenzinger, Albrecht

    2015-07-01

    Somatic mutations in exon 2 of MED12 have been described in benign and malignant smooth muscle cell tumors suggesting a functional role in these neoplasms. Recently fibroadenomas of the breast were also reported to harbor MED12 mutations. Hence, we explored MED12 mutations in fibroepithelial tumors of the breast, histological subtypes of fibroadenomas and phyllodes tumors, to validate and extend previous efforts. Using conventional Sanger sequencing, we profiled 39 cases of fibroepithelial breast tumors comprising classic histological subtypes of fibroadenomas as well as benign and malignant phyllodes tumors for mutations in exon 2 of MED12. MED12 mutations were detected in 60% of all tumor samples with the majority being missense mutations affecting codon 44. Additionally, we report novel in-frame deletions that have not been described previously. Sixty-two percent of the fibroadenomas harbored mutated MED12 with intracanalicular fibroadenomas being the most frequently mutated histological subtype (82%). Of note, 8/11 of benign phyllodes tumors had MED12 mutations while only 1/5 of malignant phyllodes tumors showed mutations in exon 2 of MED12. In conclusion, we confirm the frequent occurrence of MED12 mutations in fibroadenomas, provide evidence that most intracanalicular fibroadenomas closely resembling benign phyllodes as well as benign phyllodes tumors harbor MED12 mutations, and conclude that MED12 mutations in malignant phyllodes tumors appear to be relatively rare. PMID:25931199

  15. InDiaMed: A Comprehensive Database of Indian Medicinal plants for Diabetes

    PubMed Central

    Tota, Kumudini; Rayabarapu, Nihar; Moosa, Sowmya; Talla, Venu; Bhyravbhatla, Balaji; Rao, Srinivasa

    2013-01-01

    According to International Diabetes Federation (IDF), India has 62.4 million people with diabetes and by 2030 it is predicted that the number will rise to 100 million. Studies claim that there are around 410 experimentally proven Indian medicinal plants which have anti-diabetic activity, of which the mechanism of action of 109 plants has been elucidated or reported. So, the need of the hour is to explore the claims of Indian medicinal flora and open up the facets of many Indian plants which are being examined for their beneficial role in diabetes. So, we created a database (InDiaMed) of Indian medicinal plants that captures their role in anti-diabetic activity. InDiaMed's features include chemical, pharmacological, biochemical and geographical information of the medicinal plant, scientifically relevant information of the plant, and the coherent research done on it in the field of diabetes. The database also includes the list of poly-herbal formulations which are used for treatment of diabetes in India. Availability http://www.indiamed.info PMID:23750084

  16. A New Change Detection Technique Applied to COSMO-SkyMed Stripmap Himage Data

    NASA Astrophysics Data System (ADS)

    Losurdo, A.; Marzo, C.; Guariglia, A.

    2015-05-01

    Change Detection techniques in SAR images is very relevant for the locationing and the monitoring of interesting land changes. At present, it is a very important topic due to the high repetitiveness and of the new SAR satellite instruments (e.g. COSMO-SkyMed and Sentinel-1). Geocart S.p.A. has reached important results about SAR change detection techniques within a technological project designed and implemented for the Italian Space Agency. The project's title is Integrated Monitoring System: application to the GAS pipeline". The aim of the project is the development of a new remote sensing service integrating aerial and satellite data for GAS pipeline monitoring. An important Work-Package of the project aims to develop algorithms regarding the change detection to be applied on COSMO-SkyMed Stripmap Himage data in order to identify heavy lorries on pipelines. Particularly, the paper presents a new change detection technique based on a probabilistic approach and the corresponding applicative results.

  17. CamMedNP: Building the Cameroonian 3D structural natural products database for virtual screening

    PubMed Central

    2013-01-01

    Background Computer-aided drug design (CADD) often involves virtual screening (VS) of large compound datasets and the availability of such is vital for drug discovery protocols. We present CamMedNP - a new database beginning with more than 2,500 compounds of natural origin, along with some of their derivatives which were obtained through hemisynthesis. These are pure compounds which have been previously isolated and characterized using modern spectroscopic methods and published by several research teams spread across Cameroon. Description In the present study, 224 distinct medicinal plant species belonging to 55 plant families from the Cameroonian flora have been considered. About 80 % of these have been previously published and/or referenced in internationally recognized journals. For each compound, the optimized 3D structure, drug-like properties, plant source, collection site and currently known biological activities are given, as well as literature references. We have evaluated the “drug-likeness” of this database using Lipinski’s “Rule of Five”. A diversity analysis has been carried out in comparison with the ChemBridge diverse database. Conclusion CamMedNP could be highly useful for database screening and natural product lead generation programs. PMID:23590173

  18. History and Trends of "Personal Health Record" Research in PubMed

    PubMed Central

    Kim, Jeongeun; Bates, David W.

    2011-01-01

    Objectives The purpose of this study was to review history and trends of personal health record research in PubMed and to provide accurate understanding and categorical analysis of expert opinions. Methods For the search strategy, PubMed was queried for 'personal health record, personal record, and PHR' in the title and abstract fields. Those containing different definitions of the word were removed by one-by-one analysis from the results, 695 articles. In the end, total of 229 articles were analyzed in this research. Results The results show that the changes in terms over the years and the shift to patient centeredness and mixed usage. And we identified history and trend of PHR research in some category that the number of publications by year, topic, methodologies and target diseases. Also from analysis of MeSH terms, we can show the focal interest in regards the PHR boundaries and related subjects. Conclusions For PHRs to be efficiently used by general public, initial understanding of the history and trends of PHR research may be helpful. Simultaneously, accurate understanding and categorical analysis of expert opinions that can lead to the development and growth of PHRs will be valuable to their adoption and expansion. PMID:21818452

  19. Improvements in CanMEDS competencies for medical students in an interdisciplinary and voluntary setting

    PubMed Central

    Vildbrad, Mads Dam; Lyhne, Johanne Marie

    2014-01-01

    Background To practice medicine, doctors must master leadership, communication, team management, and collaboration, in addition to medical knowledge. The CanMEDS framework describes seven roles of a doctor, but the six nonmedical expert roles are de-emphasized in the academic medical curriculum. Innovative opportunities are needed for medical students to develop as participants in a world of interdisciplinary health care. Methods We founded a volunteer-based, interdisciplinary, student-run project called SUNDdag (HEALTHday) with 60 students from 12 different educational backgrounds. To evaluate the learning outcomes of the project, we conducted a cross-sectional study using an anonymous, self-administered questionnaire. Results Students joined the project due to it being health-promoting, volunteer-based, and interdisciplinary. The medical students reported a significant increase of skills in all seven roles except for “medical expert”. They reported an increased understanding of the non-health-related students’ skills. Conclusion In their future careers, medical students must collaborate with health care professionals in a team-based approach to patient care and with non-health-related professionals in administrative tasks. Interdisciplinary volunteer-based initiatives like SUNDdag are potential platforms for medical students to improve their CanMEDS competencies. We encourage students to initiate similar projects and we encourage faculties to support volunteer-based, interdisciplinary initiatives due to their favorable cost-benefit ratio. PMID:25540602

  20. Improving efficacy of PubMed Clinical Queries for retrieving scientifically strong studies on treatment.

    PubMed

    Corrao, Salvatore; Colomba, Daniela; Arnone, Sabrina; Argano, Christiano; Di Chiara, Tiziana; Scaglione, Rosario; Licata, Giuseppe

    2006-01-01

    The authors evaluated the retrieval power of PubMed "Clinical Queries," narrow search string, about therapy in comparison with a modified search string to avoid possible retrieval bias. PubMed search strategy was compared to a slightly modified string that included the Britannic English term "randomised." The authors tested the two strings joined onto each of four terms concerning topics of broad interest: hypertension, hepatitis, diabetes, and heart failure. In particular, precision was computed for not-indexed citations. The added word "randomised" improved total citation retrieval in any case. Total retrieval gain for not-indexed citations ranged from 11.1% to 21.4%. A significant number of Randomized Controlled Trial(s) (RCT)s (9.1-18.2%) was retrieved for each of the selected topics. They were often recently published RCTs. The authors think that correction of the Clinical Queries filter (when they focus on therapy and use narrow searches) is necessary to avoid biased search results with loss of relevant and up-to-date scientifically sound information. PMID:16799123

  1. Development of action levels for MED/MPD skin-testing units in ultraviolet phototherapy

    NASA Astrophysics Data System (ADS)

    O'Connor, Una M.; O'Hare, Neil J.

    2003-03-01

    Ultraviolet (UV) Phototherapy is commonly used for treatment of skin diseases such as psoriasis and eczema. Treatment is carried out using UV phototherapy units, exposing all or part of the body for a certain exposure time. Prior to exposure in treatment units, an unaffected area of skin may be tested using UV skin-testing units in order to determine a suitable treatment regime. The exposure time at which barely perceptible erythema has developed is known as the Minimal Erythemal Dose (MED) for UVB therapy and Minimal Phototoxic Dose (MPD) for UVA therapy. This is used to determine the starting dose in the treatment regime. The presence of 'hotspots' and 'coldspots' in UV skin-testing units can result in inaccurate determination of MED/MPD. This could give rise to severe burns during treatment, or in a sub-optimal dose regime being used. Quality assurance protocols for UV phototherapy equipment have recently been developed and these protocols have highlighted the need for action levels for skin-testing units. An action level is a reference value, which is used to determine whether the difference in irradiance output level across a UV unit is acceptable. Current methodologies for skin-testing in Ireland have been characterised and errors introduced during testing have been estimated. Action levels have been developed based on analysis of errors and requirements of skin-testing.

  2. Geography of Africa biomedical publications: An analysis of 1996–2005 PubMed papers

    PubMed Central

    Uthman, Olalekan A; Uthman, Mubashir B

    2007-01-01

    Background Scientific publications play an important role in scientific process providing a key linkage between knowledge production and use. Scientific publishing activity worldwide over the past decades shows that most countries in Africa have low levels of publication. We sought to examine trends and contribution of different Africa subregions and individual countries as represented by the articles indexed by PubMed between 1996 and 2005. Results Research production in Africa is highly skewed; South Africa, Egypt, and Nigeria make up a striking 60% of the total number of articles indexed by PubMed between 1996 and 2005. When adjusted for population size smaller countries, such as The Gambia, Gabon and Botswana, were more productive than Nigeria and Kenya. The Gambia and Eritrea had better records when total production was adjusted for gross domestic product. The contribution of Africa to global research production was persistently low through the period studied. Conclusion In this study, we found that most populous and rich countries (such as South Africa, Egypt, and Nigeria) have correspondingly higher research production; but smaller countries can be productive. We noted continuous increases and reassuring trends in the production of research articles from all African subregions during the period 1996 – 2005. However, contribution of Africa to global research production was limited. PMID:17927837

  3. GeneView: a comprehensive semantic search engine for PubMed.

    PubMed

    Thomas, Philippe; Starlinger, Johannes; Vowinkel, Alexander; Arzt, Sebastian; Leser, Ulf

    2012-07-01

    Research results are primarily published in scientific literature and curation efforts cannot keep up with the rapid growth of published literature. The plethora of knowledge remains hidden in large text repositories like MEDLINE. Consequently, life scientists have to spend a great amount of time searching for specific information. The enormous ambiguity among most names of biomedical objects such as genes, chemicals and diseases often produces too large and unspecific search results. We present GeneView, a semantic search engine for biomedical knowledge. GeneView is built upon a comprehensively annotated version of PubMed abstracts and openly available PubMed Central full texts. This semi-structured representation of biomedical texts enables a number of features extending classical search engines. For instance, users may search for entities using unique database identifiers or they may rank documents by the number of specific mentions they contain. Annotation is performed by a multitude of state-of-the-art text-mining tools for recognizing mentions from 10 entity classes and for identifying protein-protein interactions. GeneView currently contains annotations for >194 million entities from 10 classes for ∼21 million citations with 271,000 full text bodies. GeneView can be searched at http://bc3.informatik.hu-berlin.de/. PMID:22693219

  4. Next-Gen Sequencing Exposes Frequent MED12 Mutations and Actionable Therapeutic Targets in Phyllodes Tumors

    PubMed Central

    Cani, Andi K.; Hovelson, Daniel H.; McDaniel, Andrew S.; Sadis, Seth; Haller, Michaela J.; Yadati, Venkata; Amin, Anmol M.; Bratley, Jarred; Bandla, Santhoshi; Williams, Paul D.; Rhodes, Kate; Liu, Chia-Jen; Quist, Michael J.; Rhodes, Daniel R.; Grasso, Catherine S.; Kleer, Celina G.; Tomlins, Scott A.

    2016-01-01

    Phyllodes tumors are rare fibroepithelial tumors with variable clinical behavior accounting for a small subset of all breast neoplasms, yet little is known about the genetic alterations that drive tumor initiation and/or progression. Here targeted next generation sequencing (NGS) was used to identify somatic alterations in formalin fixed paraffin embedded (FFPE) patient specimens from malignant, borderline and benign cases. NGS revealed mutations in mediator complex subunit 12 (MED12) affecting the G44 hotspot residue in the majority (67%) of cases spanning all three histological grades. In addition, loss-of-function mutations in p53 (TP53) as well as deleterious mutations in the tumor suppressors retinoblastoma (RB1) and neurofibromin 1 (NF1) were identified exclusively in malignant tumors. High-level copy number alterations (CNAs) were nearly exclusively confined to malignant tumors, including potentially clinically actionable gene amplifications in IGF1R and EGFR. Taken together, this study defines the genomic landscape underlying phyllodes tumor development, suggests potential molecular correlates to histologic grade, expands the spectrum of human tumors with frequent recurrent MED12 mutations, and identifies IGF1R and EGFR as potential therapeutic targets in malignant cases. PMID:25593300

  5. Enhanced DNA repair, immune function and reduced toxicity of C-MED-100, a novel aqueous extract from Uncaria tomentosa.

    PubMed

    Sheng, Y; Bryngelsson, C; Pero, R W

    2000-02-01

    Female W/Fu rats were gavaged daily with a water-soluble extract (C-MED-100) of Uncaria tomentosa supplied commercially by CampaMed at the doses of 0, 5, 10, 20, 40 and 80 mg/kg for 8 consecutive weeks. Phytohemagglutinin (PHA) stimulated lymphocyte proliferation was significantly increased in splenocytes of rats treated at the doses of 40 and 80 mg/kg. White blood cells (WBC) from the C-MED-100 treatment groups of 40 and 80 mg/kg for 8 weeks or 160 mg/kg for 4 weeks were significantly elevated compared with controls (P < 0.05). In a human volunteer study, C-MED-100 was given daily at 5 mg/kg for 6 consecutive weeks to four healthy adult males. No toxicity was observed and again, WBC were significantly elevated (P < 0.05) after supplement. Repair of DNA single strand breaks (SSB) and double strand breaks (DSB) 3 h after 12 Gy whole body irradiation of rats were also significantly improved in C-MED-100 treated animals (P < 0.05). The LD50 and MTD of a single oral dose of C-MED-100 in the rat were observed to be greater than 8 g/kg. Although the rats were treated daily with U. tomentosa extracts at the doses of 10-80 mg/kg for 8 weeks or 160 mg/kg for 4 weeks, no acute or chronic toxicity signs were observed symptomatically. In addition, no body weight, food consumption, organ weight and kidney, liver, spleen, and heart pathological changes were found to be associated with C-MED-100 treatment. PMID:10687868

  6. Novel MED12 gene somatic mutations in women from the Southern United States with symptomatic uterine fibroids

    PubMed Central

    Laknaur, Archana; Miller, Jessica; Layman, Lawrence C.; Diamond, Michael; Al-Hendy, Ayman

    2015-01-01

    Although somatic mutations in exon 2 of the mediator complex subunit 12 (MED12) gene have been reported previously in uterine fibroids in women from Finland, South Africa, and North America, the status of these mutations was not reported in the Southern United States women. The aim of this study is to determine the MED12 somatic mutations in uterine fibroids of women from Southern Unites States, which will help to better understand the contribution of MED12 mutations in fibroid tumor biology. Herein, we determined the frequency of MED12 gene exon 2 somatic mutations in 143 fibroid tumors from a total of 135 women from the Southern United States and in 50 samples of the adjacent myometrium using PCR amplification and Sanger sequencing. We observed that the MED12 gene is mutated in 64.33 % (92/143) of uterine fibroid cases in the exon 2 (including deletion mutations). These mutations include 107T > G (4.3 %), 130G > C (2.8 %), 130G > A (7.0 %), 130G > T (2.8 %), 131G > C (2.1 %), 131G > A (20.2 %), and 131G > T (2.1 %). Interestingly, we identified four novel mutations in these patients: 107 T > C (12.8 %), 105A > T (2.1 %), 122T > A (2.1 %), and 92T > A (2.1 %). As expected, we did not observe any mutations in the normal myometrium. Moreover, we found a higher rate of deletion mutations (17.5 %, 25/143) in the above fibroid tumors. Our results clearly demonstrate that the MED12 gene exon 2 is frequently mutated in human uterine fibroids in Southern United States women. These results highlight the molecular pathogenesis of human uterine fibroids with the central role of MED12 somatic mutations. PMID:25325994

  7. Public accessibility of biomedical articles from PubMed Central reduces journal readership—retrospective cohort analysis

    PubMed Central

    Davis, Philip M.

    2013-01-01

    Does PubMed Central—a government-run digital archive of biomedical articles—compete with scientific society journals? A longitudinal, retrospective cohort analysis of 13,223 articles (5999 treatment, 7224 control) published in 14 society-run biomedical research journals in nutrition, experimental biology, physiology, and radiology between February 2008 and January 2011 reveals a 21.4% reduction in full-text hypertext markup language (HTML) article downloads and a 13.8% reduction in portable document format (PDF) article downloads from the journals' websites when U.S. National Institutes of Health-sponsored articles (treatment) become freely available from the PubMed Central repository. In addition, the effect of PubMed Central on reducing PDF article downloads is increasing over time, growing at a rate of 1.6% per year. There was no longitudinal effect for full-text HTML downloads. While PubMed Central may be providing complementary access to readers traditionally underserved by scientific journals, the loss of article readership from the journal website may weaken the ability of the journal to build communities of interest around research papers, impede the communication of news and events to scientific society members and journal readers, and reduce the perceived value of the journal to institutional subscribers.—Davis, P. M. Public accessibility of biomedical articles from PubMed Central reduces journal readership—retrospective cohort analysis. PMID:23554455

  8. Future Energy Benchmark for Desalination: is it Better to have a Power (electricity) Plant with ro or Med/msf?

    NASA Astrophysics Data System (ADS)

    Shahzad, Muhammad Wakil; Ng, Kim Choon; Thu, Kyaw

    2016-06-01

    Power and desalination cogeneration plants are common in many water scared courtiers. Designers and planners for cogeneration face tough challenges in deciding the options:- Is it better to operate a power plant (PP) with the reverse osmosis (i.e., PP+RO) or the thermally-driven multi-effect distillation/multi-stage flashed (PP+MED/MSF) methods. From literature, the RO methods are known to be energy efficient whilst the MED/MSF are known to have excellent thermodynamic synergies as only low pressure and temperature steam are used. Not with-standing the challenges of severe feed seawater of the Gulf, such as the frequent harmful algae blooms (HABs) and high silt contents, this presentation presents a quantitative analyses using the exergy and energetic approaches in evaluating the performances of a real cogeneration plant that was recently proposed in the eastern part of Saudi Arabia. We demonstrate that the process choice of PP+RO versus PP+MED depends on the inherent efficiencies of individual process method which is closely related to innovative process design. In this connection, a method of primary fuel cost apportionment for a co-generation plant with a MED desalination is presented. We show that an energy approach, that captures the quality of expanding steam, is a better method over the conventional work output (energetic) and the energy method seems to be over-penalizing a thermally-driven MED by as much as 22% in the operating cost of water.

  9. Dual role of Med12 in PRC1-dependent gene repression and ncRNA-mediated transcriptional activation.

    PubMed

    Papadopoulou, Thaleia; Kaymak, Aysegül; Sayols, Sergi; Richly, Holger

    2016-06-01

    Mediator is considered an enhancer of RNA-Polymerase II dependent transcription but its function and regulation in pluripotent mouse embryonic stem cells (mESCs) remains unresolved. One means of controlling the function of Mediator is provided by the binding of the Cdk8 module (Med12, Cdk8, Ccnc and Med13) to the core Mediator. Here we report that Med12 operates together with PRC1 to silence key developmental genes in pluripotency. At the molecular level, while PRC1 represses genes it is also required to assemble ncRNA containing Med12-Mediator complexes. In the course of cellular differentiation the H2A ubiquitin binding protein Zrf1 abrogates PRC1-Med12 binding and facilitates the association of Cdk8 with Mediator. This remodeling of Mediator-associated protein complexes converts Mediator from a transcriptional repressor to a transcriptional enhancer, which then mediates ncRNA-dependent activation of Polycomb target genes. Altogether, our data reveal how the interplay of PRC1, ncRNA and Mediator complexes controls pluripotency and cellular differentiation. PMID:27096886

  10. The Med AppJam: a model for an interprofessional student-centered mHealth app competition.

    PubMed

    Youm, Julie; Wiechmann, Warren

    2015-03-01

    The Med AppJam is a 2-week long competition where students from the University of California, Irvine School of Medicine are partnered with students from the University of California, Irvine School of Information and Computer Sciences in interprofessional teams to develop mobile health applications for use by clinicians and patients. The success of the Med AppJam comes from the unique opportunity for students to mutually contribute their content expertise to improve the clinical landscape while expanding their technology literacy and savvy. Since 2012, about 285 computer science students and over 90 medical students have collaborated to design and develop 53 iOS mHealth apps during the event. The Med AppJam model has been replicated in an Autism AppJam, a competition focused on the needs of a specific population, and with high school students in a mini Pre-Med AppJam using a paper prototyping approach. It is proposed that other medical schools consider implementation of a local Med AppJam as a viable model for engaging students in technology for healthcare. PMID:25682357

  11. SLC26A2 disease spectrum in Sweden - high frequency of recessive multiple epiphyseal dysplasia (rMED).

    PubMed

    Mäkitie, O; Geiberger, S; Horemuzova, E; Hagenäs, L; Moström, E; Nordenskjöld, M; Grigelioniene, G; Nordgren, A

    2015-03-01

    Diastrophic dysplasia (DTD) is an autosomal recessive skeletal dysplasia caused by SLC26A2 mutations. Clinical features include short stature, joint contractures, spinal deformities, and cleft palate. SLC26A2 mutations also result in other skeletal dysplasias, including the milder recessive multiple epiphyseal dysplasia (rMED). DTD is overrepresented in Finland and we speculated that this may have influenced the prevalence and spectrum of SLC26A2-related skeletal conditions also in Sweden. We reviewed the patient registry at Department of Clinical Genetics, Karolinska University Hospital, Stockholm to identify subjects with SLC26A2 mutations. Seven patients from six families were identified; clinical data were available for six patients. All but one patient had one or two copies of the Finnish SLC26A2 founder mutation IVS1+2T>C. Arg279Trp mutation was present in compound heterozygous form in five patients with phenotypes consistent with rMED. Their heights ranged from -2.6 to -1.4 standard deviation units below normal mean and radiographic features included generalised epiphyseal dysplasia and double-layered patellae. Two rMED patients had hypoplastic C2 and cervical kyphosis, a severe manifestation previously described only in DTD. Our study confirms a high prevalence of rMED in Sweden and expands the phenotypic manifestations of rMED. PMID:24598000

  12. MedCIRCLE - Collaboration for Internet Rating, Certification, Labeling and Evaluation of Health Information on the Semantic World Wide Web

    PubMed Central

    Eysenbach, G.; Köhler, Ch.; Roth-Berghofer, T.; Mayer, M.A.; Fiene, M.; Darmoni, S.

    2002-01-01

    MedCIRCLE (www.medcircle.info) is a semantic web project to develop and promote technologies able to guide consumers to trustworthy health information on the Internet and to establish a global web of trust for networked health information. Gateway sites for consumer health information (CisMEF, AQUMED, Certified Medical Web Site Seal of METGES online) will use HIDDEL metadata (Health Information Disclosure, Description and Evaluation Language, expressed in XML/RDF Syntax) to make their annotation and evaluation data machine-processable and accessible for software-agents. Other health subject gateways, accreditation, or rating services are invited to join the collaboration by implementing HIDDEL on their gateways. Expressing self-descriptive or third-party evaluations a machine-processable format allows intelligent agents or client-side software to harvest statements and opinions about the trustworthiness of other websites and assist users in selecting trustworthy websites. The MedCIRCLE project builds on, expands and continues work on rating health information on the Internet piloted within the MedCERTAIN project. While MedCERTAIN provided the core technologies and software for rating and “trustmarking” health information, MedCIRCLE is built around these technologies and involves a wider medical community to assess health information, demonstrating the power of collaborative and interoperable evaluations on the world-wide-web. Other specific aims include refinement and expansion of HIDDEL, to become a standard vocabulary and interchange format for self- and third-party ratings of health information.

  13. TERENO-MED: Observation and Exploration Platform for Water Resources in the Mediterranean

    NASA Astrophysics Data System (ADS)

    Krueger, E.; Zacharias, S.; Friesen, J.; Vereecken, H.; Bogena, H.; Kallioras, A.

    2012-04-01

    According to the latest IPCC projections, the Circum-Mediterranean region will be particularly affected by Global and Climate Change. These changes include population growth, increases in food, water and energy demands, changes in land use patterns and urbanization/industrialization, while at the same time, the renewable water resources in the region are predicted to decrease by up to 50 % within the next 100 years. However, a profound basis for estimating and predicting the long-term effects of Global and Climate Change on the development of the quantity and quality of water resources and on ecosystems is still lacking. The main reason for this is that environmental monitoring, in particular in the Mediterranean region, is strongly disciplinarily oriented, and financing is usually limited to short-term periods. The TERENO-MED (Terrestrial Environmental Observatories in the Mediterranean) initiative aims to fill the described gap. Together with partners in the region, TERENO-MED will establish a Circum-Mediterranean network of Global Change observatories, and will investigate the effects of anthropogenic impacts and of climate change on Mediterranean water resources and ecosystems. Within a set of representative catchments around the Circum-Mediterranean region (Southern Europe, Northern Africa, Near East), observatory sites will be installed with state-of-the-art and innovative monitoring equipment, in order to measure hydrological states and fluxes on a long-term basis (minimum 15 years). Monitoring equipment will cover all scales, from the point to the regional scale using ground-based and remote sensing technologies. Based on the acquired information, TERENO-MED, together with partners across the Mediterranean region will develop model scenarios that may serve as a basis for sustainable political and economical decisions. In order to gain a deep understanding of the most relevant processes and feedbacks, and to deliver reliable future scenarios for the

  14. Dosimetric study of surface applicators of HDR brachytherapy GammaMed Plus equipment

    SciTech Connect

    Reyes-Rivera, E. E-mail: modesto@fisica.ugto.mx Sosa, M. E-mail: modesto@fisica.ugto.mx Reyes, U. E-mail: modesto@fisica.ugto.mx Jesús Bernal-Alvarado, José de E-mail: theo@fisica.ugto.mx Córdova, T. E-mail: theo@fisica.ugto.mx Gil-Villegas, A. E-mail: theo@fisica.ugto.mx; Monzón, E.

    2014-11-07

    The cone type surface applicators used in HDR brachytherapy for treatment of small skin lesions are an alternative to be used with both electron beams and orthovoltage X-ray equipment. For a good treatment planning is necessary to know the dose distribution of these applicators, which can be obtained by experimental measurement and Monte Carlo simulation as well. In this study the dose distribution of surface applicators of 3 and 3.5 cm diameter, respectively of HDR brachytherapy GammaMed Plus equipment has been estimated using the Monte Carlo method, MCNP code. The applicators simulated were placed on the surface of a water phantom of 20 × 20 × 20 cm and the dose was calculated at depths from 0 to 3 cm with increments of 0.25 mm. The dose profiles obtained at depth show the expected gradients for surface therapy.

  15. Automated Determination of Publications Related to Adverse Drug Reactions in PubMed

    PubMed Central

    Adams, Hayden; Friedman, Carol; Finkelstein, Joseph

    2015-01-01

    Timely dissemination of up-to-date information concerning adverse drug reactions (ADRs) at the point of care can significantly improve medication safety and prevent ADRs. Automated methods for finding relevant articles in MEDLINE which discuss ADRs for specific medications can facilitate decision making at the point of care. Previous work has focused on other types of clinical queries and on retrieval for specific ADRs or drug-ADR pairs, but little work has been published on finding ADR articles for a specific medication. We have developed a method to generate a PubMED query based on MESH, supplementary concepts, and textual terms for a particular medication. Evaluation was performed on a limited sample, resulting in a sensitivity of 90% and precision of 93%. Results demonstrated that this method is highly effective. Future work will integrate this method within an interface aimed at facilitating access to ADR information for specified drugs at the point of care. PMID:26306227

  16. DEM generation by using COSMO/SkyMed tandem pairs and weather models

    NASA Astrophysics Data System (ADS)

    Nitti, Davide O.; Bovenga, Fabio; Nutricato, Raffaele; Intini, Francesca; Chiaradia, Maria Teresa

    2013-10-01

    The paper investigates the potentialities of the COSMO/SkyMed (CSK) constellation for ground elevation measurement through conventional and multi-temporal SAR Interferometry (InSAR), with particular attention devoted to the impact of the improved spatial resolution with respect to the previous SAR sensors. The Atmospheric Phase Screen (APS) is wellknown to be the main source of errors for accurate topographic mapping through SAR interferometry, in case of monostatic sensors. Different strategies can be adopted to filter out this signal, ranging from the exploitation of the wellknown spatial and temporal statistics of the APS to the estimation of independent APS measurements through Numerical Weather Prediction (NWP) models. Their feasibility and the achievable accuracies are discussed here.

  17. Evaluating semantic relatedness and similarity measures with Standardized MedDRA Queries.

    PubMed

    Bill, Robert W; Liu, Ying; McInnes, Bridget T; Melton, Genevieve B; Pedersen, Ted; Pakhomov, Serguei

    2012-01-01

    A potential use of automated concept similarity and relatedness measures is to improve automatic detection of clinical text that relates to a condition indicative of an adverse drug reaction. This is also one of the purposes of the Medical Dictionary for Regulatory Activities (MedDRA) Standardized Queries (SMQ). An expert panel evaluates SMQs for their ability to detect a condition of interest and thus qualifies them as a reference standard for evaluating automated approaches. We compare similarity and relatedness measurement methods on rates of correctly identifying intra-category and inter-category concept pairs from SMQ data to create ROC curves of each method's sensitivity and specificity. Results indicate an information content measure, specifically the Resnik method, achieved the highest results as measured by area under the curve, but using two different measures as predictors, Resnik and Lin, obtained the highest score. Overall, using SMQ data resulted in a productive method of evaluating automated semantic relatedness and similarity scores. PMID:23304271

  18. Dosimetric study of surface applicators of HDR brachytherapy GammaMed Plus equipment

    NASA Astrophysics Data System (ADS)

    Reyes-Rivera, E.; Sosa, M.; Reyes, U.; Monzón, E.; de Jesús Bernal-Alvarado, José; Córdova, T.; Gil-Villegas, A.

    2014-11-01

    The cone type surface applicators used in HDR brachytherapy for treatment of small skin lesions are an alternative to be used with both electron beams and orthovoltage X-ray equipment. For a good treatment planning is necessary to know the dose distribution of these applicators, which can be obtained by experimental measurement and Monte Carlo simulation as well. In this study the dose distribution of surface applicators of 3 and 3.5 cm diameter, respectively of HDR brachytherapy GammaMed Plus equipment has been estimated using the Monte Carlo method, MCNP code. The applicators simulated were placed on the surface of a water phantom of 20 × 20 × 20 cm and the dose was calculated at depths from 0 to 3 cm with increments of 0.25 mm. The dose profiles obtained at depth show the expected gradients for surface therapy.

  19. Measuring The Area Of Antarctic Polynyas With COSMO-SkyMed Images

    NASA Astrophysics Data System (ADS)

    Flores, Miguel Moctezuma; Prmiggiani, Flavio; Lopez, Ludwin

    2013-12-01

    Antarctic polynyas have been subject of great scientific interest as they operate like ‘ice factories' and contribute to a large extent to new ice formation. One of the most important coastal polynyas around Antarctica is Terra Nova Bay (TNB) polynya. The images of the new Cosmo-SkyMed (CSK) satellite constellation have proved to be a perfect tool to study polynya extent dynamics. To obtain an automatic measure of polynya area as observed by CSK SAR-X images, a processing scheme, based on anisotropic diffusion filtering and on Markov Random Fields, was developed. The processing scheme was tested on a CSK SAR-X images captured during the TNB polynya event of September 10, 2009. The good correspondence between the polynya extent as obtained by the automatic method and as clearly identified by visual inspection, confirms the soundness of the proposed processing scheme.

  20. Structure and VP16 binding of the Mediator Med25 activator interaction domain.

    PubMed

    Vojnic, Erika; Mourão, André; Seizl, Martin; Simon, Bernd; Wenzeck, Larissa; Larivière, Laurent; Baumli, Sonja; Baumgart, Karen; Meisterernst, Michael; Sattler, Michael; Cramer, Patrick

    2011-04-01

    Eukaryotic transcription is regulated by interactions between gene-specific activators and the coactivator complex Mediator. Here we report the NMR structure of the Mediator subunit Med25 (also called Arc92) activator interaction domain (ACID) and analyze the structural and functional interaction of ACID with the archetypical acidic transcription activator VP16. Unlike other known activator targets, ACID forms a seven-stranded β-barrel framed by three helices. The VP16 subdomains H1 and H2 bind to opposite faces of ACID and cooperate during promoter-dependent activated transcription in a in vitro system. The activator-binding ACID faces are functionally required and conserved among higher eukaryotes. Comparison with published activator structures reveals that the VP16 activation domain uses distinct interaction modes to adapt to unrelated target surfaces and folds that evolved for activator binding. PMID:21378965

  1. On the COSMO-SkyMed Exploitation for Interferometric DEM Generation

    NASA Astrophysics Data System (ADS)

    Teresa, C. M.; Raffaele, N.; Oscar, N. D.; Fabio, B.

    2011-12-01

    DEM products for Earth observation space-borne applications are being to play a role of increasing importance due to the new generation of high resolution sensors (both optical and SAR). These new sensors demand elevation data for processing and, on the other hand, they provide new possibilities for DEM generation. Till now, for what concerns interferometric DEM, the Shuttle Radar Topography Mission (SRTM) has been the reference product for scientific applications all over the world. SRTM mission [1] had the challenging goal to meet the requirements for a homogeneous and reliable DEM fulfilling the DTED-2 specifications. However, new generation of high resolution sensors (including SAR) pose new requirements for elevation data in terms of vertical precision and spatial resolution. DEM are usually used as ancillary input in different processing steps as for instance geocoding and Differential SAR Interferometry. In this context, the recent SAR missions of DLR (TerraSAR-X and TanDEM-X) and ASI (COSMO-SkyMed) can play a promising role thanks to their high resolution both in space and time. In particular, the present work investigates the potentialities of the COSMO/SkyMed (CSK) constellation for ground elevation measurement with particular attention devoted to the impact of the improved spatial resolution wrt the previous SAR sensors. The recent scientific works, [2] and [3], have shown the advantages of using CSK in the monitoring of terrain deformations caused by landslides, earthquakes, etc. On the other hand, thanks to the high spatial resolution, CSK appears to be very promising in monitoring man-made structures, such as buildings, bridges, railways and highways, thus enabling new potential applications (urban applications, precise DEM, etc.). We present results obtained by processing both SPOTLIGHT and STRIPMAP acquisitions through standard SAR Interferometry as well as multi-pass interferometry [4] with the aim of measuring ground elevation. Acknowledgments

  2. Retrieval comparison of EndNote to search MEDLINE (Ovid and PubMed) versus searching them directly.

    PubMed

    Gall, Carole; Brahmi, Frances A

    2004-01-01

    Using EndNote version 7.0, the authors tested the search capabilities of the EndNote search engine for retrieving citations from MEDLINE for importation into EndNote, a citation management software package. Ovid MEDLINE and PubMed were selected for the comparison. Several searches were performed on Ovid MEDLINE and PubMed using EndNote as the search engine, and the same searches were run on both Ovid and PubMed directly. Findings indicate that it is preferable to search MEDLINE directly rather than using EndNote. The publishers of EndNote do warn its users about the limitations of their product as a search engine when searching external databases. In this article, the limitations of EndNote as a search engine for searching MEDLINE were explored as related to MeSH, non-MeSH, citation verification, and author searching. PMID:15364649

  3. A Bibliometric Analysis of PubMed Literature on Middle East Respiratory Syndrome

    PubMed Central

    Wang, Zhengting; Chen, Yongdi; Cai, Gaofeng; Jiang, Zhenggang; Liu, Kui; Chen, Bin; Jiang, Jianmin; Gu, Hua

    2016-01-01

    Middle East Respiratory Syndrome (MERS), a pandemic threat to human beings, has aroused huge concern worldwide, but no bibliometric studies have been conducted on MERS research. The aim of this study was to map research productivity on the disease based on the articles indexed in PubMed. The articles related to MERS dated from 2012 to 2015 were retrieved from PubMed. The articles were classified into three categories according to their focus. Publication outputs were assessed and frequently used terms were mapped using the VOS viewer software. A total of 443 articles were included for analysis. They were published in 162 journals, with Journal of Virology being the most productive (44 articles; 9.9%) and by six types of organizations, with universities being the most productive (276 articles; 62.4%).The largest proportion of the articles focused on basic medical sciences and clinical studies (47.2%) and those on prevention and control ranked third (26.2%), with those on other focuses coming in between (26.6%). The articles on prevention and control had the highest mean rank for impact factor (IF) (226.34), followed by those on basic medical sciences and clinical studies (180.23) and those on other focuses (168.03). The mean rank differences were statistically significant (p = 0.000). Besides, “conronavirus”, “case”, “transmission” and “detection” were found to be the most frequently used terms. The findings of this first bibliometric study on MERS suggest that the prevention and control of the disease has become a big concern and related research should be strengthened. PMID:27304963

  4. A Bibliometric Analysis of PubMed Literature on Middle East Respiratory Syndrome.

    PubMed

    Wang, Zhengting; Chen, Yongdi; Cai, Gaofeng; Jiang, Zhenggang; Liu, Kui; Chen, Bin; Jiang, Jianmin; Gu, Hua

    2016-01-01

    Middle East Respiratory Syndrome (MERS), a pandemic threat to human beings, has aroused huge concern worldwide, but no bibliometric studies have been conducted on MERS research. The aim of this study was to map research productivity on the disease based on the articles indexed in PubMed. The articles related to MERS dated from 2012 to 2015 were retrieved from PubMed. The articles were classified into three categories according to their focus. Publication outputs were assessed and frequently used terms were mapped using the VOS viewer software. A total of 443 articles were included for analysis. They were published in 162 journals, with Journal of Virology being the most productive (44 articles; 9.9%) and by six types of organizations, with universities being the most productive (276 articles; 62.4%).The largest proportion of the articles focused on basic medical sciences and clinical studies (47.2%) and those on prevention and control ranked third (26.2%), with those on other focuses coming in between (26.6%). The articles on prevention and control had the highest mean rank for impact factor (IF) (226.34), followed by those on basic medical sciences and clinical studies (180.23) and those on other focuses (168.03). The mean rank differences were statistically significant (p = 0.000). Besides, "conronavirus", "case", "transmission" and "detection" were found to be the most frequently used terms. The findings of this first bibliometric study on MERS suggest that the prevention and control of the disease has become a big concern and related research should be strengthened. PMID:27304963

  5. Efficacy of MedMyst: an Internet Teaching Tool for Middle School Microbiology.

    PubMed

    Miller, Leslie M; Moreno, Janette; Estrera, Vicky; Lane, David

    2004-05-01

    Can web-based technology be used to effectively introduce or reinforce aspects of microbiology to middle school students? This central hypothesis examines whether brief exposure to a web adventure format containing virtual lab experiments and computer games within an engaging story line can impact student learning. An episodic adventure series, MedMyst (http://medmyst.rice.edu), focuses on infectious diseases and the microbes that cause them. The website is not intended to replace classroom instruction, but rather to engage students in problem-solving activities not likely to be encountered elsewhere. It also provides scientists with a resource to introduce microbiology to adolescent audiences through outreach activities. In the online adventure, the player (student) enters a futuristic world in which he or she becomes a "Reconstructor," a member of an elite team charged with preventing the spread of infectious disease. The series consists of three "missions," each lasting approximately 30 to 40 minutes and designed to address a limited set of learning objectives. Middle school students participated in the creation of the characters and the stylized design through focus groups. Classroom teachers oversaw the alignment of the web adventure objectives with the National Science Content Standards. Scientists and clinicians reviewed the web adventure for content and accuracy. A field test involving over 700 students from nine different schools assessed the knowledge gains attributable to playing MedMyst. Gain scores from pretest to posttest indicated that middle school students retained important information by interacting with the online material for as little as 30 minutes per adventure; however, gains for high school students were less persuasive, perhaps indicating a different learning tool or content is required for this age audience. PMID:23653553

  6. Efficacy of MedMyst: an Internet Teaching Tool for Middle School Microbiology

    PubMed Central

    MILLER, LESLIE M.; MORENO, JANETTE; ESTRERA, VICKY; LANE, DAVID

    2004-01-01

    Can web-based technology be used to effectively introduce or reinforce aspects of microbiology to middle school students? This central hypothesis examines whether brief exposure to a web adventure format containing virtual lab experiments and computer games within an engaging story line can impact student learning. An episodic adventure series, MedMyst (http://medmyst.rice.edu), focuses on infectious diseases and the microbes that cause them. The website is not intended to replace classroom instruction, but rather to engage students in problem-solving activities not likely to be encountered elsewhere. It also provides scientists with a resource to introduce microbiology to adolescent audiences through outreach activities. In the online adventure, the player (student) enters a futuristic world in which he or she becomes a “Reconstructor,” a member of an elite team charged with preventing the spread of infectious disease. The series consists of three “missions,” each lasting approximately 30 to 40 minutes and designed to address a limited set of learning objectives. Middle school students participated in the creation of the characters and the stylized design through focus groups. Classroom teachers oversaw the alignment of the web adventure objectives with the National Science Content Standards. Scientists and clinicians reviewed the web adventure for content and accuracy. A field test involving over 700 students from nine different schools assessed the knowledge gains attributable to playing MedMyst. Gain scores from pretest to posttest indicated that middle school students retained important information by interacting with the online material for as little as 30 minutes per adventure; however, gains for high school students were less persuasive, perhaps indicating a different learning tool or content is required for this age audience. PMID:23653553

  7. Analysis of dual polarization images of precipitating clouds collected by the COSMO SkyMed constellation

    NASA Astrophysics Data System (ADS)

    Baldini, Luca; Roberto, Nicoletta; Gorgucci, Eugenio; Fritz, Jason; Chandrasekar, V.

    2014-07-01

    Currently, several satellite missions are employing X-band synthetic aperture radars (SAR) with polarimetric capabilities. In images collected over land by X-band SAR, precipitation results mainly in evident attenuation of the surface returns. Effects of precipitation in polarimetric SAR images and how to exploit them for precipitation studies are emerging topics of interest. This paper investigates polarimetric signatures of precipitation in images collected by the X-band SARs of the Italian Space Agency COSMO SkyMed constellation using the HH-VV alternate polarimetric mode. Analyzed images were collected in 2010 when the constellation was composed of three satellites and operated in the “tandem like” interferometric configuration, which allowed acquisition of the same scene with the same viewing geometry and a minimum decorrelation time of one day. Observations collected in Piedmont (Italy) and Tampa Bay (Florida, US) have been analyzed along with coincident observations collected by operational weather radars, used to reconstruct the component of SAR returns due to precipitation at horizontal and vertical polarization states. Different techniques are used depending on the different characteristics of terrestrial radars. SAR observations reconstructed from terrestrial measurements are in fairly good agreement with actual SAR observations. Results confirm that the attenuation signature in SAR images collected over land is particularly pronounced in the presence of precipitation cells and can be related to the radar reflectivity integrated along the same path. The difference between copolar HH and VV power measurements reveals a differential attenuation due to anisotropy of precipitation, whose range is limited when the SAR incidence angle is low. A specific feature observed in the CosmoSkyMed alternate polarization implementation is the presence of the scalloping effect, a periodic effect along the azimuth direction that cannot always be removed by standard de

  8. The Mediator complex subunit MED25 is targeted by the N-terminal transactivation domain of the PEA3 group members

    PubMed Central

    Verger, Alexis; Baert, Jean-Luc; Verreman, Kathye; Dewitte, Frédérique; Ferreira, Elisabeth; Lens, Zoé; de Launoit, Yvan; Villeret, Vincent; Monté, Didier

    2013-01-01

    PEA3, ERM and ER81 belong to the PEA3 subfamily of Ets transcription factors and play important roles in a number of tissue-specific processes. Transcriptional activation by PEA3 subfamily factors requires their characteristic amino-terminal acidic transactivation domain (TAD). However, the cellular targets of this domain remain largely unknown. Using ERM as a prototype, we show that the minimal N-terminal TAD activates transcription by contacting the activator interacting domain (ACID)/Prostate tumor overexpressed protein 1 (PTOV) domain of the Mediator complex subunit MED25. We further show that depletion of MED25 disrupts the association of ERM with the Mediator in vitro. Small interfering RNA-mediated knockdown of MED25 as well as the overexpression of MED25-ACID and MED25-VWA domains efficiently inhibit the transcriptional activity of ERM. Moreover, mutations of amino acid residues that prevent binding of MED25 to ERM strongly reduce transactivation by ERM. Finally we show that siRNA depletion of MED25 diminishes PEA3-driven expression of MMP-1 and Mediator recruitment. In conclusion, this study identifies the PEA3 group members as the first human transcriptional factors that interact with the MED25 ACID/PTOV domain and establishes MED25 as a crucial transducer of their transactivation potential. PMID:23531547

  9. Methods and pitfalls in searching drug safety databases utilising the Medical Dictionary for Regulatory Activities (MedDRA).

    PubMed

    Brown, Elliot G

    2003-01-01

    The Medical Dictionary for Regulatory Activities (MedDRA) is a unified standard terminology for recording and reporting adverse drug event data. Its introduction is widely seen as a significant improvement on the previous situation, where a multitude of terminologies of widely varying scope and quality were in use. However, there are some complexities that may cause difficulties, and these will form the focus for this paper. Two methods of searching MedDRA-coded databases are described: searching based on term selection from all of MedDRA and searching based on terms in the safety database. There are several potential traps for the unwary in safety searches. There may be multiple locations of relevant terms within a system organ class (SOC) and lack of recognition of appropriate group terms; the user may think that group terms are more inclusive than is the case. MedDRA may distribute terms relevant to one medical condition across several primary SOCs. If the database supports the MedDRA model, it is possible to perform multiaxial searching: while this may help find terms that might have been missed, it is still necessary to consider the entire contents of the SOCs to find all relevant terms and there are many instances of incomplete secondary linkages. It is important to adjust for multiaxiality if data are presented using primary and secondary locations. Other sources for errors in searching are non-intuitive placement and the selection of terms as preferred terms (PTs) that may not be widely recognised. Some MedDRA rules could also result in errors in data retrieval if the individual is unaware of these: in particular, the lack of multiaxial linkages for the Investigations SOC, Social circumstances SOC and Surgical and medical procedures SOC and the requirement that a PT may only be present under one High Level Term (HLT) and one High Level Group Term (HLGT) within any single SOC. Special Search Categories (collections of PTs assembled from various SOCs by

  10. Shifting Sands: Science Researchers on Google Scholar, Web of Science, and PubMed, with Implications for Library Collections Budgets

    ERIC Educational Resources Information Center

    Hightower, Christy; Caldwell, Christy

    2010-01-01

    Science researchers at the University of California Santa Cruz were surveyed about their article database use and preferences in order to inform collection budget choices. Web of Science was the single most used database, selected by 41.6%. Statistically there was no difference between PubMed (21.5%) and Google Scholar (18.7%) as the second most…

  11. It's Not Always Just about the Grade: Exploring the Achievement Goal Orientations of Pre-Med Students

    ERIC Educational Resources Information Center

    Horowitz, Gail

    2010-01-01

    This qualitative study investigated the achievement goal orientations of a group of all male pre-med students attending a small, urban undergraduate college. Semi-structured interviews examined under what circumstances students adopted extrinsic goals, mastery goals, or a mixture of the two. Findings indicated that while nearly all students…

  12. The Effect of an MEd Program in Science Education on Teachers' Professional Development: An Israeli Case Study

    ERIC Educational Resources Information Center

    Trumper, Ricardo; Eldar, Osnat

    2015-01-01

    This study reports the effect of teachers' professional development in a two-year MEd program of High School Science Education, held from October 2010 until March 2012. Twelve out of the 33 teachers enrolled in the program participated in the study. The main research questions were: what are the teachers' perceptions of their own work and teaching…

  13. MedEthEx Online: A Computer-based Learning Program in Medical Ethics and Communication Skills.

    ERIC Educational Resources Information Center

    Fleetwood, Janet; Vaught, Wayne; Feldman, Debra; Gracely, Edward; Kassutto, Zach; Novack, Dennis

    2000-01-01

    Assessed MedEthEx Online, a computer-based learning program, in improving communication skills as part of a required bioethics course for medical students. Exam scores of users were comparable with non-users, although computerized-learning students scored higher in specific exam areas, felt somewhat more clinically prepared, and rated the course…

  14. A muscle-specific knockout implicates nuclear receptor coactivator MED1 in the regulation of glucose and energy metabolism

    PubMed Central

    Chen, Wei; Zhang, Xiaoting; Birsoy, Kivanc; Roeder, Robert G.

    2010-01-01

    As conventional transcriptional factors that are activated in diverse signaling pathways, nuclear receptors play important roles in many physiological processes that include energy homeostasis. The MED1 subunit of the Mediator coactivator complex plays a broad role in nuclear receptor-mediated transcription by anchoring the Mediator complex to diverse promoter-bound nuclear receptors. Given the significant role of skeletal muscle, in part through the action of nuclear receptors, in glucose and fatty acid metabolism, we generated skeletal muscle-specific Med1 knockout mice. Importantly, these mice show enhanced insulin sensitivity and improved glucose tolerance as well as resistance to high-fat diet–induced obesity. Furthermore, the white muscle of these mice exhibits increased mitochondrial density and expression of genes specific to type I and type IIA fibers, indicating a fast-to-slow fiber switch, as well as markedly increased expression of the brown adipose tissue-specific UCP-1 and Cidea genes that are involved in respiratory uncoupling. These dramatic results implicate MED1 as a powerful suppressor in skeletal muscle of genetic programs implicated in energy expenditure and raise the significant possibility of therapeutical approaches for metabolic syndromes and muscle diseases through modulation of MED1–nuclear receptor interactions. PMID:20479251

  15. An In Vivo Requirement for the Mediator Subunit Med14 in the Maintenance of Stem Cell Populations

    PubMed Central

    Burrows, Jeffrey T.A.; Pearson, Bret J.; Scott, Ian C.

    2015-01-01

    Summary The Mediator complex has recently been shown to be a key player in the maintenance of embryonic and induced pluripotent stem cells. However, the in vivo consequences of loss of many Mediator subunits are unknown. We identified med14 as the gene affected in the zebrafish logelei (log) mutant, which displayed a morphological arrest by 2 days of development. Surprisingly, microarray analysis showed that transcription was not broadly affected in log mutants. Indeed, log cells transplanted into a wild-type environment were able to survive into adulthood. In planarians, RNAi knockdown demonstrated a requirement for med14 and many other Mediator components in adult stem cell maintenance and regeneration. Multiple stem/progenitor cell populations were observed to be reduced or absent in zebrafish med14 mutant embryos. Taken together, our results show a critical, evolutionarily conserved, in vivo function for Med14 (and Mediator) in stem cell maintenance, distinct from a general role in transcription. PMID:25772472

  16. What CORBA can do: An example of a new system developed with object technology: TeleMed

    SciTech Connect

    Forslund, D.; Phillips, R.; Tomlinson, B.

    1996-05-01

    The TeleMed application grew out of a relationship with physicians at the National Jewish Center for Immunology and Respiratory Medicine (NJC) in Denver. These physicians are experts in pulmonary diseases and radiology, helping patients combat effects of TB and other lung diseases. To make the knowledge and experience at NJC available to a wider audience, LANL has developed a virtual patient record system called TeleMed which is based on distributed national radiographic and patient record repository located throughout the country. Without leaving their offices, participating doctors can view clinical drug and radiographic data via a sophisticated multimedia interface. TeleMed is also valuable for teaching and presentation as well. Thus a resident can use TeleMed for self-training in diagnostic techniques and a physician can use it to explain to a patient the course of their illness. Data can be viewed simultaneously by users at two or more distant locations for consultation with specialists in different fields. This capability is made possible by integration of multimedia information using commercial CORBA technology linking object-enable databases with client interfaces using a three-tiered architecture.

  17. MED26 regulates the transcription of snRNA genes through the recruitment of little elongation complex

    PubMed Central

    Takahashi, Hidehisa; Takigawa, Ichigaku; Watanabe, Masashi; Anwar, Delnur; Shibata, Mio; Tomomori-Sato, Chieri; Sato, Shigeo; Ranjan, Amol; Seidel, Chris W.; Tsukiyama, Tadasuke; Mizushima, Wataru; Hayashi, Masayasu; Ohkawa, Yasuyuki; Conaway, Joan W.; Conaway, Ronald C.

    2015-01-01

    Regulation of transcription elongation by RNA polymerase II (Pol II) is a key regulatory step in gene transcription. Recently, the little elongation complex (LEC)—which contains the transcription elongation factor ELL/EAF—was found to be required for the transcription of Pol II-dependent small nuclear RNA (snRNA) genes. Here, we show that the human Mediator subunit MED26 plays a role in the recruitment of LEC to a subset of snRNA genes through direct interaction of EAF and the N-terminal domain (NTD) of MED26. Loss of MED26 in cells decreases the occupancy of LEC at a subset of snRNA genes and results in a reduction in their transcription. Our results suggest that the MED26 NTD functions as a molecular switch in the exchange of TBP-associated factor 7 (TAF7) for LEC in order to facilitate the transition from initiation to elongation during transcription of a subset of snRNA genes. PMID:25575120

  18. Bound and Determined: Perceptions of Pre-Med Seniors Regarding Their Persistence in Preparing for Medical School

    ERIC Educational Resources Information Center

    Richardson, Tobin; Mulvihill, Thalia; Latz, Amanda O.

    2014-01-01

    The purpose of this study was to examine factors related to the persistence of university seniors pursuing a baccalaureate degree and preparing for medical school admission. This topic is important as a vast majority of students who begin their undergraduate studies identifying as "pre-med" change this objective early in their academic…

  19. Public accessibility of biomedical articles from PubMed Central reduces journal readership--retrospective cohort analysis.

    PubMed

    Davis, Philip M

    2013-07-01

    Does PubMed Central--a government-run digital archive of biomedical articles--compete with scientific society journals? A longitudinal, retrospective cohort analysis of 13,223 articles (5999 treatment, 7224 control) published in 14 society-run biomedical research journals in nutrition, experimental biology, physiology, and radiology between February 2008 and January 2011 reveals a 21.4% reduction in full-text hypertext markup language (HTML) article downloads and a 13.8% reduction in portable document format (PDF) article downloads from the journals' websites when U.S. National Institutes of Health-sponsored articles (treatment) become freely available from the PubMed Central repository. In addition, the effect of PubMed Central on reducing PDF article downloads is increasing over time, growing at a rate of 1.6% per year. There was no longitudinal effect for full-text HTML downloads. While PubMed Central may be providing complementary access to readers traditionally underserved by scientific journals, the loss of article readership from the journal website may weaken the ability of the journal to build communities of interest around research papers, impede the communication of news and events to scientific society members and journal readers, and reduce the perceived value of the journal to institutional subscribers. PMID:23554455

  20. How to improve your PubMed/MEDLINE searches: 3. advanced searching, MeSH and My NCBI.

    PubMed

    Fatehi, Farhad; Gray, Leonard C; Wootton, Richard

    2014-03-01

    Although the basic PubMed search is often helpful, the results may sometimes be non-specific. For more control over the search process you can use the Advanced Search Builder interface. This allows a targeted search in specific fields, with the convenience of being able to select the intended search field from a list. It also provides a history of your previous searches. The search history is useful to develop a complex search query by combining several previous searches using Boolean operators. For indexing the articles in MEDLINE, the NLM uses a controlled vocabulary system called MeSH. This standardised vocabulary solves the problem of authors, researchers and librarians who may use different terms for the same concept. To be efficient in a PubMed search, you should start by identifying the most appropriate MeSH terms and use them in your search where possible. My NCBI is a personal workspace facility available through PubMed and makes it possible to customise the PubMed interface. It provides various capabilities that can enhance your search performance. PMID:24614997

  1. An in vivo requirement for the mediator subunit med14 in the maintenance of stem cell populations.

    PubMed

    Burrows, Jeffrey T A; Pearson, Bret J; Scott, Ian C

    2015-04-14

    The Mediator complex has recently been shown to be a key player in the maintenance of embryonic and induced pluripotent stem cells. However, the in vivo consequences of loss of many Mediator subunits are unknown. We identified med14 as the gene affected in the zebrafish logelei (log) mutant, which displayed a morphological arrest by 2 days of development. Surprisingly, microarray analysis showed that transcription was not broadly affected in log mutants. Indeed, log cells transplanted into a wild-type environment were able to survive into adulthood. In planarians, RNAi knockdown demonstrated a requirement for med14 and many other Mediator components in adult stem cell maintenance and regeneration. Multiple stem/progenitor cell populations were observed to be reduced or absent in zebrafish med14 mutant embryos. Taken together, our results show a critical, evolutionarily conserved, in vivo function for Med14 (and Mediator) in stem cell maintenance, distinct from a general role in transcription. PMID:25772472

  2. WebMedSA: a web-based framework for segmenting and annotating medical images using biomedical ontologies

    NASA Astrophysics Data System (ADS)

    Vega, Francisco; Pérez, Wilson; Tello, Andrés.; Saquicela, Victor; Espinoza, Mauricio; Solano-Quinde, Lizandro; Vidal, Maria-Esther; La Cruz, Alexandra

    2015-12-01

    Advances in medical imaging have fostered medical diagnosis based on digital images. Consequently, the number of studies by medical images diagnosis increases, thus, collaborative work and tele-radiology systems are required to effectively scale up to this diagnosis trend. We tackle the problem of the collaborative access of medical images, and present WebMedSA, a framework to manage large datasets of medical images. WebMedSA relies on a PACS and supports the ontological annotation, as well as segmentation and visualization of the images based on their semantic description. Ontological annotations can be performed directly on the volumetric image or at different image planes (e.g., axial, coronal, or sagittal); furthermore, annotations can be complemented after applying a segmentation technique. WebMedSA is based on three main steps: (1) RDF-ization process for extracting, anonymizing, and serializing metadata comprised in DICOM medical images into RDF/XML; (2) Integration of different biomedical ontologies (using L-MOM library), making this approach ontology independent; and (3) segmentation and visualization of annotated data which is further used to generate new annotations according to expert knowledge, and validation. Initial user evaluations suggest that WebMedSA facilitates the exchange of knowledge between radiologists, and provides the basis for collaborative work among them.

  3. Inter-annual variability of the Mediterranean thermohaline circulation in Med-CORDEX simulations

    NASA Astrophysics Data System (ADS)

    Vittoria Struglia, Maria; Adani, Mario; Carillo, Adriana; Pisacane, Giovanna; Sannino, Gianmaria; Beuvier, Jonathan; Lovato, Tomas; Sevault, Florence; Vervatis, Vassilios

    2016-04-01

    Recent atmospheric reanalysis products, such as ERA40 and ERA-interim, and their regional dynamical downscaling prompted the HyMeX/Med-CORDEX community to perform hind-cast simulations of the Mediterranean Sea, giving the opportunity to evaluate the response of different ocean models to a realistic inter-annual atmospheric forcing. Ocean numerical modeling studies have been steadily improving over the last decade through hind-cast processing, and are complementary to observations in studying the relative importance of the mechanisms playing a role in ocean variability, either external forcing or internal ocean variability. This work presents a review and an inter-comparison of the most recent hind-cast simulations of the Mediterranean Sea Circulation, produced in the framework of the Med-CORDEX initiative, at resolutions spanning from 1/8° to 1/16°. The richness of the simulations available for this study is exploited to address the effects of increasing resolution, both of models and forcing, the initialization procedure, and the prescription of the atmospheric boundary conditions, which are particularly relevant in order to model a realistic THC, in the perspective of fully coupled regional ocean-atmosphere models. The mean circulation is well reproduced by all the simulations. However, it can be observed that the horizontal resolution of both atmospheric forcing and ocean model plays a fundamental role in the reproduction of some specific features of both sub-basins and important differences can be observed among low and high resolution atmosphere forcing. We analyze the mean circulation on both the long-term and decadal time scale, and the represented inter-annual variability of intermediate and deep water mass formation processes in both the Eastern and Western sub-basins, finding that models agree with observations in correspondence of specific events, such as the 1992-1993 Eastern Mediterranean Transient, and the 2005-2006 event in the Gulf of Lion. Long

  4. GLAD4U: deriving and prioritizing gene lists from PubMed literature

    PubMed Central

    2012-01-01

    Background Answering questions such as "Which genes are related to breast cancer?" usually requires retrieving relevant publications through the PubMed search engine, reading these publications, and creating gene lists. This process is not only time-consuming, but also prone to errors. Results We report GLAD4U (Gene List Automatically Derived For You), a new, free web-based gene retrieval and prioritization tool. GLAD4U takes advantage of existing resources of the NCBI to ensure computational efficiency. The quality of gene lists created by GLAD4U for three Gene Ontology (GO) terms and three disease terms was assessed using corresponding "gold standard" lists curated in public databases. For all queries, GLAD4U gene lists showed very high recall but low precision, leading to low F-measure. As a comparison, EBIMed's recall was consistently lower than GLAD4U, but its precision was higher. To present the most relevant genes at the top of a list, we studied two prioritization methods based on publication count and the hypergeometric test, and compared the ranked lists and those generated by EBIMed to the gold standards. Both GLAD4U methods outperformed EBIMed for all queries based on a variety of quality metrics. Moreover, the hypergeometric method allowed for a better performance by thresholding genes with low scores. In addition, manual examination suggests that many false-positives could be explained by the incompleteness of the gold standards. The GLAD4U user interface accepts any valid queries for PubMed, and its output page displays the ranked gene list and information associated with each gene, chronologically-ordered supporting publications, along with a summary of the run and links for file export and functional enrichment and protein interaction network analysis. Conclusions GLAD4U has a high overall recall. Although precision is generally low, the prioritization methods successfully rank truly relevant genes at the top of the lists to facilitate efficient

  5. Heat and salt redistribution within the Mediterranean Sea in the Med-CORDEX model ensemble

    NASA Astrophysics Data System (ADS)

    Llasses, J.; Jordà, G.; Gomis, D.; Adloff, F.; Macías, D.; Harzallah, A.; Arsouze, T.; Akthar, N.; Li, L.; Elizalde, A.; Sannino, G.

    2016-06-01

    Characterizing and understanding the basic functioning of the Mediterranean Sea in terms of heat and salt redistribution within the basin is a crucial issue to predict its evolution. Here we quantify and analyze the heat and salt transfers using a simple box model consisting of four layers in the vertical for each of the two (western and eastern) basins. Namely, we box-average 14 regional simulations of the Med-CORDEX ensemble plus a regional and a global reanalysis, computing for each of them the heat and salt exchanges between layers. First, we analyze in detail the mechanisms behind heat and salt redistribution at different time scales from the outputs of a single simulation (NEMOMED8). We show that in the western basin the transfer between layer 1 (0-150 m) and layer 2 (150-600 m) is upwards for most models both for heat and salt, while in the eastern basin both transfers are downwards. A feature common to both basins is that the transports are smaller in summer than in winter due to the enhanced stratification, which dampen the mixing between layers. From the comparison of the 16 simulations we observe that the spread between models is much larger than the ensemble average for the salt transfer and for the heat transfer between layer 1 and layer 2. At lower layers (below 600 m) there is a set of models showing a good agreement between them, while others are not correlated with any other. The mechanisms behind the ensemble spread are not straightforward. First, to have a coarse resolution prevents the model to correctly represent the heat and salt redistribution in the basin. Second, those models with a very different initial stratification also show a very different redistribution, especially at intermediate and deep layers. Finally, the assimilation of data seems to perturb the heat and salt redistribution. Besides this, the differences among regional models that share similar spatial resolution and initial conditions are induced by more subtle mechanisms

  6. Evaluation of simulated decadal variations over the Euro-Mediterranean region from ENSEMBLES to Med-CORDEX

    NASA Astrophysics Data System (ADS)

    Dell'Aquila, Alessandro; Mariotti, Annarita

    2016-04-01

    Med-CORDEX simulations over the period 1979-2011 are evaluated with regard to their capability to represent observed decadal variations over the Euro-Mediterranean region and improve upon previous generation simulations from the ENSEMBLES project in their various experimental set-ups. Such an evaluation is needed to inform the use of these simulations and also future model development. For temperature, both Med-CORDEX and ENSEMBLES simulations tend to provide comparable results: they generally capture the sign and timing of the anomalies but not the amplitude. In general, no clear stratification appears when considering different types of Med-CORDEX regional modeling systems. Rather, it is remarkable that certain periods are poorly represented by all systems with a general underestimation of the observed long-term temperature trend, mostly in the summer season, even with respect to the corresponding global drivers. For precipitation, the Med-CORDEX simulations are closer to observations than the other datasets, with some improvement with respect to ENSEMBLES dataset. In general, all the systems experience difficulties in representing anomalies during specific periods or for specific regions. These appear in part due to limitations in the reanalysis boundary forcing data. For instance, in the second part of 1980s, the spatial patterns of surface air temperature during DJF/MAM are generally poorly represented, as well as the regionally averaged MAM/JJA surface air temperature decadal anomalies. Overall, the evaluation suggests limited improvement in Med-CORDEX simulations compared to ENSEMBLES, and a lack of sensitivity to resolution or coupling configuration, with persisting problems in part likely related to the representation of surface processes that could also affect the viability of future projections (e.g. the estimation of temperature trends). A set of decadal variability evaluation metrics, as applied in this study, could be useful in the context of a

  7. Evaluation of simulated decadal variations over the Euro-Mediterranean region from ENSEMBLES to Med-CORDEX

    NASA Astrophysics Data System (ADS)

    Dell'Aquila, Alessandro; Mariotti, Annarita; Bastin, Sophie; Calmanti, Sandro; Cavicchia, Leone; Deque, Michel; Djurdjevic, Vladimir; Dominguez, Marta; Gaertner, Miguel; Gualdi, Silvio

    2016-05-01

    Med-CORDEX simulations over the period 1979-2011 are evaluated with regard to their capability to represent observed decadal variations over the Euro-Mediterranean region and improve upon previous generation simulations from the ENSEMBLES project in their various experimental set-ups. Such an evaluation is needed to inform the use of these simulations and also future model development. For temperature, both Med-CORDEX and ENSEMBLES simulations tend to provide comparable results: they generally capture the sign and timing of the anomalies but not the amplitude. In general, no clear stratification appears when considering different types of Med-CORDEX regional modeling systems. Rather, it is remarkable that certain periods are poorly represented by all systems with a general underestimation of the observed long-term temperature trend, mostly in the summer season, even with respect to the corresponding global drivers. For precipitation, the Med-CORDEX simulations are closer to observations than the other datasets, with some improvement with respect to ENSEMBLES dataset. In general, all the systems experience difficulties in representing anomalies during specific periods or for specific regions. These appear in part due to limitations in the reanalysis boundary forcing data. For instance, in the second part of 1980s, the spatial patterns of surface air temperature during DJF/MAM are generally poorly represented, as well as the regionally averaged MAM/JJA surface air temperature decadal anomalies. Overall, the evaluation suggests limited improvement in Med-CORDEX simulations compared to ENSEMBLES, and a lack of sensitivity to resolution or coupling configuration, with persisting problems in part likely related to the representation of surface processes that could also affect the viability of future projections (e.g. the estimation of temperature trends). A set of decadal variability evaluation metrics, as applied in this study, could be useful in the context of a

  8. MRI measures of Alzheimer's disease and the AddNeuroMed study.

    PubMed

    Simmons, Andrew; Westman, Eric; Muehlboeck, Sebastian; Mecocci, Patrizia; Vellas, Bruno; Tsolaki, Magda; Kłoszewska, Iwona; Wahlund, Lars-Olof; Soininen, Hilkka; Lovestone, Simon; Evans, Alan; Spenger, Christian

    2009-10-01

    Here we describe the AddNeuroMed multicenter magnetic resonance imaging (MRI) study for longitudinal assessment in Alzheimer's disease (AD). The study is similar to a faux clinical trial and has been established to assess longitudinal MRI changes in AD, mild cognitive impairment (MCI), and healthy control subjects using an image acquisition protocol compatible with the Alzheimer's Disease Neuroimaging Initiative (ADNI). The approach consists of a harmonized MRI acquisition protocol across centers, rigorous quality control, a central data analysis hub, and an automated image analysis pipeline. Comprehensive quality control measures have been established throughout the study. An intelligent web-accessible database holds details on both the raw images and data processed using a sophisticated image analysis pipeline. A total of 378 subjects were recruited (130 AD, 131 MCI, 117 healthy controls) of which a high percentage (97.3%) of the T1-weighted volumes passed the quality control criteria. Measurements of normalized whole brain volume, whole brain cortical thickness, and point-by-point group-based cortical thickness measurements, demonstrating the power of the automated image analysis techniques employed, are reported. PMID:19906260

  9. NovaMedTech - a regional program for supporting new medical technologies in personalized health care.

    PubMed

    Ask, Per; Ekstrand, Kristina; Hult, Peter; Lindén, Maria; Pettersson, Nils-Erik

    2012-01-01

    NovaMedTech is an initiative funded from EU structural funds for supporting new medical technologies for personalized health care. It aims at bringing these technologies into clinical use and to the health care market. The program has participants from health care, industry and academia in East middle Sweden. The first three year period of the program was successful in terms of product concepts tried clinically, and number of products brought to a commercialization phase. Further, the program has led to a large number of scientific publications. Among projects supported, we can mention: Intelligent sensor networks; A digital pen to collect medical information about health status from patients; A web-based intelligent stethoscope; Methodologies to measure local blood flow and nutrition using optical techniques; Blood flow assessment from ankle pressure measurements; Technologies for pressure ulcer prevention; An IR thermometer for improved accuracy; A technique that identifies individuals prone to commit suicide among depressed patients; Detection of infectious disease using an electronic nose; Identification of the lactate threshold from breath; Obesity measurements using special software and MR camera; and An optical probe guided tumor resection. During the present three years period emphasis will be on entrepreneurial activities supporting the commercialization and bringing products to the market. PMID:22942033

  10. Breakfast consumption and weight-loss maintenance: results from the MedWeight study.

    PubMed

    Brikou, Dora; Zannidi, Dimitra; Karfopoulou, Eleni; Anastasiou, Costas A; Yannakoulia, Mary

    2016-06-01

    Daily breakfast consumption is a common eating behaviour among people who have maintained their weight loss after weight-loss management. However, there is not a precise definition for breakfast in the literature. The purpose of this study was to investigate potential associations between breakfast consumption (based on several definitions) and weight-loss maintenance, as well as to explore differences in breakfast quality between individuals who managed to maintain part of the weight loss and in those who regained weight loss. The study sample consisted of 354 participants of the MedWeight study (age: 32 (sd 10) years, 61 % women) who had lost ≥10 % of their initial body weight and either maintained the loss for ≥1 year (maintainers, n 257) or regained weight loss (regainers, n 97). Participants completed online questionnaires and reported their dietary intake through two telephone 24-h recalls. Breakfast consumption was evaluated using twelve different definitions. The analysis indicated that breakfast consumption was associated with weight-loss maintenance only in men, when using self-reported breakfast consumption or the following breakfast definitions: (1) the first eating episode consumed at home and (2) the first eating episode consumed at home excluding caffeinated drinks. This association remained statistically significant even after adjustment for potential confounding factors. Thus, breakfast, the first eating episode of the day, when consumed at home, may be protective against weight regaining. PMID:27185413