WorldWideScience

Sample records for annotation expert review

  1. IMG ER: A System for Microbial Genome Annotation Expert Review and Curation

    Energy Technology Data Exchange (ETDEWEB)

    Markowitz, Victor M.; Mavromatis, Konstantinos; Ivanova, Natalia N.; Chen, I-Min A.; Chu, Ken; Kyrpides, Nikos C.

    2009-05-25

    A rapidly increasing number of microbial genomes are sequenced by organizations worldwide and are eventually included into various public genome data resources. The quality of the annotations depends largely on the original dataset providers, with erroneous or incomplete annotations often carried over into the public resources and difficult to correct. We have developed an Expert Review (ER) version of the Integrated Microbial Genomes (IMG) system, with the goal of supporting systematic and efficient revision of microbial genome annotations. IMG ER provides tools for the review and curation of annotations of both new and publicly available microbial genomes within IMG's rich integrated genome framework. New genome datasets are included into IMG ER prior to their public release either with their native annotations or with annotations generated by IMG ER's annotation pipeline. IMG ER tools allow addressing annotation problems detected with IMG's comparative analysis tools, such as genes missed by gene prediction pipelines or genes without an associated function. Over the past year, IMG ER was used for improving the annotations of about 150 microbial genomes.

  2. Towards Automated Annotation of Benthic Survey Images: Variability of Human Experts and Operational Modes of Automation.

    Directory of Open Access Journals (Sweden)

    Oscar Beijbom

    Full Text Available Global climate change and other anthropogenic stressors have heightened the need to rapidly characterize ecological changes in marine benthic communities across large scales. Digital photography enables rapid collection of survey images to meet this need, but the subsequent image annotation is typically a time consuming, manual task. We investigated the feasibility of using automated point-annotation to expedite cover estimation of the 17 dominant benthic categories from survey-images captured at four Pacific coral reefs. Inter- and intra- annotator variability among six human experts was quantified and compared to semi- and fully- automated annotation methods, which are made available at coralnet.ucsd.edu. Our results indicate high expert agreement for identification of coral genera, but lower agreement for algal functional groups, in particular between turf algae and crustose coralline algae. This indicates the need for unequivocal definitions of algal groups, careful training of multiple annotators, and enhanced imaging technology. Semi-automated annotation, where 50% of the annotation decisions were performed automatically, yielded cover estimate errors comparable to those of the human experts. Furthermore, fully-automated annotation yielded rapid, unbiased cover estimates but with increased variance. These results show that automated annotation can increase spatial coverage and decrease time and financial outlay for image-based reef surveys.

  3. Towards Automated Annotation of Benthic Survey Images: Variability of Human Experts and Operational Modes of Automation

    Science.gov (United States)

    Beijbom, Oscar; Edmunds, Peter J.; Roelfsema, Chris; Smith, Jennifer; Kline, David I.; Neal, Benjamin P.; Dunlap, Matthew J.; Moriarty, Vincent; Fan, Tung-Yung; Tan, Chih-Jui; Chan, Stephen; Treibitz, Tali; Gamst, Anthony; Mitchell, B. Greg; Kriegman, David

    2015-01-01

    Global climate change and other anthropogenic stressors have heightened the need to rapidly characterize ecological changes in marine benthic communities across large scales. Digital photography enables rapid collection of survey images to meet this need, but the subsequent image annotation is typically a time consuming, manual task. We investigated the feasibility of using automated point-annotation to expedite cover estimation of the 17 dominant benthic categories from survey-images captured at four Pacific coral reefs. Inter- and intra- annotator variability among six human experts was quantified and compared to semi- and fully- automated annotation methods, which are made available at coralnet.ucsd.edu. Our results indicate high expert agreement for identification of coral genera, but lower agreement for algal functional groups, in particular between turf algae and crustose coralline algae. This indicates the need for unequivocal definitions of algal groups, careful training of multiple annotators, and enhanced imaging technology. Semi-automated annotation, where 50% of the annotation decisions were performed automatically, yielded cover estimate errors comparable to those of the human experts. Furthermore, fully-automated annotation yielded rapid, unbiased cover estimates but with increased variance. These results show that automated annotation can increase spatial coverage and decrease time and financial outlay for image-based reef surveys. PMID:26154157

  4. Accurate Annotation of Remote Sensing Images via Active Spectral Clustering with Little Expert Knowledge

    Directory of Open Access Journals (Sweden)

    Gui-Song Xia

    2015-11-01

    Full Text Available It is a challenging problem to efficiently interpret the large volumes of remotely sensed image data being collected in the current age of remote sensing “big data”. Although human visual interpretation can yield accurate annotation of remote sensing images, it demands considerable expert knowledge and is always time-consuming, which strongly hinders its efficiency. Alternatively, intelligent approaches (e.g., supervised classification and unsupervised clustering can speed up the annotation process through the application of advanced image analysis and data mining technologies. However, high-quality expert-annotated samples are still a prerequisite for intelligent approaches to achieve accurate results. Thus, how to efficiently annotate remote sensing images with little expert knowledge is an important and inevitable problem. To address this issue, this paper introduces a novel active clustering method for the annotation of high-resolution remote sensing images. More precisely, given a set of remote sensing images, we first build a graph based on these images and then gradually optimize the structure of the graph using a cut-collect process, which relies on a graph-based spectral clustering algorithm and pairwise constraints that are incrementally added via active learning. The pairwise constraints are simply similarity/dissimilarity relationships between the most uncertain pairwise nodes on the graph, which can be easily determined by non-expert human oracles. Furthermore, we also propose a strategy to adaptively update the number of classes in the clustering algorithm. In contrast with existing methods, our approach can achieve high accuracy in the task of remote sensing image annotation with relatively little expert knowledge, thereby greatly lightening the workload burden and reducing the requirements regarding expert knowledge. Experiments on several datasets of remote sensing images show that our algorithm achieves state

  5. Expert system for computer-assisted annotation of MS/MS spectra.

    Science.gov (United States)

    Neuhauser, Nadin; Michalski, Annette; Cox, Jürgen; Mann, Matthias

    2012-11-01

    An important step in mass spectrometry (MS)-based proteomics is the identification of peptides by their fragment spectra. Regardless of the identification score achieved, almost all tandem-MS (MS/MS) spectra contain remaining peaks that are not assigned by the search engine. These peaks may be explainable by human experts but the scale of modern proteomics experiments makes this impractical. In computer science, Expert Systems are a mature technology to implement a list of rules generated by interviews with practitioners. We here develop such an Expert System, making use of literature knowledge as well as a large body of high mass accuracy and pure fragmentation spectra. Interestingly, we find that even with high mass accuracy data, rule sets can quickly become too complex, leading to over-annotation. Therefore we establish a rigorous false discovery rate, calculated by random insertion of peaks from a large collection of other MS/MS spectra, and use it to develop an optimized knowledge base. This rule set correctly annotates almost all peaks of medium or high abundance. For high resolution HCD data, median intensity coverage of fragment peaks in MS/MS spectra increases from 58% by search engine annotation alone to 86%. The resulting annotation performance surpasses a human expert, especially on complex spectra such as those of larger phosphorylated peptides. Our system is also applicable to high resolution collision-induced dissociation data. It is available both as a part of MaxQuant and via a webserver that only requires an MS/MS spectrum and the corresponding peptides sequence, and which outputs publication quality, annotated MS/MS spectra (www.biochem.mpg.de/mann/tools/). It provides expert knowledge to beginners in the field of MS-based proteomics and helps advanced users to focus on unusual and possibly novel types of fragment ions.

  6. Cultural nationalism: a review and annotated bibliography

    OpenAIRE

    Woods, Eric Taylor

    2014-01-01

    This review and annotated bibliography is part of The State of Nationalism (SoN), a comprehensive guide to the study of nationalism. Topic of this first contribution is cultural nationalism. This concept generally refers to ideas and practices that relate to the intended revival of a purported national community’s culture. If political nationalism is focused on the achievement of political autonomy, cultural nationalism is focused on the cultivation of a nation.

  7. Review of actinide-sediment reactions with an annotated bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Ames, L.L.; Rai, D.; Serne, R.J.

    1976-02-10

    The annotated bibliography is divided into sections on chemistry and geochemistry, migration and accumulation, cultural distributions, natural distributions, and bibliographies and annual reviews. (LK)

  8. Crowdsourcing image annotation for nucleus detection and segmentation in computational pathology: evaluating experts, automated methods, and the crowd.

    Science.gov (United States)

    Irshad, H; Montaser-Kouhsari, L; Waltz, G; Bucur, O; Nowak, J A; Dong, F; Knoblauch, N W; Beck, A H

    2015-01-01

    The development of tools in computational pathology to assist physicians and biomedical scientists in the diagnosis of disease requires access to high-quality annotated images for algorithm learning and evaluation. Generating high-quality expert-derived annotations is time-consuming and expensive. We explore the use of crowdsourcing for rapidly obtaining annotations for two core tasks in com- putational pathology: nucleus detection and nucleus segmentation. We designed and implemented crowdsourcing experiments using the CrowdFlower platform, which provides access to a large set of labor channel partners that accesses and manages millions of contributors worldwide. We obtained annotations from four types of annotators and compared concordance across these groups. We obtained: crowdsourced annotations for nucleus detection and segmentation on a total of 810 images; annotations using automated methods on 810 images; annotations from research fellows for detection and segmentation on 477 and 455 images, respectively; and expert pathologist-derived annotations for detection and segmentation on 80 and 63 images, respectively. For the crowdsourced annotations, we evaluated performance across a range of contributor skill levels (1, 2, or 3). The crowdsourced annotations (4,860 images in total) were completed in only a fraction of the time and cost required for obtaining annotations using traditional methods. For the nucleus detection task, the research fellow-derived annotations showed the strongest concordance with the expert pathologist- derived annotations (F-M =93.68%), followed by the crowd-sourced contributor levels 1,2, and 3 and the automated method, which showed relatively similar performance (F-M = 87.84%, 88.49%, 87.26%, and 86.99%, respectively). For the nucleus segmentation task, the crowdsourced contributor level 3-derived annotations, research fellow-derived annotations, and automated method showed the strongest concordance with the expert pathologist

  9. Australian sea-floor survey data, with images and expert annotations

    Science.gov (United States)

    Bewley, Michael; Friedman, Ariell; Ferrari, Renata; Hill, Nicole; Hovey, Renae; Barrett, Neville; Pizarro, Oscar; Figueira, Will; Meyer, Lisa; Babcock, Russ; Bellchambers, Lynda; Byrne, Maria; Williams, Stefan B.

    2015-01-01

    This Australian benthic data set (BENTHOZ-2015) consists of an expert-annotated set of georeferenced benthic images and associated sensor data, captured by an autonomous underwater vehicle (AUV) around Australia. This type of data is of interest to marine scientists studying benthic habitats and organisms. AUVs collect georeferenced images over an area with consistent illumination and altitude, and make it possible to generate broad scale, photo-realistic 3D maps. Marine scientists then typically spend several minutes on each of thousands of images, labeling substratum type and biota at a subset of points. Labels from four Australian research groups were combined using the CATAMI classification scheme, a hierarchical classification scheme based on taxonomy and morphology for scoring marine imagery. This data set consists of 407,968 expert labeled points from around the Australian coast, with associated images, geolocation and other sensor data. The robotic surveys that collected this data form part of Australia's Integrated Marine Observing System (IMOS) ongoing benthic monitoring program. There is reuse potential in marine science, robotics, and computer vision research. PMID:26528396

  10. Australian sea-floor survey data, with images and expert annotations.

    Science.gov (United States)

    Bewley, Michael; Friedman, Ariell; Ferrari, Renata; Hill, Nicole; Hovey, Renae; Barrett, Neville; Pizarro, Oscar; Figueira, Will; Meyer, Lisa; Babcock, Russ; Bellchambers, Lynda; Byrne, Maria; Williams, Stefan B

    2015-01-01

    This Australian benthic data set (BENTHOZ-2015) consists of an expert-annotated set of georeferenced benthic images and associated sensor data, captured by an autonomous underwater vehicle (AUV) around Australia. This type of data is of interest to marine scientists studying benthic habitats and organisms. AUVs collect georeferenced images over an area with consistent illumination and altitude, and make it possible to generate broad scale, photo-realistic 3D maps. Marine scientists then typically spend several minutes on each of thousands of images, labeling substratum type and biota at a subset of points. Labels from four Australian research groups were combined using the CATAMI classification scheme, a hierarchical classification scheme based on taxonomy and morphology for scoring marine imagery. This data set consists of 407,968 expert labeled points from around the Australian coast, with associated images, geolocation and other sensor data. The robotic surveys that collected this data form part of Australia's Integrated Marine Observing System (IMOS) ongoing benthic monitoring program. There is reuse potential in marine science, robotics, and computer vision research.

  11. Osteoporosis in Latin America: panel expert review

    Directory of Open Access Journals (Sweden)

    Patricia Clark

    2013-09-01

    Full Text Available Background. The Latin American region is undergoing a demographic and epidemiological transition, which is leading to an increase in chronic and degenerative diseases. Osteoporosis (OP and fragility fractures (FF are emerging as main causes of disease burden with great impact on health institutions. Purpose. This review article provides an updated overview of trends in the epidemiology and economic impact of OP and FF, as well as in diagnosis and available treatments in Latin America, including calcium, vitamin D and prevention programs. Methods. Expert panel. Conclusions. According to this review, there is a lack of epidemiological and economic information in the region. It is desirable to obtain information regarding quality of life in OP and FF as well as to highlight prevention as a tool to reduce FF.

  12. Communication in a Diverse Classroom: An Annotated Bibliographic Review

    Science.gov (United States)

    Brown, Rachelle

    2016-01-01

    Students have social and personal needs to fulfill and communicate these needs in different ways. This annotated bibliographic review examined communication studies to provide educators of diverse classrooms with ideas to build an environment that contributes to student well-being. Participants in the studies ranged in age, ability, and cultural…

  13. Annotation methods to develop and evaluate an expert system based on natural language processing in electronic medical records.

    Science.gov (United States)

    Gicquel, Quentin; Tvardik, Nastassia; Bouvry, Côme; Kergourlay, Ivan; Bittar, André; Segond, Frédérique; Darmoni, Stefan; Metzger, Marie-Hélène

    2015-01-01

    The objective of the SYNODOS collaborative project was to develop a generic IT solution, combining a medical terminology server, a semantic analyser and a knowledge base. The goal of the project was to generate meaningful epidemiological data for various medical domains from the textual content of French medical records. In the context of this project, we built a care pathway oriented conceptual model and corresponding annotation method to develop and evaluate an expert system's knowledge base. The annotation method is based on a semi-automatic process, using a software application (MedIndex). This application exchanges with a cross-lingual multi-termino-ontology portal. The annotator selects the most appropriate medical code proposed for the medical concept in question by the multi-termino-ontology portal and temporally labels the medical concept according to the course of the medical event. This choice of conceptual model and annotation method aims to create a generic database of facts for the secondary use of electronic health records data.

  14. A Study of Expert System for Career Selection: Literature Review

    Directory of Open Access Journals (Sweden)

    Waghmode M. L

    2015-09-01

    Full Text Available Expert system uses human knowledge stored inside a computer to solve problems those require human expertise for solving. Knowledge expert system helps to support for making better decision. There is need of career guidance for students at college level. Expert system plays an important role to facilitate decision making, diagnosis of diseases etc. Expert system for career selection can be developed using Fuzzy logic, neural network for guiding students for selecting proper career stream. From the literature review it has found that in Maharashtra comparatively very less research took place on expert system for career selection. Hence there is wide scope in expert system development for career guidance which will assist secondary and higher secondary students in Maharashtra for selecting proper career. Through this paper researcher thrown light on literature review of career selection expert systems. Here for career selection researcher reviewed 43 literatures including 2-conference proceeding, 8-Books, 22- Journals, 1-Report, 5-Thesis, 3-Websites, 2-Encyclopaedia articles and 2-generic articles. Articles referred are from last two decades and majority of them are latest.

  15. A Review of Methods of Instance-based Automatic Image Annotation

    Directory of Open Access Journals (Sweden)

    Morad Derakhshan

    2016-12-01

    Full Text Available Today, to use automatic image annotation in order to fill the semantic gap between low level features of images and understanding their information in retrieving process has become popular. Since automatic image annotation is crucial in understanding digital images several methods have been proposed to automatically annotate an image. One of the most important of these methods is instance-based image annotation. As these methods are vastly used in this paper, the most important instance-based image annotation methods are analyzed. First of all the main parts of instance-based automatic image annotation are analyzed. Afterwards, the main methods of instance-based automatic image annotation are reviewed and compared based on various features. In the end the most important challenges and open-ended fields in instance-based image annotation are analyzed.

  16. Finding Important Terms for Patients in Their Electronic Health Records: A Learning-to-Rank Approach Using Expert Annotations

    Science.gov (United States)

    Zheng, Jiaping; Yu, Hong

    2016-01-01

    Background Many health organizations allow patients to access their own electronic health record (EHR) notes through online patient portals as a way to enhance patient-centered care. However, EHR notes are typically long and contain abundant medical jargon that can be difficult for patients to understand. In addition, many medical terms in patients’ notes are not directly related to their health care needs. One way to help patients better comprehend their own notes is to reduce information overload and help them focus on medical terms that matter most to them. Interventions can then be developed by giving them targeted education to improve their EHR comprehension and the quality of care. Objective We aimed to develop a supervised natural language processing (NLP) system called Finding impOrtant medical Concepts most Useful to patientS (FOCUS) that automatically identifies and ranks medical terms in EHR notes based on their importance to the patients. Methods First, we built an expert-annotated corpus. For each EHR note, 2 physicians independently identified medical terms important to the patient. Using the physicians’ agreement as the gold standard, we developed and evaluated FOCUS. FOCUS first identifies candidate terms from each EHR note using MetaMap and then ranks the terms using a support vector machine-based learn-to-rank algorithm. We explored rich learning features, including distributed word representation, Unified Medical Language System semantic type, topic features, and features derived from consumer health vocabulary. We compared FOCUS with 2 strong baseline NLP systems. Results Physicians annotated 90 EHR notes and identified a mean of 9 (SD 5) important terms per note. The Cohen’s kappa annotation agreement was .51. The 10-fold cross-validation results show that FOCUS achieved an area under the receiver operating characteristic curve (AUC-ROC) of 0.940 for ranking candidate terms from EHR notes to identify important terms. When including term

  17. Fluvial sediment fingerprinting: literature review and annotated bibliography

    Science.gov (United States)

    Williamson, Joyce E.; Haj, Adel E.; Stamm, John F.; Valder, Joshua F.; Prautzch, Vicki L.

    2014-01-01

    The U.S. Geological Survey has evaluated and adopted various field methods for collecting real-time sediment and nutrient data. These methods have proven to be valuable representations of sediment and nutrient concentrations and loads but are not able to accurately identify specific source areas. Recently, more advanced data collection and analysis techniques have been evaluated that show promise in identifying specific source areas. Application of field methods could include studies of sources of fluvial sediment, otherwise referred to as sediment “fingerprinting.” The identification of sediment is important, in part, because knowing the primary sediment source areas in watersheds ensures that best management practices are incorporated in areas that maximize reductions in sediment loadings. This report provides a literature review and annotated bibliography of existing methodologies applied in the field of fluvial sediment fingerprinting. This literature review provides a bibliography of publications where sediment fingerprinting methods have been used; however, this report is not assumed to provide an exhaustive listing. Selected publications were categorized by methodology with some additional summary information. The information contained in the summary may help researchers select methods better suited to their particular study or study area, and identify methods in need of more testing and application.

  18. Expert panel reviews of research centers: the site visit process.

    Science.gov (United States)

    Lawrenz, Frances; Thao, Mao; Johnson, Kelli

    2012-08-01

    Site visits are used extensively in a variety of settings within the evaluation community. They are especially common in making summative value decisions about the quality and worth of research programs/centers. However, there has been little empirical research and guidance about how to appropriately conduct evaluative site visits of research centers. We review the processes of two site visit examples using an expert panel review: (1) a process to evaluate four university research centers and (2) a process to review a federally sponsored research center. A set of 14 categories describing the expert panel review process was obtained through content analysis and participant observation. Most categories were addressed differently through the two processes highlighting the need for more research about the most effective processes to use within different contexts. Decisions about how to structure site visits appear to depend on the research context, practical considerations, the level at which the review is being conducted and the intended impact of the report. Future research pertaining to the selection of site visitors, the autonomy of the visitors in data collection and report writing, and the amount and type of information provided would be particularly valuable.

  19. Annotation an effective device for student feedback: a critical review of the literature.

    Science.gov (United States)

    Ball, Elaine C

    2010-05-01

    of annotation influences student learning and assessment or, indeed, helps tutors to employ better annotative practices [Juwah, C., Macfarlane-Dick, D., Matthew, B., Nicol, D., Ross, D., Smith, B., 2004. Enhancing student learning through effective formative feedback. The Higher Education Academy, 1-40; Jewitt, C., Kress, G., 2005. English in classrooms: only write down what you need to know: annotation for what? English in Education, 39(1), 5-18]. There is little evidence on ways to heighten students' self-awareness when their essays are returned with annotated feedback [Storch, N., Tapper, J., 1997. Student annotations: what NNS and NS university students say about their own writing. Journal of Second Language Writing, 6(3), 245-265]. The literature review clarifies forms of annotation as feedback practice and offers a summary of the challenges and usefulness of annotation.

  20. The Educational Use of Social Annotation Tools in Higher Education: A Literature Review

    Science.gov (United States)

    Novak, Elena; Razzouk, Rim; Johnson, Tristan E.

    2012-01-01

    This paper presents a literature review of empirical research related to the use and effect of online social annotation (SA) tools in higher education settings. SA technology is an emerging educational technology that has not yet been extensively used and examined in education. As such, the research focusing on this technology is still very…

  1. Use of wildlife webcams - Literature review and annotated bibliography

    Science.gov (United States)

    Ratz, Joan M.; Conk, Shannon J.

    2010-01-01

    The U.S. Fish and Wildlife Service National Conservation Training Center requested a literature review product that would serve as a resource to natural resource professionals interested in using webcams to connect people with nature. The literature review focused on the effects on the public of viewing wildlife through webcams and on information regarding installation and use of webcams. We searched the peer reviewed, published literature for three topics: wildlife cameras, virtual tourism, and technological nature. Very few publications directly addressed the effect of viewing wildlife webcams. The review of information on installation and use of cameras yielded information about many aspects of the use of remote photography, but not much specifically regarding webcams. Aspects of wildlife camera use covered in the literature review include: camera options, image retrieval, system maintenance and monitoring, time to assemble, power source, light source, camera mount, frequency of image recording, consequences for animals, and equipment security. Webcam technology is relatively new and more publication regarding the use of the technology is needed. Future research should specifically study the effect that viewing wildlife through webcams has on the viewers' conservation attitudes, behaviors, and sense of connectedness to nature.

  2. Crude oil and finished fuel storage stability: An annotated review

    Energy Technology Data Exchange (ETDEWEB)

    Whisman, M.L.; Anderson, R.P.; Woodward, P.W.; Giles, H.N.

    1991-01-01

    A state-of-the-art review and assessment of storage effects on crude oil and product quality was undertaken through a literature search by computer accessing several data base sources. Pertinent citations from that literature search are tabulated for the years 1980 to the present. This 1990 revision supplements earlier reviews by Brinkman and others which covered stability publications through 1979 and an update in 1983 by Goetzinger and others that covered the period 1952--1982. For purposes of organization, citations are listed in the current revision chronologically starting with the earliest 1980 publications. The citations have also been divided according to primary subject matter. Consequently 11 sections appear including: alternate fuels, gasoline, distillate fuel, jet fuel, residual fuel, crude oil, biodegradation, analyses, reaction mechanisms, containment, and handling and storage. Each section contains a brief narrative followed by all the citations for that category.

  3. Expert involvement in policy development: A systematic review of current practice

    NARCIS (Netherlands)

    Fischer, A.R.H.; Wentholt, M.T.A.; Rowe, E.J.; Frewer, L.J.

    2014-01-01

    In what ways are experts involved in policy development, and with what results? This paper attempts to answer these questions through a structured review of the academic literature, focusing on the identification of ‘methodologies’ of expert involvement, and on analying the subsequent policy impact

  4. Expert review remains important in the histopathological diagnosis of cutaneous melanocytic lesions

    NARCIS (Netherlands)

    van Dijk, M. C. R. F.; Aben, K. K. H.; van Hees, F.; Klaasen, A.; Blokx, W. A. M.; Kiemeney, L. A. L. M.; Ruiter, D. J.

    2008-01-01

    Aims: To assess the type of problems encountered in diagnosing melanocytic lesions and to evaluate the contribution of expert review. Methods and results: Data from 1887 lesions submitted for consultation to one of the expert pathologists of the Dutch Melanoma Working Group Pathology Panel between 1

  5. Treatment of Childhood and Adolescent Obesity: An Integrative Review of Recent Recommendations from Five Expert Groups

    Science.gov (United States)

    Kirschenbaum, Daniel S.; Gierut, Kristen

    2013-01-01

    Objective: To compare and contrast 5 sets of expert recommendations about the treatment of childhood and adolescent obesity. Method: We reviewed 5 sets of recent expert recommendations: 2007 health care organizations' four stage model, 2007 Canadian clinical practice guidelines, 2008 Endocrine Society recommendations, 2009 seven step model, and…

  6. Helicopter EMS Transport Outcomes Literature: Annotated Review of Articles Published 2007-2011.

    Science.gov (United States)

    Brown, Brandon S; Pogue, Korby A; Williams, Emily; Hatfield, Jesse; Thomas, Matthew; Arthur, Annette; Thomas, Stephen H

    2012-01-01

    Helicopter EMS (HEMS) and its possible association with outcomes improvement continues to be a subject of discussion. As is the case with other scientific discourse, debate over HEMS usefulness should be framed around an evidence-based assessment of the relevant literature. In an effort to facilitate the academic pursuit of assessment of HEMS utility, in late 2000 the National Association of EMS Physicians' (NAEMSP) Air Medical Task Force prepared annotated bibliographies of the HEMS-related outcomes literature. As a result of that work, two review articles, one covering HEMS use in nontrauma and the other in trauma, published in 2002 in Prehospital Emergency Care surveyed HEMS outcomes-related literature published between 1980 and mid-2000. The project was extended with two subsequent reviews covering the literature through 2006. This review continues the series, outlining outcomes-associated HEMS literature for the three-year period 2007 through the first half of 2011.

  7. Helicopter EMS transport outcomes literature: annotated review of articles published 2004-2006.

    Science.gov (United States)

    Thomas, Stephen H

    2007-01-01

    Helicopter EMS (HEMS) and its possible association with outcomes improvement continues to be a subject of debate. As is the case with other scientific endeavors, debate over HEMS usefulness should be framed around an evidence-based assessment of the relevant literature. In an effort to facilitate the academic pursuit of assessment of HEMS utility, in late 2000 the National Association of EMS Physicians' (NAEMSP) Air Medical Task Force prepared annotated bibliographies of the HEMS-related outcomes literature. As a result of that work, two review articles, one covering HEMS use in nontrauma and the other in trauma, published in 2002 in Prehospital Emergency Care surveyed HEMS outcomes-related literature published between 1980 and mid-2000. The project was extended with a 2004 review that covered the literature published between 2000 and 2003. The current review continues the series, outlining outcomes-associated HEMS literature from 2004 through 2006.

  8. Expert Opinion in SR 97 and the SKI/SSI Joint Review of SR 97

    Energy Technology Data Exchange (ETDEWEB)

    Hora, Stephen

    2002-09-01

    The role of sensitivity and uncertainty analyses for radioactive waste disposal assessments is reviewed. The report covers a description of the these concepts were applied in the authorities' review of the safety report SR 97. With regard to the use of expert knowledge, the most significant weakness of SR 97 is absence of any standards, procedures, and even definitions for expert judgment. This situation needs to be dealt with by SKB in the near future as it denigrates the portions of the study that are well done. In developing expert judgment processes, SSI should ensure that SKB creates procedures that guarantee traceability and transparency. This will become very important as the repository system matures and receives greater public scrutiny. Both in the area of scenario creation and expert judgement, there are processes that have gained international acceptance. It would be in the best interest of SKB, and the public, to adhere these accepted approaches.

  9. Looking for landmarks: the role of expert review and bibliometric analysis in evaluating scientific publication outputs.

    Directory of Open Access Journals (Sweden)

    Liz Allen

    Full Text Available OBJECTIVE: To compare expert assessment with bibliometric indicators as tools to assess the quality and importance of scientific research papers. METHODS AND MATERIALS: Shortly after their publication in 2005, the quality and importance of a cohort of nearly 700 Wellcome Trust (WT associated research papers were assessed by expert reviewers; each paper was reviewed by two WT expert reviewers. After 3 years, we compared this initial assessment with other measures of paper impact. RESULTS: Shortly after publication, 62 (9% of the 687 research papers were determined to describe at least a 'major addition to knowledge' -6 were thought to be 'landmark' papers. At an aggregate level, after 3 years, there was a strong positive association between expert assessment and impact as measured by number of citations and F1000 rating. However, there were some important exceptions indicating that bibliometric measures may not be sufficient in isolation as measures of research quality and importance, and especially not for assessing single papers or small groups of research publications. CONCLUSION: When attempting to assess the quality and importance of research papers, we found that sole reliance on bibliometric indicators would have led us to miss papers containing important results as judged by expert review. In particular, some papers that were highly rated by experts were not highly cited during the first three years after publication. Tools that link expert peer reviews of research paper quality and importance to more quantitative indicators, such as citation analysis would be valuable additions to the field of research assessment and evaluation.

  10. Design model of computerized personal decision aid for youth: An expert review

    Science.gov (United States)

    Sarif, Siti Mahfuzah; Ibrahim, Norfiza; Shiratuddin, Norshuhada

    2016-08-01

    This paper provides a structured review of a design model of a computerized personal decision aid that is intended for youth, named as YouthPDA Design Model. The proposed design model was examined by experts in related areas to ensure the appropriateness of the proposed components and elements, relevancy of the terminologies used, logic of the flow, usability, and practicality of the design model towards development of YouthPDA application. Seven experts from related areas were involved in the evaluation. Discussions on the findings obtained from the expert review are included in this paper. Finally, a revised design model of YouthPDA is proposed as main guidance to develop YouthPDA application.

  11. Multi-annotation discursive de corpus écrit

    OpenAIRE

    Péry-Woodley, Marie-Paule

    2011-01-01

    National audience; On the basis of the experience acquired in the course of the ANNODIS project, the following questions are discussed: - what is the annotation campaign for? building an annotated " reference corpus" vs. annotation as an experiment; - defining annotation tasks. Naïve vs. expert annotation; - the annotation manual : from linguistic model to annotation protocol; - automatic pre-processing vs. manual annotation. Segmentation, tagging and mark-ups: steps in corpus preparation; - ...

  12. Developing and using expert systems and neural networks in medicine: a review on benefits and challenges.

    Science.gov (United States)

    Sheikhtaheri, Abbas; Sadoughi, Farahnaz; Hashemi Dehaghi, Zahra

    2014-09-01

    Complicacy of clinical decisions justifies utilization of information systems such as artificial intelligence (e.g. expert systems and neural networks) to achieve better decisions, however, application of these systems in the medical domain faces some challenges. We aimed at to review the applications of these systems in the medical domain and discuss about such challenges. Following a brief introduction of expert systems and neural networks by representing few examples, the challenges of these systems in the medical domain are discussed. We found that the applications of expert systems and artificial neural networks have been increased in the medical domain. These systems have shown many advantages such as utilization of experts' knowledge, gaining rare knowledge, more time for assessment of the decision, more consistent decisions, and shorter decision-making process. In spite of all these advantages, there are challenges ahead of developing and using such systems including maintenance, required experts, inputting patients' data into the system, problems for knowledge acquisition, problems in modeling medical knowledge, evaluation and validation of system performance, wrong recommendations and responsibility, limited domains of such systems and necessity of integrating such systems into the routine work flows. We concluded that expert systems and neural networks can be successfully used in medicine; however, there are many concerns and questions to be answered through future studies and discussions.

  13. mHealth in urology : A review of experts' involvement in app development

    NARCIS (Netherlands)

    Pereira-Azevedo, N. (Nuno); Carrasquinho, E. (Eduardo); De Oliveira, E.C. (Eduardo Cardoso); Cavadas, V. (Vitor); Osório, L. (Luís); Fraga, A. (Avelino); Castelo-Branco, M. (Miguel); Roobol, M.J. (Monique J.)

    2015-01-01

    textabstractIntroduction: Smartphones are increasingly playing a role in healthcare and previous studies assessing medical applications (apps) have raised concerns about lack of expert involvement and low content accuracy. However, there are no such studies in Urology. We reviewed Urology apps with

  14. Expert panel review of electromagnetic field; Ekspertgruppens gjennomgang av elektromagnetiske felt

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-11-01

    What happens to the body when we are near cell phones, base stations and wireless networks are questions that are much debated in the media. A panel of experts appointed by the Health and transport authorities have reviewed research results, test results and management in this field and concludes that the large number of studies that are considered, not provide evidence that these devices can cause adverse health effects. This information leaflet shows the main conclusions from the review. (eb)

  15. The DOE-JGI Standard Operating Procedure for the Annotations of the Microbial Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Mavromatis, Konstantinos; Ivanova, Natalia; Chen, I-Min A.; Szeto, Ernest; Markowitz, Victor; Kyrpides, Nikos C.

    2009-05-20

    The DOE-JGI Microbial Annotation Pipeline (DOE-JGI MAP) supports gene prediction and/or functional annotation of microbial genomes towards comparative analysis with the Integrated Microbial Genome (IMG) system. DOE-JGI MAP annotation is applied on nucleotide sequence datasets included in the IMG-ER (Expert Review) version of IMG via the IMG ER submission site. Users can submit the sequence datasets consisting of one or more contigs in a multi-fasta file. DOE-JGI MAP annotation includes prediction of protein coding and RNA genes, as well as repeats and assignment of product names to these genes.

  16. 78 FR 19565 - Call for Expert Reviewers to the U.S. Government Review of the Working Group II Contribution to...

    Science.gov (United States)

    2013-04-01

    ... Expert Reviewers to the U.S. Government Review of the Working Group II Contribution to the Fifth... State, request expert review of the Second Order Draft of the Working Group II Contribution to the Fifth..._procedures.shtml In October 2009, the IPCC approved the outline for the Working Group II contribution to...

  17. 78 FR 12807 - Call for Expert Reviewers to the U.S. Government Review of the Working Group III Contribution to...

    Science.gov (United States)

    2013-02-25

    ... Expert Reviewers to the U.S. Government Review of the Working Group III Contribution to the Fifth..., request expert review of the Second Order Draft of the Working Group III Contribution to the Fifth..._procedures.shtml . In October 2009, the IPCC approved the outline for the Working Group III contribution...

  18. 77 FR 59238 - Call for Expert Reviewers to the U.S. Government Review of the Working Group I Contribution to...

    Science.gov (United States)

    2012-09-26

    ... Expert Reviewers to the U.S. Government Review of the Working Group I Contribution to the Fifth... Department of State, request expert review of the Second Order Draft of the Working Group I Contribution to... the Working Group I contribution to the 5th Assessment Report (Working Group I Table of...

  19. Annotated English

    CERN Document Server

    Hernandez-Orallo, Jose

    2010-01-01

    This document presents Annotated English, a system of diacritical symbols which turns English pronunciation into a precise and unambiguous process. The annotations are defined and located in such a way that the original English text is not altered (not even a letter), thus allowing for a consistent reading and learning of the English language with and without annotations. The annotations are based on a set of general rules that make the frequency of annotations not dramatically high. This makes the reader easily associate annotations with exceptions, and makes it possible to shape, internalise and consolidate some rules for the English language which otherwise are weakened by the enormous amount of exceptions in English pronunciation. The advantages of this annotation system are manifold. Any existing text can be annotated without a significant increase in size. This means that we can get an annotated version of any document or book with the same number of pages and fontsize. Since no letter is affected, the ...

  20. mHealth in Urology: A Review of Experts' Involvement in App Development.

    Directory of Open Access Journals (Sweden)

    Nuno Pereira-Azevedo

    Full Text Available Smartphones are increasingly playing a role in healthcare and previous studies assessing medical applications (apps have raised concerns about lack of expert involvement and low content accuracy. However, there are no such studies in Urology. We reviewed Urology apps with the aim of assessing the level of participation of healthcare professionals (HCP and scientific Urology associations in their development.A systematic search was performed on PubMed, Apple's App Store and Google's Play Store, for Urology apps, available in English. Apps were reviewed by three graders to determine the app's platform, target customer, developer, app type, app category, price and the participation of a HCP or a scientific Urology association in the development.The search yielded 372 apps, of which 150 were specific for Urology. A fifth of all apps had no HCP involvement (20.7% and only a third had been developed with a scientific Urology association (34.7%. The lowest percentage of HCP (13.4% and urological association (1.9% involvement was in apps designed for the general population. Furthermore, there was no contribution from an Urology society in "Electronic Medical Record" nor in "Patient Information" apps. A limitation of the study is that only Android and iOS apps were reviewed.Despite the increasing Mobile Health (mHealth market, this is the first study that demonstrates the lack of expert participation in the design of Urology apps, particularly in apps designed for the general public. Until clear regulation is enforced, the urological community should help regulate app development. Maintaining a register of certified apps or issuing an official scientific seal of approval could improve overall app quality. We propose that urologists become stakeholders in mHealth, shaping future app design and promoting peer-review app validation.

  1. Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs.

    Directory of Open Access Journals (Sweden)

    Norihiro Maeda

    2006-04-01

    Full Text Available The international FANTOM consortium aims to produce a comprehensive picture of the mammalian transcriptome, based upon an extensive cDNA collection and functional annotation of full-length enriched cDNAs. The previous dataset, FANTOM2, comprised 60,770 full-length enriched cDNAs. Functional annotation revealed that this cDNA dataset contained only about half of the estimated number of mouse protein-coding genes, indicating that a number of cDNAs still remained to be collected and identified. To pursue the complete gene catalog that covers all predicted mouse genes, cloning and sequencing of full-length enriched cDNAs has been continued since FANTOM2. In FANTOM3, 42,031 newly isolated cDNAs were subjected to functional annotation, and the annotation of 4,347 FANTOM2 cDNAs was updated. To accomplish accurate functional annotation, we improved our automated annotation pipeline by introducing new coding sequence prediction programs and developed a Web-based annotation interface for simplifying the annotation procedures to reduce manual annotation errors. Automated coding sequence and function prediction was followed with manual curation and review by expert curators. A total of 102,801 full-length enriched mouse cDNAs were annotated. Out of 102,801 transcripts, 56,722 were functionally annotated as protein coding (including partial or truncated transcripts, providing to our knowledge the greatest current coverage of the mouse proteome by full-length cDNAs. The total number of distinct non-protein-coding transcripts increased to 34,030. The FANTOM3 annotation system, consisting of automated computational prediction, manual curation, and final expert curation, facilitated the comprehensive characterization of the mouse transcriptome, and could be applied to the transcriptomes of other species.

  2. Annotating BI Visualization Dashboards: Needs and Challenges

    OpenAIRE

    Elias, Micheline; Bezerianos, Anastasia

    2012-01-01

    International audience; Annotations have been identified as an important aid in analysis record-keeping and recently data discovery. In this paper we discuss the use of annotations on visualization dashboards, with a special focus on business intelligence (BI) analysis. In-depth interviews with experts lead to new annotation needs for multi-chart visualization systems, on which we based the design of a dashboard prototype that supports data and context aware annotations. We focus particularly ...

  3. Expert systems and the CPI product substitution review: A needs analysis for the US Bureau of Labor Statistics

    Energy Technology Data Exchange (ETDEWEB)

    Arrowood, L.F.; Tonn, B.E.

    1992-02-01

    This report presents recommendations relative to the use of expert systems and machine learning techniques by the Bureau of Labor Statistics (BLS) to substantially automate product substitution decisions associated with the Consumer Price Index (CPI). Thirteen commercially available, PC-based expert system shells have received in-depth evaluations. Various machine learning techniques were also reviewed. Two recommendations are given: (1) BLS should use the expert system shell LEVEL5 OBJECT and establish a software development methodology for expert systems; and (2) BLS should undertake a small study to evaluate the potential of machine learning techniques to create and maintain the approximately 350 ELI-specific knowledge bases to be used in CPI product substitution review.

  4. Genotoxicity Expert Panel review: weight of evidence evaluation of the genotoxicity of glyphosate, glyphosate-based formulations, and aminomethylphosphonic acid.

    Science.gov (United States)

    Brusick, David; Aardema, Marilyn; Kier, Larry; Kirkland, David; Williams, Gary

    2016-09-01

    In 2015, the International Agency for Research on Cancer (IARC) published a monograph concluding there was strong evidence for genotoxicity of glyphosate and glyphosate formulations and moderate evidence for genotoxicity of the metabolite aminomethylphosphonic acid (AMPA). These conclusions contradicted earlier extensive reviews supporting the lack of genotoxicity of glyphosate and glyphosate formulations. The IARC Monograph concluded there was strong evidence of induction of oxidative stress by glyphosate, glyphosate formulations, and AMPA. The Expert Panel reviewed the genotoxicity and oxidative stress data considered in the IARC Monograph, together with other available data not considered by IARC. The Expert Panel defined and used a weight of evidence (WoE) approach that included ranking of studies and endpoints by the strength of their linkage to events associated with carcinogenic mechanisms. Importantly, the Expert Panel concluded that there was sufficient information available from a very large number of regulatory genotoxicity studies that should have been considered by IARC. The WoE approach, the inclusion of all relevant regulatory studies, and some differences in interpretation of individual studies led to significantly different conclusions by the Expert Panel compared with the IARC Monograph. The Expert Panel concluded that glyphosate, glyphosate formulations, and AMPA do not pose a genotoxic hazard and the data do not support the IARC Monograph genotoxicity evaluation. With respect to carcinogenicity classification and mechanism, the Expert Panel concluded that evidence relating to an oxidative stress mechanism of carcinogenicity was largely unconvincing and that the data profiles were not consistent with the characteristics of genotoxic carcinogens.

  5. External Collection Devices as an Alternative to the Indwelling Urinary Catheter: Evidence-Based Review and Expert Clinical Panel Deliberations.

    Science.gov (United States)

    Gray, Mikel; Skinner, Claudia; Kaler, Wendy

    2016-01-01

    Multiple evidence-based guidelines have suggested clinicians consider external collection devices (ECD) as alternatives to indwelling catheters. Nevertheless, there is a dearth of evidence-based resources concerning their use. An expert consensus panel was convened to review the current state of the evidence, indications for ECDs as an alternative to an indwelling urinary catheter, identify knowledge gaps, and areas for future research. This article presents the results of the expert consensus panel meeting and a systematic literature review regarding ECD use in the clinical setting.

  6. Contributing factors and issues associated with rural ambulance crashes: literature review and annotated bibliography.

    Science.gov (United States)

    Sanddal, Nels D; Albert, Steve; Hansen, Joseph D; Kupas, Douglas F

    2008-01-01

    Ambulance crashes occur with greater frequency and severity than crashes involving vehicles of similar size and weight characteristics. Crashes in rural areas tend to be more severe in terms of injury or death to vehicle occupants. The purpose of this article was to examine the extant literature, as well as summarize and discuss the overlapping findings of that body of literature. A stepwise literature search was conducted using the following MeSH search terms ambulance; accident, traffic; emergency medical technician; occupational health; and rural in descending combination. MEDLINE was used as the primary database but was augmented by searches of Academic Search Premier, Comprehensive Index of Nursing, Allied Health Literature, and ProQuest Dissertation International. The search resulted in 32 article citations, and of these, 28 were included. An annotated bibliography is followed by a discussion and conclusion that identify opportunities for prevention activities in the areas of education, enforcement, and engineering.

  7. Current and future trends in marine image annotation software

    Science.gov (United States)

    Gomes-Pereira, Jose Nuno; Auger, Vincent; Beisiegel, Kolja; Benjamin, Robert; Bergmann, Melanie; Bowden, David; Buhl-Mortensen, Pal; De Leo, Fabio C.; Dionísio, Gisela; Durden, Jennifer M.; Edwards, Luke; Friedman, Ariell; Greinert, Jens; Jacobsen-Stout, Nancy; Lerner, Steve; Leslie, Murray; Nattkemper, Tim W.; Sameoto, Jessica A.; Schoening, Timm; Schouten, Ronald; Seager, James; Singh, Hanumant; Soubigou, Olivier; Tojeira, Inês; van den Beld, Inge; Dias, Frederico; Tempera, Fernando; Santos, Ricardo S.

    2016-12-01

    Given the need to describe, analyze and index large quantities of marine imagery data for exploration and monitoring activities, a range of specialized image annotation tools have been developed worldwide. Image annotation - the process of transposing objects or events represented in a video or still image to the semantic level, may involve human interactions and computer-assisted solutions. Marine image annotation software (MIAS) have enabled over 500 publications to date. We review the functioning, application trends and developments, by comparing general and advanced features of 23 different tools utilized in underwater image analysis. MIAS requiring human input are basically a graphical user interface, with a video player or image browser that recognizes a specific time code or image code, allowing to log events in a time-stamped (and/or geo-referenced) manner. MIAS differ from similar software by the capability of integrating data associated to video collection, the most simple being the position coordinates of the video recording platform. MIAS have three main characteristics: annotating events in real time, posteriorly to annotation and interact with a database. These range from simple annotation interfaces, to full onboard data management systems, with a variety of toolboxes. Advanced packages allow to input and display data from multiple sensors or multiple annotators via intranet or internet. Posterior human-mediated annotation often include tools for data display and image analysis, e.g. length, area, image segmentation, point count; and in a few cases the possibility of browsing and editing previous dive logs or to analyze the annotations. The interaction with a database allows the automatic integration of annotations from different surveys, repeated annotation and collaborative annotation of shared datasets, browsing and querying of data. Progress in the field of automated annotation is mostly in post processing, for stable platforms or still images

  8. What Are Expert Systems?

    Science.gov (United States)

    d'Agapeyeff, A.

    1986-01-01

    Intended for potential business users, this paper describes the main characteristics of expert systems; discusses practical use considerations; presents a taxonomy of the systems; and reviews several expert system development projects in business and industry. (MBR)

  9. Review of information on hydrology and radionuclide migration at the Nevada Test Site 1976--1988, and annotated bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Raymond, J.R.; Eddy, P.A.; Wallace, R.W.; Foley, M.G.; Bierschenk, W.H.; Harrison, R.P. (Pacific Northwest Lab., Richland, WA (USA); IT Corp., Richland, WA (USA); Pacific Northwest Lab., Richland, WA (USA))

    1989-09-01

    The purpose of this report is to provide information on changes in the state of knowledge on the hydrology and radionuclide migration that have occurred at the Nevada Test Site (NTS) since 1976. In the present study, a literature review was conducted to examine information published since 1976 about the various activities that have occurred at the NTS. Information was collected from the literature on the site's geological, hydrological, geochemical, and geomorphic characteristics related to the impacts on the ground water from weapons testing and the disposal of waste at the NTS. This information was used to identify the state of knowledge about the NTS and the potential impacts of NTS activities on the ground water. More than 250 reports were reviewed, of which about 200 contained information pertinent to the subject of this report. Because the reports have never been collected in a single location, only those that were supplied by the US Department of Energy and other cooperating organizations could be reviewed, and some pertinent documents may have been missed. Appendix A contains an annotated bibliography of the reports reviewed. 149 refs., 28 figs., 2 tabs.

  10. Systematic reviews of complementary therapies – an annotated bibliography. Part 2: Herbal medicine

    Directory of Open Access Journals (Sweden)

    Hondras Maria

    2001-07-01

    Full Text Available Abstract Background Complementary therapies are widespread but controversial. We aim to provide a comprehensive collection and a summary of systematic reviews of clinical trials in three major complementary therapies (acupuncture, herbal medicine, homeopathy. This article is dealing with herbal medicine. Potentially relevant reviews were searched through the register of the Cochrane Complementary Medicine Field, the Cochrane Library, Medline, and bibliographies of articles and books. To be included articles had to review prospective clinical trials of herbal medicines; had to describe review methods explicitly; had to be published; and had to focus on treatment effects. Information on conditions, interventions, methods, results and conclusions was extracted using a pre-tested form and summarized descriptively. Results From a total of 79 potentially relevant reviews pre-selected in the screening process 58 met the inclusion criteria. Thirty of the reports reviewed ginkgo (for dementia, intermittent claudication, tinnitus, and macular degeneration, hypericum (for depression or garlic preparations (for cardiovascular risk factors and lower limb atherosclerosis. The quality of primary studies was criticized in the majority of the reviews. Most reviews judged the available evidence as promising but definitive conclusions were rarely possible. Conclusions Systematic reviews are available on a broad range of herbal preparations prescribed for defined conditions. There is very little evidence on the effectiveness of herbalism as practised by specialist herbalists who combine herbs and use unconventional diagnosis.

  11. Annotation: The Savant Syndrome

    Science.gov (United States)

    Heaton, Pamela; Wallace, Gregory L.

    2004-01-01

    Background: Whilst interest has focused on the origin and nature of the savant syndrome for over a century, it is only within the past two decades that empirical group studies have been carried out. Methods: The following annotation briefly reviews relevant research and also attempts to address outstanding issues in this research area.…

  12. Growth hormone and treatment outcomes: expert review of current clinical practice.

    Science.gov (United States)

    Cassorla, Fernando; Cianfarani, Stefano; Haverkamp, Fritz; Labarta, Jose I; Loche, Sandro; Luo, Xiaoping; Maghnie, Mohamad; Mericq, Veronica; Muzsnai, Agota; Norgren, Svante; Ojaniemi, Marja; Pribilincova, Zuzana; Quinteiro, Sofia; Savendahl, Lars; Spinola e Castro, Angela; Gasteyger, Christoph

    2011-12-01

    Although there are guidelines for treatment of short stature, open questions regarding optimal management of growth hormone therapy still exist. Experts attending six international meetings agree that successful therapy results in the patient attaining mid-parental height, and relies on correct diagnosis and early intervention. Experts advocate patient followup every 3-6 months, and that growth and adherence should be monitored at each visit. Growth response is variable, and an accepted definition of good/poor response is lacking. Combined with patient education and regular patient follow-up, a definition of treatment response could lead to improved treatment outcomes. Few experts use prediction models in clinical practice, but all agree that pharmacogenetics might improve prediction, enable early therapy modulation, and promote growth. Poor growth is often due to low adherence. Guidance on optimal management of growth hormone therapy is required, with focus on early diagnosis, dosing, treatment monitoring, adherence, and motivation.

  13. EFL Writing Revision with Blind Expert and Peer Review Using a CMC Open Forum

    Science.gov (United States)

    Wu, Wen-Chi Vivian; Petit, Emily; Chen, Ching-Huei

    2015-01-01

    This exploratory computer assisted-language learning (CALL) study used a computer-mediated communication (CMC) interface to allow English as a foreign language (EFL) writing students in classes at two universities to give each other anonymous peer feedback about essay-writing assignments reacting to selected news stories. Experts also provided…

  14. A review and evaluation of the Langley Research Center's Scientific and Technical Information Program. Results of phase 5. Design and evaluation of STI systems: A selected, annotated bibliography

    Science.gov (United States)

    Pinelli, T. E.; Hinnebusch, P. A.; Jaffe, J. M.

    1981-01-01

    A selected, annotated bibliography of literature citations related to the design and evaluation of STI systems is presented. The use of manual and machine-readable literature searches; the review of numerous books, periodicals reports, and papers; and the selection and annotation of literature citations were required. The bibliography was produced because the information was needed to develop the methodology for the review and evaluation project, and a survey of the literature did not reveal the existence of a single published source of information pertinent to the subject. Approximately 200 citations are classified in four subject areas. The areas include information - general; information systems - design and evaluation, including information products and services; information - use and need; and information - economics.

  15. Experiments with crowdsourced re-annotation of a POS tagging data set

    DEFF Research Database (Denmark)

    Hovy, Dirk; Plank, Barbara; Søgaard, Anders

    2014-01-01

    Crowdsourcing lets us collect multiple annotations for an item from several annotators. Typically, these are annotations for non-sequential classification tasks. While there has been some work on crowdsourcing named entity annotations, researchers have assumed that syntactic tasks such as part......-of-speech (POS) tagging cannot be crowdsourced. This paper shows that workers can actually annotate sequential data almost as well as experts. Further, we show that the models learned from crowdsourced annotations fare as well as the models learned from expert annotations in downstream tasks....

  16. Clinical management of patients with a history of urticaria/angioedema induced by multiple NSAIDs: an expert panel review.

    Science.gov (United States)

    Asero, Riccardo; Bavbek, Sevim; Blanca, Miguel; Blanca-Lopez, Natalia; Cortellini, Gabriele; Nizankowska-Mogilnicka, Ewa; Quaratino, Donato; Romano, Antonino; Sanchez-Borges, Mario; Torres-Jaen, Maria Josè

    2013-01-01

    Nonsteroidal anti-inflammatory drugs (NSAIDs) represent one of the most frequent causes of drug-induced urticaria/angioedema worldwide. Recent review articles have classified patients experiencing NSAID-induced urticaria/angioedema into different categories, including single reactors, multiple reactors, and multiple reactors with underlying chronic urticaria. Each of these categories requires a different clinical approach. The present article, written by a panel of experts, reports the main recommendations for the practical clinical management of patients with a history of urticaria/angioedema induced by multiple NSAID based on current knowledge.

  17. Modern Nyelvoktatas (Modern Language Teaching): Annotated Bibliography from the Most Significant Articles of the Review of TIT.

    Science.gov (United States)

    Ferenczy, Gyula, Comp.; Szentivanyi, Agnes, Ed.

    This annotated bibliography lists 118 selected articles in the field of applied linguistics and language instruction which appeared in the journal "Modern Nyelvoktatas" from 1963 through 1970. The two categories containing the largest number of entries are: "Applied Linguistics/Linguistics" and "Pedagogy and Russian Language Teaching." Other…

  18. EURECCA consensus conference highlights about colorectal cancer clinical management: the pathologists expert review.

    Science.gov (United States)

    Quirke, P; West, N P; Nagtegaal, I D

    2014-02-01

    Care for patients with colon and rectal cancer has improved in the last 20 years; however, a considerable variation still exists in cancer management and outcome between European countries. Large variation is also apparent between national guidelines and patterns of cancer care in Europe. Therefore, EURECCA, which is the acronym of European Registration of Cancer Care, is aiming at defining core treatment strategies and developing a European audit structure in order to improve the quality of care for all patients with colon and rectal cancer. In December 2012, the first multidisciplinary consensus conference about cancer of the colon and rectum was held. The expert panel consisted of representatives of European scientific organizations involved in cancer care of patients with colon and rectal cancer and representatives of national colorectal registries.

  19. Reporting of the Role of the Expert Searcher in Cochrane Reviews

    Directory of Open Access Journals (Sweden)

    Margaret Sampson

    2006-12-01

    Full Text Available Introduction This study applied the principles of evidence based information practice to clarify the role of information specialists and librarians in the preparation of Cochrane systematic reviews and to determine whether information specialists impact the quality of searching in Cochrane systematic reviews.Objectives This research project sought to determine how the contribution of the person responsible for searching in the preparation of Cochrane systematic reviews was reported; whether the contribution was recognized through authorship or acknowledgement; the qualifications of the searcher; and the association between the type of contributorship and characteristics of the search strategy, assessability, and the presence of certain types of errors.Methods Data sources: The Cochrane Database of Systematic Reviews, The Cochrane Library 3 (2002. Inclusion criteria: The study included systematic reviews that met the following criteria: one or more sections of the Cochrane Highly Sensitive Search Strategy were utilised, primary studies were either randomised controlled trials (RCTs or quasi‐RCTs, and included and excluded studies were clearly identified. Data extraction: Two librarians assessed the searches for errors, establishing consensus on discordant ratings.Results Of the 169 reviews screened for this project, 105 met all eligibility criteria. Authors fulfilled the searching role in 41.9% of reviews studied, acknowledged persons or groups in 13.3%, a combination in 9.5%, and the role was not reported in 35.2% of reviews. For the 78 reviews in which meta‐analyses were performed, the positions of those responsible for statistical decisions were examined for comparative purposes. The statistical role was performed by an author in 47.4% of cases and unreported in the same number of cases. Insufficient analyzable data was obtained regarding professional qualifications (3/105 for searching, 2/78 for statistical decisions. Search quality was

  20. Crowdsourcing and annotating NER for Twitter #drift

    DEFF Research Database (Denmark)

    Fromreide, Hege; Hovy, Dirk; Søgaard, Anders

    2014-01-01

    We present two new NER datasets for Twitter; a manually annotated set of 1,467 tweets (kappa=0.942) and a set of 2,975 expert-corrected, crowdsourced NER annotated tweets from the dataset described in Finin et al. (2010). In our experiments with these datasets, we observe two important points: (a......) language drift on Twitter is significant, and while off-the-shelf systems have been reported to perform well on in-sample data, they often perform poorly on new samples of tweets, (b) state-of-the-art performance across various datasets can beobtained from crowdsourced annotations, making it more feasible...

  1. Accepted standards on how to give a Medical Research Presentation: a systematic review of expert opinion papers.

    Science.gov (United States)

    Blome, Christine; Sondermann, Hanno; Augustin, Matthias

    2017-01-01

    Background: This systematic review aimed to extract recommendations from expert opinion articles on how to give a medical research presentation on a scientific conference and to determine whether the experts agree on what makes an effective or poor presentation. Methods: Presentation-related terms were searched within article titles listed in PubMed, restricting the search to English-language articles published from January 1975 to July 2015. Recommendations were extracted from the articles, grouped by content, and analyzed for frequency. Ninety-one articles were included. Among 679 different recommendations, 29 were given in more than 20% of articles each. The five most frequent recommendations were to keep slides simple, adjust the talk to the audience, rehearse, not read the talk from slides or a manuscript, and make eye contact. Results: No article gave advice that was the complete opposite of the 29 most frequent recommendations with the exception of whether a light or dark background should be used for slides. Conclusions: Researchers should comply with these widely accepted standards to be perceived as effective presenters.

  2. Accepted standards on how to give a Medical Research Presentation: a systematic review of expert opinion papers

    Directory of Open Access Journals (Sweden)

    Blome, Christine

    2017-02-01

    Full Text Available Background: This systematic review aimed to extract recommendations from expert opinion articles on how to give a medical research presentation on a scientific conference and to determine whether the experts agree on what makes an effective or poor presentation. Methods: Presentation-related terms were searched within article titles listed in PubMed, restricting the search to English-language articles published from January 1975 to July 2015. Recommendations were extracted from the articles, grouped by content, and analyzed for frequency. Ninety-one articles were included. Among 679 different recommendations, 29 were given in more than 20% of articles each. The five most frequent recommendations were to keep slides simple, adjust the talk to the audience, rehearse, not read the talk from slides or a manuscript, and make eye contact. Results: No article gave advice that was the complete opposite of the 29 most frequent recommendations with the exception of whether a light or dark background should be used for slides. Conclusions: Researchers should comply with these widely accepted standards to be perceived as effective presenters.

  3. Final report of the Cosmetic Ingredient Review Expert Panel amended safety assessment of Calendula officinalis-derived cosmetic ingredients.

    Science.gov (United States)

    Andersen, F Alan; Bergfeld, Wilma F; Belsito, Donald V; Hill, Ronald A; Klaassen, Curtis D; Liebler, Daniel C; Marks, James G; Shank, Ronald C; Slaga, Thomas J; Snyder, Paul W

    2010-01-01

    Calendula officinalis extract, C officinalis flower, C officinalis flower extract, C officinalis flower oil, and C officinalis seed oil are cosmetic ingredients derived from C officinalis. These ingredients may contain minerals, carbohydrates, lipids, phenolic acids, flavonoids, tannins, coumarins, sterols and steroids, monoterpenes, sesquiterpenes, triterpenes, tocopherols, quinones, amino acids, and resins. These ingredients were not significantly toxic in single-dose oral studies using animals. The absence of reproductive/developmental toxicity was inferred from repeat-dose studies of coriander oil, with a similar composition. Overall, these ingredients were not genotoxic. They also were not irritating, sensitizing, or photosensitizing in animal or clinical tests but may be mild ocular irritants. The Cosmetic Ingredient Review (CIR) Expert Panel concluded that these ingredients are safe for use in cosmetics in the practices of use and concentration given in this amended safety assessment.

  4. Developing an internationally-applicable service specification for continence care: systematic review, evidence synthesis and expert consensus.

    Directory of Open Access Journals (Sweden)

    Adrian S Wagg

    Full Text Available Global demographic trends suggest that the incidence of both urinary and faecal incontinence will rise in the coming years, bringing significant health and economic implications for both patients and payers. There is limited organisational evidence to guide payers and providers about service configuration which will deliver efficient guideline-compliant, high-quality patient care.To create, using evidence from a systematic review, qualitative data and expert consensus an internationally applicable service specification for continence care.Evidence was obtained from a systematic and grey literature review of published randomised controlled trials and quasi-experimental studies reporting efficacy of continence service design at the level of the community dwelling patient with either bladder or bowel incontinence, governmental reports and policy frameworks supplemented by data from 47 semi-structured interviews with clinicians, patients, patient-representatives and policy experts from four geographies broadly representative of different healthcare systems.A number of themes related to current and potential future organisation of continence care were identified from the data. A modular service specification with eight core components was created including case detection, initial assessment and treatment, case co-ordination, caregiver support, community-based support, specialist assessment and treatment, use of containment products, and use of technology. Within this framework important key recommendations are: ensure robust referral pathways, shift assessment for case coordination to nurses specializing in continence care, promote self-management and technology, use comprehensive assessment tools and service performance targets based on outcome and operational measures.This study has defined practice gaps in the provision of continence services and described eight core components of a service specification for incontinence that commissioners and

  5. A Focused Review of the Reengineering Literature: Expert Frequently Asked Questions (FAQs)

    Science.gov (United States)

    1996-01-01

    at Pacific Bell. Planning Review (May/June):28-33. Mark Nissen 24 Ives, B., Jarvenpaa, S.L., and R.O. Mason. 1993. Global business drivers...aligning information technology to global business strategy. IBM Systems Journal 32, no. 1:143-161. JAVA. 1996. Java FAQ archives. Internet World

  6. The Health Experts onLine at Portsmouth (HELP system: One-year review of adult and Pediatric Asynchronous Telehealth Consultations

    Directory of Open Access Journals (Sweden)

    Andrew H Lin

    2016-01-01

    Full Text Available Introduction: The Health Experts onLine at Portsmouth teleconsultation system is designed to connect health providers in the Navy Medicine East Region to specialists at Naval Medical Center Portsmouth. Methods: A review of the first year of the Health Experts onLine at Portsmouth system was performed. Data on each teleconsultation were extracted from the Health Experts onLine at Portsmouth system database and analyzed. Results: From June 2014 to May 2015 there have been 585 teleconsultations. Providers stationed on 36 ships/submarines and at 28 remote military treatment facilities have utilized the Health Experts onLine at Portsmouth system. Over 280 specialists in 34 different specialties were consulted. The median time to first response from a specialist was 6 h and 8 min, with 75% of all consults being addressed within 24 h. Eighteen medevacs were recommended. Thirty-nine potential medevacs were prevented, and 100 potential civilian network deferrals were prevented, resulting in an estimated savings of over US$580,000. Discussion: Based on the 1-year metrics, Health Experts onLine at Portsmouth has provided improved access and quality of care to service members and their families throughout the Navy Medicine East Region. It has helped avoid over US$580,000 in unnecessary cost burden. Further review at the 2-year time interval will demonstrate the continued growth and effectiveness of the Health Experts onLine at Portsmouth system.

  7. An annotation based approach to support design communication

    CERN Document Server

    Hisarciklilar, Onur

    2007-01-01

    The aim of this paper is to propose an approach based on the concept of annotation for supporting design communication. In this paper, we describe a co-operative design case study where we analyse some annotation practices, mainly focused on design minutes recorded during project reviews. We point out specific requirements concerning annotation needs. Based on these requirements, we propose an annotation model, inspired from the Speech Act Theory (SAT) to support communication in a 3D digital environment. We define two types of annotations in the engineering design context, locutionary and illocutionary annotations. The annotations we describe in this paper are materialised by a set of digital artefacts, which have a semantic dimension allowing express/record elements of technical justifications, traces of contradictory debates, etc. In this paper, we first clarify the semantic annotation concept, and we define general properties of annotations in the engineering design context, and the role of annotations in...

  8. New in protein structure and function annotation: hotspots, single nucleotide polymorphisms and the 'Deep Web'.

    Science.gov (United States)

    Bromberg, Yana; Yachdav, Guy; Ofran, Yanay; Schneider, Reinhard; Rost, Burkhard

    2009-05-01

    The rapidly increasing quantity of protein sequence data continues to widen the gap between available sequences and annotations. Comparative modeling suggests some aspects of the 3D structures of approximately half of all known proteins; homology- and network-based inferences annotate some aspect of function for a similar fraction of the proteome. For most known protein sequences, however, there is detailed knowledge about neither their function nor their structure. Comprehensive efforts towards the expert curation of sequence annotations have failed to meet the demand of the rapidly increasing number of available sequences. Only the automated prediction of protein function in the absence of homology can close the gap between available sequences and annotations in the foreseeable future. This review focuses on two novel methods for automated annotation, and briefly presents an outlook on how modern web software may revolutionize the field of protein sequence annotation. First, predictions of protein binding sites and functional hotspots, and the evolution of these into the most successful type of prediction of protein function from sequence will be discussed. Second, a new tool, comprehensive in silico mutagenesis, which contributes important novel predictions of function and at the same time prepares for the onset of the next sequencing revolution, will be described. While these two new sub-fields of protein prediction represent the breakthroughs that have been achieved methodologically, it will then be argued that a different development might further change the way biomedical researchers benefit from annotations: modern web software can connect the worldwide web in any browser with the 'Deep Web' (ie, proprietary data resources). The availability of this direct connection, and the resulting access to a wealth of data, may impact drug discovery and development more than any existing method that contributes to protein annotation.

  9. Towards Viral Genome Annotation Standards, Report from the 2010 NCBI Annotation Workshop.

    Science.gov (United States)

    Brister, James Rodney; Bao, Yiming; Kuiken, Carla; Lefkowitz, Elliot J; Le Mercier, Philippe; Leplae, Raphael; Madupu, Ramana; Scheuermann, Richard H; Schobel, Seth; Seto, Donald; Shrivastava, Susmita; Sterk, Peter; Zeng, Qiandong; Klimke, William; Tatusova, Tatiana

    2010-10-01

    Improvements in DNA sequencing technologies portend a new era in virology and could possibly lead to a giant leap in our understanding of viral evolution and ecology. Yet, as viral genome sequences begin to fill the world's biological databases, it is critically important to recognize that the scientific promise of this era is dependent on consistent and comprehensive genome annotation. With this in mind, the NCBI Genome Annotation Workshop recently hosted a study group tasked with developing sequence, function, and metadata annotation standards for viral genomes. This report describes the issues involved in viral genome annotation and reviews policy recommendations presented at the NCBI Annotation Workshop.

  10. Psoriasis, cardiovascular events, cancer risk and alcohol use: evidence-based recommendations based on systematic review and expert opinion.

    Science.gov (United States)

    Richard, M-A; Barnetche, T; Horreau, C; Brenaut, E; Pouplard, C; Aractingi, S; Aubin, F; Cribier, B; Joly, P; Jullien, D; Le Maître, M; Misery, L; Ortonne, J-P; Paul, C

    2013-08-01

    The relationship between psoriasis, chronic inflammation, cardiovascular risk and risk of cancer has long been debated. In addition, it has been suggested that alcohol consumption may be a risk factor for psoriasis onset and severity. The aim of this study was to develop evidence-based recommendations on the risk of comorbidities and its management for daily clinical use, focusing on cardiovascular risk, risk of cancer and alcohol use in psoriasis. A scientific committee identified and selected through the Delphi method clinically relevant questions about cardiovascular risk, risk of cancer and alcohol use in psoriasis. To address these questions, a systematic literature search was performed in Medline, Embase and the Cochrane Library databases. Systematic literature reviews including meta-analysis whenever possible were performed. Subsequently, an Expert board meeting involving 39 dermatologists took place to analyse the evidence and to elaborate recommendations on the selected questions. Recommendations were graded according to the Oxford level of evidence grading system. The degree of agreement of these recommendations was assessed on a 10-point scale, as well as their potential impact on daily clinical practice. A total of 3242 articles were identified through the systematic literature searches, among which 110 were included in the systematic reviews. Overall, 12 recommendations were elaborated regarding comorbidities management in psoriasis patients. A moderate increased risk of cardiovascular diseases (CVD), mainly myocardial infarction (MI) [meta-analysis of cohort studies: OR = 1.25 (95% CI 1.03-1.52) and of cross-sectional studies: OR = 1.57 (95% CI 1.08-2.27)], and coronary artery disease (CAD) [meta-analysis of cross-sectional: OR = 1.19 (95% CI 1.14-1.24), of cohort studies: OR = 1.20 (95% CI 1.13-1.27) and of case-control studies: OR = 1.84 (95% CI 1.09-3.09)] was acknowledged. This increased cardiovascular risk requires appropriate prevention

  11. Expert Systems and Special Education.

    Science.gov (United States)

    Hofmeister, Alan M.; Ferrara, Joseph M.

    1986-01-01

    The article discusses the characteristics of expert systems (computer programs designed to replicate human expertise in a variety of areas), describes recently available expert system development tools, suggests applications within the field of special education, and reviews recent efforts to apply expert systems technology to special education…

  12. Expert System

    DEFF Research Database (Denmark)

    Hildebrandt, Thomas Troels; Cattani, Gian Luca

    2016-01-01

    An expert system is a computer system for inferring knowledge from a knowledge base, typically by using a set of inference rules. When the concept of expert systems was introduced at Stanford University in the early 1970s, the knowledge base was an unstructured set of facts. Today the knowledge b...

  13. International Expert Review of SRCan: Engineered Barrier Issues. External review contribution in support of SKI's and SSI's review of SR-Can

    Energy Technology Data Exchange (ETDEWEB)

    Savage, David (Quintessa Limited, Henley-on-Thames (GB)); Bennett, David (TerraSalus Limited, Oakham (GB)); Apted, Mick (Monitor Scientific LLC, Denver, CO (US)); Saellfors, Goeran (Chalmers Univ. of Technology, Goeteborg (SE)); Saario, Timo (VTT Materials and Building (FI)); Segle, Peter (Inspecta, Stockholm (SE))

    2008-03-15

    The Swedish Nuclear Fuel and Waste Management Company (SKB) has recently submitted a license application for the construction of a spent fuel encapsulation plant. SKB plans to submit a further license application in 2009 for the construction of a repository for the disposal spent nuclear fuel. In connection with the first of these applications, SKB published a safety report, known as SR-Can, which assessed the safety of a spent-fuel repository. The Swedish Nuclear Power Inspectorate (SKI) and the Swedish Radiation Protection Authority (SSI) (the Authorities) will make formal reviews of the licence applications, and have, therefore, jointly commissioned a team of independent experts to assess and provide comments on SKB's safety reports. The Authorities will consider the views of the independent review team in completing their own reviews. This document presents the comments and findings of the Engineered Barrier System (EBS) review group on SR-Can. The SR-Can safety report includes an examination of EBS design and performance for a range of scenarios, including expected repository evolution and possible variant scenarios, that together address processes and events that might result in the loss of certain repository safety functions. Furthermore, a series of sensitivity analyses is also presented that provides helpful insights into the relative importance of many key parameters and processes related to the EBS. In general, the explanatory text of the SR-Can safety report is clear, and the cited references provide adequate technical justifications for the assumptions, models, and data that are abstracted into the SR-Can safety report. The review group considers, therefore, that SKB's development of SR-Can has been a very valuable exercise, and that SKB should be congratulated on the breadth, depth and general clarity of its research and development and safety assessment programmes. Notwithstanding these successes, the EBS review group has identified a range

  14. Harnessing Collaborative Annotations on Online Formative Assessments

    Science.gov (United States)

    Lin, Jian-Wei; Lai, Yuan-Cheng

    2013-01-01

    This paper harnesses collaborative annotations by students as learning feedback on online formative assessments to improve the learning achievements of students. Through the developed Web platform, students can conduct formative assessments, collaboratively annotate, and review historical records in a convenient way, while teachers can generate…

  15. Improving pan-genome annotation using whole genome multiple alignment

    Directory of Open Access Journals (Sweden)

    Salzberg Steven L

    2011-06-01

    Full Text Available Abstract Background Rapid annotation and comparisons of genomes from multiple isolates (pan-genomes is becoming commonplace due to advances in sequencing technology. Genome annotations can contain inconsistencies and errors that hinder comparative analysis even within a single species. Tools are needed to compare and improve annotation quality across sets of closely related genomes. Results We introduce a new tool, Mugsy-Annotator, that identifies orthologs and evaluates annotation quality in prokaryotic genomes using whole genome multiple alignment. Mugsy-Annotator identifies anomalies in annotated gene structures, including inconsistently located translation initiation sites and disrupted genes due to draft genome sequencing or pseudogenes. An evaluation of species pan-genomes using the tool indicates that such anomalies are common, especially at translation initiation sites. Mugsy-Annotator reports alternate annotations that improve consistency and are candidates for further review. Conclusions Whole genome multiple alignment can be used to efficiently identify orthologs and annotation problem areas in a bacterial pan-genome. Comparisons of annotated gene structures within a species may show more variation than is actually present in the genome, indicating errors in genome annotation. Our new tool Mugsy-Annotator assists re-annotation efforts by highlighting edits that improve annotation consistency.

  16. RECOMIA - RECOMMENDATIONS FOR MARINE IMAGE ANNOTATION: LESSONS LEARNED AND FUTURE DIRECTIONS

    Directory of Open Access Journals (Sweden)

    Timm eSchoening

    2016-04-01

    Full Text Available Marine imaging is transforming into a sensor technology applied for high throughput sampling. In the context of habitat mapping, imaging establishes thereby an important bridge technology regarding the spatial resolution and information content between physical sampling gear (e.g. box corer, multi corer on the one end and hydro-acoustic sensors on the other end of the spectrum of sampling methods. In contrast to other scientific imaging domains, such as digital pathology, there are no protocols and reports available that guide users (often referred to as observers in the non-trivial process of assigning semantic categories to whole images, regions or objects of interest, which is referred to as annotation. These protocols are crucial to facilitate image analysis as a robust scientific method.In this article we will review the past observations in manual Marine Image Annotations (MIA and provide a a guideline for collecting manual annotations, b definitions for annotation quality and c a statistical framework to analyze the performance of human expert annotations and to compare those to computational approaches.

  17. A review of the carcinogenic potential of glyphosate by four independent expert panels and comparison to the IARC assessment.

    Science.gov (United States)

    Williams, Gary M; Aardema, Marilyn; Acquavella, John; Berry, Sir Colin; Brusick, David; Burns, Michele M; de Camargo, Joao Lauro Viana; Garabrant, David; Greim, Helmut A; Kier, Larry D; Kirkland, David J; Marsh, Gary; Solomon, Keith R; Sorahan, Tom; Roberts, Ashley; Weed, Douglas L

    2016-09-01

    The International Agency for Research on Cancer (IARC) published a monograph in 2015 concluding that glyphosate is "probably carcinogenic to humans" (Group 2A) based on limited evidence in humans and sufficient evidence in experimental animals. It was also concluded that there was strong evidence of genotoxicity and oxidative stress. Four Expert Panels have been convened for the purpose of conducting a detailed critique of the evidence in light of IARC's assessment and to review all relevant information pertaining to glyphosate exposure, animal carcinogenicity, genotoxicity, and epidemiologic studies. Two of the Panels (animal bioassay and genetic toxicology) also provided a critique of the IARC position with respect to conclusions made in these areas. The incidences of neoplasms in the animal bioassays were found not to be associated with glyphosate exposure on the basis that they lacked statistical strength, were inconsistent across studies, lacked dose-response relationships, were not associated with preneoplasia, and/or were not plausible from a mechanistic perspective. The overall weight of evidence from the genetic toxicology data supports a conclusion that glyphosate (including GBFs and AMPA) does not pose a genotoxic hazard and therefore, should not be considered support for the classification of glyphosate as a genotoxic carcinogen. The assessment of the epidemiological data found that the data do not support a causal relationship between glyphosate exposure and non-Hodgkin's lymphoma while the data were judged to be too sparse to assess a potential relationship between glyphosate exposure and multiple myeloma. As a result, following the review of the totality of the evidence, the Panels concluded that the data do not support IARC's conclusion that glyphosate is a "probable human carcinogen" and, consistent with previous regulatory assessments, further concluded that glyphosate is unlikely to pose a carcinogenic risk to humans.

  18. Expert Seeker

    Science.gov (United States)

    Fernandez, Becerra

    2003-01-01

    Expert Seeker is a computer program of the knowledge-management-system (KMS) type that falls within the category of expertise-locator systems. The main goal of the KMS system implemented by Expert Seeker is to organize and distribute knowledge of who are the domain experts within and without a given institution, company, or other organization. The intent in developing this KMS was to enable the re-use of organizational knowledge and provide a methodology for querying existing information (including structured, semistructured, and unstructured information) in a way that could help identify organizational experts. More specifically, Expert Seeker was developed to make it possible, by use of an intranet, to do any or all of the following: Assist an employee in identifying who has the skills needed for specific projects and to determine whether the experts so identified are available. Assist managers in identifying employees who may need training opportunities. Assist managers in determining what expertise is lost when employees retire or otherwise leave. Facilitate the development of new ways of identifying opportunities for innovation and minimization of duplicated efforts. Assist employees in achieving competitive advantages through the application of knowledge-management concepts and related systems. Assist external organizations in requesting speakers for specific engagements or determining from whom they might be able to request help via electronic mail. Help foster an environment of collaboration for rapid development in today's environment, in which it is increasingly necessary to assemble teams of experts from government, universities, research laboratories, and industries, to quickly solve problems anytime, anywhere. Make experts more visible. Provide a central repository of information about employees, including information that, heretofore, has typically not been captured by the human-resources systems (e.g., information about past projects, patents, or

  19. Maize microarray annotation database

    Directory of Open Access Journals (Sweden)

    Berger Dave K

    2011-10-01

    Full Text Available Abstract Background Microarray technology has matured over the past fifteen years into a cost-effective solution with established data analysis protocols for global gene expression profiling. The Agilent-016047 maize 44 K microarray was custom-designed from EST sequences, but only reporter sequences with EST accession numbers are publicly available. The following information is lacking: (a reporter - gene model match, (b number of reporters per gene model, (c potential for cross hybridization, (d sense/antisense orientation of reporters, (e position of reporter on B73 genome sequence (for eQTL studies, and (f functional annotations of genes represented by reporters. To address this, we developed a strategy to annotate the Agilent-016047 maize microarray, and built a publicly accessible annotation database. Description Genomic annotation of the 42,034 reporters on the Agilent-016047 maize microarray was based on BLASTN results of the 60-mer reporter sequences and their corresponding ESTs against the maize B73 RefGen v2 "Working Gene Set" (WGS predicted transcripts and the genome sequence. The agreement between the EST, WGS transcript and gDNA BLASTN results were used to assign the reporters into six genomic annotation groups. These annotation groups were: (i "annotation by sense gene model" (23,668 reporters, (ii "annotation by antisense gene model" (4,330; (iii "annotation by gDNA" without a WGS transcript hit (1,549; (iv "annotation by EST", in which case the EST from which the reporter was designed, but not the reporter itself, has a WGS transcript hit (3,390; (v "ambiguous annotation" (2,608; and (vi "inconclusive annotation" (6,489. Functional annotations of reporters were obtained by BLASTX and Blast2GO analysis of corresponding WGS transcripts against GenBank. The annotations are available in the Maize Microarray Annotation Database http://MaizeArrayAnnot.bi.up.ac.za/, as well as through a GBrowse annotation file that can be uploaded to

  20. Hypoactive Sexual Desire Disorder: International Society for the Study of Women's Sexual Health (ISSWSH) Expert Consensus Panel Review.

    Science.gov (United States)

    Goldstein, Irwin; Kim, Noel N; Clayton, Anita H; DeRogatis, Leonard R; Giraldi, Annamaria; Parish, Sharon J; Pfaus, James; Simon, James A; Kingsberg, Sheryl A; Meston, Cindy; Stahl, Stephen M; Wallen, Kim; Worsley, Roisin

    2017-01-01

    The objective of the International Society for the Study of Women's Sexual Health expert consensus panel was to develop a concise, clinically relevant, evidence-based review of the epidemiology, physiology, pathogenesis, diagnosis, and treatment of hypoactive sexual desire disorder (HSDD), a sexual dysfunction affecting approximately 10% of adult women. Etiologic factors include conditions or drugs that decrease brain dopamine, melanocortin, oxytocin, and norepinephrine levels and augment brain serotonin, endocannabinoid, prolactin, and opioid levels. Symptoms include lack or loss of motivation to participate in sexual activity due to absent or decreased spontaneous desire, sexual desire in response to erotic cues or stimulation, or ability to maintain desire or interest through sexual activity for at least 6 months, with accompanying distress. Treatment follows a biopsychosocial model and is guided by history and assessment of symptoms. Sex therapy has been the standard treatment, although there is a paucity of studies assessing efficacy, except for mindfulness-based cognitive behavior therapy. Bupropion and buspirone may be considered off-label treatments for HSDD, despite limited safety and efficacy data. Menopausal women with HSDD may benefit from off-label testosterone treatment, as evidenced by multiple clinical trials reporting some efficacy and short-term safety. Currently, flibanserin is the only Food and Drug Administration-approved medication to treat premenopausal women with generalized acquired HSDD. Based on existing data, we hypothesize that all these therapies alter central inhibitory and excitatory pathways. In conclusion, HSDD significantly affects quality of life in women and can effectively be managed by health care providers with appropriate assessments and individualized treatments.

  1. Experts reviews of the multidisciplinary consensus conference colon and rectal cancer 2012: science, opinions and experiences from the experts of surgery.

    Science.gov (United States)

    van de Velde, C J H; Boelens, P G; Tanis, P J; Espin, E; Mroczkowski, P; Naredi, P; Pahlman, L; Ortiz, H; Rutten, H J; Breugom, A J; Smith, J J; Wibe, A; Wiggers, T; Valentini, V

    2014-04-01

    The first multidisciplinary consensus conference on colon and rectal cancer was held in December 2012, achieving a majority of consensus for diagnostic and treatment decisions using the Delphi Method. This article will give a critical appraisal of the topics discussed during the meeting and in the consensus document by well-known leaders in surgery that were involved in this multidisciplinary consensus process. Scientific evidence, experience and opinions are collected to support multidisciplinary teams (MDT) with arguments for medical decision-making in diagnosis, staging and treatment strategies for patients with colon or rectal cancer. Surgery is the cornerstone of curative treatment for colon and rectal cancer. Standardizing treatment is an effective instrument to improve outcome of multidisciplinary cancer care for patients with colon and rectal cancer. In this article, a review of the following focuses; Perioperative care, age and colorectal surgery, obstructive colorectal cancer, stenting, surgical anatomical considerations, total mesorectal excision (TME) surgery and training, surgical considerations for locally advanced rectal cancer (LARC) and local recurrent rectal cancer (LRRC), surgery in stage IV colorectal cancer, definitions of quality of surgery, transanal endoscopic microsurgery (TEM), laparoscopic colon and rectal surgery, preoperative radiotherapy and chemoradiotherapy, and how about functional outcome after surgery?

  2. Expert Systems: What Is an Expert System?

    Science.gov (United States)

    Duval, Beverly K.; Main, Linda

    1994-01-01

    Describes expert systems and discusses their use in libraries. Highlights include parts of an expert system; expert system shells; an example of how to build an expert system; a bibliography of 34 sources of information on expert systems in libraries; and a list of 10 expert system shells used in libraries. (Contains five references.) (LRW)

  3. 加拿大药品专家评审制度简介%Introduction of Canadian Drug Expert Review System

    Institute of Scientific and Technical Information of China (English)

    杨洋; 张方

    2014-01-01

    Objective To research the system of the Canadian Drug Expert Committee(CDEC)and its management method so as to pro-vide reference for perfecting the drug expert review system in our country. Methods The document research method was adopted to re-trieve the official websites of the Public Health Agency of Canada,the Canada Drug Review Committee,etc. ,for understanding the Canadian drug expert review system and the management methods,including the aspects of the reference terms,relative stipulations, meeting,interest conflict. Results and Conclusion The Canadian Drug Expert Committee system is relatively perfect and the coverage rate of drug plan is higher,which are worthy of studying and using for reference by our country.%目的:研究加拿大药品专家评审委员会(CDEC)制度和管理办法,为我国药品专家评审制度的完善提供借鉴。方法运用文献研究方法,检索中英文献和加拿大卫生署、加拿大药品评审委员会等官方网站,了解加拿大药品专家评审制度和管理办法,包括参考条款、相关规定、会议、利益冲突等方面。结果与结论加拿大的药品专家评审委员会制度比较健全,药物计划的覆盖率较高,值得我国学习和借鉴。

  4. A review of traditional and novel treatments for seizures in autism spectrum disorder: findings from a systematic review and expert panel.

    Science.gov (United States)

    Frye, Richard E; Rossignol, Daniel; Casanova, Manuel F; Brown, Gregory L; Martin, Victoria; Edelson, Stephen; Coben, Robert; Lewine, Jeffrey; Slattery, John C; Lau, Chrystal; Hardy, Paul; Fatemi, S Hossein; Folsom, Timothy D; Macfabe, Derrick; Adams, James B

    2013-09-13

    Despite the fact that seizures are commonly associated with autism spectrum disorder (ASD), the effectiveness of treatments for seizures has not been well studied in individuals with ASD. This manuscript reviews both traditional and novel treatments for seizures associated with ASD. Studies were selected by systematically searching major electronic databases and by a panel of experts that treat ASD individuals. Only a few anti-epileptic drugs (AEDs) have undergone carefully controlled trials in ASD, but these trials examined outcomes other than seizures. Several lines of evidence point to valproate, lamotrigine, and levetiracetam as the most effective and tolerable AEDs for individuals with ASD. Limited evidence supports the use of traditional non-AED treatments, such as the ketogenic and modified Atkins diet, multiple subpial transections, immunomodulation, and neurofeedback treatments. Although specific treatments may be more appropriate for specific genetic and metabolic syndromes associated with ASD and seizures, there are few studies which have documented the effectiveness of treatments for seizures for specific syndromes. Limited evidence supports l-carnitine, multivitamins, and N-acetyl-l-cysteine in mitochondrial disease and dysfunction, folinic acid in cerebral folate abnormalities and early treatment with vigabatrin in tuberous sclerosis complex. Finally, there is limited evidence for a number of novel treatments, particularly magnesium with pyridoxine, omega-3 fatty acids, the gluten-free casein-free diet, and low-frequency repetitive transcranial magnetic simulation. Zinc and l-carnosine are potential novel treatments supported by basic research but not clinical studies. This review demonstrates the wide variety of treatments used to treat seizures in individuals with ASD as well as the striking lack of clinical trials performed to support the use of these treatments. Additional studies concerning these treatments for controlling seizures in individuals

  5. A review of traditional and novel treatments for seizures in autism spectrum disorder: Findings from a systematic review and expert panel.

    Directory of Open Access Journals (Sweden)

    Richard Eugene Frye

    2013-09-01

    Full Text Available Despite the fact that seizures are commonly associated with autism spectrum disorder (ASD, the effectiveness of treatments for seizures has not been well studied in individuals with ASD. This manuscript reviews both traditional and novel treatments for seizures associated with ASD. Studies were selected by systematically searching major electronic databases and by a panel of experts that treat ASD individuals. Only a few anti-epileptic drugs (AEDs have undergone carefully controlled trials in ASD, but these trials examined outcomes other than seizures. Several lines of evidence point to valproate, lamotrigine and levetiracetam as the most effective and tolerable AEDs for individuals with ASD. Limited evidence supports the use of traditional non-AED treatments, such as the ketogenic and modified Atkins diet, multiple subpial transections and immunomodulation and neurofeedback treatments. Although specific treatments may be more appropriate for specific genetic and metabolic syndromes associated with ASD and seizures, there are few studies which have documented the effectiveness of treatments for seizures for specific syndromes. Limited evidence supports L-carnitine, multivitamins and N-acetyl-L-cysteine in mitochondrial disease and dysfunction, folinic acid in cerebral folate abnormalities and early treatment with vigabatrin in tuberous sclerosis complex. Finally, there is limited evidence for a number of novel treatments, particularly magnesium with pyridoxine, omega-3 fatty acids, the gluten-free casein-free diet and transcranial magnetic simulation. Zinc and L-carnosine are potential novel treatments supported by basic research but not clinical studies. This review demonstrates the wide variety of treatments used to treat seizures in individuals with ASD as well as the striking lack of clinical trials performed to support the use these treatments. Additional studies concerning these treatments for controlling seizures in individuals with ASD

  6. ExpertFOAF recommends experts

    DEFF Research Database (Denmark)

    Iofcu, Tereza; Diederich, Joerg; Dolog, Peter

    2007-01-01

    the GrowBag approach [1]. The main assumption is that such user profiles can provide good hints about users' expertise. Such extended FOAF files (called ExpertFOAF) can be published on a user's home page, on web pages of institutions or conferences to characterize them. They can be crawled by distributed...

  7. Personality Traits of Expert Teachers of Students with Behavioural Problems: A Review and Classification of the Literature

    Science.gov (United States)

    Buttner, Svenja; Pijl, Sip Jan; Bijstra, Jan; van den Bosch, Els

    2015-01-01

    Teaching students with behavioural problems is a challenge for many teachers but other teachers are able to bring out the best in these students. Much research has been done to find out what differentiates expert teachers from their less skilled colleagues. Recent evidence points to personality as an underlying core factor influencing teacher…

  8. Ubiquitous Annotation Systems

    DEFF Research Database (Denmark)

    Hansen, Frank Allan

    2006-01-01

    Ubiquitous annotation systems allow users to annotate physical places, objects, and persons with digital information. Especially in the field of location based information systems much work has been done to implement adaptive and context-aware systems, but few efforts have focused on the general...... requirements for linking information to objects in both physical and digital space. This paper surveys annotation techniques from open hypermedia systems, Web based annotation systems, and mobile and augmented reality systems to illustrate different approaches to four central challenges ubiquitous annotation...... systems have to deal with: anchoring, structuring, presentation, and authoring. Through a number of examples each challenge is discussed and HyCon, a context-aware hypermedia framework developed at the University of Aarhus, Denmark, is used to illustrate an integrated approach to ubiquitous annotations...

  9. An expert consortium review of the EC-commissioned report "alternative (Non-Animal) methods for cosmetics testing: current status and future prospects - 2010"

    DEFF Research Database (Denmark)

    Hartung, Thomas; Blaauboer, Bas J; Bosgra, Sieto

    2011-01-01

    The European cosmetics legislation foresees a review in 2011 and possible postponement of the 2013 marketing ban to enforce the testing ban for systemic and repeated-dose animal tests. For this purpose, a 119-page report commissioned by the European Commission was published recently. Here, a group...... of 17 independent experts from the US, Europe, and Japan was brought together to evaluate the report. The expert panel strongly endorsed the report and its conclusions. A number of important options not considered were identified; these do not, however, affect the overall conclusions regarding...... the current lack of availability of a full replacement, especially for the areas of repeated dose toxicity, carcinogenicity testing, and reproductive toxicity, though a roadmap for change is emerging. However, some of these options may provide adequate data for replacement of some animal studies in the near...

  10. An updated and annotated list of Indian lizards (Reptilia: Sauria based on a review of distribution records and checklists of Indian reptiles

    Directory of Open Access Journals (Sweden)

    P.D. Venugopal

    2010-03-01

    Full Text Available Over the past two decades many checklists of reptiles of India and adjacent countries have been published. These publications have furthered the growth of knowledge on systematics, distribution and biogeography of Indian reptiles, and the field of herpetology in India in general. However, the reporting format of most such checklists of Indian reptiles does not provide a basis for direct verification of the information presented. As a result, mistakes in the inclusion and omission of species have been perpetuated and the exact number of reptile species reported from India still remains unclear. A verification of the current listings based on distributional records and review of published checklists revealed that 199 species of lizards (Reptilia: Sauria are currently validly reported on the basis of distributional records within the boundaries of India. Seventeen other lizard species have erroneously been included in earlier checklists of Indian reptiles. Omissions of species by these checklists have been even more numerous than erroneous inclusions. In this paper, I present a plea to report species lists as annotated checklists which corroborate the inclusion and omission of species by providing valid source references or notes.

  11. STRING 2008 hold at CERN -- the largest and most important conference on String Theory with the mostly active researchers in the field. The main purpose of the conference is to review the latest developments for experts.

    CERN Multimedia

    Maximilien Brice

    2008-01-01

    STRING 2008 hold at CERN -- the largest and most important conference on String Theory with the mostly active researchers in the field. The main purpose of the conference is to review the latest developments for experts.

  12. Health outcomes of children born after IVF/ICSI: a review of current expert opinion and literature.

    Science.gov (United States)

    Fauser, B C J M; Devroey, P; Diedrich, K; Balaban, B; Bonduelle, M; Delemarre-van de Waal, H A; Estella, C; Ezcurra, D; Geraedts, J P M; Howles, C M; Lerner-Geva, L; Serna, J; Wells, D

    2014-02-01

    The Sixth Evian Annual Reproduction (EVAR) Workshop Group Meeting was held to evaluate the impact of IVF/intracytoplasmic sperm injection on the health of assisted-conception children. Epidemiologists, reproductive endocrinologists, embryologists and geneticists presented data from published literature and ongoing research on the incidence of genetic and epigenetic abnormalities and congenital malformations in assisted-conception versus naturally conceived children to reach a consensus on the reasons for potential differences in outcomes between these two groups. IVF-conceived children have lower birthweights and higher peripheral fat, blood pressure and fasting glucose concentrations than controls. Growth, development and cognitive function in assisted-conception children are similar to controls. The absolute risk of imprinting disorders after assisted reproduction is less than 1%. A direct link between assisted reproduction and health-related outcomes in assisted-conception children could not be established. Women undergoing assisted reproduction are often older, increasing the chances of obtaining abnormal gametes that may cause deviations in outcomes between assisted-conception and naturally conceived children. However, after taking into account these factors, it is not clear to what extent poorer outcomes are due to the assisted reproduction procedures themselves. Large-scale, multicentre, prospective epidemiological studies are needed to investigate this further and to confirm long-term health consequences in assisted-conception children. Assisted reproduction treatment is a general term used to describe methods of achieving pregnancy by artificial means and includes IVF and sperm implantation. The effect of assisted reproduction treatment on the health of children born using these artificial methods is not fully understood. In April 2011, fertility research experts met to give presentations based on research in this area and to look carefully at the evidence

  13. A Novel Approach to Semantic and Coreference Annotation at LLNL

    Energy Technology Data Exchange (ETDEWEB)

    Firpo, M

    2005-02-04

    A case is made for the importance of high quality semantic and coreference annotation. The challenges of providing such annotation are described. Asperger's Syndrome is introduced, and the connections are drawn between the needs of text annotation and the abilities of persons with Asperger's Syndrome to meet those needs. Finally, a pilot program is recommended wherein semantic annotation is performed by people with Asperger's Syndrome. The primary points embodied in this paper are as follows: (1) Document annotation is essential to the Natural Language Processing (NLP) projects at Lawrence Livermore National Laboratory (LLNL); (2) LLNL does not currently have a system in place to meet its need for text annotation; (3) Text annotation is challenging for a variety of reasons, many related to its very rote nature; (4) Persons with Asperger's Syndrome are particularly skilled at rote verbal tasks, and behavioral experts agree that they would excel at text annotation; and (6) A pilot study is recommend in which two to three people with Asperger's Syndrome annotate documents and then the quality and throughput of their work is evaluated relative to that of their neuro-typical peers.

  14. Annotating Coloured Petri Nets

    DEFF Research Database (Denmark)

    Lindstrøm, Bo; Wells, Lisa Marie

    2002-01-01

    Coloured Petri nets (CP-nets) can be used for several fundamentally different purposes like functional analysis, performance analysis, and visualisation. To be able to use the corresponding tool extensions and libraries it is sometimes necessary to include extra auxiliary information in the CP-ne...... a certain use of the CP-net. We define the semantics of annotations by describing a translation from a CP-net and the corresponding annotation layers to another CP-net where the annotations are an integrated part of the CP-net....... a method which makes it possible to associate auxiliary information, called annotations, with tokens without modifying the colour sets of the CP-net. Annotations are pieces of information that are not essential for determining the behaviour of the system being modelled, but are rather added to support...

  15. Benchmark study of automatic annotation of MALDI-TOF N-glycan profiles.

    Science.gov (United States)

    Brito, Alejandro E; Kletter, Doron; Singhal, Mudita; Bern, Marshall

    2015-11-01

    Human experts can annotate peaks in MALDI-TOF profiles of detached N-glycans with some degree of accuracy. Even though MALDI-TOF profiles give only intact masses without any fragmentation information, expert knowledge of the most common glycans and biosynthetic pathways in the biological system can point to a small set of most likely glycan structures at the "cartoon" level of detail. Cartoonist is a recently developed, fully automatic annotation tool for MALDI-TOF glycan profiles. Here we benchmark Cartoonist's automatic annotations against human expert annotations on human and mouse N-glycan data from the Consortium for Functional Glycomics. We find that Cartoonist and expert annotations largely agree, but the expert tends to annotate more specifically, meaning fewer suggested structures per peak, and Cartoonist more comprehensively, meaning more annotated peaks. On peaks for which both Cartoonist and the expert give unique cartoons, the two cartoons agree in over 90% of all cases. This article is part of a Special Issue entitled: Computational Proteomics.

  16. Cadec: A corpus of adverse drug event annotations.

    Science.gov (United States)

    Karimi, Sarvnaz; Metke-Jimenez, Alejandro; Kemp, Madonna; Wang, Chen

    2015-06-01

    CSIRO Adverse Drug Event Corpus (Cadec) is a new rich annotated corpus of medical forum posts on patient-reported Adverse Drug Events (ADEs). The corpus is sourced from posts on social media, and contains text that is largely written in colloquial language and often deviates from formal English grammar and punctuation rules. Annotations contain mentions of concepts such as drugs, adverse effects, symptoms, and diseases linked to their corresponding concepts in controlled vocabularies, i.e., SNOMED Clinical Terms and MedDRA. The quality of the annotations is ensured by annotation guidelines, multi-stage annotations, measuring inter-annotator agreement, and final review of the annotations by a clinical terminologist. This corpus is useful for studies in the area of information extraction, or more generally text mining, from social media to detect possible adverse drug reactions from direct patient reports. The corpus is publicly available at https://data.csiro.au.(1).

  17. Comparison of the Evaluations of a Case-Based Reasoning Decision Support Tool by Expert Reviewers with those of End Users

    Directory of Open Access Journals (Sweden)

    Walsh, Paul

    2008-05-01

    Full Text Available BACKGROUND: Decision-support tools (DST are typically developed by computer engineers for use by clinicians. Prototype testing DSTs may be performed relatively easily by one or two clinical experts. The costly alternative is to test each prototype on a larger number of diverse clinicians, based on the untested assumption that these evaluations would more accurately reflect those of actual end users.HYPOTHESIS: We hypothesized substantial or better agreement (as defined by a kappa statistic greater than 0.6 between the evaluations of a case based reasoning (CBR DST predicting ED admission for bronchiolitis performed by the clinically diverse end users, to those of two clinical experts who evaluated the same DST output.METHODS: Three outputs from a previously described DST were evaluated by the emergency physicians (EP who originally saw the patients and by two pediatric EPs with an interest in bronchiolitis. The DST outputs were as follows: predicted disposition, an example of another previously seen patient to explain the prediction, and explanatory dialog. Each was rated using the scale Definitely Not, No, Maybe, Yes, and Absolutely. This was converted to a Likert scale for analysis. Agreement was measured using the kappa statistic.RESULTS: Agreement with the DST predicted disposition was moderate between end users and the expert reviewers, but was only fair or poor for value of the explanatory case and dialog.CONCLUSION: Agreement between expert evaluators and end users on the value of a CBR DST predicted dispositions was moderate. For the more subjective explicative components, agreement was fair, poor, or worse.

  18. Bibliografia de Aztlan: An Annotated Chicano Bibliography.

    Science.gov (United States)

    Barrios, Ernie, Ed.

    More than 300 books and articles published from 1920 to 1971 are reviewed in this annotated bibliography of literature on the Chicano. The citations and reviews are categorized by subject area and deal with contemporary Chicano history, education, health, history of Mexico, literature, native Americans, philosophy, political science, pre-Columbian…

  19. A Novel Technique to Image Annotation using Neural Network

    Directory of Open Access Journals (Sweden)

    Pankaj Savita

    2013-03-01

    Full Text Available : Automatic annotation of digital pictures is a key technology for managing and retrieving images from large image collection. Traditional image semantics extraction and representation schemes were commonly divided into two categories, namely visual features and text annotations. However, visual feature scheme are difficult to extract and are often semantically inconsistent. On the other hand, the image semantics can be well represented by text annotations. It is also easier to retrieve images according to their annotations. Traditional image annotation techniques are time-consuming and requiring lots of human effort. In this paper we propose Neural Network based a novel approach to the problem of image annotation. These approaches are applied to the Image data set. Our main work is focused on the image annotation by using multilayer perceptron, which exhibits a clear-cut idea on application of multilayer perceptron with special features. MLP Algorithm helps us to discover the concealed relations between image data and annotation data, and annotate image according to such relations. By using this algorithm we can save more memory space, and in case of web applications, transferring of images and download should be fast. This paper reviews 50 image annotation systems using supervised machine learning Techniques to annotate images for image retrieval. Results obtained show that the multi layer perceptron Neural Network classifier outperforms conventional DST Technique.

  20. Expert systems in clinical microbiology.

    Science.gov (United States)

    Winstanley, Trevor; Courvalin, Patrice

    2011-07-01

    This review aims to discuss expert systems in general and how they may be used in medicine as a whole and clinical microbiology in particular (with the aid of interpretive reading). It considers rule-based systems, pattern-based systems, and data mining and introduces neural nets. A variety of noncommercial systems is described, and the central role played by the EUCAST is stressed. The need for expert rules in the environment of reset EUCAST breakpoints is also questioned. Commercial automated systems with on-board expert systems are considered, with emphasis being placed on the "big three": Vitek 2, BD Phoenix, and MicroScan. By necessity and in places, the review becomes a general review of automated system performances for the detection of specific resistance mechanisms rather than focusing solely on expert systems. Published performance evaluations of each system are drawn together and commented on critically.

  1. An expert consortium review of the EC-commissioned report "alternative (Non-Animal) methods for cosmetics testing: current status and future prospects - 2010".

    Science.gov (United States)

    Hartung, Thomas; Blaauboer, Bas J; Bosgra, Sieto; Carney, Edward; Coenen, Joachim; Conolly, Rory B; Corsini, Emanuela; Green, Sidney; Faustman, Elaine M; Gaspari, Anthony; Hayashi, Makoto; Wallace Hayes, A; Hengstler, Jan G; Knudsen, Lisbeth E; Knudsen, Thomas B; McKim, James M; Pfaller, Walter; Roggen, Erwin L

    2011-01-01

    The European cosmetics legislation foresees a review in 2011 and possible postponement of the 2013 marketing ban to enforce the testing ban for systemic and repeated-dose animal tests. For this purpose, a 119-page report commissioned by the European Commission was published recently. Here, a group of 17 independent experts from the US, Europe, and Japan was brought together to evaluate the report. The expert panel strongly endorsed the report and its conclusions. A number of important options not considered were identified; these do not, however, affect the overall conclusions regarding the current lack of availability of a full replacement, especially for the areas of repeated dose toxicity, carcinogenicity testing, and reproductive toxicity, though a roadmap for change is emerging. However, some of these options may provide adequate data for replacement of some animal studies in the near future pending validation. Various recommendations expand the original report. The reviewers agree with the report that there is greater promise in the short term for the areas of sensitization and toxicokinetics. Additional opportunities lie in more global collaborations and the inclusion of other industry sectors.

  2. Designing an Educational Website to Improve Quality of Supportive Oncology Care for Women with Ovarian Cancer: An Expert Usability Review and Analysis.

    Science.gov (United States)

    McClellan, Molly A; Karumur, Raghav Pavan; Vogel, Rachel Isaksson; Petzel, Sue V; Cragg, Julie; Chan, Daniel; Jacko, Julie A; Sainfort, François; Geller, Melissa A

    A broad-based research team developed a Health Insurance Portability and Accountability Act (HIPAA)-compliant educational website for women with ovarian cancer to improve the quality of supportive oncology care. Prior to a randomized clinical trial of the website, initial usability testing was implemented to evaluate the website. The initial review found that 165/247 checklist items had sufficient information to allow for evaluation with the website achieving an overall score of 63%. By category, lowest scores were for the Home Page, Task Orientation, Page Layout & Visual Design, and Help, Feedback & Error Tolerance. Major issues thought to potentially impede actual usage were prioritized in redevelopment and the second usability review, conducted by the same expert, saw an improvement in scores. Incorporating usability concepts from the start of development, fulfilling the positive expectations of end-users and identifying technical and personal factors that optimize use may greatly enhance usage of health websites.

  3. Personnalisation de Syst\\`emes OLAP Annot\\'es

    CERN Document Server

    Jerbi, Houssem; Ravat, Franck; Teste, Olivier

    2010-01-01

    This paper deals with personalization of annotated OLAP systems. Data constellation is extended to support annotations and user preferences. Annotations reflect the decision-maker experience whereas user preferences enable users to focus on the most interesting data. User preferences allow annotated contextual recommendations helping the decision-maker during his/her multidimensional navigations.

  4. Expert Systems and Intelligent Information Retrieval.

    Science.gov (United States)

    Brooks, H. M.

    1987-01-01

    Explores what an intelligent information retrieval system involves and why expert system techniques might interest system designers. Expert systems research is reviewed with emphasis on components, architecture, and computer interaction, and it is concluded that information retrieval is not an ideal problem domain for expert system application at…

  5. An Introduction to Genome Annotation.

    Science.gov (United States)

    Campbell, Michael S; Yandell, Mark

    2015-12-17

    Genome projects have evolved from large international undertakings to tractable endeavors for a single lab. Accurate genome annotation is critical for successful genomic, genetic, and molecular biology experiments. These annotations can be generated using a number of approaches and available software tools. This unit describes methods for genome annotation and a number of software tools commonly used in gene annotation.

  6. Una Introduccion a los Jovenes con Discapacidades: Bibliografia Anotada. Revisiones de CYDLINE (An Introduction to Youth with Disabilities: Annotated Bibliography. CYDINE Reviews).

    Science.gov (United States)

    Minnesota Univ., Minneapolis. National Center for Youth with Disabilities.

    This Spanish-language annotated bibliography describes English-language resources covering a wide range of issues related to disabled youth and their families. The 38 bibliographic citations date from 1980 to 1989 and are grouped into the following categories: psychosocial issues, health issues, educational issues, and community living.…

  7. Image-based medical expert teleconsultation in acute care of injuries. A systematic review of effects on information accuracy, diagnostic validity, clinical outcome, and user satisfaction.

    Directory of Open Access Journals (Sweden)

    Marie Hasselberg

    Full Text Available OBJECTIVE: To systematically review the literature on image-based telemedicine for medical expert consultation in acute care of injuries, considering system, user, and clinical aspects. DESIGN: Systematic review of peer-reviewed journal articles. DATA SOURCES: Searches of five databases and in eligible articles, relevant reviews, and specialized peer-reviewed journals. ELIGIBILITY CRITERIA: Studies were included that covered teleconsultation systems based on image capture and transfer with the objective of seeking medical expertise for the diagnostic and treatment of acute injury care and that presented the evaluation of one or several aspects of the system based on empirical data. Studies of systems not under routine practice or including real-time interactive video conferencing were excluded. METHOD: The procedures used in this review followed the PRISMA Statement. Predefined criteria were used for the assessment of the risk of bias. The DeLone and McLean Information System Success Model was used as a framework to synthesise the results according to system quality, user satisfaction, information quality and net benefits. All data extractions were done by at least two reviewers independently. RESULTS: Out of 331 articles, 24 were found eligible. Diagnostic validity and management outcomes were often studied; fewer studies focused on system quality and user satisfaction. Most systems were evaluated at a feasibility stage or during small-scale pilot testing. Although the results of the evaluations were generally positive, biases in the methodology of evaluation were concerning selection, performance and exclusion. Gold standards and statistical tests were not always used when assessing diagnostic validity and patient management. CONCLUSIONS: Image-based telemedicine systems for injury emergency care tend to support valid diagnosis and influence patient management. The evidence relates to a few clinical fields, and has substantial methodological

  8. The WANDAML Markup Language for Digital Document Annotation

    NARCIS (Netherlands)

    Franke, K.; Guyon, I.; Schomaker, L.; Vuurpijl, L.

    2004-01-01

    WANDAML is an XML-based markup language for the annotation and filter journaling of digital documents. It addresses in particular the needs of forensic handwriting data examination, by allowing experts to enter information about writer, material (pen, paper), script and content, and to record chains

  9. Scratching the surface of tomorrow's diagnostics: the Editor-in-Chief's opinion at the 15th year of Expert Review of Molecular Diagnostics.

    Science.gov (United States)

    Lorincz, Attila; Raison, Claire

    2015-01-01

    Interview with Attila Lorincz by Claire Raison (Commissioning Editor) To mark the beginning of the 15th year of Expert Review of Molecular Diagnostics, the journal's Editor-in-Chief shares his expert knowledge on translational diagnostics, his opinion on recent controversies and his predictions for molecular diagnostics in 2015 and beyond. Attila Lorincz received his doctorate from Trinity College, Dublin, Republic of Ireland, and went on to become a research fellow at the University of California, Santa Barbara, CA, USA. During Professor Lorincz's research on human papillomavirus (HPV), he found several important and novel carcinogenic HPV types and pioneered the use of HPV DNA testing for clinical diagnostics. In 1988, Professor Lorincz's team produced the first HPV test to be FDA-approved for patients and in 2003, for general population cervical precancer screening. Now Professor of Molecular Epidemiology at the Centre for Cancer Prevention, Queen Mary University of London, UK, he and his team are furthering translational research into DNA methylation assays for cancer risk prediction.

  10. Semantic annotation of mutable data.

    Science.gov (United States)

    Morris, Robert A; Dou, Lei; Hanken, James; Kelly, Maureen; Lowery, David B; Ludäscher, Bertram; Macklin, James A; Morris, Paul J

    2013-01-01

    Electronic annotation of scientific data is very similar to annotation of documents. Both types of annotation amplify the original object, add related knowledge to it, and dispute or support assertions in it. In each case, annotation is a framework for discourse about the original object, and, in each case, an annotation needs to clearly identify its scope and its own terminology. However, electronic annotation of data differs from annotation of documents: the content of the annotations, including expectations and supporting evidence, is more often shared among members of networks. Any consequent actions taken by the holders of the annotated data could be shared as well. But even those current annotation systems that admit data as their subject often make it difficult or impossible to annotate at fine-enough granularity to use the results in this way for data quality control. We address these kinds of issues by offering simple extensions to an existing annotation ontology and describe how the results support an interest-based distribution of annotations. We are using the result to design and deploy a platform that supports annotation services overlaid on networks of distributed data, with particular application to data quality control. Our initial instance supports a set of natural science collection metadata services. An important application is the support for data quality control and provision of missing data. A previous proof of concept demonstrated such use based on data annotations modeled with XML-Schema.

  11. Semantic annotation of mutable data.

    Directory of Open Access Journals (Sweden)

    Robert A Morris

    Full Text Available Electronic annotation of scientific data is very similar to annotation of documents. Both types of annotation amplify the original object, add related knowledge to it, and dispute or support assertions in it. In each case, annotation is a framework for discourse about the original object, and, in each case, an annotation needs to clearly identify its scope and its own terminology. However, electronic annotation of data differs from annotation of documents: the content of the annotations, including expectations and supporting evidence, is more often shared among members of networks. Any consequent actions taken by the holders of the annotated data could be shared as well. But even those current annotation systems that admit data as their subject often make it difficult or impossible to annotate at fine-enough granularity to use the results in this way for data quality control. We address these kinds of issues by offering simple extensions to an existing annotation ontology and describe how the results support an interest-based distribution of annotations. We are using the result to design and deploy a platform that supports annotation services overlaid on networks of distributed data, with particular application to data quality control. Our initial instance supports a set of natural science collection metadata services. An important application is the support for data quality control and provision of missing data. A previous proof of concept demonstrated such use based on data annotations modeled with XML-Schema.

  12. Bioinformatics Assisted Gene Discovery and Annotation of Human Genome

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    As the sequencing stage of human genome project is near the end, the work has begun for discovering novel genes from genome sequences and annotating their biological functions. Here are reviewed current major bioinformatics tools and technologies available for large scale gene discovery and annotation from human genome sequences. Some ideas about possible future development are also provided.

  13. From the Margins to the Center: The Future of Annotation.

    Science.gov (United States)

    Wolfe, Joanna L.; Neuwirth, Christine M.

    2001-01-01

    Describes the importance of annotation to reading and writing practices and reviews new technologies that complicate the ways annotation can be used to support and enhance traditional reading, writing, and collaboration processes. Emphasizes issues and methods that will be productive for enhancing theories of workplace and classroom communication…

  14. Applying Reliability Metrics to Co-Reference Annotation

    CERN Document Server

    Passonneau, R J

    1997-01-01

    Studies of the contextual and linguistic factors that constrain discourse phenomena such as reference are coming to depend increasingly on annotated language corpora. In preparing the corpora, it is important to evaluate the reliability of the annotation, but methods for doing so have not been readily available. In this report, I present a method for computing reliability of coreference annotation. First I review a method for applying the information retrieval metrics of recall and precision to coreference annotation proposed by Marc Vilain and his collaborators. I show how this method makes it possible to construct contingency tables for computing Cohen's Kappa, a familiar reliability metric. By comparing recall and precision to reliability on the same data sets, I also show that recall and precision can be misleadingly high. Because Kappa factors out chance agreement among coders, it is a preferable measure for developing annotated corpora where no pre-existing target annotation exists.

  15. Expert Systems: An Overview.

    Science.gov (United States)

    Adiga, Sadashiv

    1984-01-01

    Discusses: (1) the architecture of expert systems; (2) features that distinguish expert systems from conventional programs; (3) conditions necessary to select a particular application for the development of successful expert systems; (4) issues to be resolved when building expert systems; and (5) limitations. Examples of selected expert systems…

  16. Human Genome Annotation

    Science.gov (United States)

    Gerstein, Mark

    A central problem for 21st century science is annotating the human genome and making this annotation useful for the interpretation of personal genomes. My talk will focus on annotating the 99% of the genome that does not code for canonical genes, concentrating on intergenic features such as structural variants (SVs), pseudogenes (protein fossils), binding sites, and novel transcribed RNAs (ncRNAs). In particular, I will describe how we identify regulatory sites and variable blocks (SVs) based on processing next-generation sequencing experiments. I will further explain how we cluster together groups of sites to create larger annotations. Next, I will discuss a comprehensive pseudogene identification pipeline, which has enabled us to identify >10K pseudogenes in the genome and analyze their distribution with respect to age, protein family, and chromosomal location. Throughout, I will try to introduce some of the computational algorithms and approaches that are required for genome annotation. Much of this work has been carried out in the framework of the ENCODE, modENCODE, and 1000 genomes projects.

  17. Ludwig von Mises: An Annotated Bibliography.

    Science.gov (United States)

    Gordon, David

    A 117-item annotated bibliography of books, articles, essays, lectures, and reviews by economist Ludwig von Mises is presented. The bibliography is arranged chronologicaly, and is followed by an alphabetical listing of the citations, excluding books. An index and information on the Ludwig von Mises Institute at Auburn University (Alabama) are…

  18. Algal functional annotation tool

    Energy Technology Data Exchange (ETDEWEB)

    Lopez, D. [UCLA; Casero, D. [UCLA; Cokus, S. J. [UCLA; Merchant, S. S. [UCLA; Pellegrini, M. [UCLA

    2012-07-01

    The Algal Functional Annotation Tool is a web-based comprehensive analysis suite integrating annotation data from several pathway, ontology, and protein family databases. The current version provides annotation for the model alga Chlamydomonas reinhardtii, and in the future will include additional genomes. The site allows users to interpret large gene lists by identifying associated functional terms, and their enrichment. Additionally, expression data for several experimental conditions were compiled and analyzed to provide an expression-based enrichment search. A tool to search for functionally-related genes based on gene expression across these conditions is also provided. Other features include dynamic visualization of genes on KEGG pathway maps and batch gene identifier conversion.

  19. The Use of Probiotics in Pediatric Gastroenterology: A Review of the Literature and Recommendations by Latin-American Experts

    OpenAIRE

    Cruchet, Sylvia; Furnes, Raquel; Maruy, Aldo; Hebel, Eduardo; Palacios, Jorge; Medina, Fernando; Ramirez, Nelson; Orsi, Marina; Rondon, Lysette; Sdepanian, Vera; Xóchihua, Luis; Ybarra, Manuel; Zablah, Roberto Arturo

    2015-01-01

    Objective The stability and composition of intestinal flora plays a vital role in human wellbeing throughout life from as early as birth. Over the past 50 years, several studies have been conducted to evaluate the effect of probiotic administration in pediatric gastroenterology. This document aims to provide a recommendation score on probiotic utilization in pediatric gastroenterology, together with a review of current knowledge concerning its benefits, tolerability, and safety. Study Design ...

  20. Whom to Heed in the Expert Society. A Course for Colleges and Universities.

    Science.gov (United States)

    Rifkin, William D.

    1990-01-01

    Presented is a course that applies concepts from sociology, anthropology, linguistics, and social studies of science to the question of expert status. Included are major concepts to be covered, suggested readings and annotated bibliography, and possible class exercises. (KR)

  1. Effects of Annotations and Homework on Learning Achievement: An Empirical Study of Scratch Programming Pedagogy

    Science.gov (United States)

    Su, Addison Y. S.; Huang, Chester S. J.; Yang, Stephen J. H.; Ding, T. J.; Hsieh, Y. Z.

    2015-01-01

    In Taiwan elementary schools, Scratch programming has been taught for more than four years. Previous studies have shown that personal annotations is a useful learning method that improve learning performance. An annotation-based Scratch programming (ASP) system provides for the creation, share, and review of annotations and homework solutions in…

  2. A systematic review of missed opportunities for improving tuberculosis and HIV/AIDS control in Sub-saharan Africa: what is still missed by health experts?

    Science.gov (United States)

    Keugoung, Basile; Fouelifack, Florent Ymele; Fotsing, Richard; Macq, Jean; Meli, Jean; Criel, Bart

    2014-01-01

    In sub-Saharan Africa, HIV/AIDS and tuberculosis are major public health problems. In 2010, 64% of the 34 million of people infected with HIV were reported to be living in sub-Saharan Africa. Only 41% of eligible HIV-positive people had access to antiretroviral therapy (ART). Regarding tuberculosis, in 2010, the region had 12% of the world's population but reported 26% of the 8.8 million incident cases and 254000 tuberculosis-related deaths. This paper aims to review missed opportunities for improving HIV/AIDS and tuberculosis prevention and care. We conducted a systematic review in PubMed using the terms 'missed'(Title) AND 'opportunities'(Title). We included systematic review and original research articles done in sub-Saharan Africa on missed opportunities in HIV/AIDS and/or tuberculosis care. Missed opportunities for improving HIV/AIDS and/or tuberculosis care can be classified into five categories: i) patient and community; ii) health professional; iii) health facility; iv) local health system; and v) vertical programme (HIV/AIDS and/or tuberculosis control programmes). None of the reviewed studies identified any missed opportunities related to health system strengthening. Opportunities that are missed hamper tuberculosis and/or HIV/AIDS care in sub-Saharan Africa where health systems remain weak. What is still missing in the analysis of health experts is the acknowledgement that opportunities that are missed to strengthen health systems also undermine tuberculosis and HIV/AIDS prevention and care. Studying why these opportunities are missed will help to understand the rationales behind the missed opportunities, and customize adequate strategies to seize them and for effective diseases control.

  3. Ontology-Based Prediction and Prioritization of Gene Functional Annotations.

    Science.gov (United States)

    Chicco, Davide; Masseroli, Marco

    2016-01-01

    Genes and their protein products are essential molecular units of a living organism. The knowledge of their functions is key for the understanding of physiological and pathological biological processes, as well as in the development of new drugs and therapies. The association of a gene or protein with its functions, described by controlled terms of biomolecular terminologies or ontologies, is named gene functional annotation. Very many and valuable gene annotations expressed through terminologies and ontologies are available. Nevertheless, they might include some erroneous information, since only a subset of annotations are reviewed by curators. Furthermore, they are incomplete by definition, given the rapidly evolving pace of biomolecular knowledge. In this scenario, computational methods that are able to quicken the annotation curation process and reliably suggest new annotations are very important. Here, we first propose a computational pipeline that uses different semantic and machine learning methods to predict novel ontology-based gene functional annotations; then, we introduce a new semantic prioritization rule to categorize the predicted annotations by their likelihood of being correct. Our tests and validations proved the effectiveness of our pipeline and prioritization of predicted annotations, by selecting as most likely manifold predicted annotations that were later confirmed.

  4. Cheating. An Annotated Bibliography.

    Science.gov (United States)

    Wildemuth, Barbara M., Comp.

    This 89-item, annotated bibliography was compiled to provide access to research and discussions of cheating and, specifically, cheating on tests. It is not limited to any educational level, nor is it confined to any specific curriculum area. Two data bases were searched by computer, and a library search was conducted. A computer search of the…

  5. Annotated bibliography traceability

    NARCIS (Netherlands)

    Narain, G.

    2006-01-01

    This annotated bibliography contains summaries of articles and chapters of books, which are relevant to traceability. After each summary there is a part about the relevancy of the paper for the LEI project. The aim of the LEI-project is to gain insight in several aspects of traceability in order to

  6. Annotation of Regular Polysemy

    DEFF Research Database (Denmark)

    Martinez Alonso, Hector

    Regular polysemy has received a lot of attention from the theory of lexical semantics and from computational linguistics. However, there is no consensus on how to represent the sense of underspecified examples at the token level, namely when annotating or disambiguating senses of metonymic words...

  7. Collaborative Movie Annotation

    Science.gov (United States)

    Zad, Damon Daylamani; Agius, Harry

    In this paper, we focus on metadata for self-created movies like those found on YouTube and Google Video, the duration of which are increasing in line with falling upload restrictions. While simple tags may have been sufficient for most purposes for traditionally very short video footage that contains a relatively small amount of semantic content, this is not the case for movies of longer duration which embody more intricate semantics. Creating metadata is a time-consuming process that takes a great deal of individual effort; however, this effort can be greatly reduced by harnessing the power of Web 2.0 communities to create, update and maintain it. Consequently, we consider the annotation of movies within Web 2.0 environments, such that users create and share that metadata collaboratively and propose an architecture for collaborative movie annotation. This architecture arises from the results of an empirical experiment where metadata creation tools, YouTube and an MPEG-7 modelling tool, were used by users to create movie metadata. The next section discusses related work in the areas of collaborative retrieval and tagging. Then, we describe the experiments that were undertaken on a sample of 50 users. Next, the results are presented which provide some insight into how users interact with existing tools and systems for annotating movies. Based on these results, the paper then develops an architecture for collaborative movie annotation.

  8. Annotated Bibliography. First Edition.

    Science.gov (United States)

    Haring, Norris G.

    An annotated bibliography which presents approximately 300 references from 1951 to 1973 on the education of severely/profoundly handicapped persons. Citations are grouped alphabetically by author's name within the following categories: characteristics and treatment, gross motor development, sensory and motor development, physical therapy for the…

  9. Annotation of Ehux ESTs

    Energy Technology Data Exchange (ETDEWEB)

    Kuo, Alan; Grigoriev, Igor

    2009-06-12

    22 percent ESTs do no align with scaffolds. EST Pipeleine assembles 17126 consensi from the noaligned ESTs. Annotation Pipeline predicts 8564 ORFS on the consensi. Domain analysis of ORFs reveals missing genes. Cluster analysis reveals missing genes. Expression analysis reveals potential strain specific genes.

  10. Expert (Peer) Reviews at the Waste Isolation Pilot Plant (WIPP): Making Complex Information and Decision Making Transparent

    Energy Technology Data Exchange (ETDEWEB)

    Eriksson, Leif G. [GRAM, Inc., Albuquerque, NM (United States)

    2001-07-01

    On the 18th of May 1998, based on the information provided by the United Sates Department of Energy (DOE) in support of the 1996 Waste Isolation Pilot Plant (WIPP) Compliance Certification Application, the U.S. Environmental Protection Agency certified the proposed deep geological repository for disposal of long-lived, defense-generated, transuranic radioactive waste at the WIPP site in New Mexico, United States of America, was compliant with all applicable radioactive waste disposal regulations. Seven domestic and one joint international peer reviews commissioned by the DOE were instrumental in making complex scientific and engineering information, as well as the related WIPP decision-making process, both credible and transparent to the majority of affected and interested parties and, ultimately, to the regulator.

  11. Hospital organisation, management, and structure for prevention of health-care-associated infection: a systematic review and expert consensus.

    Science.gov (United States)

    Zingg, Walter; Holmes, Alison; Dettenkofer, Markus; Goetting, Tim; Secci, Federica; Clack, Lauren; Allegranzi, Benedetta; Magiorakos, Anna-Pelagia; Pittet, Didier

    2015-02-01

    Despite control efforts, the burden of health-care-associated infections in Europe is high and leads to around 37,000 deaths each year. We did a systematic review to identify crucial elements for the organisation of effective infection-prevention programmes in hospitals and key components for implementation of monitoring. 92 studies published from 1996 to 2012 were assessed and ten key components identified: organisation of infection control at the hospital level; bed occupancy, staffing, workload, and employment of pool or agency nurses; availability of and ease of access to materials and equipment and optimum ergonomics; appropriate use of guidelines; education and training; auditing; surveillance and feedback; multimodal and multidisciplinary prevention programmes that include behavioural change; engagement of champions; and positive organisational culture. These components comprise manageable and widely applicable ways to reduce health-care-associated infections and improve patients' safety.

  12. The Accuracy and Reliability of Crowdsource Annotations of Digital Retinal Images

    Science.gov (United States)

    Mitry, Danny; Zutis, Kris; Dhillon, Baljean; Peto, Tunde; Hayat, Shabina; Khaw, Kay-Tee; Morgan, James E.; Moncur, Wendy; Trucco, Emanuele; Foster, Paul J.

    2016-01-01

    Purpose Crowdsourcing is based on outsourcing computationally intensive tasks to numerous individuals in the online community who have no formal training. Our aim was to develop a novel online tool designed to facilitate large-scale annotation of digital retinal images, and to assess the accuracy of crowdsource grading using this tool, comparing it to expert classification. Methods We used 100 retinal fundus photograph images with predetermined disease criteria selected by two experts from a large cohort study. The Amazon Mechanical Turk Web platform was used to drive traffic to our site so anonymous workers could perform a classification and annotation task of the fundus photographs in our dataset after a short training exercise. Three groups were assessed: masters only, nonmasters only and nonmasters with compulsory training. We calculated the sensitivity, specificity, and area under the curve (AUC) of receiver operating characteristic (ROC) plots for all classifications compared to expert grading, and used the Dice coefficient and consensus threshold to assess annotation accuracy. Results In total, we received 5389 annotations for 84 images (excluding 16 training images) in 2 weeks. A specificity and sensitivity of 71% (95% confidence interval [CI], 69%–74%) and 87% (95% CI, 86%–88%) was achieved for all classifications. The AUC in this study for all classifications combined was 0.93 (95% CI, 0.91–0.96). For image annotation, a maximal Dice coefficient (∼0.6) was achieved with a consensus threshold of 0.25. Conclusions This study supports the hypothesis that annotation of abnormalities in retinal images by ophthalmologically naive individuals is comparable to expert annotation. The highest AUC and agreement with expert annotation was achieved in the nonmasters with compulsory training group. Translational Relevance The use of crowdsourcing as a technique for retinal image analysis may be comparable to expert graders and has the potential to deliver

  13. The good, the bad, and the expert: How consumer expertise affects review valence effects on purchase intentions in online product reviews

    NARCIS (Netherlands)

    Ketelaar, P.E.; Willemsen, L.M.; Sleven, L.; Kerkhof, P.

    2015-01-01

    This study aims to shed more light on the question whether, and under what circumstances, valence affects consumers' intention to buy a product after reading an online review. We hypothesize that receiver expertise could possibly moderate (a) the impact of review valence on consumers' purchase inten

  14. Efficacy and safety of duloxetine 60 mg once daily in major depressive disorder: a review with expert commentary

    Directory of Open Access Journals (Sweden)

    Susan G Ball

    2013-01-01

    Full Text Available Objective: Major depressive disorder (MDD is a significant public health concern and challenges health care providers to intervene with appropriate treatment. This article provides an overview of efficacy and safety information for duloxetine 60 mg/day in the treatment of MDD, including its effect on painful physical symptoms (PPS.Design: A literature search was conducted for articles and pooled analyses reporting information regarding the use of duloxetine 60 mg/day in placebo-controlled trials.Setting: Placebo-controlled, active-comparator, short- and long-term studies were reviewed.Participants: Adult (≥18 years patients with MDD.Measurements: Effect sizes for continuous outcome (change from baseline to endpoint and categorical outcome (response and remission rates were calculated using the primary measures of 17-item Hamilton Rating Scale for Depression (HAMD-17 or Montgomery–Åsberg Depression Rating Scale (MADRS total score. The Brief Pain Inventory and Visual Analogue Scales were used to assess improvements in PPS. Glass estimation method was used to calculate effect sizes, and numbers needed to treat (NNT were calculated based on HAMD-17 and MADRS total scores for remission and response rates. Safety data were examined via the incidence of treatment-emergent adverse events and by mean changes in vital-sign measures.Results: Treatment with duloxetine was associated with small-to-moderate effect sizes in the range of 0.12 to 0.72 for response rate and 0.07 to 0.65 for remission rate. NNTs were in the range of 3 to 16 for response and 3 to 29 for remission. Statistically significant improvements (p≤0.05 were observed in duloxetine-treated patients compared to placebo-treated patients in PPS and quality of life. The safety profile of the 60-mg dose was consistent with duloxetine labeling, with the most commonly observed significant adverse events being nausea, dry mouth, diarrhea, dizziness, constipation, fatigue, and decreased

  15. Speech spectrogram expert

    Energy Technology Data Exchange (ETDEWEB)

    Johannsen, J.; Macallister, J.; Michalek, T.; Ross, S.

    1983-01-01

    Various authors have pointed out that humans can become quite adept at deriving phonetic transcriptions from speech spectrograms (as good as 90percent accuracy at the phoneme level). The authors describe an expert system which attempts to simulate this performance. The speech spectrogram expert (spex) is actually a society made up of three experts: a 2-dimensional vision expert, an acoustic-phonetic expert, and a phonetics expert. The visual reasoning expert finds important visual features of the spectrogram. The acoustic-phonetic expert reasons about how visual features relates to phonemes, and about how phonemes change visually in different contexts. The phonetics expert reasons about allowable phoneme sequences and transformations, and deduces an english spelling for phoneme strings. The speech spectrogram expert is highly interactive, allowing users to investigate hypotheses and edit rules. 10 references.

  16. Glyphosate epidemiology expert panel review: a weight of evidence systematic review of the relationship between glyphosate exposure and non-Hodgkin's lymphoma or multiple myeloma.

    Science.gov (United States)

    Acquavella, John; Garabrant, David; Marsh, Gary; Sorahan, Tom; Weed, Douglas L

    2016-09-01

    We conducted a systematic review of the epidemiologic literature for glyphosate focusing on non-Hodgkin's lymphoma (NHL) and multiple myeloma (MM) - two cancers that were the focus of a recent review by an International Agency for Research on Cancer Working Group. Our approach was consistent with Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines for systematic reviews. We evaluated each relevant study according to a priori criteria for study quality: adequacy of study size, likelihood of confounding, potential for other biases and adequacy of the statistical analyses. Our evaluation included seven unique studies for NHL and four for MM, all but one of which were case control studies for each cancer. For NHL, the case-control studies were all limited by the potential for recall bias and the lack of adequate multivariate adjustment for multiple pesticide and other farming exposures. Only the Agricultural Health (cohort) Study met our a priori quality standards and this study found no evidence of an association between glyphosate and NHL. For MM, the case control studies shared the same limitations as noted for the NHL case-control studies and, in aggregate, the data were too sparse to enable an informed causal judgment. Overall, our review did not find support in the epidemiologic literature for a causal association between glyphosate and NHL or MM.

  17. EuCAP, a Eukaryotic Community Annotation Package, and its application to the rice genome

    Directory of Open Access Journals (Sweden)

    Hamilton John P

    2007-10-01

    Full Text Available Abstract Background Despite the improvements of tools for automated annotation of genome sequences, manual curation at the structural and functional level can provide an increased level of refinement to genome annotation. The Institute for Genomic Research Rice Genome Annotation (hereafter named the Osa1 Genome Annotation is the product of an automated pipeline and, for this reason, will benefit from the input of biologists with expertise in rice and/or particular gene families. Leveraging knowledge from a dispersed community of scientists is a demonstrated way of improving a genome annotation. This requires tools that facilitate 1 the submission of gene annotation to an annotation project, 2 the review of the submitted models by project annotators, and 3 the incorporation of the submitted models in the ongoing annotation effort. Results We have developed the Eukaryotic Community Annotation Package (EuCAP, an annotation tool, and have applied it to the rice genome. The primary level of curation by community annotators (CA has been the annotation of gene families. Annotation can be submitted by email or through the EuCAP Web Tool. The CA models are aligned to the rice pseudomolecules and the coordinates of these alignments, along with functional annotation, are stored in the MySQL EuCAP Gene Model database. Web pages displaying the alignments of the CA models to the Osa1 Genome models are automatically generated from the EuCAP Gene Model database. The alignments are reviewed by the project annotators (PAs in the context of experimental evidence. Upon approval by the PAs, the CA models, along with the corresponding functional annotations, are integrated into the Osa1 Genome Annotation. The CA annotations, grouped by family, are displayed on the Community Annotation pages of the project website http://rice.tigr.org, as well as in the Community Annotation track of the Genome Browser. Conclusion We have applied EuCAP to rice. As of July 2007, the

  18. Sma3s: A Three-Step Modular Annotator for Large Sequence Datasets

    Science.gov (United States)

    Muñoz-Mérida, Antonio; Viguera, Enrique; Claros, M. Gonzalo; Trelles, Oswaldo; Pérez-Pulido, Antonio J.

    2014-01-01

    Automatic sequence annotation is an essential component of modern ‘omics’ studies, which aim to extract information from large collections of sequence data. Most existing tools use sequence homology to establish evolutionary relationships and assign putative functions to sequences. However, it can be difficult to define a similarity threshold that achieves sufficient coverage without sacrificing annotation quality. Defining the correct configuration is critical and can be challenging for non-specialist users. Thus, the development of robust automatic annotation techniques that generate high-quality annotations without needing expert knowledge would be very valuable for the research community. We present Sma3s, a tool for automatically annotating very large collections of biological sequences from any kind of gene library or genome. Sma3s is composed of three modules that progressively annotate query sequences using either: (i) very similar homologues, (ii) orthologous sequences or (iii) terms enriched in groups of homologous sequences. We trained the system using several random sets of known sequences, demonstrating average sensitivity and specificity values of ∼85%. In conclusion, Sma3s is a versatile tool for high-throughput annotation of a wide variety of sequence datasets that outperforms the accuracy of other well-established annotation algorithms, and it can enrich existing database annotations and uncover previously hidden features. Importantly, Sma3s has already been used in the functional annotation of two published transcriptomes. PMID:24501397

  19. Database and Expert Systems Applications

    DEFF Research Database (Denmark)

    Viborg Andersen, Kim; Debenham, John; Wagner, Roland

    This book constitutes the refereed proceedings of the 16th International Conference on Database and Expert Systems Applications, DEXA 2005, held in Copenhagen, Denmark, in August 2005.The 92 revised full papers presented together with 2 invited papers were carefully reviewed and selected from 390...... submissions. The papers are organized in topical sections on workflow automation, database queries, data classification and recommendation systems, information retrieval in multimedia databases, Web applications, implementational aspects of databases, multimedia databases, XML processing, security, XML......, reasoning and learning, network management and mobile systems, expert systems and decision support, and information modelling....

  20. Final report of the cosmetic ingredient review expert panel on the safety assessment of Polyisobutene and Hydrogenated Polyisobutene as used in cosmetics.

    Science.gov (United States)

    2008-01-01

    controls. Neither Polyisobutene nor Hydrogenated Polyisobutene were ocular irritants, nor were they dermal irritants or sensitizers. Polyisobutene was not comedogenic in a rabbit ear study. Polyisobutene did not induce transformation in the Syrian hamster embryo (SHE) cell transformation assay, but did enhance 3-methylcholanthrene-induced transformation of C3H/10T1/2 cells. In a carcinogenicity study in mice, Polyisobutene was not carcinogenic, nor did it promote the carcinogenicity of 7,12-dimethylbenz(alpha)anthracene. Clinical patch tests uncovered no evidence of dermal irritation and repeat-insult patch tests with a product containing 4% Hydrogenated Polyisobutene or 1.44% Hydrogenated Polyisobutene found no reactions greater than slight erythema. These products also were not phototoxic or photoallergenic. The product containing 4% Hydrogenated Polyisobutene was not an ocular irritant in a clinical test. The Cosmetic Ingredient Review (CIR) Expert Panel recognized that there are data gaps regarding use and concentration of these ingredients. However, the overall information available on the types of products in which these ingredients are used and at what concentrations indicate a pattern of use, which was considered by the Expert Panel in assessing safety. Although there is an absence of dermal absorption data for Polyisobutene and Hydrogenated Polyisobutene, the available octanol water partition coefficient data and the low solubility in water suggest very slow absorption, so additional data are not needed. Gastrointestinal absorption is also not a major concern due to the low solubility of these chemicals. Although one in vitro study did report that Polyisobutene did promote cellular transformation, a mouse study did not find evidence of tumor promotion. Because lifetime exposure studies using rats and dogs exposed to Polybutene failed to demonstrate any carcinogenic or tumor promotion effect, and a three-generation reproductive/developmental toxicity study produced

  1. International Expert Review of Sr-Can: Safety Assessment Methodology - External review contribution in support of SSI's and SKI's review of SR-Can

    Energy Technology Data Exchange (ETDEWEB)

    Sagar, Budhi (Center for Nuclear Waste Regulatory Analyses, Southwest Research Inst., San Antonio, TX (US)); Egan, Michael (Quintessa Limited, Henley-on-Thames (GB)); Roehlig, Klaus-Juergen (Gesellschaft fuer Anlagen- und Reaktorsicherheit mbH (DE)); Chapman, Neil (Independent Consultant (XX)); Wilmot, Roger (Galson Sciences Limited, Oakham (GB))

    2008-03-15

    In 2006, SKB published a safety assessment (SR-Can) as part of its work to support a licence application for the construction of a final repository for spent nuclear fuel. The purposes of the SR-Can project were stated in the main project report to be: 1. To make a first assessment of the safety of potential KBS-3 repositories at Forsmark and Laxemar to dispose of canisters as specified in the application for the encapsulation plant. 2. To provide feedback to design development, to SKB's research and development (R and D) programme, to further site investigations and to future safety assessments. 3. To foster a dialogue with the authorities that oversee SKB's activities, i.e. the Swedish Nuclear Power Inspectorate, SKI, and the Swedish Radiation Protection Authority, SSI, regarding interpretation of applicable regulations, as a preparation for the SR-Site project. To help inform their review of SKB's proposed approach to development of the longterm safety case, the authorities appointed three international expert review teams to carry out a review of SKB's SR-Can safety assessment report. Comments from one of these teams - the Safety Assessment Methodology (SAM) review team - are presented in this document. The SAM review team's scope of work included an examination of SKB's documentation of the assessment ('Long-term safety for KBS-3 Repositories at Forsmark and Laxemar - a first evaluation' and several supporting reports) and hearings with SKB staff and contractors, held in March 2007. As directed by SKI and SSI, the SAM review team focused on methodological aspects and sought to determine whether SKB's proposed safety assessment methodology is likely to be suitable for use in the future SR-Site and to assess its consistency with the Swedish regulatory framework. No specific evaluation of long-term safety or site acceptability was undertaken by any of the review teams. SKI and SSI's Terms of Reference for the SAM

  2. Expert auditors’ services classification

    OpenAIRE

    Jolanta Wisniewska

    2013-01-01

    The profession of an expert auditor is a public trust occupation with a distinctive feature of taking responsibility for actions in the public interest. The main responsibility of expert auditors is performing financial auditing; however, expert auditors are prepared to carry out different tasks which encompass a wide plethora of financial and auditing services for different kinds of institutions and companies. The aim of the article is first of all the description of expert auditors’ service...

  3. Operational expert system applications in Europe

    CERN Document Server

    Zarri, Gian Piero

    1992-01-01

    Operational Expert System Applications in Europe describes the representative case studies of the operational expert systems (ESs) that are used in Europe.This compilation provides examples of operational ES that are realized in 10 different European countries, including countries not usually examined in the standard reviews of the field.This book discusses the decision support system using several artificial intelligence tools; expert systems for fault diagnosis on computerized numerical control (CNC) machines; and expert consultation system for personal portfolio management. The failure prob

  4. An annotated bibliography for the testifying child and adolescent psychiatrist.

    Science.gov (United States)

    Ash, Peter; O'Leary, Paul J

    2011-07-01

    To persuade a fact finder that a forensic opinion has a scientific basis, it is often useful to cite professional literature that supports one's opinions or procedures. If the admissibility of one's opinion is challenged in a Daubert hearing, citing literature is almost always required to support the claim that the expert's opinion relies on scientific facts or proceeds from scientific methodology. This annotated bibliography provides a sampling of articles that may be useful in bolstering testimony. The sample selected here is not comprehensive, but provides examples of literature that may be cited by forensic child and adolescent psychiatric experts.

  5. International Expert Review of Sr-Can: Safety Assessment Methodology - External review contribution in support of SSI's and SKI's review of SR-Can

    Energy Technology Data Exchange (ETDEWEB)

    Sagar, Budhi (Center for Nuclear Waste Regulatory Analyses, Southwest Research Inst., San Antonio, TX (US)); Egan, Michael (Quintessa Limited, Henley-on-Thames (GB)); Roehlig, Klaus-Juergen (Gesellschaft fuer Anlagen- und Reaktorsicherheit mbH (DE)); Chapman, Neil (Independent Consultant (XX)); Wilmot, Roger (Galson Sciences Limited, Oakham (GB))

    2008-03-15

    In 2006, SKB published a safety assessment (SR-Can) as part of its work to support a licence application for the construction of a final repository for spent nuclear fuel. The purposes of the SR-Can project were stated in the main project report to be: 1. To make a first assessment of the safety of potential KBS-3 repositories at Forsmark and Laxemar to dispose of canisters as specified in the application for the encapsulation plant. 2. To provide feedback to design development, to SKB's research and development (R and D) programme, to further site investigations and to future safety assessments. 3. To foster a dialogue with the authorities that oversee SKB's activities, i.e. the Swedish Nuclear Power Inspectorate, SKI, and the Swedish Radiation Protection Authority, SSI, regarding interpretation of applicable regulations, as a preparation for the SR-Site project. To help inform their review of SKB's proposed approach to development of the longterm safety case, the authorities appointed three international expert review teams to carry out a review of SKB's SR-Can safety assessment report. Comments from one of these teams - the Safety Assessment Methodology (SAM) review team - are presented in this document. The SAM review team's scope of work included an examination of SKB's documentation of the assessment ('Long-term safety for KBS-3 Repositories at Forsmark and Laxemar - a first evaluation' and several supporting reports) and hearings with SKB staff and contractors, held in March 2007. As directed by SKI and SSI, the SAM review team focused on methodological aspects and sought to determine whether SKB's proposed safety assessment methodology is likely to be suitable for use in the future SR-Site and to assess its consistency with the Swedish regulatory framework. No specific evaluation of long-term safety or site acceptability was undertaken by any of the review teams. SKI and SSI's Terms of Reference for the SAM

  6. Persuasiveness of expert systems

    NARCIS (Netherlands)

    Dijkstra, JJ; Liebrand, WBG; Timminga, E; Liebrand, Wim B.G.

    1998-01-01

    Expert system advice is not always evaluated by examining its contents. Users can be persuaded by expert system advice because they have certain beliefs about advice given by a computer. The experiment in this paper shows that subjects (n = 84) thought that, given the same argumentation, expert syst

  7. Development Expert System

    Institute of Scientific and Technical Information of China (English)

    CAI Heng

    2010-01-01

    The expert system is a high-level technology.It is a sub-field of artificial intelligence.We demonstrated the character and software evaluation,carrying out an initial study of expert system.A good development expert system was developed.

  8. Graph-based sequence annotation using a data integration approach.

    Science.gov (United States)

    Pesch, Robert; Lysenko, Artem; Hindle, Matthew; Hassani-Pak, Keywan; Thiele, Ralf; Rawlings, Christopher; Köhler, Jacob; Taubert, Jan

    2008-08-25

    The automated annotation of data from high throughput sequencing and genomics experiments is a significant challenge for bioinformatics. Most current approaches rely on sequential pipelines of gene finding and gene function prediction methods that annotate a gene with information from different reference data sources. Each function prediction method contributes evidence supporting a functional assignment. Such approaches generally ignore the links between the information in the reference datasets. These links, however, are valuable for assessing the plausibility of a function assignment and can be used to evaluate the confidence in a prediction. We are working towards a novel annotation system that uses the network of information supporting the function assignment to enrich the annotation process for use by expert curators and predicting the function of previously unannotated genes. In this paper we describe our success in the first stages of this development. We present the data integration steps that are needed to create the core database of integrated reference databases (UniProt, PFAM, PDB, GO and the pathway database Ara-Cyc) which has been established in the ONDEX data integration system. We also present a comparison between different methods for integration of GO terms as part of the function assignment pipeline and discuss the consequences of this analysis for improving the accuracy of gene function annotation. The methods and algorithms presented in this publication are an integral part of the ONDEX system which is freely available from http://ondex.sf.net/.

  9. Mesotext. Framing and exploring annotations

    NARCIS (Netherlands)

    Boot, P.; Boot, P.; Stronks, E.

    2007-01-01

    From the introduction: Annotation is an important item on the wish list for digital scholarly tools. It is one of John Unsworth’s primitives of scholarship (Unsworth 2000). Especially in linguistics,a number of tools have been developed that facilitate the creation of annotations to source material

  10. MuPIT interactive: webserver for mapping variant positions to annotated, interactive 3D structures.

    Science.gov (United States)

    Niknafs, Noushin; Kim, Dewey; Kim, Ryangguk; Diekhans, Mark; Ryan, Michael; Stenson, Peter D; Cooper, David N; Karchin, Rachel

    2013-11-01

    Mutation position imaging toolbox (MuPIT) interactive is a browser-based application for single-nucleotide variants (SNVs), which automatically maps the genomic coordinates of SNVs onto the coordinates of available three-dimensional (3D) protein structures. The application is designed for interactive browser-based visualization of the putative functional relevance of SNVs by biologists who are not necessarily experts either in bioinformatics or protein structure. Users may submit batches of several thousand SNVs and review all protein structures that cover the SNVs, including available functional annotations such as binding sites, mutagenesis experiments, and common polymorphisms. Multiple SNVs may be mapped onto each structure, enabling 3D visualization of SNV clusters and their relationship to functionally annotated positions. We illustrate the utility of MuPIT interactive in rationalizing the impact of selected polymorphisms in the PharmGKB database, somatic mutations identified in the Cancer Genome Atlas study of invasive breast carcinomas, and rare variants identified in the exome sequencing project. MuPIT interactive is freely available for non-profit use at http://mupit.icm.jhu.edu .

  11. MuPIT Interactive: Webserver for mapping variant positions to annotated, interactive 3D structures

    Science.gov (United States)

    Niknafs, Noushin; Kim, Dewey; Kim, Ryang Guk; Diekhans, Mark; Ryan, Michael; Stenson, Peter D.; Cooper, David N.; Karchin, Rachel

    2013-01-01

    Mutation Position Imaging Toolbox (MuPIT) Interactive is a browser-based application for single nucleotide variants (SNVs), which automatically maps the genomic coordinates of SNVs onto the coordinates of available three-dimensional protein structures. The application is designed for interactive browser-based visualization of the putative functional relevance of SNVs by biologists who are not necessarily experts either in bioinformatics or protein structure. Users may submit batches of several thousand SNVs and review all protein structures that cover the SNVs, including available functional annotations such as binding sites, mutagenesis experiments, and common polymorphisms. Multiple SNVs may be mapped onto each structure, enabling 3D visualization of SNV clusters and their relationship to functionally annotated positions. We illustrate the utility of MuPIT Interactive in rationalizing the impact of selected polymorphisms in the PharmGKB database, somatic mutations identified in the Cancer Genome Atlas study of invasive breast carcinomas, and rare variants identified in the Exome Sequencing Project. MuPIT Interactive is freely available for non-profit use at http://mupit.icm.jhu.edu. PMID:23793516

  12. Collective dynamics of social annotation

    CERN Document Server

    Cattuto, Ciro; Baldassarri, Andrea; Schehr, G; Loreto, Vittorio

    2009-01-01

    The enormous increase of popularity and use of the WWW has led in the recent years to important changes in the ways people communicate. An interesting example of this fact is provided by the now very popular social annotation systems, through which users annotate resources (such as web pages or digital photographs) with text keywords dubbed tags. Understanding the rich emerging structures resulting from the uncoordinated actions of users calls for an interdisciplinary effort. In particular concepts borrowed from statistical physics, such as random walks, and the complex networks framework, can effectively contribute to the mathematical modeling of social annotation systems. Here we show that the process of social annotation can be seen as a collective but uncoordinated exploration of an underlying semantic space, pictured as a graph, through a series of random walks. This modeling framework reproduces several aspects, so far unexplained, of social annotation, among which the peculiar growth of the size of the...

  13. Asynchronous teaching of psychomotor skills through VR annotations: evaluation in digital rectal examination.

    Science.gov (United States)

    Rissanen, Mikko J; Kume, Naoto; Kuroda, Yoshihiro; Kuroda, Tomohiro; Yoshimura, Koji; Yoshihara, Hiroyuki

    2008-01-01

    Many VR technology based training systems use expert's motion data as the training aid, but would not provide any short-cut to teaching medical skills that do not depend on exact motions. Earlier we presented Annotated Simulation Records (ASRs), which can be used to encapsulate experts' insight on psychomotor skills. Annotations made to behavioural parameters in training simulators enable asynchronous teaching instead of just motion training in a proactive way to the learner. We evaluated ASRs for asynchronous teaching of Digital Rectal Examination (DRE) with 3 urologists and 8 medical students. The ASRs were found more effective than motion-based training with verbal feedback.

  14. Expert judgement in performance assessment

    Energy Technology Data Exchange (ETDEWEB)

    Wilmot, R.D.; Galson, D.A. [Galson Sciences Ltd, Oakham (United Kingdom)

    2000-01-01

    This report is a pilot study that systematically describes the various types of expert judgement that are made throughout the development of a PA, and summarizes existing tools and practices for dealing with expert judgements. The report also includes recommendations for further work in the area of expert judgement. Expert judgements can be classified in a number of ways, including classification according to why the judgements are made and according to how the judgements are made. In terms of why judgements are made, there is a broad distinction between: Judgements concerning data that are made because alternatives are not feasible; and Judgements about the conduct of a PA that are made because there are no alternative approaches for making the decision. In the case of how judgements are made, the report distinguishes between non-elicited judgements made by individuals, non-elicited judgements made by groups, and elicited judgements made by individuals or groups. These types of judgement can generally be distinguished by the extent of the associated documentation, and hence their traceability. Tools for assessing judgements vary depending on the type of judgements being examined. Key tools are peer review, an appropriate QA regime, documentation, and elicitation. Dialogue with stake holders is also identified as important in establishing whether judgements are justified in the context in which they are used. The PA process comprises a number of stages, from establishing the assessment context, through site selection and repository design, to scenario and model development and parametrisation. The report discusses how judgements are used in each of these stages, and identifies which of the tools and procedures for assessing judgements are most appropriate at each stage. Recommendations for further work include the conduct of a trial expert elicitation to gain experience in the advantages and disadvantages of this technique, the development of guidance for peer

  15. What a catch! traits that define good annotators.

    Science.gov (United States)

    Forbush, Tyler B; Shen, Shuying; South, Brett R; Duvalla, Scott L

    2013-01-01

    Human annotation and chart review is an important process in biomedical informatics research, but which humans are best suited for the job? Domain expertise, such as medical or linguistic knowledge is desirable, but other factors may be equally important. The University of Utah has a group of 20+ reviewers with backgrounds in medicine and linguistics, and 10 key traits have surfaced in those best able to annotate quickly and with high quality. To identify reviewers with these key traits, we created a hiring process that includes interviewing candidates, testing their medical and linguistic knowledge, and having them complete an annotation exercise on realistic medical text. Each step is designed to assess the key traits and allow the investigator to choose the skill set required for each project.

  16. Sentiment Analysis of Document Based on Annotation

    CERN Document Server

    Shukla, Archana

    2011-01-01

    I present a tool which tells the quality of document or its usefulness based on annotations. Annotation may include comments, notes, observation, highlights, underline, explanation, question or help etc. comments are used for evaluative purpose while others are used for summarization or for expansion also. Further these comments may be on another annotation. Such annotations are referred as meta-annotation. All annotation may not get equal weightage. My tool considered highlights, underline as well as comments to infer the collective sentiment of annotators. Collective sentiments of annotators are classified as positive, negative, objectivity. My tool computes collective sentiment of annotations in two manners. It counts all the annotation present on the documents as well as it also computes sentiment scores of all annotation which includes comments to obtain the collective sentiments about the document or to judge the quality of document. I demonstrate the use of tool on research paper.

  17. WATERS Expert Query Tool

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Expert Query Tool is a web-based reporting tool using the EPA’s WATERS database.There are just three steps to using Expert Query:1. View Selection – Choose what...

  18. Empirical Assessment of Lanius et al.s’ ’Functional MRI of EMDR in Peacekeepers’, a Review of the EMDR Literature and an annotated bibliography

    Science.gov (United States)

    2002-07-01

    and reprocessing in eating disorders: Caution against premature acceptance. International Journal of Eating Disorders , 23, 1-5. MacCulloch, M.J...Caution against premature acceptance. International Journal of Eating Disorders , 23, 1-5. Reviews the literature to assess the benefits and risks of

  19. An evaluation of GO annotation retrieval for BioCreAtIvE and GOA

    Directory of Open Access Journals (Sweden)

    Camon Evelyn B

    2005-05-01

    Full Text Available Abstract Background The Gene Ontology Annotation (GOA database http://www.ebi.ac.uk/GOA aims to provide high-quality supplementary GO annotation to proteins in the UniProt Knowledgebase. Like many other biological databases, GOA gathers much of its content from the careful manual curation of literature. However, as both the volume of literature and of proteins requiring characterization increases, the manual processing capability can become overloaded. Consequently, semi-automated aids are often employed to expedite the curation process. Traditionally, electronic techniques in GOA depend largely on exploiting the knowledge in existing resources such as InterPro. However, in recent years, text mining has been hailed as a potentially useful tool to aid the curation process. To encourage the development of such tools, the GOA team at EBI agreed to take part in the functional annotation task of the BioCreAtIvE (Critical Assessment of Information Extraction systems in Biology challenge. BioCreAtIvE task 2 was an experiment to test if automatically derived classification using information retrieval and extraction could assist expert biologists in the annotation of the GO vocabulary to the proteins in the UniProt Knowledgebase. GOA provided the training corpus of over 9000 manual GO annotations extracted from the literature. For the test set, we provided a corpus of 200 new Journal of Biological Chemistry articles used to annotate 286 human proteins with GO terms. A team of experts manually evaluated the results of 9 participating groups, each of which provided highlighted sentences to support their GO and protein annotation predictions. Here, we give a biological perspective on the evaluation, explain how we annotate GO using literature and offer some suggestions to improve the precision of future text-retrieval and extraction techniques. Finally, we provide the results of the first inter-annotator agreement study for manual GO curation, as well as an

  20. Expert networks in CLIPS

    Science.gov (United States)

    Hruska, S. I.; Dalke, A.; Ferguson, J. J.; Lacher, R. C.

    1991-01-01

    Rule-based expert systems may be structurally and functionally mapped onto a special class of neural networks called expert networks. This mapping lends itself to adaptation of connectionist learning strategies for the expert networks. A parsing algorithm to translate C Language Integrated Production System (CLIPS) rules into a network of interconnected assertion and operation nodes has been developed. The translation of CLIPS rules to an expert network and back again is illustrated. Measures of uncertainty similar to those rules in MYCIN-like systems are introduced into the CLIPS system and techniques for combining and hiring nodes in the network based on rule-firing with these certainty factors in the expert system are presented. Several learning algorithms are under study which automate the process of attaching certainty factors to rules.

  1. Semantic annotation of medical images

    Science.gov (United States)

    Seifert, Sascha; Kelm, Michael; Moeller, Manuel; Mukherjee, Saikat; Cavallaro, Alexander; Huber, Martin; Comaniciu, Dorin

    2010-03-01

    Diagnosis and treatment planning for patients can be significantly improved by comparing with clinical images of other patients with similar anatomical and pathological characteristics. This requires the images to be annotated using common vocabulary from clinical ontologies. Current approaches to such annotation are typically manual, consuming extensive clinician time, and cannot be scaled to large amounts of imaging data in hospitals. On the other hand, automated image analysis while being very scalable do not leverage standardized semantics and thus cannot be used across specific applications. In our work, we describe an automated and context-sensitive workflow based on an image parsing system complemented by an ontology-based context-sensitive annotation tool. An unique characteristic of our framework is that it brings together the diverse paradigms of machine learning based image analysis and ontology based modeling for accurate and scalable semantic image annotation.

  2. Publication Production: An Annotated Bibliography.

    Science.gov (United States)

    Firman, Anthony H.

    1994-01-01

    Offers brief annotations of 52 articles and papers on document production (from the Society for Technical Communication's journal and proceedings) on 9 topics: information processing, document design, using color, typography, tables, illustrations, photography, printing and binding, and production management. (SR)

  3. NCBI prokaryotic genome annotation pipeline.

    Science.gov (United States)

    Tatusova, Tatiana; DiCuccio, Michael; Badretdin, Azat; Chetvernin, Vyacheslav; Nawrocki, Eric P; Zaslavsky, Leonid; Lomsadze, Alexandre; Pruitt, Kim D; Borodovsky, Mark; Ostell, James

    2016-08-19

    Recent technological advances have opened unprecedented opportunities for large-scale sequencing and analysis of populations of pathogenic species in disease outbreaks, as well as for large-scale diversity studies aimed at expanding our knowledge across the whole domain of prokaryotes. To meet the challenge of timely interpretation of structure, function and meaning of this vast genetic information, a comprehensive approach to automatic genome annotation is critically needed. In collaboration with Georgia Tech, NCBI has developed a new approach to genome annotation that combines alignment based methods with methods of predicting protein-coding and RNA genes and other functional elements directly from sequence. A new gene finding tool, GeneMarkS+, uses the combined evidence of protein and RNA placement by homology as an initial map of annotation to generate and modify ab initio gene predictions across the whole genome. Thus, the new NCBI's Prokaryotic Genome Annotation Pipeline (PGAP) relies more on sequence similarity when confident comparative data are available, while it relies more on statistical predictions in the absence of external evidence. The pipeline provides a framework for generation and analysis of annotation on the full breadth of prokaryotic taxonomy. For additional information on PGAP see https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ and the NCBI Handbook, https://www.ncbi.nlm.nih.gov/books/NBK174280/.

  4. Benchmarking expert system tools

    Science.gov (United States)

    Riley, Gary

    1988-01-01

    As part of its evaluation of new technologies, the Artificial Intelligence Section of the Mission Planning and Analysis Div. at NASA-Johnson has made timing tests of several expert system building tools. Among the production systems tested were Automated Reasoning Tool, several versions of OPS5, and CLIPS (C Language Integrated Production System), an expert system builder developed by the AI section. Also included in the test were a Zetalisp version of the benchmark along with four versions of the benchmark written in Knowledge Engineering Environment, an object oriented, frame based expert system tool. The benchmarks used for testing are studied.

  5. Expert F# 20

    CERN Document Server

    Syme, Don; Cisternino, Antonio

    2009-01-01

    Expert F# 2.0 is about practical programming in a beautiful language that puts the power and elegance of functional programming into the hands of professional developers. In combination with .NET, F# achieves unrivaled levels of programmer productivity and program clarity. Expert F# 2.0 is * The authoritative guide to F# by the inventor of F# * A comprehensive reference of F# concepts, syntax, and features * A treasury of expert F# techniques for practical, real-world programming F# isn't just another functional programming language. It's a general-purpose language ideal for real-world develop

  6. Objective-guided image annotation.

    Science.gov (United States)

    Mao, Qi; Tsang, Ivor Wai-Hung; Gao, Shenghua

    2013-04-01

    Automatic image annotation, which is usually formulated as a multi-label classification problem, is one of the major tools used to enhance the semantic understanding of web images. Many multimedia applications (e.g., tag-based image retrieval) can greatly benefit from image annotation. However, the insufficient performance of image annotation methods prevents these applications from being practical. On the other hand, specific measures are usually designed to evaluate how well one annotation method performs for a specific objective or application, but most image annotation methods do not consider optimization of these measures, so that they are inevitably trapped into suboptimal performance of these objective-specific measures. To address this issue, we first summarize a variety of objective-guided performance measures under a unified representation. Our analysis reveals that macro-averaging measures are very sensitive to infrequent keywords, and hamming measure is easily affected by skewed distributions. We then propose a unified multi-label learning framework, which directly optimizes a variety of objective-specific measures of multi-label learning tasks. Specifically, we first present a multilayer hierarchical structure of learning hypotheses for multi-label problems based on which a variety of loss functions with respect to objective-guided measures are defined. And then, we formulate these loss functions as relaxed surrogate functions and optimize them by structural SVMs. According to the analysis of various measures and the high time complexity of optimizing micro-averaging measures, in this paper, we focus on example-based measures that are tailor-made for image annotation tasks but are seldom explored in the literature. Experiments show consistency with the formal analysis on two widely used multi-label datasets, and demonstrate the superior performance of our proposed method over state-of-the-art baseline methods in terms of example-based measures on four

  7. Design and Evaluation of Data Annotation Workflows for CAVE-like Virtual Environments.

    Science.gov (United States)

    Pick, Sebastian; Weyers, Benjamin; Hentschel, Bernd; Kuhlen, Torsten W

    2016-04-01

    Data annotation finds increasing use in Virtual Reality applications with the goal to support the data analysis process, such as architectural reviews. In this context, a variety of different annotation systems for application to immersive virtual environments have been presented. While many interesting interaction designs for the data annotation workflow have emerged from them, important details and evaluations are often omitted. In particular, we observe that the process of handling metadata to interactively create and manage complex annotations is often not covered in detail. In this paper, we strive to improve this situation by focusing on the design of data annotation workflows and their evaluation. We propose a workflow design that facilitates the most important annotation operations, i.e., annotation creation, review, and modification. Our workflow design is easily extensible in terms of supported annotation and metadata types as well as interaction techniques, which makes it suitable for a variety of application scenarios. To evaluate it, we have conducted a user study in a CAVE-like virtual environment in which we compared our design to two alternatives in terms of a realistic annotation creation task. Our design obtained good results in terms of task performance and user experience.

  8. Collective dynamics of social annotation.

    Science.gov (United States)

    Cattuto, Ciro; Barrat, Alain; Baldassarri, Andrea; Schehr, Gregory; Loreto, Vittorio

    2009-06-30

    The enormous increase of popularity and use of the worldwide web has led in the recent years to important changes in the ways people communicate. An interesting example of this fact is provided by the now very popular social annotation systems, through which users annotate resources (such as web pages or digital photographs) with keywords known as "tags." Understanding the rich emergent structures resulting from the uncoordinated actions of users calls for an interdisciplinary effort. In particular concepts borrowed from statistical physics, such as random walks (RWs), and complex networks theory, can effectively contribute to the mathematical modeling of social annotation systems. Here, we show that the process of social annotation can be seen as a collective but uncoordinated exploration of an underlying semantic space, pictured as a graph, through a series of RWs. This modeling framework reproduces several aspects, thus far unexplained, of social annotation, among which are the peculiar growth of the size of the vocabulary used by the community and its complex network structure that represents an externalization of semantic structures grounded in cognition and that are typically hard to access.

  9. Review and Improvement of Legislative Argumentation by Jurisprudential Experts%法学专家参与立法论证的审视与改进

    Institute of Scientific and Technical Information of China (English)

    李小红

    2016-01-01

    Targeted at issues related to legislative work, legislative argumentation is the legislative activity of analysis and argumentation with jurisprudential experts as the key participants. Unlike legislative hearings, legislative argumentation of jurisprudential experts attaches more emphasis on professionalism and skills and provides the information of reference and decision for legislators, which therefore facilitates the enactment of high-quality laws. On the one hand, legislative argumentation goes through the whole process of legislation, and is particularly reflected in the legislative preparatory phase. On the other hand, jurisprudential experts are the main legislative entity to demonstrate the necessity and feasibility of legislation and the skilled legislative staff demonstrate the coordination between the legislative documents and system as well as the provider of optimal solutions to specific problems in the legislative process. Currently, their legislative argumentation is confronted with such issues as the inactivity of its form and content, the concentration of candidates and regions, and the unity of professional domains and research fields, etc. As a result, measures should be taken to improve the jurisprudential experts' ability of legislative argumentation;authorities should improve the procedure in which the experts are involved to participate in the legislative argumentation;and the attention should be paid to the elements of professionalism, domain, age, and institution etc. in the establishment of talent pool. In addition, the process of legislative argumentation by jurisprudential experts should be disclosed on public platforms and launched simultaneously with social public participation in legislation. Last but not least, in the legislative argumentation, legislative experts should be able to deal with such issues as in the duty of profession or part profession, the duality of professionalism and democracy, along with the roles of

  10. Postsecondary Peer Cooperative Learning Programs: Annotated Bibliography 2016

    Science.gov (United States)

    Arendale, David R., Comp.

    2016-01-01

    Purpose: This 2016 annotated bibliography reviews seven postsecondary peer cooperative learning programs that have been implemented nationally to increase student achievement. Methodology: An extensive literature search was conducted of published journal articles, newspaper accounts, book chapters, books, ERIC documents, thesis and dissertations,…

  11. Fostering Creativity and Innovation in the Workforce: An Annotated Bibliography

    Science.gov (United States)

    Sandeen, Cathy A.

    2010-01-01

    This annotated bibliography is a companion piece to "Putting Creativity and Innovation to Work: Continuing Higher Education's Role in Shifting the Educational Paradigm," also in this edition of "Continuing Higher Education Review." The author has provided citations for a selection of books and a brief description of the main idea in each along…

  12. LNG annotated bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Bomelburg, H.J.; Counts, C.A.; Cowan, C.E.; Davis, W.E.; DeSteese, J.G.; Pelto, P.J.

    1982-09-01

    This document updates the bibliography published in Liquefied Gaseous Fuels Safety and Environmental Control Assessment Program: third status report (PNL-4172) and is a complete listing of literature reviewed and reported under the LNG Technical Surveillance Task. The bibliography is organized alphabetically by author.

  13. CSIR at TREC 2008 Expert Search Task: Modeling Expert Evidence in Expert Search

    Science.gov (United States)

    2008-11-01

    CSIR at TREC 2008 Expert Search Task: Modeling Expert Evidence in Expert Search Jiepu Jiang1, Wei Lu1, Haozhen Zhao2 1 Center for Studies of...AND SUBTITLE CSIR at TREC 2008 Expert Search Task: Modeling Expert Evidence in Expert Search 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM...15. J. Jiang, W. Lu, D. Liu. CSIR at TREC 2007. In Proceedings of the 16th Text REtrieval Conference (TREC 2007), 2007. 16. J. Jiang, W. Lu. IR

  14. Integration of gender-transformative interventions into health professional education reform for the 21st century: implications of an expert review

    OpenAIRE

    Newman, Constance; Ng, Crystal; Pacqué-Margolis, Sara; Frymus, Diana

    2016-01-01

    Background Gender discrimination and inequality in health professional education (HPE) affect students and faculty and hinder production of the robust health workforces needed to meet health and development goals, yet HPE reformers pay scant attention to these gender barriers. Gender equality must be a core value and professional practice competency for all actors in HPE and health employment systems. Methods Peer-review and non-peer-review literature previously identified in a review of the ...

  15. Experts on public trial

    DEFF Research Database (Denmark)

    Blok, Anders

    2007-01-01

    Citizen deliberation on technoscientific developments is regularly regarded as a hallmark of Danish democracy, embodied in particular by the Danish Board of Technology. Few empirically guided questions have been raised, however, as to how the Board's democratic projects actually work. Through...... a case study of the May 2003 Danish consensus conference on environmental economics as a policy tool, the article reflects on the politics of expert authority permeating practices of public participation. Adopting concepts from the sociology of scientific knowledge (SSK), the conference is seen......-than-successful defense in the citizen perspective. Further, consensus conferences are viewed alternatively as "expert dissent conferences," serving to disclose a multiplicity of expert commitments. From this perspective, some challenges for democratizing expertise through future exercises in public participation...

  16. Expert Oracle application express

    CERN Document Server

    Scott, John Edward

    2011-01-01

    Expert Oracle Application Express brings you groundbreaking insights into developing with Oracle's enterprise-level, rapid-development tool from some of the best practitioners in the field today. Oracle Application Express (APEX) is an entirely web-based development framework that is built into every edition of Oracle Database. The framework rests upon Oracle's powerful PL/SQL language, enabling power users and developers to rapidly develop applications that easily scale to hundreds, even thousands of concurrent users. The 13 authors of Expert Oracle Application Express build their careers aro

  17. Annotated Bibliography on Humanistic Education

    Science.gov (United States)

    Ganung, Cynthia

    1975-01-01

    Part I of this annotated bibliography deals with books and articles on such topics as achievement motivation, process education, transactional analysis, discipline without punishment, role-playing, interpersonal skills, self-acceptance, moral education, self-awareness, values clarification, and non-verbal communication. Part II focuses on…

  18. Meaningful Assessment: An Annotated Bibliography.

    Science.gov (United States)

    Thrond, Mary A.

    The annotated bibliography contains citations of nine references on alternative student assessment methods in second language programs, particularly at the secondary school level. The references include a critique of conventional reading comprehension assessment, a discussion of performance assessment, a proposal for a multi-trait, multi-method…

  19. Teacher Evaluation: An Annotated Bibliography.

    Science.gov (United States)

    McKenna, Bernard H.; And Others

    In his introduction to the 86-item annotated bibliography by Mueller and Poliakoff, McKenna discusses his views on teacher evaluation and his impressions of the documents cited. He observes, in part, that the current concern is with the process of evaluation and that most researchers continue to believe that student achievement is the most…

  20. Bioinformatics for plant genome annotation

    NARCIS (Netherlands)

    Fiers, M.W.E.J.

    2006-01-01

    Large amounts of genome sequence data are available and much more will become available in the near future. A DNA sequence alone has, however, limited use. Genome annotation is required to assign biological interpretation to the DNA sequence. This thesis describ

  1. Child Development: An Annotated Bibliography.

    Science.gov (United States)

    Dickerson, LaVerne Thornton, Comp.

    This annotated bibliography focuses on recent publications dealing with factors that influence child growth and development, rather than the developmental processes themselves. Topics include: general sources on child development; physical and perceptual-motor development; cognitive development; social and personality development; and play.…

  2. Nikos Kazantzakis: An Annotated Bibliography.

    Science.gov (United States)

    Qiu, Kui

    This research paper consists of an annotated bibliography about Nikos Kazantzakis, one of the major modern Greek writers and author of "The Last Temptation of Christ,""Zorba the Greek," and many other works. Because of Kazantzakis' position in world literature there are many critical works about him; however, bibliographical control of these works…

  3. Capital Expert System

    Science.gov (United States)

    Dowell, Laurie; Gary, Jack; Illingworth, Bill; Sargent, Tom

    1987-05-01

    Gathering information, necessary forms, and financial calculations needed to generate a "capital investment proposal" is an extremely complex and difficult process. The intent of the capital investment proposal is to ensure management that the proposed investment has been thoroughly investigated and will have a positive impact on corporate goals. Meeting this requirement typically takes four or five experts a total of 12 hours to generate a "Capital Package." A Capital Expert System was therefore developed using "Personal Consultant." The completed system is hybrid and as such does not depend solely on rules but incorporates several different software packages that communicate through variables and functions passed from one to another. This paper describes the use of expert system techniques, methodology in building the knowledge base, contexts, LISP functions, data base, and special challenges that had to be overcome to create this system. The Capital Expert System is the successful result of a unique integration of artificial intelligence with business accounting, financial forms generation, and investment proposal expertise.

  4. Computers Simulate Human Experts.

    Science.gov (United States)

    Roberts, Steven K.

    1983-01-01

    Discusses recent progress in artificial intelligence in such narrowly defined areas as medical and electronic diagnosis. Also discusses use of expert systems, man-machine communication problems, novel programing environments (including comments on LISP and LISP machines), and types of knowledge used (factual, heuristic, and meta-knowledge). (JN)

  5. Bloggers as experts

    NARCIS (Netherlands)

    K. Balog; M. de Rijke; W. Weerkamp

    2008-01-01

    We address the task of (blog) feed distillation: to find blogs that are principally devoted to a given topic. The task may be viewed as an association finding task, between topics and bloggers. Under this view, it resembles the expert finding task, for which a range of models have been proposed. We

  6. Structuring osteosarcoma knowledge: an osteosarcoma-gene association database based on literature mining and manual annotation.

    Science.gov (United States)

    Poos, Kathrin; Smida, Jan; Nathrath, Michaela; Maugg, Doris; Baumhoer, Daniel; Neumann, Anna; Korsching, Eberhard

    2014-01-01

    Osteosarcoma (OS) is the most common primary bone cancer exhibiting high genomic instability. This genomic instability affects multiple genes and microRNAs to a varying extent depending on patient and tumor subtype. Massive research is ongoing to identify genes including their gene products and microRNAs that correlate with disease progression and might be used as biomarkers for OS. However, the genomic complexity hampers the identification of reliable biomarkers. Up to now, clinico-pathological factors are the key determinants to guide prognosis and therapeutic treatments. Each day, new studies about OS are published and complicate the acquisition of information to support biomarker discovery and therapeutic improvements. Thus, it is necessary to provide a structured and annotated view on the current OS knowledge that is quick and easily accessible to researchers of the field. Therefore, we developed a publicly available database and Web interface that serves as resource for OS-associated genes and microRNAs. Genes and microRNAs were collected using an automated dictionary-based gene recognition procedure followed by manual review and annotation by experts of the field. In total, 911 genes and 81 microRNAs related to 1331 PubMed abstracts were collected (last update: 29 October 2013). Users can evaluate genes and microRNAs according to their potential prognostic and therapeutic impact, the experimental procedures, the sample types, the biological contexts and microRNA target gene interactions. Additionally, a pathway enrichment analysis of the collected genes highlights different aspects of OS progression. OS requires pathways commonly deregulated in cancer but also features OS-specific alterations like deregulated osteoclast differentiation. To our knowledge, this is the first effort of an OS database containing manual reviewed and annotated up-to-date OS knowledge. It might be a useful resource especially for the bone tumor research community, as specific

  7. Annotation on Mangrove Plants

    Institute of Scientific and Technical Information of China (English)

    王伯荪; 张炜银; 梁士楚; 昝启杰

    2004-01-01

    This paper reviews and discusses the technical terms and definition of mangrove and mangal, as well as mangrove plant. The word mangrove has been used to refer either to the constituent plant of tropical and subtropical intertidal community or to the community itself, but this usage makes more confusion. Being leaved mangrove in the more limited sense for the constituent plant species, mangal was proposed by MacNae (1968) as aterm for mangrove community, which has been universally applied to most previous studies and should be adopted now. Mangrove should be therefore defined as a tropical and subtropical tree restricted to intertidal zones, which possesses some morphological specializion and physiological mechanism adapted to its habitat, and mangal as a tropical and subtropical forest community restricted to marine intertidal zones and periodically inundeated by the tides. A new term ″consortive plant″ is proposed here for herb, liana, epiphyte or parasite, which is restricted in the strict mangrove habitat.

  8. Are clickthrough data reliable as image annotations?

    NARCIS (Netherlands)

    Tsikrika, T.; Diou, C.; Vries, A.P. de; Delopoulos, A.

    2009-01-01

    We examine the reliability of clickthrough data as concept-based image annotations, by comparing them against manual annotations, for different concept categories. Our analysis shows that, for many concepts, the image annotations generated by using clickthrough data are reliable, with up to 90% of t

  9. Annotating images by mining image search results

    NARCIS (Netherlands)

    Wang, X.J.; Zhang, L.; Li, X.; Ma, W.Y.

    2008-01-01

    Although it has been studied for years by the computer vision and machine learning communities, image annotation is still far from practical. In this paper, we propose a novel attempt at model-free image annotation, which is a data-driven approach that annotates images by mining their search results

  10. An Expert EFL Teacher's Class Management

    Science.gov (United States)

    Yazdanmehr, Elham; Akbari, Ramin

    2015-01-01

    The present research sought to investigate how expert EFL teachers manage their class and keep its discipline. To this aim, the existing prior ELT (English Language Teaching) research on exemplary teachers' practices were reviewed and the typical class management strategies used were extracted. Moreover, 20 ELT specialists including teacher…

  11. Dictionary-driven protein annotation.

    Science.gov (United States)

    Rigoutsos, Isidore; Huynh, Tien; Floratos, Aris; Parida, Laxmi; Platt, Daniel

    2002-09-01

    Computational methods seeking to automatically determine the properties (functional, structural, physicochemical, etc.) of a protein directly from the sequence have long been the focus of numerous research groups. With the advent of advanced sequencing methods and systems, the number of amino acid sequences that are being deposited in the public databases has been increasing steadily. This has in turn generated a renewed demand for automated approaches that can annotate individual sequences and complete genomes quickly, exhaustively and objectively. In this paper, we present one such approach that is centered around and exploits the Bio-Dictionary, a collection of amino acid patterns that completely covers the natural sequence space and can capture functional and structural signals that have been reused during evolution, within and across protein families. Our annotation approach also makes use of a weighted, position-specific scoring scheme that is unaffected by the over-representation of well-conserved proteins and protein fragments in the databases used. For a given query sequence, the method permits one to determine, in a single pass, the following: local and global similarities between the query and any protein already present in a public database; the likeness of the query to all available archaeal/ bacterial/eukaryotic/viral sequences in the database as a function of amino acid position within the query; the character of secondary structure of the query as a function of amino acid position within the query; the cytoplasmic, transmembrane or extracellular behavior of the query; the nature and position of binding domains, active sites, post-translationally modified sites, signal peptides, etc. In terms of performance, the proposed method is exhaustive, objective and allows for the rapid annotation of individual sequences and full genomes. Annotation examples are presented and discussed in Results, including individual queries and complete genomes that were

  12. The Effect of Moderate and High-Intensity Fatigue on Groundstroke Accuracy in Expert and Non-Expert Tennis Players

    OpenAIRE

    Mark Lyons; Yahya Al-Nakeeb; Joanne Hankey; Alan Nevill

    2013-01-01

    peer-reviewed Exploring the effects of fatigue on skilled performance in tennis presents a significant challenge to the researcher with respect to ecological validity. This study examined the effects of moderate and high-intensity fatigue on groundstroke accuracy in expert and non-expert tennis players. The research also explored whether the effects of fatigue are the same regardless of gender and player's achievement motivation characteristics. 13 expert (7 male, 6 female) and 17 non-expe...

  13. Automatic annotation of organellar genomes with DOGMA

    Energy Technology Data Exchange (ETDEWEB)

    Wyman, Stacia; Jansen, Robert K.; Boore, Jeffrey L.

    2004-06-01

    Dual Organellar GenoMe Annotator (DOGMA) automates the annotation of extra-nuclear organellar (chloroplast and animal mitochondrial) genomes. It is a web-based package that allows the use of comparative BLAST searches to identify and annotate genes in a genome. DOGMA presents a list of putative genes to the user in a graphical format for viewing and editing. Annotations are stored on our password-protected server. Complete annotations can be extracted for direct submission to GenBank. Furthermore, intergenic regions of specified length can be extracted, as well the nucleotide sequences and amino acid sequences of the genes.

  14. Expert Script Generator

    Science.gov (United States)

    Sliwa, Nancy E.; Cooper, Eric G.

    1991-01-01

    Program provides additional level of interface to facilitate use of telerobotic system. ESG (Expert Script Generator) is software package automatically generating high-level task objective commands from complex menu-driven language of the NASA Intelligent Systems Research Laboratory (ISRL). Makes telerobotics laboratory accessible to researchers not familiar with comprehensive language developed by ISRL for interacting with various systems of ISRL test bed. Incorporates expert-system technology to capture typical rules of operation that skilled operator uses. Result: operator interfact optimizing ability of system to perform task remotely in hazardous environment, in timely manner, and without undue stress to operator, while minimizing change for operator erros that damage equipment. Written in CLIPS.

  15. Bioethics for Technical Experts

    Science.gov (United States)

    Asano, Shigetaka

    Along with rapidly expanding applications of life science and technology, technical experts have been implicated more and more often with ethical, social, and legal problems than before. It should be noted that in this background there are scientific and social uncertainty elements which are inevitable during the progress of life science in addition to the historically-established social unreliability to scientists and engineers. In order to solve these problems, therefore, we should establish the social governance with ‘relief’ and ‘reliance’ which enables for both citizens and engineers to share the awareness of the issues, to design social orders and criterions based on hypothetical sense of values for bioethics, to carry out practical use management of each subject carefully, and to improve the sense of values from hypothetical to universal. Concerning these measures, the technical experts can learn many things from the present performance in the medical field.

  16. Expert PLSQL Practices

    CERN Document Server

    Beresniewicz, John

    2011-01-01

    Expert PL/SQL Practices is a book of collected wisdom on PL/SQL programming from some of the best and the brightest in the field. Each chapter is a deep-dive into a specific problem, technology, or feature set that you'll face as a PL/SQL programmer. Each author has chosen their topic out of the strong belief that what they share can make a positive difference in the quality and scalability of code that you write. The path to mastery begins with syntax and the mechanics of writing statements to make things happen. If you've reached that point with PL/SQL, then let the authors of Expert PL/SQL

  17. T4 report. An expert consortium review of the EC-commissioned report "Alternative (non-animal) methods for cosmetics testing: Current status and future prospects - 2010"

    NARCIS (Netherlands)

    Hartung, T.; Blaauboer, B.J.; Bosgra, S.; Carney, E.; Coenen, J.; Conolly, R.B.; Corsini, E.; Green, S.; Faustman, E.M.; Gaspari, A.; Hayashi, M.; Hayes, A.W.; Hengstler, J.G.; Knudsen, L.E.; Knudsen, T.B.; McKim, J.M.; Pfaller, W.; Roggen, E.L.

    2011-01-01

    The European cosmetics legislation foresees a review in 2011 and possible postponement of the 2013 marketing ban to enforce the testing ban for systemic and repeated-dose animal tests. For this purpose, a 119-page report commissioned by the European Commission was published recently. Here, a group o

  18. The experts from the Review of LHC Superconducting Cables and Magnet Production, accompanied by the committee's secretary and the Head of the Magnets and Superconductors Group.

    CERN Multimedia

    2004-01-01

    From left to right: Ron Scanlan (Lawrence Berkeley National Laboratory, US), Taka Shintomi (KEK Laboratory, Japan), Claudine Bosteels (Secretary of the Review, AT-MAS Group, CERN), Lucio Rossi (Head of AT-MAS Group, CERN), Ettore Salpietro (EDFA-Iter project), Bruce Strauss (US Department of Energy, Chairman of the committee), and Pierre Vedrine (CEA-DAPNIA-SACM, France).

  19. ALICE Expert System

    CERN Document Server

    Ionita, C

    2014-01-01

    The ALICE experiment at CERN employs a number of human operators (shifters), who have to make sure that the experiment is always in a state compatible with taking Physics data. Given the complexity of the system and the myriad of errors that can arise, this is not always a trivial task. The aim of this paper is to describe an expert system that is capable of assisting human shifters in the ALICE control room. The system diagnoses potential issues and attempts to make smart recommendations for troubleshooting. At its core, a Prolog engine infers whether a Physics or a technical run can be started based on the current state of the underlying sub-systems. A separate C++ component queries certain SMI objects and stores their state as facts in a Prolog knowledge base. By mining the data stored in dierent system logs, the expert system can also diagnose errors arising during a run. Currently the system is used by the on-call experts for faster response times, but we expect it to be adopted as a standard tool by reg...

  20. Multi-Label Classification Based on Low Rank Representation for Image Annotation

    Directory of Open Access Journals (Sweden)

    Qiaoyu Tan

    2017-01-01

    Full Text Available Annotating remote sensing images is a challenging task for its labor demanding annotation process and requirement of expert knowledge, especially when images can be annotated with multiple semantic concepts (or labels. To automatically annotate these multi-label images, we introduce an approach called Multi-Label Classification based on Low Rank Representation (MLC-LRR. MLC-LRR firstly utilizes low rank representation in the feature space of images to compute the low rank constrained coefficient matrix, then it adapts the coefficient matrix to define a feature-based graph and to capture the global relationships between images. Next, it utilizes low rank representation in the label space of labeled images to construct a semantic graph. Finally, these two graphs are exploited to train a graph-based multi-label classifier. To validate the performance of MLC-LRR against other related graph-based multi-label methods in annotating images, we conduct experiments on a public available multi-label remote sensing images (Land Cover. We perform additional experiments on five real-world multi-label image datasets to further investigate the performance of MLC-LRR. Empirical study demonstrates that MLC-LRR achieves better performance on annotating images than these comparing methods across various evaluation criteria; it also can effectively exploit global structure and label correlations of multi-label images.

  1. Certifying cost annotations in compilers

    CERN Document Server

    Amadio, Roberto M; Régis-Gianas, Yann; Saillard, Ronan

    2010-01-01

    We discuss the problem of building a compiler which can lift in a provably correct way pieces of information on the execution cost of the object code to cost annotations on the source code. To this end, we need a clear and flexible picture of: (i) the meaning of cost annotations, (ii) the method to prove them sound and precise, and (iii) the way such proofs can be composed. We propose a so-called labelling approach to these three questions. As a first step, we examine its application to a toy compiler. This formal study suggests that the labelling approach has good compositionality and scalability properties. In order to provide further evidence for this claim, we report our successful experience in implementing and testing the labelling approach on top of a prototype compiler written in OCAML for (a large fragment of) the C language.

  2. International Expert Review of SRCan: Site Investigation Aspects. External review contribution in support of SKI's and SSI's review of SR-Can. INSITE/OVERSITE

    Energy Technology Data Exchange (ETDEWEB)

    2008-03-15

    As a first evaluation of long-term safety for KBS-3 repositories at Forsmark and Laxemar, the SIG (Site Investigation Group) found SR-Can to be a well-produced and generally well-argued safety assessment. Overall, SKB is to be complimented on this project. Members of of the two groups INSITE and OVERSITE within the SIG had somewhat differing views on how well SKB had made use of the site data available at the end of the SDM 1.2 stage of investigations. This difference is less to do with the extent of site characterisation than of its use and application, reflecting the different levels of maturity of SKB's geosphere and biosphere assessment programmes. The more recent and current work on the sites means that our concerns expressed in this review should, to a large extent, be addressable in or prior to SR-Site, provided SKB is so minded. However, we acknowledge that some of the issues we raise will not be fully resolved until underground rock characterisation from excavations or longer records of surface conditions are available. There are also some key aspects of SKB's methodology still under development that would benefit from review prior to their use in SR-Site. More space in the currently pressing schedule would allow for this review and a consequent increase in confidence. In any case, the authorities should be aware that SKB may face residual programmatic risks, associated principally with the underground design and layout (and their knockon effects into performance), even after SR-Site. An early understanding of some of these relationships would be helped by a plan (at least on an outline level) of the underground characterisation programme. We also note that many engineering matters are still to be confronted, not least the EBS design and its implementation, along with the treatment of high stresses, if Forsmark is selected. However, our views on the nature of the SR-Can analysis and the way in which site data have been utilised in it (our

  3. Corpus Annotation for Parser Evaluation

    OpenAIRE

    CARROLL, JOHN; Minnen, Guido; Briscoe, Ted

    1999-01-01

    We describe a recently developed corpus annotation scheme for evaluating parsers that avoids shortcomings of current methods. The scheme encodes grammatical relations between heads and dependents, and has been used to mark up a new public-domain corpus of naturally occurring English text. We show how the corpus can be used to evaluate the accuracy of a robust parser, and relate the corpus to extant resources.

  4. Social Work Expert Testimony Regarding Mitigation in Capital Sentencing Proceedings.

    Science.gov (United States)

    Andrews, Arlene Bowers

    1991-01-01

    Notes that, during sentencing phase of capital trial, social worker can have potentially powerful influence on proceedings by presenting comprehensive, reliable social history, and expert opinion based on accepted theory and research regarding human behavior in social environment. Reviews social worker's role as expert witness, ethical issues,…

  5. MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

    Directory of Open Access Journals (Sweden)

    Holt Carson

    2011-12-01

    Full Text Available Abstract Background Second-generation sequencing technologies are precipitating major shifts with regards to what kinds of genomes are being sequenced and how they are annotated. While the first generation of genome projects focused on well-studied model organisms, many of today's projects involve exotic organisms whose genomes are largely terra incognita. This complicates their annotation, because unlike first-generation projects, there are no pre-existing 'gold-standard' gene-models with which to train gene-finders. Improvements in genome assembly and the wide availability of mRNA-seq data are also creating opportunities to update and re-annotate previously published genome annotations. Today's genome projects are thus in need of new genome annotation tools that can meet the challenges and opportunities presented by second-generation sequencing technologies. Results We present MAKER2, a genome annotation and data management tool designed for second-generation genome projects. MAKER2 is a multi-threaded, parallelized application that can process second-generation datasets of virtually any size. We show that MAKER2 can produce accurate annotations for novel genomes where training-data are limited, of low quality or even non-existent. MAKER2 also provides an easy means to use mRNA-seq data to improve annotation quality; and it can use these data to update legacy annotations, significantly improving their quality. We also show that MAKER2 can evaluate the quality of genome annotations, and identify and prioritize problematic annotations for manual review. Conclusions MAKER2 is the first annotation engine specifically designed for second-generation genome projects. MAKER2 scales to datasets of any size, requires little in the way of training data, and can use mRNA-seq data to improve annotation quality. It can also update and manage legacy genome annotation datasets.

  6. Ultrasound Won't Help Broken Bones Heal, Expert Panel Says

    Science.gov (United States)

    ... fullstory_163763.html Ultrasound Won't Help Broken Bones Heal, Expert Panel Says Detailed review suggests it's ... LIPUS) -- to help speed the healing of broken bones. But an international panel of experts now says ...

  7. A polythematic real-time synergistic hybrid data telecommunication system for scientific research with bidirectional fuzzy feedback peer review by expert referees

    Directory of Open Access Journals (Sweden)

    Panagiotis Petratos

    2003-02-01

    Full Text Available Heterogeneous research environments, interests and locations do not necessarily coincide, thus hitherto the primary method of communication amongst researchers has been email. In this article a novel unified polythematic, real-time, synergistic, data telecommunication system is proposed with peer-reviewed, bidirectional fuzzy feedback for research scientists, to facilitate scientific information exchange via the extensible markup language (XML on multiple scientific topics, e.g. in mathematics, physics, biology and chemistry.

  8. Functional annotation of hierarchical modularity.

    Directory of Open Access Journals (Sweden)

    Kanchana Padmanabhan

    Full Text Available In biological networks of molecular interactions in a cell, network motifs that are biologically relevant are also functionally coherent, or form functional modules. These functionally coherent modules combine in a hierarchical manner into larger, less cohesive subsystems, thus revealing one of the essential design principles of system-level cellular organization and function-hierarchical modularity. Arguably, hierarchical modularity has not been explicitly taken into consideration by most, if not all, functional annotation systems. As a result, the existing methods would often fail to assign a statistically significant functional coherence score to biologically relevant molecular machines. We developed a methodology for hierarchical functional annotation. Given the hierarchical taxonomy of functional concepts (e.g., Gene Ontology and the association of individual genes or proteins with these concepts (e.g., GO terms, our method will assign a Hierarchical Modularity Score (HMS to each node in the hierarchy of functional modules; the HMS score and its p-value measure functional coherence of each module in the hierarchy. While existing methods annotate each module with a set of "enriched" functional terms in a bag of genes, our complementary method provides the hierarchical functional annotation of the modules and their hierarchically organized components. A hierarchical organization of functional modules often comes as a bi-product of cluster analysis of gene expression data or protein interaction data. Otherwise, our method will automatically build such a hierarchy by directly incorporating the functional taxonomy information into the hierarchy search process and by allowing multi-functional genes to be part of more than one component in the hierarchy. In addition, its underlying HMS scoring metric ensures that functional specificity of the terms across different levels of the hierarchical taxonomy is properly treated. We have evaluated our

  9. Expert and Knowledge Based Systems.

    Science.gov (United States)

    Demaid, Adrian; Edwards, Lyndon

    1987-01-01

    Discusses the nature and current state of knowledge-based systems and expert systems. Describes an expert system from the viewpoints of a computer programmer and an applications expert. Addresses concerns related to materials selection and forecasts future developments in the teaching of materials engineering. (ML)

  10. Microtask crowdsourcing for disease mention annotation in PubMed abstracts.

    Science.gov (United States)

    Good, Benjamin M; Nanis, Max; Wu, Chunlei; Su, Andrew I

    2015-01-01

    Identifying concepts and relationships in biomedical text enables knowledge to be applied in computational analyses. Many biological natural language processing (BioNLP) projects attempt to address this challenge, but the state of the art still leaves much room for improvement. Progress in BioNLP research depends on large, annotated corpora for evaluating information extraction systems and training machine learning models. Traditionally, such corpora are created by small numbers of expert annotators often working over extended periods of time. Recent studies have shown that workers on microtask crowdsourcing platforms such as Amazon's Mechanical Turk (AMT) can, in aggregate, generate high-quality annotations of biomedical text. Here, we investigated the use of the AMT in capturing disease mentions in PubMed abstracts. We used the NCBI Disease corpus as a gold standard for refining and benchmarking our crowdsourcing protocol. After several iterations, we arrived at a protocol that reproduced the annotations of the 593 documents in the 'training set' of this gold standard with an overall F measure of 0.872 (precision 0.862, recall 0.883). The output can also be tuned to optimize for precision (max = 0.984 when recall = 0.269) or recall (max = 0.980 when precision = 0.436). Each document was completed by 15 workers, and their annotations were merged based on a simple voting method. In total 145 workers combined to complete all 593 documents in the span of 9 days at a cost of $.066 per abstract per worker. The quality of the annotations, as judged with the F measure, increases with the number of workers assigned to each task; however minimal performance gains were observed beyond 8 workers per task. These results add further evidence that microtask crowdsourcing can be a valuable tool for generating well-annotated corpora in BioNLP. Data produced for this analysis are available at http://figshare.com/articles/Disease_Mention_Annotation_with_Mechanical_Turk/1126402.

  11. False confessions, expert testimony, and admissibility.

    Science.gov (United States)

    Watson, Clarence; Weiss, Kenneth J; Pouncey, Claire

    2010-01-01

    The confession of a criminal defendant serves as a prosecutor's most compelling piece of evidence during trial. Courts must preserve a defendant's constitutional right to a fair trial while upholding the judicial interests of presenting competent and reliable evidence to the jury. When a defendant seeks to challenge the validity of that confession through expert testimony, the prosecution often contests the admissibility of the expert's opinion. Depending on the content and methodology of the expert's opinion, testimony addressing the phenomenon of false confessions may or may not be admissible. This article outlines the scientific and epistemological bases of expert testimony on false confession, notes the obstacles facing its admissibility, and provides guidance to the expert in formulating opinions that will reach the judge or jury. We review the 2006 New Jersey Superior Court decision in State of New Jersey v. George King to illustrate what is involved in the admissibility of false-confession testimony and use the case as a starting point in developing a best-practice approach to working in this area.

  12. Expert Oracle Exadata

    CERN Document Server

    Johnson, Randy

    2011-01-01

    Throughout history, advances in technology have come in spurts. A single great idea can often spur rapid change as the idea takes hold and is propagated, often in totally unexpected directions. Exadata embodies such a change in how we think about and manage relational databases. The key change lies in the concept of offloading SQL processing to the storage layer. That concept is a huge win, and its implementation in the form of Exadata is truly a game changer. Expert Oracle Exadata will give you a look under the covers at how the combination of hardware and software that comprise Exadata actua

  13. Strategic Planning, Marketing & Public Relations, and Fund-Raising in Higher Education: Perspectives, Readings, and Annotated Bibliography.

    Science.gov (United States)

    Ryans, Cynthia C.; Shanklin, William L.

    Perspectives on college and university strategic planning, marketing and public relations, and fund-raising are offered. Also included are previously published journal articles by experts in this area, annotated bibliographies of books and journal articles on these subjects, author/title and subject indexes, and a directory of publishers. Three…

  14. A semantically-aided approach for online annotation and retrieval of medical images.

    Science.gov (United States)

    Kyriazos, George K; Gerostathopoulos, Ilias Th; Kolias, Vassileios D; Stoitsis, John S; Nikita, Konstantina S

    2011-01-01

    The need for annotating the continuously increasing volume of medical image data is recognized from medical experts for a variety of purposes, regardless if this is medical practice, research or education. The rich information content latent in medical images can be made explicit and formal with the use of well-defined ontologies. Evolution of the Semantic Web now offers a unique opportunity of a web-based, service-oriented approach. Remote access to FMA and ICD-10 reference ontologies provides the ontological annotation framework. The proposed system utilizes this infrastructure to provide a customizable and robust annotation procedure. It also provides an intelligent search mechanism indicating the advantages of semantic over keyword search. The common representation layer discussed facilitates interoperability between institutions and systems, while semantic content enables inference and knowledge integration.

  15. Semantic annotation of morphological descriptions: an overall strategy

    Directory of Open Access Journals (Sweden)

    Cui Hong

    2010-05-01

    Full Text Available Abstract Background Large volumes of morphological descriptions of whole organisms have been created as print or electronic text in a human-readable format. Converting the descriptions into computer- readable formats gives a new life to the valuable knowledge on biodiversity. Research in this area started 20 years ago, yet not sufficient progress has been made to produce an automated system that requires only minimal human intervention but works on descriptions of various plant and animal groups. This paper attempts to examine the hindering factors by identifying the mismatches between existing research and the characteristics of morphological descriptions. Results This paper reviews the techniques that have been used for automated annotation, reports exploratory results on characteristics of morphological descriptions as a genre, and identifies challenges facing automated annotation systems. Based on these criteria, the paper proposes an overall strategy for converting descriptions of various taxon groups with the least human effort. Conclusions A combined unsupervised and supervised machine learning strategy is needed to construct domain ontologies and lexicons and to ultimately achieve automated semantic annotation of morphological descriptions. Further, we suggest that each effort in creating a new description or annotating an individual description collection should be shared and contribute to the "biodiversity information commons" for the Semantic Web. This cannot be done without a sound strategy and a close partnership between and among information scientists and biologists.

  16. Omics data management and annotation.

    Science.gov (United States)

    Harel, Arye; Dalah, Irina; Pietrokovski, Shmuel; Safran, Marilyn; Lancet, Doron

    2011-01-01

    Technological Omics breakthroughs, including next generation sequencing, bring avalanches of data which need to undergo effective data management to ensure integrity, security, and maximal knowledge-gleaning. Data management system requirements include flexible input formats, diverse data entry mechanisms and views, user friendliness, attention to standards, hardware and software platform definition, as well as robustness. Relevant solutions elaborated by the scientific community include Laboratory Information Management Systems (LIMS) and standardization protocols facilitating data sharing and managing. In project planning, special consideration has to be made when choosing relevant Omics annotation sources, since many of them overlap and require sophisticated integration heuristics. The data modeling step defines and categorizes the data into objects (e.g., genes, articles, disorders) and creates an application flow. A data storage/warehouse mechanism must be selected, such as file-based systems and relational databases, the latter typically used for larger projects. Omics project life cycle considerations must include the definition and deployment of new versions, incorporating either full or partial updates. Finally, quality assurance (QA) procedures must validate data and feature integrity, as well as system performance expectations. We illustrate these data management principles with examples from the life cycle of the GeneCards Omics project (http://www.genecards.org), a comprehensive, widely used compendium of annotative information about human genes. For example, the GeneCards infrastructure has recently been changed from text files to a relational database, enabling better organization and views of the growing data. Omics data handling benefits from the wealth of Web-based information, the vast amount of public domain software, increasingly affordable hardware, and effective use of data management and annotation principles as outlined in this chapter.

  17. Trends and Patterns in Cultural Resource Significance: An Historical Perspective and Annotated Bibliography

    Science.gov (United States)

    1997-04-01

    greater degree of intradisciplinary cooperation (Schiffer and House 1977a; Tainter 1987). Close cooperation between groups of archaeologists, as well...be addressed by an interdisciplinary team of experts. As a consequence of such collaborative research efforts, it is clear that the information value...for a purely archaeological project and will only be provided for a team of researchers" Appendix E Annotated Bibliography E-a25 Glassow, Michael A

  18. Knowledge Annotation maknig implicit knowledge explicit

    CERN Document Server

    Dingli, Alexiei

    2011-01-01

    Did you ever read something on a book, felt the need to comment, took up a pencil and scribbled something on the books' text'? If you did, you just annotated a book. But that process has now become something fundamental and revolutionary in these days of computing. Annotation is all about adding further information to text, pictures, movies and even to physical objects. In practice, anything which can be identified either virtually or physically can be annotated. In this book, we will delve into what makes annotations, and analyse their significance for the future evolutions of the web. We wil

  19. CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations.

    Science.gov (United States)

    Park, Julie; Costanzo, Maria C; Balakrishnan, Rama; Cherry, J Michael; Hong, Eurie L

    2012-01-01

    The set of annotations at the Saccharomyces Genome Database (SGD) that classifies the cellular function of S. cerevisiae gene products using Gene Ontology (GO) terms has become an important resource for facilitating experimental analysis. In addition to capturing and summarizing experimental results, the structured nature of GO annotations allows for functional comparison across organisms as well as propagation of functional predictions between related gene products. Due to their relevance to many areas of research, ensuring the accuracy and quality of these annotations is a priority at SGD. GO annotations are assigned either manually, by biocurators extracting experimental evidence from the scientific literature, or through automated methods that leverage computational algorithms to predict functional information. Here, we discuss the relationship between literature-based and computationally predicted GO annotations in SGD and extend a strategy whereby comparison of these two types of annotation identifies genes whose annotations need review. Our method, CvManGO (Computational versus Manual GO annotations), pairs literature-based GO annotations with computational GO predictions and evaluates the relationship of the two terms within GO, looking for instances of discrepancy. We found that this method will identify genes that require annotation updates, taking an important step towards finding ways to prioritize literature review. Additionally, we explored factors that may influence the effectiveness of CvManGO in identifying relevant gene targets to find in particular those genes that are missing literature-supported annotations, but our survey found that there are no immediately identifiable criteria by which one could enrich for these under-annotated genes. Finally, we discuss possible ways to improve this strategy, and the applicability of this method to other projects that use the GO for curation. DATABASE URL: http://www.yeastgenome.org.

  20. Expert system rheometry

    Directory of Open Access Journals (Sweden)

    Samiul Amin

    2009-09-01

    Full Text Available Inks, drilling fluids, shower gels and drug delivery vehicles are just a few examples of the many industrial and consumer products based on colloidal and nanostructured complex fluids. The successful formulation of these materials is promoted by understanding how rheological behaviour, which typically dictates performance, relates to underlying microstructure. However, this knowledge can be difficult to obtain for those without the necessary expertise. This article shows how recent developments in rheometer technology address this issue. New rheometers, exemplified by the Kinexus from Malvern have expert knowledge embedded within the instrument and are able to guide users through measurement and data analysis to relevant information. Such systems facilitate development of the design rules to optimize formulations and generate novel and high performance materials of the future.

  1. Expert Systems for the Analytical Laboratory.

    Science.gov (United States)

    de Monchy, Allan R.; And Others

    1988-01-01

    Discusses two computer problem solving programs: rule-based expert systems and decision analysis expert systems. Explores the application of expert systems to automated chemical analyses. Presents six factors to consider before using expert systems. (MVL)

  2. Expert Systems as Tools for Technical Communicators.

    Science.gov (United States)

    Grider, Daryl A.

    1994-01-01

    Discusses expertise, what an expert system is, what an expert system shell is, what expert systems can and cannot do, knowledge engineering and technical communicators, and planning and managing expert system projects. (SR)

  3. Semantic Annotation Framework For Intelligent Information Retrieval Using KIM Architecture

    Directory of Open Access Journals (Sweden)

    Sanjay Kumar Malik

    2010-11-01

    Full Text Available Due to the explosion of information/knowledge on the web and wide use of search engines for desiredinformation,the role of knowledge management(KM is becoming more significant in an organization.Knowledge Management in an Organization is used to create ,capture, store, share, retrieve and manageinformation efficiently. The semantic web, an intelligent and meaningful web, tend to provide a promisingplatform for knowledge management systems and vice versa, since they have the potential to give eachother the real substance for machine-understandable web resources which in turn will lead to anintelligent, meaningful and efficient information retrieval on web. Today,the challenge for web communityis to integrate the distributed heterogeneous resources on web with an objective of an intelligent webenvironment focusing on data semantics and user requirements. Semantic Annotation(SA is being widelyused which is about assigning to the entities in the text and links to their semantic descriptions. Varioustools like KIM, Amaya etc may be used for semantic Annotation.In this paper, we introduce semantic annotation as one of the key technology in an intelligent webenvironment , then revisit and review, discuss and explore about Knowledge Management and SemanticAnnotation. A Knowledge Management Framework and a Framework for Semantic Annotation andSemantic Search with Knowledge Base(GATE and Ontology have been presented. Then KIM Annotationplatform architecture including KIM Ontology(KIMO, KIM Knowledge Base and KIM front ends havebeen highlighted. Finally, intelligent pattern search and concerned GATE framework with a KIMAnnotation Example have been illiustrated towards an intelligent information retrieval

  4. Towards an event annotated corpus of Polish

    Directory of Open Access Journals (Sweden)

    Michał Marcińczuk

    2015-12-01

    Full Text Available Towards an event annotated corpus of Polish The paper presents a typology of events built on the basis of TimeML specification adapted to Polish language. Some changes were introduced to the definition of the event categories and a motivation for event categorization was formulated. The event annotation task is presented on two levels – ontology level (language independent and text mentions (language dependant. The various types of event mentions in Polish text are discussed. A procedure for annotation of event mentions in Polish texts is presented and evaluated. In the evaluation a randomly selected set of documents from the Corpus of Wrocław University of Technology (called KPWr was annotated by two linguists and the annotator agreement was calculated. The evaluation was done in two iterations. After the first evaluation we revised and improved the annotation procedure. The second evaluation showed a significant improvement of the agreement between annotators. The current work was focused on annotation and categorisation of event mentions in text. The future work will be focused on description of event with a set of attributes, arguments and relations.

  5. Ground Truth Annotation in T Analyst

    DEFF Research Database (Denmark)

    2015-01-01

    This video shows how to annotate the ground truth tracks in the thermal videos. The ground truth tracks are produced to be able to compare them to tracks obtained from a Computer Vision tracking approach. The program used for annotation is T-Analyst, which is developed by Aliaksei Laureshyn, Ph...

  6. Creating Gaze Annotations in Head Mounted Displays

    DEFF Research Database (Denmark)

    Mardanbeigi, Diako; Qvarfordt, Pernilla

    2015-01-01

    To facilitate distributed communication in mobile settings, we developed GazeNote for creating and sharing gaze annotations in head mounted displays (HMDs). With gaze annotations it possible to point out objects of interest within an image and add a verbal description. To create an annota- tion, ...

  7. Annotation of regular polysemy and underspecification

    DEFF Research Database (Denmark)

    Martínez Alonso, Héctor; Pedersen, Bolette Sandford; Bel, Núria

    2013-01-01

    We present the result of an annotation task on regular polysemy for a series of seman- tic classes or dot types in English, Dan- ish and Spanish. This article describes the annotation process, the results in terms of inter-encoder agreement, and the sense distributions obtained with two methods...

  8. The surplus value of semantic annotations

    NARCIS (Netherlands)

    M. Marx

    2010-01-01

    We compare the costs of semantic annotation of textual documents to its benefits for information processing tasks. Semantic annotation can improve the performance of retrieval tasks and facilitates an improved search experience through faceted search, focused retrieval, better document summaries, an

  9. Manual Annotation of Translational Equivalence The Blinker Project

    CERN Document Server

    Melamed, I D

    1998-01-01

    Bilingual annotators were paid to link roughly sixteen thousand corresponding words between on-line versions of the Bible in modern French and modern English. These annotations are freely available to the research community from http://www.cis.upenn.edu/~melamed . The annotations can be used for several purposes. First, they can be used as a standard data set for developing and testing translation lexicons and statistical translation models. Second, researchers in lexical semantics will be able to mine the annotations for insights about cross-linguistic lexicalization patterns. Third, the annotations can be used in research into certain recently proposed methods for monolingual word-sense disambiguation. This paper describes the annotated texts, the specially-designed annotation tool, and the strategies employed to increase the consistency of the annotations. The annotation process was repeated five times by different annotators. Inter-annotator agreement rates indicate that the annotations are reasonably rel...

  10. Concept annotation in the CRAFT corpus

    Directory of Open Access Journals (Sweden)

    Bada Michael

    2012-07-01

    Full Text Available Abstract Background Manually annotated corpora are critical for the training and evaluation of automated methods to identify concepts in biomedical text. Results This paper presents the concept annotations of the Colorado Richly Annotated Full-Text (CRAFT Corpus, a collection of 97 full-length, open-access biomedical journal articles that have been annotated both semantically and syntactically to serve as a research resource for the biomedical natural-language-processing (NLP community. CRAFT identifies all mentions of nearly all concepts from nine prominent biomedical ontologies and terminologies: the Cell Type Ontology, the Chemical Entities of Biological Interest ontology, the NCBI Taxonomy, the Protein Ontology, the Sequence Ontology, the entries of the Entrez Gene database, and the three subontologies of the Gene Ontology. The first public release includes the annotations for 67 of the 97 articles, reserving two sets of 15 articles for future text-mining competitions (after which these too will be released. Concept annotations were created based on a single set of guidelines, which has enabled us to achieve consistently high interannotator agreement. Conclusions As the initial 67-article release contains more than 560,000 tokens (and the full set more than 790,000 tokens, our corpus is among the largest gold-standard annotated biomedical corpora. Unlike most others, the journal articles that comprise the corpus are drawn from diverse biomedical disciplines and are marked up in their entirety. Additionally, with a concept-annotation count of nearly 100,000 in the 67-article subset (and more than 140,000 in the full collection, the scale of conceptual markup is also among the largest of comparable corpora. The concept annotations of the CRAFT Corpus have the potential to significantly advance biomedical text mining by providing a high-quality gold standard for NLP systems. The corpus, annotation guidelines, and other associated resources are

  11. Facilitating functional annotation of chicken microarray data

    Directory of Open Access Journals (Sweden)

    Gresham Cathy R

    2009-10-01

    Full Text Available Abstract Background Modeling results from chicken microarray studies is challenging for researchers due to little functional annotation associated with these arrays. The Affymetrix GenChip chicken genome array, one of the biggest arrays that serve as a key research tool for the study of chicken functional genomics, is among the few arrays that link gene products to Gene Ontology (GO. However the GO annotation data presented by Affymetrix is incomplete, for example, they do not show references linked to manually annotated functions. In addition, there is no tool that facilitates microarray researchers to directly retrieve functional annotations for their datasets from the annotated arrays. This costs researchers amount of time in searching multiple GO databases for functional information. Results We have improved the breadth of functional annotations of the gene products associated with probesets on the Affymetrix chicken genome array by 45% and the quality of annotation by 14%. We have also identified the most significant diseases and disorders, different types of genes, and known drug targets represented on Affymetrix chicken genome array. To facilitate functional annotation of other arrays and microarray experimental datasets we developed an Array GO Mapper (AGOM tool to help researchers to quickly retrieve corresponding functional information for their dataset. Conclusion Results from this study will directly facilitate annotation of other chicken arrays and microarray experimental datasets. Researchers will be able to quickly model their microarray dataset into more reliable biological functional information by using AGOM tool. The disease, disorders, gene types and drug targets revealed in the study will allow researchers to learn more about how genes function in complex biological systems and may lead to new drug discovery and development of therapies. The GO annotation data generated will be available for public use via AgBase website and

  12. Expert system aids reliability

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, A.T. [Tennessee Gas Pipeline, Houston, TX (United States)

    1997-09-01

    Quality and Reliability are key requirements in the energy transmission industry. Tennessee Gas Co. a division of El Paso Energy, has applied Gensym`s G2, object-oriented Expert System programming language as a standard tool for maintaining and improving quality and reliability in pipeline operation. Tennessee created a small team of gas controllers and engineers to develop a Proactive Controller`s Assistant (ProCA) that provides recommendations for operating the pipeline more efficiently, reliably and safely. The controller`s pipeline operating knowledge is recreated in G2 in the form of Rules and Procedures in ProCA. Two G2 programmers supporting the Gas Control Room add information to the ProCA knowledge base daily. The result is a dynamic, constantly improving system that not only supports the pipeline controllers in their operations, but also the measurement and communications departments` requests for special studies. The Proactive Controller`s Assistant development focus is in the following areas: Alarm Management; Pipeline Efficiency; Reliability; Fuel Efficiency; and Controller Development.

  13. Expert and novice facilitated modelling

    DEFF Research Database (Denmark)

    Tavella, Elena; Papadopoulos, Thanos

    2015-01-01

    This paper provides an empirical study based on action research in which expert and novice facilitators in facilitated modelling workshops are compared. There is limited empirical research analysing the differences between expert and novice facilitators. Aiming to address this gap we study...

  14. An Annotated Bibliography Concerning Children of Divorce: Meeting Their Needs in the Elementary Classroom.

    Science.gov (United States)

    Neely, Elaine M.

    Entries in this annotated bibliography are divided into three sections: (1) an overview of information about the effect of divorce on the parent and child; (2) a review of studies and literature pertaining to the impact of divorce on elementary school students; and (3) a review of literature suggesting guidelines, activities, and techniques for…

  15. A Review of The Annotations for Suanshu Shu Written on Zhangjiashan Han Tomb Bamboo Strips by Peng Hao%赞叹与遗憾:读彭浩著《张家山汉简〈算数书〉注释》

    Institute of Scientific and Technical Information of China (English)

    纪志刚

    2004-01-01

    This paper gives a review of The Annotations for Suanshushu Written on Zhangjiashan Han Tomb Bamboo Strips by Peng Hao. It is known that the transcription of Bamboo Suanshushu was first published in Cultural Relics, No. 9, 2000. But the transcription is difficult to read, because in it there are many misprinted, miscopied, missing words and mistakes. Much is done in Peng's book to restore the order of bamboo strips, to collate the miscopied words and to correct the mistaken numbers. Based on analysis of historical background and archaeological discoveries, Peng Hao concluded that in Suanshushu many problems did not appear at the same time, and that some problems were closely related to the official affairs of lower government administration during the pre-Qin period. So his statement is very important for exploring the evolution of mathematics from pre-Qin period to Han dynasty. But, through critical reading, the paper points out that in Peng' s book there are some wrong collations and annotations which were made by Peng himself and some mistakes in Suanshushu which he failed to correct. Although Peng' s book is really praiseworthy in providing facilities for further study, the numerous defects in it make readers feel regretable indeed.

  16. A Common XML-based Framework for Syntactic Annotations

    CERN Document Server

    Ide, Nancy; Erjavec, Tomaz

    2009-01-01

    It is widely recognized that the proliferation of annotation schemes runs counter to the need to re-use language resources, and that standards for linguistic annotation are becoming increasingly mandatory. To answer this need, we have developed a framework comprised of an abstract model for a variety of different annotation types (e.g., morpho-syntactic tagging, syntactic annotation, co-reference annotation, etc.), which can be instantiated in different ways depending on the annotator's approach and goals. In this paper we provide an overview of the framework, demonstrate its applicability to syntactic annotation, and show how it can contribute to comparative evaluation of parser output and diverse syntactic annotation schemes.

  17. Engineering monitoring expert system's developer

    Science.gov (United States)

    Lo, Ching F.

    1991-01-01

    This research project is designed to apply artificial intelligence technology including expert systems, dynamic interface of neural networks, and hypertext to construct an expert system developer. The developer environment is specifically suited to building expert systems which monitor the performance of ground support equipment for propulsion systems and testing facilities. The expert system developer, through the use of a graphics interface and a rule network, will be transparent to the user during rule constructing and data scanning of the knowledge base. The project will result in a software system that allows its user to build specific monitoring type expert systems which monitor various equipments used for propulsion systems or ground testing facilities and accrues system performance information in a dynamic knowledge base.

  18. Making web annotations persistent over time

    Energy Technology Data Exchange (ETDEWEB)

    Sanderson, Robert [Los Alamos National Laboratory; Van De Sompel, Herbert [Los Alamos National Laboratory

    2010-01-01

    As Digital Libraries (DL) become more aligned with the web architecture, their functional components need to be fundamentally rethought in terms of URIs and HTTP. Annotation, a core scholarly activity enabled by many DL solutions, exhibits a clearly unacceptable characteristic when existing models are applied to the web: due to the representations of web resources changing over time, an annotation made about a web resource today may no longer be relevant to the representation that is served from that same resource tomorrow. We assume the existence of archived versions of resources, and combine the temporal features of the emerging Open Annotation data model with the capability offered by the Memento framework that allows seamless navigation from the URI of a resource to archived versions of that resource, and arrive at a solution that provides guarantees regarding the persistence of web annotations over time. More specifically, we provide theoretical solutions and proof-of-concept experimental evaluations for two problems: reconstructing an existing annotation so that the correct archived version is displayed for all resources involved in the annotation, and retrieving all annotations that involve a given archived version of a web resource.

  19. Expert music performance: cognitive, neural, and developmental bases.

    Science.gov (United States)

    Brown, Rachel M; Zatorre, Robert J; Penhune, Virginia B

    2015-01-01

    In this chapter, we explore what happens in the brain of an expert musician during performance. Understanding expert music performance is interesting to cognitive neuroscientists not only because it tests the limits of human memory and movement, but also because studying expert musicianship can help us understand skilled human behavior in general. In this chapter, we outline important facets of our current understanding of the cognitive and neural basis for music performance, and developmental factors that may underlie musical ability. We address three main questions. (1) What is expert performance? (2) How do musicians achieve expert-level performance? (3) How does expert performance come about? We address the first question by describing musicians' ability to remember, plan, execute, and monitor their performances in order to perform music accurately and expressively. We address the second question by reviewing evidence for possible cognitive and neural mechanisms that may underlie or contribute to expert music performance, including the integration of sound and movement, feedforward and feedback motor control processes, expectancy, and imagery. We further discuss how neural circuits in auditory, motor, parietal, subcortical, and frontal cortex all contribute to different facets of musical expertise. Finally, we address the third question by reviewing evidence for the heritability of musical expertise and for how expertise develops through training and practice. We end by discussing outlooks for future work.

  20. Annotation and Curation of Uncharacterized proteins- Challenges

    Directory of Open Access Journals (Sweden)

    Johny eIjaq

    2015-03-01

    Full Text Available Hypothetical Proteins are the proteins that are predicted to be expressed from an open reading frame (ORF, constituting a substantial fraction of proteomes in both prokaryotes and eukaryotes. Genome projects have led to the identification of many therapeutic targets, the putative function of the protein and their interactions. In this review we have enlisted various methods. Annotation linked to structural and functional prediction of hypothetical proteins assist in the discovery of new structures and functions serving as markers and pharmacological targets for drug designing, discovery and screening. Mass spectrometry is an analytical technique for validating protein characterisation. Matrix-assisted laser desorption ionization–mass spectrometry (MALDI-MS is an efficient analytical method. Microarrays and Protein expression profiles help understanding the biological systems through a systems-wide study of proteins and their interactions with other proteins and non-proteinaceous molecules to control complex processes in cells and tissues and even whole organism. Next generation sequencing technology accelerates multiple areas of genomics research.

  1. 唐传奇研究的新创获--评李军《〈甘泽谣〉评注》%A Review of Li Jun’s Annotations of Gan Ze Yao

    Institute of Scientific and Technical Information of China (English)

    伏俊琏

    2013-01-01

    Li Jun is a young scholar active in the study of ancient Chinese literature,esp.the legend of the Tang Dynasty and the frontier literature and history for the past few years.Recently,Li’s Annota-tions of Gan Ze Yao has been published by China Social Sciences Press,which is a positive impetus to the study of the Tang legend as well as the classical Chinese novels.In his book,Li Jun has made a systematic and focused study of Gan Ze Yao ,a legend anthology by Yuan Xiao,a writer in the late Tang Dynasty, and has annotated each piece of writing minutely and carefully,thereby displaying the unique value and status of the book.%李军是近年来活跃于古代文学尤其是唐传奇、边疆文史研究方面的青年学者。最近,他的《〈甘泽谣〉评注》一书由中国社会科学出版社出版,这对唐传奇乃至中国古典小说的研究是一个积极的推进。该书对晚唐作家袁郊的传奇集《甘泽谣》进行了系统、集中的研究,并对其中每篇作品进行了详细、精审的校注,充分彰显了其独特的价值与地位。

  2. Annotation Style Guide for the Blinker Project

    CERN Document Server

    Melamed, I D

    1998-01-01

    This annotation style guide was created by and for the Blinker project at the University of Pennsylvania. The Blinker project was so named after the ``bilingual linker'' GUI, which was created to enable bilingual annotators to ``link'' word tokens that are mutual translations in parallel texts. The parallel text chosen for this project was the Bible, because it is probably the easiest text to obtain in electronic form in multiple languages. The languages involved were English and French, because, of the languages with which the project co-ordinator was familiar, these were the two for which a sufficient number of annotators was likely to be found.

  3. DIMA – Annotation guidelines for German intonation

    DEFF Research Database (Denmark)

    Kügler, Frank; Smolibocki, Bernadett; Arnold, Denis

    2015-01-01

    easier since German intonation is currently annotated according to different models. To this end, we aim to provide guidelines that are easy to learn. The guidelines were evaluated running an inter-annotator reliability study on three different speech styles (read speech, monologue and dialogue......This paper presents newly developed guidelines for prosodic annotation of German as a consensus system agreed upon by German intonologists. The DIMA system is rooted in the framework of autosegmental-metrical phonology. One important goal of the consensus is to make exchanging data between groups...

  4. MultiCASE Expert Systems and the REACH Initiative.

    Science.gov (United States)

    Saiakhov, Roustem D; Klopman, Gilles

    2008-01-01

    ABSTRACT This article is a review of the MultiCASE Inc. software and expert systems and their use to assess acute toxicity, mutagenicity, carcinogenicity, and other health effects. It is demonstrated that MultiCASE expert systems satisfy the guidelines of the Organisation for Economic Cooperation and Development (OECD) principles and that the portfolio of available endpoints closely overlaps with the list of tests required by REACH.

  5. Using Expert System Job Aids: A Primer.

    Science.gov (United States)

    Carr, Clay

    1989-01-01

    Explains how current commercial expert system technology can be used to create useful job aids. Expert systems are defined, situations in which an expert system job aid will be most effective are described, expert system shells are discussed, and three commercial expert system products are described. (LRW)

  6. Meteor showers an annotated catalog

    CERN Document Server

    Kronk, Gary W

    2014-01-01

    Meteor showers are among the most spectacular celestial events that may be observed by the naked eye, and have been the object of fascination throughout human history. In “Meteor Showers: An Annotated Catalog,” the interested observer can access detailed research on over 100 annual and periodic meteor streams in order to capitalize on these majestic spectacles. Each meteor shower entry includes details of their discovery, important observations and orbits, and gives a full picture of duration, location in the sky, and expected hourly rates. Armed with a fuller understanding, the amateur observer can better view and appreciate the shower of their choice. The original book, published in 1988, has been updated with over 25 years of research in this new and improved edition. Almost every meteor shower study is expanded, with some original minor showers being dropped while new ones are added. The book also includes breakthroughs in the study of meteor showers, such as accurate predictions of outbursts as well ...

  7. xGDBvm: A Web GUI-Driven Workflow for Annotating Eukaryotic Genomes in the Cloud.

    Science.gov (United States)

    Duvick, Jon; Standage, Daniel S; Merchant, Nirav; Brendel, Volker P

    2016-04-01

    Genome-wide annotation of gene structure requires the integration of numerous computational steps. Currently, annotation is arguably best accomplished through collaboration of bioinformatics and domain experts, with broad community involvement. However, such a collaborative approach is not scalable at today's pace of sequence generation. To address this problem, we developed the xGDBvm software, which uses an intuitive graphical user interface to access a number of common genome analysis and gene structure tools, preconfigured in a self-contained virtual machine image. Once their virtual machine instance is deployed through iPlant's Atmosphere cloud services, users access the xGDBvm workflow via a unified Web interface to manage inputs, set program parameters, configure links to high-performance computing (HPC) resources, view and manage output, apply analysis and editing tools, or access contextual help. The xGDBvm workflow will mask the genome, compute spliced alignments from transcript and/or protein inputs (locally or on a remote HPC cluster), predict gene structures and gene structure quality, and display output in a public or private genome browser complete with accessory tools. Problematic gene predictions are flagged and can be reannotated using the integrated yrGATE annotation tool. xGDBvm can also be configured to append or replace existing data or load precomputed data. Multiple genomes can be annotated and displayed, and outputs can be archived for sharing or backup. xGDBvm can be adapted to a variety of use cases including de novo genome annotation, reannotation, comparison of different annotations, and training or teaching.

  8. HBVRegDB: Annotation, comparison, detection and visualization of regulatory elements in hepatitis B virus sequences

    Directory of Open Access Journals (Sweden)

    Firth Andrew E

    2007-12-01

    Full Text Available Abstract Background The many Hepadnaviridae sequences available have widely varied functional annotation. The genomes are very compact (~3.2 kb but contain multiple layers of functional regulatory elements in addition to coding regions. Key regions are subject to purifying selection, as mutations in these regions will produce non-functional viruses. Results These genomic sequences have been organized into a structured database to facilitate research at the molecular level. HBVRegDB is a comparative genomic analysis tool with an integrated underlying sequence database. The database contains genomic sequence data from representative viruses. In addition to INSDC and RefSeq annotation, HBVRegDB also contains expert and systematically calculated annotations (e.g. promoters and comparative genome analysis results (e.g. blastn, tblastx. It also contains analyses based on curated HBV alignments. Information about conserved regions – including primary conservation (e.g. CDS-Plotcon and RNA secondary structure predictions (e.g. Alidot – is integrated into the database. A large amount of data is graphically presented using the GBrowse (Generic Genome Browser adapted for analysis of viral genomes. Flexible query access is provided based on any annotated genomic feature. Novel regulatory motifs can be found by analysing the annotated sequences. Conclusion HBVRegDB serves as a knowledge database and as a comparative genomic analysis tool for molecular biologists investigating HBV. It is publicly available and complementary to other viral and HBV focused datasets and tools http://hbvregdb.otago.ac.nz. The availability of multiple and highly annotated sequences of viral genomes in one database combined with comparative analysis tools facilitates detection of novel genomic elements.

  9. The CHEMDNER corpus of chemicals and drugs and its annotation principles.

    Science.gov (United States)

    Krallinger, Martin; Rabal, Obdulia; Leitner, Florian; Vazquez, Miguel; Salgado, David; Lu, Zhiyong; Leaman, Robert; Lu, Yanan; Ji, Donghong; Lowe, Daniel M; Sayle, Roger A; Batista-Navarro, Riza Theresa; Rak, Rafal; Huber, Torsten; Rocktäschel, Tim; Matos, Sérgio; Campos, David; Tang, Buzhou; Xu, Hua; Munkhdalai, Tsendsuren; Ryu, Keun Ho; Ramanan, S V; Nathan, Senthil; Žitnik, Slavko; Bajec, Marko; Weber, Lutz; Irmer, Matthias; Akhondi, Saber A; Kors, Jan A; Xu, Shuo; An, Xin; Sikdar, Utpal Kumar; Ekbal, Asif; Yoshioka, Masaharu; Dieb, Thaer M; Choi, Miji; Verspoor, Karin; Khabsa, Madian; Giles, C Lee; Liu, Hongfang; Ravikumar, Komandur Elayavilli; Lamurias, Andre; Couto, Francisco M; Dai, Hong-Jie; Tsai, Richard Tzong-Han; Ata, Caglar; Can, Tolga; Usié, Anabel; Alves, Rui; Segura-Bedmar, Isabel; Martínez, Paloma; Oyarzabal, Julen; Valencia, Alfonso

    2015-01-01

    The automatic extraction of chemical information from text requires the recognition of chemical entity mentions as one of its key steps. When developing supervised named entity recognition (NER) systems, the availability of a large, manually annotated text corpus is desirable. Furthermore, large corpora permit the robust evaluation and comparison of different approaches that detect chemicals in documents. We present the CHEMDNER corpus, a collection of 10,000 PubMed abstracts that contain a total of 84,355 chemical entity mentions labeled manually by expert chemistry literature curators, following annotation guidelines specifically defined for this task. The abstracts of the CHEMDNER corpus were selected to be representative for all major chemical disciplines. Each of the chemical entity mentions was manually labeled according to its structure-associated chemical entity mention (SACEM) class: abbreviation, family, formula, identifier, multiple, systematic and trivial. The difficulty and consistency of tagging chemicals in text was measured using an agreement study between annotators, obtaining a percentage agreement of 91. For a subset of the CHEMDNER corpus (the test set of 3,000 abstracts) we provide not only the Gold Standard manual annotations, but also mentions automatically detected by the 26 teams that participated in the BioCreative IV CHEMDNER chemical mention recognition task. In addition, we release the CHEMDNER silver standard corpus of automatically extracted mentions from 17,000 randomly selected PubMed abstracts. A version of the CHEMDNER corpus in the BioC format has been generated as well. We propose a standard for required minimum information about entity annotations for the construction of domain specific corpora on chemical and drug entities. The CHEMDNER corpus and annotation guidelines are available at: http://www.biocreative.org/resources/biocreative-iv/chemdner-corpus/.

  10. SASL: A Semantic Annotation System for Literature

    Science.gov (United States)

    Yuan, Pingpeng; Wang, Guoyin; Zhang, Qin; Jin, Hai

    Due to ambiguity, search engines for scientific literatures may not return right search results. One efficient solution to the problems is to automatically annotate literatures and attach the semantic information to them. Generally, semantic annotation requires identifying entities before attaching semantic information to them. However, due to abbreviation and other reasons, it is very difficult to identify entities correctly. The paper presents a Semantic Annotation System for Literature (SASL), which utilizes Wikipedia as knowledge base to annotate literatures. SASL mainly attaches semantic to terminology, academic institutions, conferences, and journals etc. Many of them are usually abbreviations, which induces ambiguity. Here, SASL uses regular expressions to extract the mapping between full name of entities and their abbreviation. Since full names of several entities may map to a single abbreviation, SASL introduces Hidden Markov Model to implement name disambiguation. Finally, the paper presents the experimental results, which confirm SASL a good performance.

  11. Annotation and retrieval in protein interaction databases

    Science.gov (United States)

    Cannataro, Mario; Hiram Guzzi, Pietro; Veltri, Pierangelo

    2014-06-01

    Biological databases have been developed with a special focus on the efficient retrieval of single records or the efficient computation of specialized bioinformatics algorithms against the overall database, such as in sequence alignment. The continuos production of biological knowledge spread on several biological databases and ontologies, such as Gene Ontology, and the availability of efficient techniques to handle such knowledge, such as annotation and semantic similarity measures, enable the development on novel bioinformatics applications that explicitly use and integrate such knowledge. After introducing the annotation process and the main semantic similarity measures, this paper shows how annotations and semantic similarity can be exploited to improve the extraction and analysis of biologically relevant data from protein interaction databases. As case studies, the paper presents two novel software tools, OntoPIN and CytoSeVis, both based on the use of Gene Ontology annotations, for the advanced querying of protein interaction databases and for the enhanced visualization of protein interaction networks.

  12. Modeling Social Annotation: a Bayesian Approach

    CERN Document Server

    Plangprasopchok, Anon

    2008-01-01

    Collaborative tagging systems, such as del.icio.us, CiteULike, and others, allow users to annotate objects, e.g., Web pages or scientific papers, with descriptive labels called tags. The social annotations, contributed by thousands of users, can potentially be used to infer categorical knowledge, classify documents or recommend new relevant information. Traditional text inference methods do not make best use of socially-generated data, since they do not take into account variations in individual users' perspectives and vocabulary. In a previous work, we introduced a simple probabilistic model that takes interests of individual annotators into account in order to find hidden topics of annotated objects. Unfortunately, our proposed approach had a number of shortcomings, including overfitting, local maxima and the requirement to specify values for some parameters. In this paper we address these shortcomings in two ways. First, we extend the model to a fully Bayesian framework. Second, we describe an infinite ver...

  13. Annotation of Scientific Summaries for Information Retrieval

    CERN Document Server

    Ibekwe-Sanjuan, Fidelia; Eric, Sanjuan; Eric, Charton

    2011-01-01

    We present a methodology combining surface NLP and Machine Learning techniques for ranking asbtracts and generating summaries based on annotated corpora. The corpora were annotated with meta-semantic tags indicating the category of information a sentence is bearing (objective, findings, newthing, hypothesis, conclusion, future work, related work). The annotated corpus is fed into an automatic summarizer for query-oriented abstract ranking and multi- abstract summarization. To adapt the summarizer to these two tasks, two novel weighting functions were devised in order to take into account the distribution of the tags in the corpus. Results, although still preliminary, are encouraging us to pursue this line of work and find better ways of building IR systems that can take into account semantic annotations in a corpus.

  14. Fluid Annotations in a Open World

    DEFF Research Database (Denmark)

    Zellweger, Polle Trescott; Bouvin, Niels Olof; Jehøj, Henning

    2001-01-01

    Fluid Documents use animated typographical changes to provide a novel and appealing user experience for hypertext browsing and for viewing document annotations in context. This paper describes an effort to broaden the utility of Fluid Documents by using the open hypermedia Arakne Environment to l...... to layer fluid annotations and links on top of abitrary HTML pages on the World Wide Web. Changes to both Fluid Documents and Arakne are required....

  15. Semantic Annotation to Support Automatic Taxonomy Classification

    DEFF Research Database (Denmark)

    Kim, Sanghee; Ahmed, Saeema; Wallace, Ken

    2006-01-01

    , the annotations identify which parts of a text are more important for understanding its contents. The extraction of salient sentences is a major issue in text summarisation. Commonly used methods are based on statistical analysis, but for subject-matter type texts, linguistically motivated natural language...... processing techniques, like semantic annotations, are preferred. An experiment to test the method using 140 documents collected from industry demonstrated that classification accuracy can be improved by up to 16%....

  16. Mercator: a fast and simple web server for genome scale functional annotation of plant sequence data.

    Science.gov (United States)

    Lohse, Marc; Nagel, Axel; Herter, Thomas; May, Patrick; Schroda, Michael; Zrenner, Rita; Tohge, Takayuki; Fernie, Alisdair R; Stitt, Mark; Usadel, Björn

    2014-05-01

    Next-generation technologies generate an overwhelming amount of gene sequence data. Efficient annotation tools are required to make these data amenable to functional genomics analyses. The Mercator pipeline automatically assigns functional terms to protein or nucleotide sequences. It uses the MapMan 'BIN' ontology, which is tailored for functional annotation of plant 'omics' data. The classification procedure performs parallel sequence searches against reference databases, compiles the results and computes the most likely MapMan BINs for each query. In the current version, the pipeline relies on manually curated reference classifications originating from the three reference organisms (Arabidopsis, Chlamydomonas, rice), various other plant species that have a reviewed SwissProt annotation, and more than 2000 protein domain and family profiles at InterPro, CDD and KOG. Functional annotations predicted by Mercator achieve accuracies above 90% when benchmarked against manual annotation. In addition to mapping files for direct use in the visualization software MapMan, Mercator provides graphical overview charts, detailed annotation information in a convenient web browser interface and a MapMan-to-GO translation table to export results as GO terms. Mercator is available free of charge via http://mapman.gabipd.org/web/guest/app/Mercator.

  17. Collaborative annotation of 3D crystallographic models.

    Science.gov (United States)

    Hunter, J; Henderson, M; Khan, I

    2007-01-01

    This paper describes the AnnoCryst system-a tool that was designed to enable authenticated collaborators to share online discussions about 3D crystallographic structures through the asynchronous attachment, storage, and retrieval of annotations. Annotations are personal comments, interpretations, questions, assessments, or references that can be attached to files, data, digital objects, or Web pages. The AnnoCryst system enables annotations to be attached to 3D crystallographic models retrieved from either private local repositories (e.g., Fedora) or public online databases (e.g., Protein Data Bank or Inorganic Crystal Structure Database) via a Web browser. The system uses the Jmol plugin for viewing and manipulating the 3D crystal structures but extends Jmol by providing an additional interface through which annotations can be created, attached, stored, searched, browsed, and retrieved. The annotations are stored on a standardized Web annotation server (Annotea), which has been extended to support 3D macromolecular structures. Finally, the system is embedded within a security framework that is capable of authenticating users and restricting access only to trusted colleagues.

  18. Experts in science and society

    CERN Document Server

    Gigerenzer, Gerd

    2004-01-01

    In today's complex world, we have come to rely increasingly on those who have expertise in specific areas and can bring their knowledge to bear on crucial social, political and scientific questions. Taking the viewpoint that experts are consulted when there is something important at stake for an individual, a group, or society at large, Experts in Science and Society explores expertise as a relational concept. How do experts balance their commitment to science with that to society? How does a society actually determine that a person has expertise? What personal traits are valued in an expert? From where does the expert derive authority? What makes new forms of expertise emerge? These and related questions are addressed from a wide range of areas in order to be inclusive, as well as to demonstrate similarities across areas. Likewise, in order to be culturally comparative, this volume includes examples and discussions of experts in different countries and even in different time periods. The topics include the r...

  19. Discovering gene annotations in biomedical text databases

    Directory of Open Access Journals (Sweden)

    Ozsoyoglu Gultekin

    2008-03-01

    Full Text Available Abstract Background Genes and gene products are frequently annotated with Gene Ontology concepts based on the evidence provided in genomics articles. Manually locating and curating information about a genomic entity from the biomedical literature requires vast amounts of human effort. Hence, there is clearly a need forautomated computational tools to annotate the genes and gene products with Gene Ontology concepts by computationally capturing the related knowledge embedded in textual data. Results In this article, we present an automated genomic entity annotation system, GEANN, which extracts information about the characteristics of genes and gene products in article abstracts from PubMed, and translates the discoveredknowledge into Gene Ontology (GO concepts, a widely-used standardized vocabulary of genomic traits. GEANN utilizes textual "extraction patterns", and a semantic matching framework to locate phrases matching to a pattern and produce Gene Ontology annotations for genes and gene products. In our experiments, GEANN has reached to the precision level of 78% at therecall level of 61%. On a select set of Gene Ontology concepts, GEANN either outperforms or is comparable to two other automated annotation studies. Use of WordNet for semantic pattern matching improves the precision and recall by 24% and 15%, respectively, and the improvement due to semantic pattern matching becomes more apparent as the Gene Ontology terms become more general. Conclusion GEANN is useful for two distinct purposes: (i automating the annotation of genomic entities with Gene Ontology concepts, and (ii providing existing annotations with additional "evidence articles" from the literature. The use of textual extraction patterns that are constructed based on the existing annotations achieve high precision. The semantic pattern matching framework provides a more flexible pattern matching scheme with respect to "exactmatching" with the advantage of locating approximate

  20. Unsaturated Zone Flow Model Expert Elicitation Project

    Energy Technology Data Exchange (ETDEWEB)

    Coppersmith, K. J.

    1997-05-30

    This report presents results of the Unsaturated Zone Flow Model Expert Elicitation (UZFMEE) project at Yucca Mountain, Nevada. This project was sponsored by the US Department of Energy (DOE) and managed by Geomatrix Consultants, Inc. (Geomatrix), for TRW Environmental Safety Systems, Inc. The objective of this project was to identify and assess the uncertainties associated with certain key components of the unsaturated zone flow system at Yucca Mountain. This assessment reviewed the data inputs, modeling approaches, and results of the unsaturated zone flow model (termed the ''UZ site-scale model'') being developed by Lawrence Berkeley National Laboratory (LBNL) and the US Geological Survey (USGS). In addition to data input and modeling issues, the assessment focused on percolation flux (volumetric flow rate per unit cross-sectional area) at the potential repository horizon. An understanding of unsaturated zone processes is critical to evaluating the performance of the potential high-level nuclear waste repository at Yucca Mountain. A major goal of the project was to capture the uncertainties involved in assessing the unsaturated flow processes, including uncertainty in both the models used to represent physical controls on unsaturated zone flow and the parameter values used in the models. To ensure that the analysis included a wide range of perspectives, multiple individual judgments were elicited from members of an expert panel. The panel members, who were experts from within and outside the Yucca Mountain project, represented a range of experience and expertise. A deliberate process was followed in facilitating interactions among the experts, in training them to express their uncertainties, and in eliciting their interpretations. The resulting assessments and probability distributions, therefore, provide a reasonable aggregate representation of the knowledge and uncertainties about key issues regarding the unsaturated zone at the Yucca

  1. GO annotation in InterPro: why stability does not indicate accuracy in a sea of changing annotations.

    Science.gov (United States)

    Sangrador-Vegas, Amaia; Mitchell, Alex L; Chang, Hsin-Yu; Yong, Siew-Yit; Finn, Robert D

    2016-01-01

    The removal of annotation from biological databases is often perceived as an indicator of erroneous annotation. As a corollary, annotation stability is considered to be a measure of reliability. However, diverse data-driven events can affect the stability of annotations in both primary protein sequence databases and the protein family databases that are built upon the sequence databases and used to help annotate them. Here, we describe some of these events and their consequences for the InterPro database, and demonstrate that annotation removal or reassignment is not always linked to incorrect annotation by the curator. Database URL: http://www.ebi.ac.uk/interpro.

  2. Prototype of annotation tools for microscopic digital images on Android devices

    Science.gov (United States)

    Muhimmah, I.; Nugraha, D. DC

    2016-01-01

    Reading a slide under a microscope manually is very complicated. An expert may spend 3-4 hours to read a single slide. Moreover, the intra- and inter-observer variability is known to be high. This prototype was developed to simplify the slide-reading process on Android devices in order to accelerate the reading process and generate more accurate information.The prototype allows users to annotate the boundaries of an object. Moreover, the proposed prototype has successfully reconstructed multiple object boundaries into simple closed curves from a limited amount of user input.Thecoordinates of the annotated objects are stored in a text file (*.txt) that can be usedfor further analysis.The prototype's performance with respect to time and memory usage are included.

  3. Heart Beat Detection in Noisy ECG Signals Using Statistical Analysis of the Automatically Detected Annotations

    Directory of Open Access Journals (Sweden)

    Andrius Gudiškis

    2015-07-01

    Full Text Available This paper proposes an algorithm to reduce the noise distortion influence in heartbeat annotation detection in electrocardiogram (ECG signals. Boundary estimation module is based on energy detector. Heartbeat detection is usually performed by QRS detectors that are able to find QRS regions in a ECG signal that are a direct representation of a heartbeat. However, QRS performs as intended only in cases where ECG signals have high signal to noise ratio, when there are more noticeable signal distortion detectors accuracy decreases. Proposed algorithm uses additional data, taken from arterial blood pressure signal which was recorded in parallel to ECG signal, and uses it to support the QRS detection process in distorted signal areas. Proposed algorithm performs as well as classical QRS detectors in cases where signal to noise ratio is high, compared to the heartbeat annotations provided by experts. In signals with considerably lower signal to noise ratio proposed algorithm improved the detection accuracy to up to 6%.

  4. Aesthetic Responses Made Visible Through Voices of Experts

    Directory of Open Access Journals (Sweden)

    Anna Kholina

    2016-01-01

    Full Text Available Professional expertise used to play an important role in the field of environmental aesthetics: expert judgements of landscapes and urban scenes were driving forces behind the decision-making process for urban planners. Today however, research in this area is dominated by studies of public opinion and statistical analysis of anonymous data. This article examines the development of professional expertise in environmental aesthetics and proposes to rethink the role of experts and their contribution to the field by addressing tacit processes behind their judgements. Following an interdisciplinary literature review, an approach that relies on active engagement and reflection-on-action is presented. The application of the approach is studied in two empirical cases, demonstrating the possibility of generating insights into the nature of aesthetic experience. The article suggests reconsidering and widening the profile of the expert in environmental aesthetics to blur the divide between experts and lay public as well as between the users and producers of knowledge.

  5. Semi-Semantic Annotation: A guideline for the URDU.KON-TB treebank POS annotation

    Directory of Open Access Journals (Sweden)

    Qaiser ABBAS

    2016-12-01

    Full Text Available This work elaborates the semi-semantic part of speech annotation guidelines for the URDU.KON-TB treebank: an annotated corpus. A hierarchical annotation scheme was designed to label the part of speech and then applied on the corpus. This raw corpus was collected from the Urdu Wikipedia and the Jang newspaper and then annotated with the proposed semi-semantic part of speech labels. The corpus contains text of local & international news, social stories, sports, culture, finance, religion, traveling, etc. This exercise finally contributed a part of speech annotation to the URDU.KON-TB treebank. Twenty-two main part of speech categories are divided into subcategories, which conclude the morphological, and semantical information encoded in it. This article reports the annotation guidelines in major; however, it also briefs the development of the URDU.KON-TB treebank, which includes the raw corpus collection, designing & employment of annotation scheme and finally, its statistical evaluation and results. The guidelines presented as follows, will be useful for linguistic community to annotate the sentences not only for the national language Urdu but for the other indigenous languages like Punjab, Sindhi, Pashto, etc., as well.

  6. MixtureTree annotator: a program for automatic colorization and visual annotation of MixtureTree.

    Directory of Open Access Journals (Sweden)

    Shu-Chuan Chen

    Full Text Available The MixtureTree Annotator, written in JAVA, allows the user to automatically color any phylogenetic tree in Newick format generated from any phylogeny reconstruction program and output the Nexus file. By providing the ability to automatically color the tree by sequence name, the MixtureTree Annotator provides a unique advantage over any other programs which perform a similar function. In addition, the MixtureTree Annotator is the only package that can efficiently annotate the output produced by MixtureTree with mutation information and coalescent time information. In order to visualize the resulting output file, a modified version of FigTree is used. Certain popular methods, which lack good built-in visualization tools, for example, MEGA, Mesquite, PHY-FI, TreeView, treeGraph and Geneious, may give results with human errors due to either manually adding colors to each node or with other limitations, for example only using color based on a number, such as branch length, or by taxonomy. In addition to allowing the user to automatically color any given Newick tree by sequence name, the MixtureTree Annotator is the only method that allows the user to automatically annotate the resulting tree created by the MixtureTree program. The MixtureTree Annotator is fast and easy-to-use, while still allowing the user full control over the coloring and annotating process.

  7. MixtureTree annotator: a program for automatic colorization and visual annotation of MixtureTree.

    Science.gov (United States)

    Chen, Shu-Chuan; Ogata, Aaron

    2015-01-01

    The MixtureTree Annotator, written in JAVA, allows the user to automatically color any phylogenetic tree in Newick format generated from any phylogeny reconstruction program and output the Nexus file. By providing the ability to automatically color the tree by sequence name, the MixtureTree Annotator provides a unique advantage over any other programs which perform a similar function. In addition, the MixtureTree Annotator is the only package that can efficiently annotate the output produced by MixtureTree with mutation information and coalescent time information. In order to visualize the resulting output file, a modified version of FigTree is used. Certain popular methods, which lack good built-in visualization tools, for example, MEGA, Mesquite, PHY-FI, TreeView, treeGraph and Geneious, may give results with human errors due to either manually adding colors to each node or with other limitations, for example only using color based on a number, such as branch length, or by taxonomy. In addition to allowing the user to automatically color any given Newick tree by sequence name, the MixtureTree Annotator is the only method that allows the user to automatically annotate the resulting tree created by the MixtureTree program. The MixtureTree Annotator is fast and easy-to-use, while still allowing the user full control over the coloring and annotating process.

  8. Expert system application education project

    Science.gov (United States)

    Gonzelez, Avelino J.; Ragusa, James M.

    1988-01-01

    Artificial intelligence (AI) technology, and in particular expert systems, has shown potential applicability in many areas of operation at the Kennedy Space Center (KSC). In an era of limited resources, the early identification of good expert system applications, and their segregation from inappropriate ones can result in a more efficient use of available NASA resources. On the other hand, the education of students in a highly technical area such as AI requires an extensive hands-on effort. The nature of expert systems is such that proper sample applications for the educational process are difficult to find. A pilot project between NASA-KSC and the University of Central Florida which was designed to simultaneously address the needs of both institutions at a minimum cost. This project, referred to as Expert Systems Prototype Training Project (ESPTP), provided NASA with relatively inexpensive development of initial prototype versions of certain applications. University students likewise benefit by having expertise on a non-trivial problem accessible to them at no cost. Such expertise is indispensible in a hands-on training approach to developing expert systems.

  9. Genome Annotation Transfer Utility (GATU: rapid annotation of viral genomes using a closely related reference genome

    Directory of Open Access Journals (Sweden)

    Upton Chris

    2006-06-01

    Full Text Available Abstract Background Since DNA sequencing has become easier and cheaper, an increasing number of closely related viral genomes have been sequenced. However, many of these have been deposited in GenBank without annotations, severely limiting their value to researchers. While maintaining comprehensive genomic databases for a set of virus families at the Viral Bioinformatics Resource Center http://www.biovirus.org and Viral Bioinformatics – Canada http://www.virology.ca, we found that researchers were unnecessarily spending time annotating viral genomes that were close relatives of already annotated viruses. We have therefore designed and implemented a novel tool, Genome Annotation Transfer Utility (GATU, to transfer annotations from a previously annotated reference genome to a new target genome, thereby greatly reducing this laborious task. Results GATU transfers annotations from a reference genome to a closely related target genome, while still giving the user final control over which annotations should be included. GATU also detects open reading frames present in the target but not the reference genome and provides the user with a variety of bioinformatics tools to quickly determine if these ORFs should also be included in the annotation. After this process is complete, GATU saves the newly annotated genome as a GenBank, EMBL or XML-format file. The software is coded in Java and runs on a variety of computer platforms. Its user-friendly Graphical User Interface is specifically designed for users trained in the biological sciences. Conclusion GATU greatly simplifies the initial stages of genome annotation by using a closely related genome as a reference. It is not intended to be a gene prediction tool or a "complete" annotation system, but we have found that it significantly reduces the time required for annotation of genes and mature peptides as well as helping to standardize gene names between related organisms by transferring reference genome

  10. Automated analysis and annotation of basketball video

    Science.gov (United States)

    Saur, Drew D.; Tan, Yap-Peng; Kulkarni, Sanjeev R.; Ramadge, Peter J.

    1997-01-01

    Automated analysis and annotation of video sequences are important for digital video libraries, content-based video browsing and data mining projects. A successful video annotation system should provide users with useful video content summary in a reasonable processing time. Given the wide variety of video genres available today, automatically extracting meaningful video content for annotation still remains hard by using current available techniques. However, a wide range video has inherent structure such that some prior knowledge about the video content can be exploited to improve our understanding of the high-level video semantic content. In this paper, we develop tools and techniques for analyzing structured video by using the low-level information available directly from MPEG compressed video. Being able to work directly in the video compressed domain can greatly reduce the processing time and enhance storage efficiency. As a testbed, we have developed a basketball annotation system which combines the low-level information extracted from MPEG stream with the prior knowledge of basketball video structure to provide high level content analysis, annotation and browsing for events such as wide- angle and close-up views, fast breaks, steals, potential shots, number of possessions and possession times. We expect our approach can also be extended to structured video in other domains.

  11. Expert witness and Jungian archetypes.

    Science.gov (United States)

    Lallave, Juan Antonio; Gutheil, Thomas Gordon

    2012-01-01

    Jung's theories of archetype, shadow, and the personal and collective unconscious provide a postmodern framework in which to consider the role of the expert witness in judicial proceedings. Archetypal themes, motifs, and influences help to illuminate the shadow of the judicial system and projections and behaviors among the cast of the court in pursuing justice. This article speaks to archetypal influences and dialectical tensions encountered by the expert witness in this judicial drama. The archetype of Justice is born from the human need for order and relational fairness in a world of chaos. The persona of justice is the promise of truth in the drama. The shadow of justice is untruth, the need to win by any means. The dynamics of the trickster archetype serve and promote injustice. These influences are examined by means of a case example. This approach will deepen understanding of court proceedings and the role of the expert witness in the heroic quest for justice.

  12. Quantifying Variability of Manual Annotation in Cryo-Electron Tomograms.

    Science.gov (United States)

    Hecksel, Corey W; Darrow, Michele C; Dai, Wei; Galaz-Montoya, Jesús G; Chin, Jessica A; Mitchell, Patrick G; Chen, Shurui; Jakana, Jemba; Schmid, Michael F; Chiu, Wah

    2016-06-01

    Although acknowledged to be variable and subjective, manual annotation of cryo-electron tomography data is commonly used to answer structural questions and to create a "ground truth" for evaluation of automated segmentation algorithms. Validation of such annotation is lacking, but is critical for understanding the reproducibility of manual annotations. Here, we used voxel-based similarity scores for a variety of specimens, ranging in complexity and segmented by several annotators, to quantify the variation among their annotations. In addition, we have identified procedures for merging annotations to reduce variability, thereby increasing the reliability of manual annotation. Based on our analyses, we find that it is necessary to combine multiple manual annotations to increase the confidence level for answering structural questions. We also make recommendations to guide algorithm development for automated annotation of features of interest.

  13. Using Multimedia Vocabulary Annotations in L2 Reading and Listening Activities

    Science.gov (United States)

    Jing Xu

    2010-01-01

    This paper reviews the role of multimedia vocabulary annotation (MVA) in facilitating second language (L2) reading and listening activities. It examines the multimedia learning and multimedia language learning theories that underlie the MVA research, synthesizes the findings on MVA in the last decade, and identifies three underresearched areas on…

  14. Policies and Background Literature for Self-Education on Research Data Management: An Annotated Bibliography

    Science.gov (United States)

    Goben, Abigail; Raszewski, Rebecca

    2015-01-01

    Librarians navigating research data management self-education have an increasing body of literature to choose from, which may become overwhelming. This annotated bibliography reviews: (1) U.S. federal policies; (2) articles; and (3) books to assist librarians who are self-educating on research data management or are seeking background reading…

  15. Information Hiding: an Annotated Bibliography

    Science.gov (United States)

    1999-04-13

    steganography , copyright marking, the study of covert channels in operating systems, low- probability-of-intercept communications, and the study of subliminal... steganography /bibliography/ Contents 1 New 2 2 General background 12 3 Subliminal channels 15 4 Techniques for data hiding 19 4.1 Review papers...20 4.3 Information hiding into text . . . . . . . . . . . . . . . . . . . . . . . . . . 26 4.4 Information hiding into audio

  16. Corpus annotation for mining biomedical events from literature

    Directory of Open Access Journals (Sweden)

    Tsujii Jun'ichi

    2008-01-01

    Full Text Available Abstract Background Advanced Text Mining (TM such as semantic enrichment of papers, event or relation extraction, and intelligent Question Answering have increasingly attracted attention in the bio-medical domain. For such attempts to succeed, text annotation from the biological point of view is indispensable. However, due to the complexity of the task, semantic annotation has never been tried on a large scale, apart from relatively simple term annotation. Results We have completed a new type of semantic annotation, event annotation, which is an addition to the existing annotations in the GENIA corpus. The corpus has already been annotated with POS (Parts of Speech, syntactic trees, terms, etc. The new annotation was made on half of the GENIA corpus, consisting of 1,000 Medline abstracts. It contains 9,372 sentences in which 36,114 events are identified. The major challenges during event annotation were (1 to design a scheme of annotation which meets specific requirements of text annotation, (2 to achieve biology-oriented annotation which reflect biologists' interpretation of text, and (3 to ensure the homogeneity of annotation quality across annotators. To meet these challenges, we introduced new concepts such as Single-facet Annotation and Semantic Typing, which have collectively contributed to successful completion of a large scale annotation. Conclusion The resulting event-annotated corpus is the largest and one of the best in quality among similar annotation efforts. We expect it to become a valuable resource for NLP (Natural Language Processing-based TM in the bio-medical domain.

  17. Critical Assessment of Function Annotation Meeting, 2011

    Energy Technology Data Exchange (ETDEWEB)

    Friedberg, Iddo

    2015-01-21

    The Critical Assessment of Function Annotation meeting was held July 14-15, 2011 at the Austria Conference Center in Vienna, Austria. There were 73 registered delegates at the meeting. We thank the DOE for this award. It helped us organize and support a scientific meeting AFP 2011 as a special interest group (SIG) meeting associated with the ISMB 2011 conference. The conference was held in Vienna, Austria, in July 2011. The AFP SIG was held on July 15-16, 2011 (immediately preceding the conference). The meeting consisted of two components, the first being a series of talks (invited and contributed) and discussion sections dedicated to protein function research, with an emphasis on the theory and practice of computational methods utilized in functional annotation. The second component provided a large-scale assessment of computational methods through participation in the Critical Assessment of Functional Annotation (CAFA).

  18. I2Cnet medical image annotation service.

    Science.gov (United States)

    Chronaki, C E; Zabulis, X; Orphanoudakis, S C

    1997-01-01

    I2Cnet (Image Indexing by Content network) aims to provide services related to the content-based management of images in healthcare over the World-Wide Web. Each I2Cnet server maintains an autonomous repository of medical images and related information. The annotation service of I2Cnet allows specialists to interact with the contents of the repository, adding comments or illustrations to medical images of interest. I2Cnet annotations may be communicated to other users via e-mail or posted to I2Cnet for inclusion in its local repositories. This paper discusses the annotation service of I2Cnet and argues that such services pave the way towards the evolution of active digital medical image libraries.

  19. Annotating images by mining image search results.

    Science.gov (United States)

    Wang, Xin-Jing; Zhang, Lei; Li, Xirong; Ma, Wei-Ying

    2008-11-01

    Although it has been studied for years by the computer vision and machine learning communities, image annotation is still far from practical. In this paper, we propose a novel attempt at model-free image annotation, which is a data-driven approach that annotates images by mining their search results. Some 2.4 million images with their surrounding text are collected from a few photo forums to support this approach. The entire process is formulated in a divide-and-conquer framework where a query keyword is provided along with the uncaptioned image to improve both the effectiveness and efficiency. This is helpful when the collected data set is not dense everywhere. In this sense, our approach contains three steps: 1) the search process to discover visually and semantically similar search results, 2) the mining process to identify salient terms from textual descriptions of the search results, and 3) the annotation rejection process to filter out noisy terms yielded by Step 2. To ensure real-time annotation, two key techniques are leveraged-one is to map the high-dimensional image visual features into hash codes, the other is to implement it as a distributed system, of which the search and mining processes are provided as Web services. As a typical result, the entire process finishes in less than 1 second. Since no training data set is required, our approach enables annotating with unlimited vocabulary and is highly scalable and robust to outliers. Experimental results on both real Web images and a benchmark image data set show the effectiveness and efficiency of the proposed algorithm. It is also worth noting that, although the entire approach is illustrated within the divide-and conquer framework, a query keyword is not crucial to our current implementation. We provide experimental results to prove this.

  20. Software for computing and annotating genomic ranges.

    Directory of Open Access Journals (Sweden)

    Michael Lawrence

    Full Text Available We describe Bioconductor infrastructure for representing and computing on annotated genomic ranges and integrating genomic data with the statistical computing features of R and its extensions. At the core of the infrastructure are three packages: IRanges, GenomicRanges, and GenomicFeatures. These packages provide scalable data structures for representing annotated ranges on the genome, with special support for transcript structures, read alignments and coverage vectors. Computational facilities include efficient algorithms for overlap and nearest neighbor detection, coverage calculation and other range operations. This infrastructure directly supports more than 80 other Bioconductor packages, including those for sequence analysis, differential expression analysis and visualization.

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

    Science.gov (United States)

    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.

  2. QUEST: Quality of Expert Systems

    NARCIS (Netherlands)

    Perre, M.

    1991-01-01

    TNO Physics and Electronics laboratory, in collaboration with the University of Limburg and the Research Institute for Knowledge Systems, worked on a technology project named 'QUEST: Quality of Expert Systems' [FEL90]. QUEST was carried out under commision of the Dutch Ministry of Defence. A strong

  3. Solar Tutorial and Annotation Resource (STAR)

    Science.gov (United States)

    Showalter, C.; Rex, R.; Hurlburt, N. E.; Zita, E. J.

    2009-12-01

    We have written a software suite designed to facilitate solar data analysis by scientists, students, and the public, anticipating enormous datasets from future instruments. Our “STAR" suite includes an interactive learning section explaining 15 classes of solar events. Users learn software tools that exploit humans’ superior ability (over computers) to identify many events. Annotation tools include time slice generation to quantify loop oscillations, the interpolation of event shapes using natural cubic splines (for loops, sigmoids, and filaments) and closed cubic splines (for coronal holes). Learning these tools in an environment where examples are provided prepares new users to comfortably utilize annotation software with new data. Upon completion of our tutorial, users are presented with media of various solar events and asked to identify and annotate the images, to test their mastery of the system. Goals of the project include public input into the data analysis of very large datasets from future solar satellites, and increased public interest and knowledge about the Sun. In 2010, the Solar Dynamics Observatory (SDO) will be launched into orbit. SDO’s advancements in solar telescope technology will generate a terabyte per day of high-quality data, requiring innovation in data management. While major projects develop automated feature recognition software, so that computers can complete much of the initial event tagging and analysis, still, that software cannot annotate features such as sigmoids, coronal magnetic loops, coronal dimming, etc., due to large amounts of data concentrated in relatively small areas. Previously, solar physicists manually annotated these features, but with the imminent influx of data it is unrealistic to expect specialized researchers to examine every image that computers cannot fully process. A new approach is needed to efficiently process these data. Providing analysis tools and data access to students and the public have proven

  4. Ranking Biomedical Annotations with Annotator’s Semantic Relevancy

    Directory of Open Access Journals (Sweden)

    Aihua Wu

    2014-01-01

    Full Text Available Biomedical annotation is a common and affective artifact for researchers to discuss, show opinion, and share discoveries. It becomes increasing popular in many online research communities, and implies much useful information. Ranking biomedical annotations is a critical problem for data user to efficiently get information. As the annotator’s knowledge about the annotated entity normally determines quality of the annotations, we evaluate the knowledge, that is, semantic relationship between them, in two ways. The first is extracting relational information from credible websites by mining association rules between an annotator and a biomedical entity. The second way is frequent pattern mining from historical annotations, which reveals common features of biomedical entities that an annotator can annotate with high quality. We propose a weighted and concept-extended RDF model to represent an annotator, a biomedical entity, and their background attributes and merge information from the two ways as the context of an annotator. Based on that, we present a method to rank the annotations by evaluating their correctness according to user’s vote and the semantic relevancy between the annotator and the annotated entity. The experimental results show that the approach is applicable and efficient even when data set is large.

  5. Professional Education in Expert Search: A Content Model

    Science.gov (United States)

    Smith, Catherine L.; Roseberry, Martha I.

    2013-01-01

    This paper presents a descriptive model of the subject matter taught in courses on expert search in ALA-accredited programs, answering the question: What is taught in formal professional education on search expertise? The model emerged from a grounded content analysis of 44 course descriptions and 16 syllabi, and was validated via a review of…

  6. "Annotated Lectures": Student-Instructor Interaction in Large-Scale Global Education

    Directory of Open Access Journals (Sweden)

    Béatrice S. Hasler

    2009-10-01

    Full Text Available We describe an "Annotated Lectures" system, which will be used in a global virtual teaching and student collaboration event on embodied intelligence presented by the University of Zurich. The lectures will be broadcasted via video-conference to lecture halls of different universities around the globe. Among other collaboration features, an "Annotated Lectures" system will be implemented in a 3D collaborative virtual environment and used by the participating students to make annotations to the video-recorded lectures, which will be sent to and answered by their supervisors, and forwarded to the lecturers in an aggregated way. The "Annotated Lectures" system aims to overcome the issues of limited studentinstructor interaction in large-scale education, and to foster an intercultural and multidisciplinary discourse among students who review the lectures in a group. After presenting the concept of the "Annotated Lectures" system, we discuss a prototype version including a description of the technical components and its expected benefit for large-scale global education.

  7. Making a team of experts into an expert team.

    Science.gov (United States)

    Charney, Carol

    2011-10-01

    Health care has traditionally been delivered primarily by experts working individually in a decentralized system lacking cohesive organization among professional disciplines. Only recently have the advantages of teamwork training been acknowledged in health care. This article explores the history, benefits, and recommendations for team training in neonatal care. TeamSTEPPS (Rockville, MD) and the revised Neonatal Resuscitation Program are cited as promising models for improved neonatal outcomes through professional teamwork.

  8. Annotated Bibliography of EDGE2D Use

    Energy Technology Data Exchange (ETDEWEB)

    J.D. Strachan and G. Corrigan

    2005-06-24

    This annotated bibliography is intended to help EDGE2D users, and particularly new users, find existing published literature that has used EDGE2D. Our idea is that a person can find existing studies which may relate to his intended use, as well as gain ideas about other possible applications by scanning the attached tables.

  9. Nutrition & Adolescent Pregnancy: A Selected Annotated Bibliography.

    Science.gov (United States)

    National Agricultural Library (USDA), Washington, DC.

    This annotated bibliography on nutrition and adolescent pregnancy is intended to be a source of technical assistance for nurses, nutritionists, physicians, educators, social workers, and other personnel concerned with improving the health of teenage mothers and their babies. It is divided into two major sections. The first section lists selected…

  10. Structuring and presenting annotated media repositories

    NARCIS (Netherlands)

    Rutledge, L.; Ossenbruggen, J.R. van; Hardman, L.

    2004-01-01

    The Semantic Web envisions a Web that is both human readable and machine processible. In practice, however, there is still a large conceptual gap between annotated content repositories on the one hand, and coherent, human readable Web pages on the other. To bridge this conceptual gap, one needs to s

  11. An Annotated Bibliography in Financial Therapy

    Directory of Open Access Journals (Sweden)

    Dorothy B. Durband

    2010-10-01

    Full Text Available The following annotated bibliography contains a summary of articles and websites, as well as a list of books related to financial therapy. The resources were compiled through e-mail solicitation from members of the Financial Therapy Forum in November 2008. Members of the forum are marked with an asterisk.

  12. Skin Cancer Education Materials: Selected Annotations.

    Science.gov (United States)

    National Cancer Inst. (NIH), Bethesda, MD.

    This annotated bibliography presents 85 entries on a variety of approaches to cancer education. The entries are grouped under three broad headings, two of which contain smaller sub-divisions. The first heading, Public Education, contains prevention and general information, and non-print materials. The second heading, Professional Education,…

  13. Learning to search for images without annotations

    NARCIS (Netherlands)

    Kordumova, S.

    2016-01-01

    Humans are adjusted to the environment and can easily recognize what they see around them or in images. Machines, however, cannot recognize images unless trained to do so. The usual approach is to annotate images with what they capture and train a machine learning algorithm. This thesis focuses on a

  14. Small Group Communication: An Annotated Bibliography.

    Science.gov (United States)

    Gouran, Dennis S.; Guadagnino, Christopher S.

    This annotated bibliography includes sources of information that are primarily concerned with problem solving, decision making, and processes of social influence in small groups, and secondarily deal with other aspects of communication and interaction in groups, such as conflict management and negotiation. The 57 entries, all dating from 1980…

  15. Political Campaign Debating: A Selected, Annotated Bibliography.

    Science.gov (United States)

    Ritter, Kurt; Hellweg, Susan A.

    Noting that television debates have become a regular feature of the media politics by which candidates seek office, this annotated bibliography is particularly intended to assist teachers and researchers of debate, argumentation, and political communication. The 40 citations are limited to the television era of American politics and categorized as…

  16. A Partially Annotated Political Communication Bibliography.

    Science.gov (United States)

    Thornton, Barbara C.

    This 63-page annotated bibliography contains available materials in the area of political communication, a relatively new field of political science. Political communication includes facets of the election process and interaction between political parties and the voter. A variety of materials dating from 1960 to 1972 include books, pamphlets,…

  17. Automating Ontological Annotation with WordNet

    Energy Technology Data Exchange (ETDEWEB)

    Sanfilippo, Antonio P.; Tratz, Stephen C.; Gregory, Michelle L.; Chappell, Alan R.; Whitney, Paul D.; Posse, Christian; Paulson, Patrick R.; Baddeley, Bob L.; Hohimer, Ryan E.; White, Amanda M.

    2006-01-22

    Semantic Web applications require robust and accurate annotation tools that are capable of automating the assignment of ontological classes to words in naturally occurring text (ontological annotation). Most current ontologies do not include rich lexical databases and are therefore not easily integrated with word sense disambiguation algorithms that are needed to automate ontological annotation. WordNet provides a potentially ideal solution to this problem as it offers a highly structured lexical conceptual representation that has been extensively used to develop word sense disambiguation algorithms. However, WordNet has not been designed as an ontology, and while it can be easily turned into one, the result of doing this would present users with serious practical limitations due to the great number of concepts (synonym sets) it contains. Moreover, mapping WordNet to an existing ontology may be difficult and requires substantial labor. We propose to overcome these limitations by developing an analytical platform that (1) provides a WordNet-based ontology offering a manageable and yet comprehensive set of concept classes, (2) leverages the lexical richness of WordNet to give an extensive characterization of concept class in terms of lexical instances, and (3) integrates a class recognition algorithm that automates the assignment of concept classes to words in naturally occurring text. The ensuing framework makes available an ontological annotation platform that can be effectively integrated with intelligence analysis systems to facilitate evidence marshaling and sustain the creation and validation of inference models.

  18. Ontological Annotation with WordNet

    Energy Technology Data Exchange (ETDEWEB)

    Sanfilippo, Antonio P.; Tratz, Stephen C.; Gregory, Michelle L.; Chappell, Alan R.; Whitney, Paul D.; Posse, Christian; Paulson, Patrick R.; Baddeley, Bob; Hohimer, Ryan E.; White, Amanda M.

    2006-06-06

    Semantic Web applications require robust and accurate annotation tools that are capable of automating the assignment of ontological classes to words in naturally occurring text (ontological annotation). Most current ontologies do not include rich lexical databases and are therefore not easily integrated with word sense disambiguation algorithms that are needed to automate ontological annotation. WordNet provides a potentially ideal solution to this problem as it offers a highly structured lexical conceptual representation that has been extensively used to develop word sense disambiguation algorithms. However, WordNet has not been designed as an ontology, and while it can be easily turned into one, the result of doing this would present users with serious practical limitations due to the great number of concepts (synonym sets) it contains. Moreover, mapping WordNet to an existing ontology may be difficult and requires substantial labor. We propose to overcome these limitations by developing an analytical platform that (1) provides a WordNet-based ontology offering a manageable and yet comprehensive set of concept classes, (2) leverages the lexical richness of WordNet to give an extensive characterization of concept class in terms of lexical instances, and (3) integrates a class recognition algorithm that automates the assignment of concept classes to words in naturally occurring text. The ensuing framework makes available an ontological annotation platform that can be effectively integrated with intelligence analysis systems to facilitate evidence marshaling and sustain the creation and validation of inference models.

  19. College Students in Transition: An Annotated Bibliography

    Science.gov (United States)

    Foote, Stephanie M., Ed.; Hinkle, Sara M., Ed.; Kranzow, Jeannine, Ed.; Pistilli, Matthew D., Ed.; Miles, LaTonya Rease, Ed.; Simmons, Jannell G., Ed.

    2013-01-01

    The transition from high school to college is an important milestone, but it is only one of many steps in the journey through higher education. This volume is an annotated bibliography of the emerging literature examining the many other transitions students make beyond the first year, including the sophomore year, the transfer experience, and the…

  20. Greeks in Canada (an Annotated Bibliography).

    Science.gov (United States)

    Bombas, Leonidas C.

    This bibliography on Greeks in Canada includes annotated references to both published and (mostly) unpublished works. Among the 70 entries (arranged in alphabetical order by author) are articles, reports, papers, and theses that deal either exclusively with or include a separate section on Greeks in the various Canadian provinces. (GC)

  1. Reflective Annotations: On Becoming a Scholar

    Science.gov (United States)

    Alexander, Mark; Taylor, Caroline; Greenberger, Scott; Watts, Margie; Balch, Riann

    2012-01-01

    This article presents the authors' reflective annotations on becoming a scholar. This paper begins with a discussion on socialization for teaching, followed by a discussion on socialization for service and sense of belonging. Then, it describes how the doctoral process evolves. Finally, it talks about adult learners who pursue doctoral education.

  2. SNAD: sequence name annotation-based designer

    Directory of Open Access Journals (Sweden)

    Gorbalenya Alexander E

    2009-08-01

    Full Text Available Abstract Background A growing diversity of biological data is tagged with unique identifiers (UIDs associated with polynucleotides and proteins to ensure efficient computer-mediated data storage, maintenance, and processing. These identifiers, which are not informative for most people, are often substituted by biologically meaningful names in various presentations to facilitate utilization and dissemination of sequence-based knowledge. This substitution is commonly done manually that may be a tedious exercise prone to mistakes and omissions. Results Here we introduce SNAD (Sequence Name Annotation-based Designer that mediates automatic conversion of sequence UIDs (associated with multiple alignment or phylogenetic tree, or supplied as plain text list into biologically meaningful names and acronyms. This conversion is directed by precompiled or user-defined templates that exploit wealth of annotation available in cognate entries of external databases. Using examples, we demonstrate how this tool can be used to generate names for practical purposes, particularly in virology. Conclusion A tool for controllable annotation-based conversion of sequence UIDs into biologically meaningful names and acronyms has been developed and placed into service, fostering links between quality of sequence annotation, and efficiency of communication and knowledge dissemination among researchers.

  3. La Mujer Chicana: An Annotated Bibliography, 1976.

    Science.gov (United States)

    Chapa, Evey, Ed.; And Others

    Intended to provide interested persons, researchers, and educators with information about "la mujer Chicana", this annotated bibliography cites 320 materials published between 1916 and 1975, with the majority being between 1960 and 1975. The 12 sections cover the following subject areas: Chicana publications; Chicana feminism and…

  4. Mulligan Concept manual therapy: standardizing annotation.

    Science.gov (United States)

    McDowell, Jillian Marie; Johnson, Gillian Margaret; Hetherington, Barbara Helen

    2014-10-01

    Quality technique documentation is integral to the practice of manual therapy, ensuring uniform application and reproducibility of treatment. Manual therapy techniques are described by annotations utilizing a range of acronyms, abbreviations and universal terminology based on biomechanical and anatomical concepts. The various combinations of therapist and patient generated forces utilized in a variety of weight-bearing positions, which are synonymous with Mulligan Concept, challenge practitioners existing annotational skills. An annotation framework with recording rules adapted to the Mulligan Concept is proposed in which the abbreviations incorporate established manual therapy tenets and are detailed in the following sequence of; starting position, side, joint/s, method of application, glide/s, Mulligan technique, movement (or function), whether an assistant is used, overpressure (and by whom) and numbers of repetitions or time and sets. Therapist or patient application of overpressure and utilization of treatment belts or manual techniques must be recorded to capture the complete description. The adoption of the Mulligan Concept annotation framework in this way for documentation purposes will provide uniformity and clarity of information transfer for the future purposes of teaching, clinical practice and audit for its practitioners.

  5. Statistical mechanics of ontology based annotations

    CERN Document Server

    Hoyle, David C

    2016-01-01

    We present a statistical mechanical theory of the process of annotating an object with terms selected from an ontology. The term selection process is formulated as an ideal lattice gas model, but in a highly structured inhomogeneous field. The model enables us to explain patterns recently observed in real-world annotation data sets, in terms of the underlying graph structure of the ontology. By relating the external field strengths to the information content of each node in the ontology graph, the statistical mechanical model also allows us to propose a number of practical metrics for assessing the quality of both the ontology, and the annotations that arise from its use. Using the statistical mechanical formalism we also study an ensemble of ontologies of differing size and complexity; an analysis not readily performed using real data alone. Focusing on regular tree ontology graphs we uncover a rich set of scaling laws describing the growth in the optimal ontology size as the number of objects being annotate...

  6. La Mujer Chicana: An Annotated Bibliography, 1976.

    Science.gov (United States)

    Chapa, Evey, Ed.; And Others

    Intended to provide interested persons, researchers, and educators with information about "la mujer Chicana", this annotated bibliography cites 320 materials published between 1916 and 1975, with the majority being between 1960 and 1975. The 12 sections cover the following subject areas: Chicana publications; Chicana feminism and "el movimiento";…

  7. Communication and Politics: A Selected, Annotated Bibliography.

    Science.gov (United States)

    Kaid, Lynda Lee; And Others

    Noting that the study of communication in political settings is an increasingly popular and important area of teaching and research in many disciplines, this 51-item annotated bibliography reflects the interdisciplinary nature of the field and is designed to incorporate varying approaches to the subject matter. With few exceptions, the books and…

  8. Genotyping and annotation of Affymetrix SNP arrays

    DEFF Research Database (Denmark)

    Lamy, Philippe; Andersen, Claus Lindbjerg; Wikman, Friedrik;

    2006-01-01

    allows us to annotate SNPs that have poor performance, either because of poor experimental conditions or because for one of the alleles the probes do not behave in a dose-response manner. Generally, our method agrees well with a method developed by Affymetrix. When both methods make a call they agree...

  9. Suggested Books for Children: An Annotated Bibliography

    Science.gov (United States)

    NHSA Dialog, 2008

    2008-01-01

    This article provides an annotated bibliography of various children's books. It includes listings of books that illustrate the dynamic relationships within the natural environment, economic context, racial and cultural identities, cross-group similarities and differences, gender, different abilities and stories of injustice and resistance.

  10. Studies of Scientific Disciplines. An Annotated Bibliography.

    Science.gov (United States)

    Weisz, Diane; Kruytbosch, Carlos

    Provided in this bibliography are annotated lists of social studies of science literature, arranged alphabetically by author in 13 disciplinary areas. These areas include astronomy; general biology; biochemistry and molecular biology; biomedicine; chemistry; earth and space sciences; economics; engineering; mathematics; physics; political science;…

  11. DNAVis: interactive visualization of comparative genome annotations

    NARCIS (Netherlands)

    Fiers, M.W.E.J.; Wetering, van de H.; Peeters, T.H.J.M.; Wijk, van J.J.; Nap, J.P.H.

    2006-01-01

    The software package DNAVis offers a fast, interactive and real-time visualization of DNA sequences and their comparative genome annotations. DNAVis implements advanced methods of information visualization such as linked views, perspective walls and semantic zooming, in addition to the display of he

  12. Computer systems for annotation of single molecule fragments

    Science.gov (United States)

    Schwartz, David Charles; Severin, Jessica

    2016-07-19

    There are provided computer systems for visualizing and annotating single molecule images. Annotation systems in accordance with this disclosure allow a user to mark and annotate single molecules of interest and their restriction enzyme cut sites thereby determining the restriction fragments of single nucleic acid molecules. The markings and annotations may be automatically generated by the system in certain embodiments and they may be overlaid translucently onto the single molecule images. An image caching system may be implemented in the computer annotation systems to reduce image processing time. The annotation systems include one or more connectors connecting to one or more databases capable of storing single molecule data as well as other biomedical data. Such diverse array of data can be retrieved and used to validate the markings and annotations. The annotation systems may be implemented and deployed over a computer network. They may be ergonomically optimized to facilitate user interactions.

  13. Annotation Method (AM): SE22_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available ether with predicted molecular formulae and putative structures, were provided as metabolite annotations. Comparison with public data...bases was performed. A grading system was introduced to describe the evidence supporting the annotations. ...

  14. MEETING: Chlamydomonas Annotation Jamboree - October 2003

    Energy Technology Data Exchange (ETDEWEB)

    Grossman, Arthur R

    2007-04-13

    Shotgun sequencing of the nuclear genome of Chlamydomonas reinhardtii (Chlamydomonas throughout) was performed at an approximate 10X coverage by JGI. Roughly half of the genome is now contained on 26 scaffolds, all of which are at least 1.6 Mb, and the coverage of the genome is ~95%. There are now over 200,000 cDNA sequence reads that we have generated as part of the Chlamydomonas genome project (Grossman, 2003; Shrager et al., 2003; Grossman et al. 2007; Merchant et al., 2007); other sequences have also been generated by the Kasuza sequence group (Asamizu et al., 1999; Asamizu et al., 2000) or individual laboratories that have focused on specific genes. Shrager et al. (2003) placed the reads into distinct contigs (an assemblage of reads with overlapping nucleotide sequences), and contigs that group together as part of the same genes have been designated ACEs (assembly of contigs generated from EST information). All of the reads have also been mapped to the Chlamydomonas nuclear genome and the cDNAs and their corresponding genomic sequences have been reassembled, and the resulting assemblage is called an ACEG (an Assembly of contiguous EST sequences supported by genomic sequence) (Jain et al., 2007). Most of the unique genes or ACEGs are also represented by gene models that have been generated by the Joint Genome Institute (JGI, Walnut Creek, CA). These gene models have been placed onto the DNA scaffolds and are presented as a track on the Chlamydomonas genome browser associated with the genome portal (http://genome.jgi-psf.org/Chlre3/Chlre3.home.html). Ultimately, the meeting grant awarded by DOE has helped enormously in the development of an annotation pipeline (a set of guidelines used in the annotation of genes) and resulted in high quality annotation of over 4,000 genes; the annotators were from both Europe and the USA. Some of the people who led the annotation initiative were Arthur Grossman, Olivier Vallon, and Sabeeha Merchant (with many individual

  15. Multivendor Spectral-Domain Optical Coherence Tomography Dataset, Observer Annotation Performance Evaluation, and Standardized Evaluation Framework for Intraretinal Cystoid Fluid Segmentation

    Directory of Open Access Journals (Sweden)

    Jing Wu

    2016-01-01

    Full Text Available Development of image analysis and machine learning methods for segmentation of clinically significant pathology in retinal spectral-domain optical coherence tomography (SD-OCT, used in disease detection and prediction, is limited due to the availability of expertly annotated reference data. Retinal segmentation methods use datasets that either are not publicly available, come from only one device, or use different evaluation methodologies making them difficult to compare. Thus we present and evaluate a multiple expert annotated reference dataset for the problem of intraretinal cystoid fluid (IRF segmentation, a key indicator in exudative macular disease. In addition, a standardized framework for segmentation accuracy evaluation, applicable to other pathological structures, is presented. Integral to this work is the dataset used which must be fit for purpose for IRF segmentation algorithm training and testing. We describe here a multivendor dataset comprised of 30 scans. Each OCT scan for system training has been annotated by multiple graders using a proprietary system. Evaluation of the intergrader annotations shows a good correlation, thus making the reproducibly annotated scans suitable for the training and validation of image processing and machine learning based segmentation methods. The dataset will be made publicly available in the form of a segmentation Grand Challenge.

  16. BEACON: automated tool for Bacterial GEnome Annotation ComparisON

    KAUST Repository

    Kalkatawi, Manal Matoq Saeed

    2015-08-18

    Background Genome annotation is one way of summarizing the existing knowledge about genomic characteristics of an organism. There has been an increased interest during the last several decades in computer-based structural and functional genome annotation. Many methods for this purpose have been developed for eukaryotes and prokaryotes. Our study focuses on comparison of functional annotations of prokaryotic genomes. To the best of our knowledge there is no fully automated system for detailed comparison of functional genome annotations generated by different annotation methods (AMs). Results The presence of many AMs and development of new ones introduce needs to: a/ compare different annotations for a single genome, and b/ generate annotation by combining individual ones. To address these issues we developed an Automated Tool for Bacterial GEnome Annotation ComparisON (BEACON) that benefits both AM developers and annotation analysers. BEACON provides detailed comparison of gene function annotations of prokaryotic genomes obtained by different AMs and generates extended annotations through combination of individual ones. For the illustration of BEACON’s utility, we provide a comparison analysis of multiple different annotations generated for four genomes and show on these examples that the extended annotation can increase the number of genes annotated by putative functions up to 27 %, while the number of genes without any function assignment is reduced. Conclusions We developed BEACON, a fast tool for an automated and a systematic comparison of different annotations of single genomes. The extended annotation assigns putative functions to many genes with unknown functions. BEACON is available under GNU General Public License version 3.0 and is accessible at: http://www.cbrc.kaust.edu.sa/BEACON/

  17. On Semantic Annotation in Clarin-PL Parallel Corpora

    OpenAIRE

    Violetta Koseska-Toszewa; Roman Roszko

    2015-01-01

    On Semantic Annotation in Clarin-PL Parallel Corpora In the article, the authors present a proposal for semantic annotation in Clarin-PL parallel corpora: Polish-Bulgarian-Russian and Polish-Lithuanian ones. Semantic annotation of quantification is a novum in developing sentence level semantics in multilingual parallel corpora. This is why our semantic annotation is manual. The authors hope it will be interesting to IT specialists working on automatic processing of the given natural langu...

  18. AnnaBot: A Static Verifier for Java Annotation Usage

    OpenAIRE

    Ian Darwin

    2010-01-01

    This paper describes AnnaBot, one of the first tools to verify correct use of Annotation-based metadata in the Java programming language. These Annotations are a standard Java 5 mechanism used to attach metadata to types, methods, or fields without using an external configuration file. A binary representation of the Annotation becomes part of the compiled “.class” file, for inspection by another component or library at runtime. Java Annotations were introduced into the Java language in ...

  19. Approaches to Working with Children, Young People and Families for Traveller, Irish Traveller, Gypsy, Roma and Show People Communities. Annotated Bibliography for the Children's Workforce Development Council

    Science.gov (United States)

    Robinson, Mark; Martin, Kerry; Wilkin, Carol

    2008-01-01

    This annoted bibliography relays a range of issues and approaches to working with Travellers, Irish Travellers, Gypsies, Roma and Show People. This is an accompanying document to the literature review report, ED501860.

  20. Experts bodies, experts minds: How physical and mental training shape the brain.

    Science.gov (United States)

    Debarnot, Ursula; Sperduti, Marco; Di Rienzo, Franck; Guillot, Aymeric

    2014-01-01

    Skill learning is the improvement in perceptual, cognitive, or motor performance following practice. Expert performance levels can be achieved with well-organized knowledge, using sophisticated and specific mental representations and cognitive processing, applying automatic sequences quickly and efficiently, being able to deal with large amounts of information, and many other challenging task demands and situations that otherwise paralyze the performance of novices. The neural reorganizations that occur with expertise reflect the optimization of the neurocognitive resources to deal with the complex computational load needed to achieve peak performance. As such, capitalizing on neuronal plasticity, brain modifications take place over time-practice and during the consolidation process. One major challenge is to investigate the neural substrates and cognitive mechanisms engaged in expertise, and to define "expertise" from its neural and cognitive underpinnings. Recent insights showed that many brain structures are recruited during task performance, but only activity in regions related to domain-specific knowledge distinguishes experts from novices. The present review focuses on three expertise domains placed across a motor to mental gradient of skill learning: sequential motor skill, mental simulation of the movement (motor imagery), and meditation as a paradigmatic example of "pure" mental training. We first describe results on each specific domain from the initial skill acquisition to expert performance, including recent results on the corresponding underlying neural mechanisms. We then discuss differences and similarities between these domains with the aim to identify the highlights of the neurocognitive processes underpinning expertise, and conclude with suggestions for future research.

  1. Consumer versus expert hazard identification

    DEFF Research Database (Denmark)

    Hagemann, Kit S.; Scholderer, Joachim

    2007-01-01

    between technical experts and consumers over the nature of the hazards on which risk assessments should focus, and perceptions of insufficient openness about uncertainties in risk assessment. Whilst previous research has almost exclusively focused on genetically modified foods, the present paper...... investigates plant varieties developed by means of mutation breeding, a less-debated class of novel foods. Two studies were conducted that investigated the mental models of experts and laypeople. The results revealed that the mental models of both groups differed in terms of scope, depth and the role...... of uncertainty. Furthermore, a number of misconceptions became apparent in the study of laypeople's mental models, often related to the regulatory system governing risk assessments of novel foods. Critical issue are outlined and communication needs are discussed....

  2. Interoperable Multimedia Annotation and Retrieval for the Tourism Sector

    NARCIS (Netherlands)

    Chatzitoulousis, Antonios; Efraimidis, Pavlos S.; Athanasiadis, I.N.

    2015-01-01

    The Atlas Metadata System (AMS) employs semantic web annotation techniques in order to create an interoperable information annotation and retrieval platform for the tourism sector. AMS adopts state-of-the-art metadata vocabularies, annotation techniques and semantic web technologies. Interoperabilit

  3. Annotation of the protein coding regions of the equine genome

    DEFF Research Database (Denmark)

    Hestand, Matthew S.; Kalbfleisch, Theodore S.; Coleman, Stephen J.;

    2015-01-01

    Current gene annotation of the horse genome is largely derived from in silico predictions and cross-species alignments. Only a small number of genes are annotated based on equine EST and mRNA sequences. To expand the number of equine genes annotated from equine experimental evidence, we sequenced...

  4. Automatic annotation of head velocity and acceleration in Anvil

    DEFF Research Database (Denmark)

    Jongejan, Bart

    2012-01-01

    We describe an automatic face tracker plugin for the ANVIL annotation tool. The face tracker produces data for velocity and for acceleration in two dimensions. We compare the annotations generated by the face tracking algorithm with independently made manual annotations for head movements...

  5. BOWiki: an ontology-based wiki for annotation of data and integration of knowledge in biology

    Directory of Open Access Journals (Sweden)

    Gregorio Sergio E

    2009-05-01

    Full Text Available Abstract Motivation Ontology development and the annotation of biological data using ontologies are time-consuming exercises that currently require input from expert curators. Open, collaborative platforms for biological data annotation enable the wider scientific community to become involved in developing and maintaining such resources. However, this openness raises concerns regarding the quality and correctness of the information added to these knowledge bases. The combination of a collaborative web-based platform with logic-based approaches and Semantic Web technology can be used to address some of these challenges and concerns. Results We have developed the BOWiki, a web-based system that includes a biological core ontology. The core ontology provides background knowledge about biological types and relations. Against this background, an automated reasoner assesses the consistency of new information added to the knowledge base. The system provides a platform for research communities to integrate information and annotate data collaboratively. Availability The BOWiki and supplementary material is available at http://www.bowiki.net/. The source code is available under the GNU GPL from http://onto.eva.mpg.de/trac/BoWiki.

  6. Model and Interoperability using Meta Data Annotations

    Science.gov (United States)

    David, O.

    2011-12-01

    Software frameworks and architectures are in need for meta data to efficiently support model integration. Modelers have to know the context of a model, often stepping into modeling semantics and auxiliary information usually not provided in a concise structure and universal format, consumable by a range of (modeling) tools. XML often seems the obvious solution for capturing meta data, but its wide adoption to facilitate model interoperability is limited by XML schema fragmentation, complexity, and verbosity outside of a data-automation process. Ontologies seem to overcome those shortcomings, however the practical significance of their use remains to be demonstrated. OMS version 3 took a different approach for meta data representation. The fundamental building block of a modular model in OMS is a software component representing a single physical process, calibration method, or data access approach. Here, programing language features known as Annotations or Attributes were adopted. Within other (non-modeling) frameworks it has been observed that annotations lead to cleaner and leaner application code. Framework-supported model integration, traditionally accomplished using Application Programming Interfaces (API) calls is now achieved using descriptive code annotations. Fully annotated components for various hydrological and Ag-system models now provide information directly for (i) model assembly and building, (ii) data flow analysis for implicit multi-threading or visualization, (iii) automated and comprehensive model documentation of component dependencies, physical data properties, (iv) automated model and component testing, calibration, and optimization, and (v) automated audit-traceability to account for all model resources leading to a particular simulation result. Such a non-invasive methodology leads to models and modeling components with only minimal dependencies on the modeling framework but a strong reference to its originating code. Since models and

  7. Cataloging Expert Systems: Optimism and Frustrated Reality.

    Science.gov (United States)

    Olmstadt, William J.

    2000-01-01

    Discusses artificial intelligence and attempts to catalog expert systems. Topics include the nature of expertise; examples of cataloging expert systems; barriers to implementation; and problems, including total automation, cataloging expertise, priorities, and system design. (LRW)

  8. Courts, Experts and Interest Groups: Mobilization and Location of Expert Knowledge in the Sentence C 355/2006

    Directory of Open Access Journals (Sweden)

    Oscar Javier Maldonado Castañeda

    2014-01-01

    Full Text Available This paper analyzes the interactions between courts, experts and interest groups present in the sentence C 355/2006, through which abortion is partially decriminalized in Colombia. A detailed review of this paper allows to track the role that interest groups and social movements have in the mobilization of expert discourses in the high courts as a strategy to influence their decisions. The use of disciplines and fields of knowledge is articulated to the general structure of the sentence as literary technology that makes visible the role of the court as administrator of justice.

  9. SciVal Experts: a collaborative tool.

    Science.gov (United States)

    Vardell, Emily; Feddern-Bekcan, Tanya; Moore, Mary

    2011-01-01

    SciVal Experts is a resource for finding experts and fostering collaboration. The tool creates researcher profiles with automatically updated publication and grant information and faculty-inputted curriculum vitae, more fully capturing a researcher's body of work. SciVal Experts indexes campus-based "experts" by research topic, allowing faculty to find potential research partners and mentors, furthering translational research opportunities and dissemination of knowledge.

  10. How well are protein structures annotated in secondary databases?

    Science.gov (United States)

    Rother, Kristian; Michalsky, Elke; Leser, Ulf

    2005-09-01

    We investigated to what extent Protein Data Bank (PDB) entries are annotated with second-party information based on existing cross-references between PDB and 15 other databases. We report 2 interesting findings. First, there is a clear "annotation gap" for structures less than 7 years old for secondary databases that are manually curated. Second, the examined databases overlap with each other quite well, dividing the PDB into 2 well-annotated thirds and one poorly annotated third. Both observations should be taken into account in any study depending on the selection of protein structures by their annotation.

  11. Evaluating Econometric Models and Expert Intuition

    NARCIS (Netherlands)

    R. Legerstee (Rianne)

    2012-01-01

    textabstractThis thesis is about forecasting situations which involve econometric models and expert intuition. The first three chapters are about what it is that experts do when they adjust statistical model forecasts and what might improve that adjustment behavior. It is investigated how expert for

  12. Differentiating Experts' Anticipatory Skills in Beach Volleyball

    Science.gov (United States)

    Canal-Bruland, Rouwen; Mooren, Merel; Savelsbergh, Geert J. P.

    2011-01-01

    In this study, we examined how perceptual-motor expertise and watching experience contribute to anticipating the outcome of opponents' attacking actions in beach volleyball. To this end, we invited 8 expert beach volleyball players, 8 expert coaches, 8 expert referees, and 8 control participants with no beach volleyball experience to watch videos…

  13. Expert Systems for auditing management information systems

    Directory of Open Access Journals (Sweden)

    Gheroghe Popescu

    2007-05-01

    Full Text Available Expert systems are built with the help of: specialised programming languages or expert system generators (shell. But this structure was reached after tens of years of work and research, because expert systems are nothing but pragmatic capitalisation of the results of research carried out in artificial intelligence and theory of knowledge.

  14. Cognition inspired framework for indoor scene annotation

    Science.gov (United States)

    Ye, Zhipeng; Liu, Peng; Zhao, Wei; Tang, Xianglong

    2015-09-01

    We present a simple yet effective scene annotation framework based on a combination of bag-of-visual words (BoVW), three-dimensional scene structure estimation, scene context, and cognitive theory. From a macroperspective, the proposed cognition-based hybrid motivation framework divides the annotation problem into empirical inference and real-time classification. Inspired by the inference ability of human beings, common objects of indoor scenes are defined for experience-based inference, while in the real-time classification stage, an improved BoVW-based multilayer abstract semantics labeling method is proposed by introducing abstract semantic hierarchies to narrow the semantic gap and improve the performance of object categorization. The proposed framework was evaluated on a variety of common data sets and experimental results proved its effectiveness.

  15. Image Semantic Automatic Annotation by Relevance Feedback

    Institute of Scientific and Technical Information of China (English)

    ZHANG Tong-zhen; SHEN Rui-min

    2007-01-01

    A large semantic gap exists between content based index retrieval (CBIR) and high-level semantic, additional semantic information should be attached to the images, it refers in three respects including semantic representation model, semantic information building and semantic retrieval techniques. In this paper, we introduce an associated semantic network and an automatic semantic annotation system. In the system, a semantic network model is employed as the semantic representation model, it uses semantic keywords, linguistic ontology and low-level features in semantic similarity calculating. Through several times of users' relevance feedback, semantic network is enriched automatically. To speed up the growth of semantic network and get a balance annotation, semantic seeds and semantic loners are employed especially.

  16. A Concept Annotation System for Clinical Records

    CERN Document Server

    Kang, Ning; Afzal, Zubair; Singh, Bharat; Schuemie, Martijn J; van Mulligen, Erik M; Kors, Jan A

    2010-01-01

    Unstructured information comprises a valuable source of data in clinical records. For text mining in clinical records, concept extraction is the first step in finding assertions and relationships. This study presents a system developed for the annotation of medical concepts, including medical problems, tests, and treatments, mentioned in clinical records. The system combines six publicly available named entity recognition system into one framework, and uses a simple voting scheme that allows to tune precision and recall of the system to specific needs. The system provides both a web service interface and a UIMA interface which can be easily used by other systems. The system was tested in the fourth i2b2 challenge and achieved an F-score of 82.1% for the concept exact match task, a score which is among the top-ranking systems. To our knowledge, this is the first publicly available clinical record concept annotation system.

  17. Building a semantically annotated corpus of clinical texts.

    Science.gov (United States)

    Roberts, Angus; Gaizauskas, Robert; Hepple, Mark; Demetriou, George; Guo, Yikun; Roberts, Ian; Setzer, Andrea

    2009-10-01

    In this paper, we describe the construction of a semantically annotated corpus of clinical texts for use in the development and evaluation of systems for automatically extracting clinically significant information from the textual component of patient records. The paper details the sampling of textual material from a collection of 20,000 cancer patient records, the development of a semantic annotation scheme, the annotation methodology, the distribution of annotations in the final corpus, and the use of the corpus for development of an adaptive information extraction system. The resulting corpus is the most richly semantically annotated resource for clinical text processing built to date, whose value has been demonstrated through its use in developing an effective information extraction system. The detailed presentation of our corpus construction and annotation methodology will be of value to others seeking to build high-quality semantically annotated corpora in biomedical domains.

  18. The review of diagnosis and treatment for elderly atrial fibrillation in the Chinese experts recommend ( 2011 )%老年人心房颤动诊治中国专家建议(2011)评介

    Institute of Scientific and Technical Information of China (English)

    李小鹰

    2012-01-01

    The recommendation on diagnosis and treatment for elderly at rial fibrillation in the Chinese experts recommend (2011) whs publicated in November 2011, which is the first expert recommendation for elderly atrial fibrillation in our China. The recommendation included the diagnosis and risk assessment of elderly atrial fibrillation, control method of atrial rates, pharmacological cardioversion for rapid fibrillation, indications of non-pharmacological therapy, antithrombolic management and antithrombolic therapy in specific patients.%老年人心房颤动诊治中国专家建议(2011)发表于2011年11月,是中国第一个针对老年心房颤动的专家建议,内容包括了老年AF的诊断与风险评估、心室率控制方法、快速性心房颤动的药物复律、非药物治疗的适应证、抗栓治疗及合并特殊疾病者的抗栓治疗等.

  19. Deburring: an annotated bibliography. Volume VI

    Energy Technology Data Exchange (ETDEWEB)

    Gillespie, L.K.

    1980-07-01

    An annotated summary of 138 articles and publications on burrs, burr prevention and deburring is presented. Thirty-seven deburring processes are listed. Entries cited include English, Russian, French, Japanese, and German language articles. Entries are indexed by deburring processes, author, and language. Indexes also indicate which references discuss equipment and tooling, how to use a proces economics, burr properties, and how to design to minimize burr problems. Research studies are identified as are the materials deburred.

  20. Deburring: an annotated bibliography. Volume V

    Energy Technology Data Exchange (ETDEWEB)

    Gillespie, L.K.

    1978-01-01

    An annotated summary of 204 articles and publications on burrs, burr prevention and deburring is presented. Thirty-seven deburring processes are listed. Entries cited include English, Russian, French, Japanese and German language articles. Entries are indexed by deburring processes, author, and language. Indexes also indicate which references discuss equipment and tooling, how to use a process, economics, burr properties, and how to design to minimize burr problems. Research studies are identified as are the materials deburred.

  1. Automatic Function Annotations for Hoare Logic

    Directory of Open Access Journals (Sweden)

    Daniel Matichuk

    2012-11-01

    Full Text Available In systems verification we are often concerned with multiple, inter-dependent properties that a program must satisfy. To prove that a program satisfies a given property, the correctness of intermediate states of the program must be characterized. However, this intermediate reasoning is not always phrased such that it can be easily re-used in the proofs of subsequent properties. We introduce a function annotation logic that extends Hoare logic in two important ways: (1 when proving that a function satisfies a Hoare triple, intermediate reasoning is automatically stored as function annotations, and (2 these function annotations can be exploited in future Hoare logic proofs. This reduces duplication of reasoning between the proofs of different properties, whilst serving as a drop-in replacement for traditional Hoare logic to avoid the costly process of proof refactoring. We explain how this was implemented in Isabelle/HOL and applied to an experimental branch of the seL4 microkernel to significantly reduce the size and complexity of existing proofs.

  2. Nonlinear Deep Kernel Learning for Image Annotation.

    Science.gov (United States)

    Jiu, Mingyuan; Sahbi, Hichem

    2017-02-08

    Multiple kernel learning (MKL) is a widely used technique for kernel design. Its principle consists in learning, for a given support vector classifier, the most suitable convex (or sparse) linear combination of standard elementary kernels. However, these combinations are shallow and often powerless to capture the actual similarity between highly semantic data, especially for challenging classification tasks such as image annotation. In this paper, we redefine multiple kernels using deep multi-layer networks. In this new contribution, a deep multiple kernel is recursively defined as a multi-layered combination of nonlinear activation functions, each one involves a combination of several elementary or intermediate kernels, and results into a positive semi-definite deep kernel. We propose four different frameworks in order to learn the weights of these networks: supervised, unsupervised, kernel-based semisupervised and Laplacian-based semi-supervised. When plugged into support vector machines (SVMs), the resulting deep kernel networks show clear gain, compared to several shallow kernels for the task of image annotation. Extensive experiments and analysis on the challenging ImageCLEF photo annotation benchmark, the COREL5k database and the Banana dataset validate the effectiveness of the proposed method.

  3. Management Tool for Semantic Annotations in WSDL

    Science.gov (United States)

    Boissel-Dallier, Nicolas; Lorré, Jean-Pierre; Benaben, Frédérick

    Semantic Web Services add features to automate web services discovery and composition. A new standard called SAWSDL emerged recently as a W3C recommendation to add semantic annotations within web service descriptions (WSDL). In order to manipulate such information in Java program we need an XML parser. Two open-source libraries already exist (SAWSDL4J and Woden4SAWSDL) but they don't meet all our specific needs such as support for WSDL 1.1 and 2.0. This paper presents a new tool, called EasyWSDL, which is able to handle semantic annotations as well as to manage the full WSDL description thanks to a plug-in mechanism. This tool allows us to read/edit/create a WSDL description and related annotations thanks to a uniform API, in both 1.1 and 2.0 versions. This document compares these three libraries and presents its integration into Dragon the OW2 open-source SOA governance tool.

  4. A Phenomenology of Expert Musicianship

    DEFF Research Database (Denmark)

    Høffding, Simon

    targets a central debate in philosophy and psychology on whether reflection is conducive for, or detrimental to, skillful performance. My analyses show that the concepts assumed in the literature on this question are poorly defined and gloss over more important features of expertise. The second question...... of the nature of the self. I account for the conditions of the possibility of deep absorption and suggest that a detailed and comprehensive grasp of expert musicianship is best achieved through an understanding of the phenomenon that revolves around a changed sense of agency....

  5. Expert Oracle GoldenGate

    CERN Document Server

    Prusinski, Ben; Chung, Richard

    2011-01-01

    Expert Oracle GoldenGate is a hands-on guide to creating and managing complex data replication environments using the latest in database replication technology from Oracle. GoldenGate is the future in replication technology from Oracle, and aims to be best-of-breed. GoldenGate supports homogeneous replication between Oracle databases. It supports heterogeneous replication involving other brands such as Microsoft SQL Server and IBM DB2 Universal Server. GoldenGate is high-speed, bidirectional, highly-parallelized, and makes only a light impact on the performance of databases involved in replica

  6. Expert Oracle RAC 12c

    CERN Document Server

    Shamsudeen, Riyaj; Yu, Kai; Farooq, Tariq

    2013-01-01

    Expert Oracle RAC 12c is a hands-on book helping you understand and implement Oracle Real Application Clusters (RAC), and to reduce the total-cost-of-ownership (TCO) of a RAC database. As a seasoned professional, you are probably aware of the importance of understanding the technical details behind the RAC stack. This book provides deep understanding of RAC concepts and implementation details that you can apply toward your day-to-day operational practices. You'll be guided in troubleshooting and avoiding trouble in your installation. Successful RAC operation hinges upon a fast-performing netwo

  7. Expert opinion on detecting and treating depression in palliative care: A Delphi study

    Directory of Open Access Journals (Sweden)

    Hotopf Matthew

    2011-05-01

    Full Text Available Abstract Background There is a dearth of data regarding the optimal method of detecting and treating depression in palliative care. This study applied the Delphi method to evaluate expert opinion on choice of screening tool, choice of antidepressant and choice of psychological therapy. The aim was to inform the development of best practice recommendations for the European Palliative Care Research Collaborative clinical practice guideline on managing depression in palliative care. Methods 18 members of an international, multi-professional expert group completed a structured questionnaire in two rounds, rating their agreement with proposed items on a scale from 0-10 and annotating with additional comments. The median and range were calculated to give a statistical average of the experts' ratings. Results There was contention regarding the benefits of screening, with 'routine informal asking' (median 8.5 (0-10 rated more highly than formal screening tools such as the Hospital Anxiety and Depression Scale (median 7.0 (1-10. Mirtazapine (median 9 (7-10 and citalopram (median 9 (5-10 were the considered the best choice of antidepressant and cognitive behavioural therapy (median 9.0 (3-10 the best choice of psychological therapy. Conclusions The range of expert ratings was broad, indicating discordance in the views of experts. Direct comparative data from randomised controlled trials are needed to strengthen the evidence-base and achieve clarity on how best to detect and treat depression in this setting.

  8. The role of the expert witness.

    Science.gov (United States)

    Jerrold, Laurance

    2007-08-01

    The role of expert witnesses in medical malpractice litigation is often misunderstood. Much maligned, the expert has been the subject of castigation by a range of people, from his professional colleagues to the jurists who preside over his testimony. From an academic perspective, the expert witness is a necessary evil, and his denigration is his own doing; for the expert is a neutral character who creates his own professional persona. This purpose of this article is to serve as a primer for those interested in understanding the role that the expert is supposed to play in litigation, and the factors surrounding his activities.

  9. Operational expert system applications in Canada

    CERN Document Server

    Suen, Ching Y

    1992-01-01

    This book is part of a new series on operational expert systems worldwide. Expert systems are now widely used in different parts of the world for various applications. The past four years have witnessed a steady growth in the development and deployment of expert systems in Canada. Research in this field has also gained considerable momentum during the past few years. However, the field of expert systems is still young in Canada. This book contains 13 chapters contributed by 31 experts from both universities and industries across Canada covering a wide range of applications related to electric

  10. 1st Advanced Marine Renewable Energy Instrumentation Experts Workshop

    Energy Technology Data Exchange (ETDEWEB)

    none,

    2011-10-01

    The U.S. marine energy industry is actively pursuing development of offshore wind and marine hydrokinetic (MHK) energy systems. Experience in the wind energy sector demonstrates that new technology development requires thorough measurement and characterization of the environmental conditions prevalent at installation sites and of technology operating in the field. Presently, there are no turn-key instrumentation system solutions that meet the measurement needs of the marine energy industry. The 1st Advanced Marine Renewable Energy Instrumentation Experts Workshop brought together technical experts from government laboratories, academia, and industry representatives from marine energy, wind, offshore oil and gas, and instrumentation developers to present and discuss the instrumentation needs of the marine energy industry. The goals of the meeting were to: 1. Share the latest relevant knowledge among technical experts; 2. Review relevant state-of-the-art field measurement technologies and methods; 3. Review lessons learned from recent field deployments; 4. Identify synergies across different industries; 5. Identify gaps between existing and needed instrumentation capabilities; 6. Understand who are the leading experts; 7. Provide a forum where stakeholders from the marine energy industry could provide substantive input in the development of new marine energy field deployable instrumentation packages.

  11. Contextual Factors for Finding Similar Experts

    DEFF Research Database (Denmark)

    Hofmann, Katja; Balog, Krisztian; Bogers, Toine;

    2010-01-01

    Expertise-seeking research studies how people search for expertise and choose whom to contact in the context of a specific task. An important outcome are models that identify factors that influence expert finding. Expertise retrieval addresses the same problem, expert finding, but from a system......-seeking models, are rarely taken into account. In this article, we extend content-based expert-finding approaches with contextual factors that have been found to influence human expert finding. We focus on a task of science communicators in a knowledge-intensive environment, the task of finding similar experts......, given an example expert. Our approach combines expertise-seeking and retrieval research. First, we conduct a user study to identify contextual factors that may play a role in the studied task and environment. Then, we design expert retrieval models to capture these factors. We combine these with content...

  12. A way toward analyzing high-content bioimage data by means of semantic annotation and visual data mining

    Science.gov (United States)

    Herold, Julia; Abouna, Sylvie; Zhou, Luxian; Pelengaris, Stella; Epstein, David B. A.; Khan, Michael; Nattkemper, Tim W.

    2009-02-01

    In the last years, bioimaging has turned from qualitative measurements towards a high-throughput and highcontent modality, providing multiple variables for each biological sample analyzed. We present a system which combines machine learning based semantic image annotation and visual data mining to analyze such new multivariate bioimage data. Machine learning is employed for automatic semantic annotation of regions of interest. The annotation is the prerequisite for a biological object-oriented exploration of the feature space derived from the image variables. With the aid of visual data mining, the obtained data can be explored simultaneously in the image as well as in the feature domain. Especially when little is known of the underlying data, for example in the case of exploring the effects of a drug treatment, visual data mining can greatly aid the process of data evaluation. We demonstrate how our system is used for image evaluation to obtain information relevant to diabetes study and screening of new anti-diabetes treatments. Cells of the Islet of Langerhans and whole pancreas in pancreas tissue samples are annotated and object specific molecular features are extracted from aligned multichannel fluorescence images. These are interactively evaluated for cell type classification in order to determine the cell number and mass. Only few parameters need to be specified which makes it usable also for non computer experts and allows for high-throughput analysis.

  13. Fuzzy expert system for diagnosing diabetic neuropathy

    Science.gov (United States)

    Rahmani Katigari, Meysam; Ayatollahi, Haleh; Malek, Mojtaba; Kamkar Haghighi, Mehran

    2017-01-01

    AIM To design a fuzzy expert system to help detect and diagnose the severity of diabetic neuropathy. METHODS The research was completed in 2014 and consisted of two main phases. In the first phase, the diagnostic parameters were determined based on the literature review and by investigating specialists’ perspectives (n = 8). In the second phase, 244 medical records related to the patients who were visited in an endocrinology and metabolism research centre during the first six months of 2014 and were primarily diagnosed with diabetic neuropathy, were used to test the sensitivity, specificity, and accuracy of the fuzzy expert system. RESULTS The final diagnostic parameters included the duration of diabetes, the score of a symptom examination based on the Michigan questionnaire, the score of a sign examination based on the Michigan questionnaire, the glycolysis haemoglobin level, fasting blood sugar, blood creatinine, and albuminuria. The output variable was the severity of diabetic neuropathy which was shown as a number between zero and 10, had been divided into four categories: absence of the disease, (the degree of severity) mild, moderate, and severe. The interface of the system was designed by ASP.Net (Active Server Pages Network Enabled Technology) and the system function was tested in terms of sensitivity (true positive rate) (89%), specificity (true negative rate) (98%), and accuracy (a proportion of true results, both positive and negative) (93%). CONCLUSION The system designed in this study can help specialists and general practitioners to diagnose the disease more quickly to improve the quality of care for patients. PMID:28265346

  14. An expert system application for network intrusion detection

    Energy Technology Data Exchange (ETDEWEB)

    Jackson, K.A.; Dubois, D.H.; Stallings, C.A.

    1991-01-01

    The paper describes the design of a prototype intrusion detection system for the Los Alamos National Laboratory's Integrated Computing Network (ICN). The Network Anomaly Detection and Intrusion Reporter (NADIR) differs in one respect from most intrusion detection systems. It tries to address the intrusion detection problem on a network, as opposed to a single operating system. NADIR design intent was to copy and improve the audit record review activities normally done by security auditors. We wished to replace the manual review of audit logs with a near realtime expert system. NADIR compares network activity, as summarized in user profiles, against expert rules that define network security policy, improper or suspicious network activities, and normal network and user activity. When it detects deviant (anomalous) behavior, NADIR alerts operators in near realtime, and provides tools to aid in the investigation of the anomalous event. 15 refs., 2 figs.

  15. Language theory and expert systems

    Directory of Open Access Journals (Sweden)

    Attilio Agodi

    1988-11-01

    Full Text Available Some remarks on the problem of knowledge representation and processing, as recognized in connection with the use of computers in the scientific research work, emphasizes the relevance of these problems for the studies on both the theory of languages and the expert system. A consideration of the common traits in the recent history of these studies, with reference to the use of computers on texts in natural language motivates the introduction of set theoretic and algebraic methods, suitable for applications in the analysis and in the automatic treatment of languages, based on the concept of model sets and on relational structures suggested from the connections between syntax and semantics evidenced in some example of sub-languages corresponding to theories of different classes of physical phenomena. Some details of these methods are evidenced, which have already successfully used or whose applications appears suggestive of interesting development.

  16. Experts bodies, experts minds: How physical and mental training shape the brain

    Directory of Open Access Journals (Sweden)

    Ursula eDebarnot

    2014-05-01

    Full Text Available Skill learning is the improvement in perceptual, cognitive, or motor performance following practice. Expert performance levels can be achieved with well-organized knowledge, using sophisticated and specific mental representations and cognitive processing, applying automatic sequences quickly and efficiently, being able to deal with large amounts of information, and many other challenging task demands and situations that otherwise paralyze the performance of novices. The neural reorganizations that occur with expertise reflect the optimization of the neurocognitive resources to deal with the complex computational load needed to achieve peak performance. As such, capitalizing on neuronal plasticity, brain modifications take place over time-practice and during the consolidation process. One major challenge is to investigate the neural substrates and cognitive mechanisms engaged in expertise, and to define expertise from its neural and cognitive underpinnings. Recent insights showed that many brain structures are recruited during task performance, but only activity in regions related to domain-specific knowledge distinguishes experts from novices. The present review focuses on three expertise domains placed across a motor to mental gradient of skill learning: sequential motor skill, mental simulation of the movement (motor imagery, and meditation as a paradigmatic example of pure mental training. We first describe results on each specific domain from the initial skill acquisition to the achieving of expert performance, including recent results on the corresponding underlying neural mechanisms. We then discuss differences and similarities between these domains with the aim to identify the highlights of the neurocognitive processes underpinning expertise, and conclude with suggestions for future research.

  17. An Unsupervised Model for Exploring Hierarchical Semantics from Social Annotations

    Science.gov (United States)

    Zhou, Mianwei; Bao, Shenghua; Wu, Xian; Yu, Yong

    This paper deals with the problem of exploring hierarchical semantics from social annotations. Recently, social annotation services have become more and more popular in Semantic Web. It allows users to arbitrarily annotate web resources, thus, largely lowers the barrier to cooperation. Furthermore, through providing abundant meta-data resources, social annotation might become a key to the development of Semantic Web. However, on the other hand, social annotation has its own apparent limitations, for instance, 1) ambiguity and synonym phenomena and 2) lack of hierarchical information. In this paper, we propose an unsupervised model to automatically derive hierarchical semantics from social annotations. Using a social bookmark service Del.icio.us as example, we demonstrate that the derived hierarchical semantics has the ability to compensate those shortcomings. We further apply our model on another data set from Flickr to testify our model's applicability on different environments. The experimental results demonstrate our model's efficiency.

  18. The diagnosis of microcytic anemia by a rule-based expert system using VP-Expert.

    Science.gov (United States)

    O'Connor, M L; McKinney, T

    1989-09-01

    We describe our experience in creating a rule-based expert system for the interpretation of microcytic anemia using the expert system development tool, VP-Expert, running on an IBM personal computer. VP-Expert processes data (complete blood cell count results, age, and sex) according to a set of user-written logic rules (our program) to reach conclusions as to the following causes of microcytic anemia: alpha- and beta-thalassemia trait, iron deficiency, and anemia of chronic disease. Our expert system was tested using previously interpreted complete blood cell count data. In most instances, there was good agreement between the expert system and its pathologist-author, but many discrepancies were found in the interpretation of anemia of chronic disease. We conclude that VP-Expert has a useful level of power and flexibility, yet is simple enough that individuals with modest programming experience can create their own expert systems. Limitations of such expert systems are discussed.

  19. Expectation-Maximization Binary Clustering for Behavioural Annotation.

    Directory of Open Access Journals (Sweden)

    Joan Garriga

    Full Text Available The growing capacity to process and store animal tracks has spurred the development of new methods to segment animal trajectories into elementary units of movement. Key challenges for movement trajectory segmentation are to (i minimize the need of supervision, (ii reduce computational costs, (iii minimize the need of prior assumptions (e.g. simple parametrizations, and (iv capture biologically meaningful semantics, useful across a broad range of species. We introduce the Expectation-Maximization binary Clustering (EMbC, a general purpose, unsupervised approach to multivariate data clustering. The EMbC is a variant of the Expectation-Maximization Clustering (EMC, a clustering algorithm based on the maximum likelihood estimation of a Gaussian mixture model. This is an iterative algorithm with a closed form step solution and hence a reasonable computational cost. The method looks for a good compromise between statistical soundness and ease and generality of use (by minimizing prior assumptions and favouring the semantic interpretation of the final clustering. Here we focus on the suitability of the EMbC algorithm for behavioural annotation of movement data. We show and discuss the EMbC outputs in both simulated trajectories and empirical movement trajectories including different species and different tracking methodologies. We use synthetic trajectories to assess the performance of EMbC compared to classic EMC and Hidden Markov Models. Empirical trajectories allow us to explore the robustness of the EMbC to data loss and data inaccuracies, and assess the relationship between EMbC output and expert label assignments. Additionally, we suggest a smoothing procedure to account for temporal correlations among labels, and a proper visualization of the output for movement trajectories. Our algorithm is available as an R-package with a set of complementary functions to ease the analysis.

  20. Expectation-Maximization Binary Clustering for Behavioural Annotation.

    Science.gov (United States)

    Garriga, Joan; Palmer, John R B; Oltra, Aitana; Bartumeus, Frederic

    2016-01-01

    The growing capacity to process and store animal tracks has spurred the development of new methods to segment animal trajectories into elementary units of movement. Key challenges for movement trajectory segmentation are to (i) minimize the need of supervision, (ii) reduce computational costs, (iii) minimize the need of prior assumptions (e.g. simple parametrizations), and (iv) capture biologically meaningful semantics, useful across a broad range of species. We introduce the Expectation-Maximization binary Clustering (EMbC), a general purpose, unsupervised approach to multivariate data clustering. The EMbC is a variant of the Expectation-Maximization Clustering (EMC), a clustering algorithm based on the maximum likelihood estimation of a Gaussian mixture model. This is an iterative algorithm with a closed form step solution and hence a reasonable computational cost. The method looks for a good compromise between statistical soundness and ease and generality of use (by minimizing prior assumptions and favouring the semantic interpretation of the final clustering). Here we focus on the suitability of the EMbC algorithm for behavioural annotation of movement data. We show and discuss the EMbC outputs in both simulated trajectories and empirical movement trajectories including different species and different tracking methodologies. We use synthetic trajectories to assess the performance of EMbC compared to classic EMC and Hidden Markov Models. Empirical trajectories allow us to explore the robustness of the EMbC to data loss and data inaccuracies, and assess the relationship between EMbC output and expert label assignments. Additionally, we suggest a smoothing procedure to account for temporal correlations among labels, and a proper visualization of the output for movement trajectories. Our algorithm is available as an R-package with a set of complementary functions to ease the analysis.

  1. Artificial intelligence, expert systems, computer vision, and natural language processing

    Science.gov (United States)

    Gevarter, W. B.

    1984-01-01

    An overview of artificial intelligence (AI), its core ingredients, and its applications is presented. The knowledge representation, logic, problem solving approaches, languages, and computers pertaining to AI are examined, and the state of the art in AI is reviewed. The use of AI in expert systems, computer vision, natural language processing, speech recognition and understanding, speech synthesis, problem solving, and planning is examined. Basic AI topics, including automation, search-oriented problem solving, knowledge representation, and computational logic, are discussed.

  2. Applied bioinformatics: Genome annotation and transcriptome analysis

    DEFF Research Database (Denmark)

    Gupta, Vikas

    and dhurrin, which have not previously been characterized in blueberries. There are more than 44,500 spider species with distinct habitats and unique characteristics. Spiders are masters of producing silk webs to catch prey and using venom to neutralize. The exploration of the genetics behind these properties...... has just started. We have assembled and annotated the first two spider genomes to facilitate our understanding of spiders at the molecular level. The need for analyzing the large and increasing amount of sequencing data has increased the demand for efficient, user friendly, and broadly applicable...

  3. What defines an Expert? - Uncertainty in the interpretation of seismic data

    Science.gov (United States)

    Bond, C. E.

    2008-12-01

    Studies focusing on the elicitation of information from experts are concentrated primarily in economics and world markets, medical practice and expert witness testimonies. Expert elicitation theory has been applied in the natural sciences, most notably in the prediction of fluid flow in hydrological studies. In the geological sciences expert elicitation has been limited to theoretical analysis with studies focusing on the elicitation element, gaining expert opinion rather than necessarily understanding the basis behind the expert view. In these cases experts are defined in a traditional sense, based for example on: standing in the field, no. of years of experience, no. of peer reviewed publications, the experts position in a company hierarchy or academia. Here traditional indicators of expertise have been compared for significance on affective seismic interpretation. Polytomous regression analysis has been used to assess the relative significance of length and type of experience on the outcome of a seismic interpretation exercise. Following the initial analysis the techniques used by participants to interpret the seismic image were added as additional variables to the analysis. Specific technical skills and techniques were found to be more important for the affective geological interpretation of seismic data than the traditional indicators of expertise. The results of a seismic interpretation exercise, the techniques used to interpret the seismic and the participant's prior experience have been combined and analysed to answer the question - who is and what defines an expert?

  4. A robust data-driven approach for gene ontology annotation

    OpenAIRE

    2014-01-01

    Gene ontology (GO) and GO annotation are important resources for biological information management and knowledge discovery, but the speed of manual annotation became a major bottleneck of database curation. BioCreative IV GO annotation task aims to evaluate the performance of system that automatically assigns GO terms to genes based on the narrative sentences in biomedical literature. This article presents our work in this task as well as the experimental results after the competition. For th...

  5. Updating RNA-Seq analyses after re-annotation

    OpenAIRE

    Roberts, Adam; Schaeffer, Lorian; Pachter, Lior

    2013-01-01

    The estimation of isoform abundances from RNA-Seq data requires a time-intensive step of mapping reads to either an assembled or previously annotated transcriptome, followed by an optimization procedure for deconvolution of multi-mapping reads. These procedures are essential for downstream analysis such as differential expression. In cases where it is desirable to adjust the underlying annotation, for example, on the discovery of novel isoforms or errors in existing annotations, current pipel...

  6. TTC’15 Live Contest Case Study: Transformation of Java Annotations

    OpenAIRE

    Křikava, Filip; Monperrus, Martin

    2015-01-01

    International audience; Java 5 introduced annotations as a systematic mean to attach syntactic meta-data to various elements of Java source code. Since then, annotations have been extensively used by a number of libraries, frameworks and tools to conveniently extend behaviour of Java programs that would otherwise have to be done manually or synthesised from external resources. The annotations are usually processed through reflection and the extended behaviour is injected into Java classes usi...

  7. Expert Meeting Report: Foundations Research Results

    Energy Technology Data Exchange (ETDEWEB)

    Ojczyk, C.; Huelman, P.; Carmody, J.

    2013-05-01

    In the Expert Meeting Plan, the NorthernSTAR Team proposed to host two Expert Meetings in calendar year 2011. Invitees to the meetings would include experts in the current field of study, other BA team members, and representatives from DOE and NREL. They will invite leading industry experts to present at these meetings. The Expert Meetings will focus on key systems areas that will be required to meet the Building America performance goals and shall be sufficiently narrow in scope that specific conclusions, action items, and delegation of future tasks can be identified and completed. The two expert meeting topics are 'Foundations' and 'Window Retrofit.' The first session is designed as a webinar only and the second will be a live meeting.

  8. Literacy and Basic Education: A Selected, Annotated Bibliography. Annotated Bibliography #3.

    Science.gov (United States)

    Michigan State Univ., East Lansing. Non-Formal Education Information Center.

    A selected annotated bibliography on literacy and basic education, including contributions from practitioners in the worldwide non-formal education network and compiled for them, has three interrelated themes: integration of literacy programs with broader development efforts; the learner-centered or "psycho-social" approach to literacy,…

  9. EXPERT SYSTEMS - DEVELOPMENT OF AGRICULTURAL INSURANCE TOOL

    OpenAIRE

    2013-01-01

    Because of the fact that specialty agricultural assistance is not always available when the farmers need it, we identified expert systems as a strong instrument with an extended potential in agriculture. This started to grow in scale recently, including all socially-economic activity fields, having the role of collecting data regarding different aspects from human experts with the purpose of assisting the user in the necessary steps for solving problems, at the performance level of the expert...

  10. Semantator: semantic annotator for converting biomedical text to linked data.

    Science.gov (United States)

    Tao, Cui; Song, Dezhao; Sharma, Deepak; Chute, Christopher G

    2013-10-01

    More than 80% of biomedical data is embedded in plain text. The unstructured nature of these text-based documents makes it challenging to easily browse and query the data of interest in them. One approach to facilitate browsing and querying biomedical text is to convert the plain text to a linked web of data, i.e., converting data originally in free text to structured formats with defined meta-level semantics. In this paper, we introduce Semantator (Semantic Annotator), a semantic-web-based environment for annotating data of interest in biomedical documents, browsing and querying the annotated data, and interactively refining annotation results if needed. Through Semantator, information of interest can be either annotated manually or semi-automatically using plug-in information extraction tools. The annotated results will be stored in RDF and can be queried using the SPARQL query language. In addition, semantic reasoners can be directly applied to the annotated data for consistency checking and knowledge inference. Semantator has been released online and was used by the biomedical ontology community who provided positive feedbacks. Our evaluation results indicated that (1) Semantator can perform the annotation functionalities as designed; (2) Semantator can be adopted in real applications in clinical and transactional research; and (3) the annotated results using Semantator can be easily used in Semantic-web-based reasoning tools for further inference.

  11. Automatic medical X-ray image classification using annotation.

    Science.gov (United States)

    Zare, Mohammad Reza; Mueen, Ahmed; Seng, Woo Chaw

    2014-02-01

    The demand for automatically classification of medical X-ray images is rising faster than ever. In this paper, an approach is presented to gain high accuracy rate for those classes of medical database with high ratio of intraclass variability and interclass similarities. The classification framework was constructed via annotation using the following three techniques: annotation by binary classification, annotation by probabilistic latent semantic analysis, and annotation using top similar images. Next, final annotation was constructed by applying ranking similarity on annotated keywords made by each technique. The final annotation keywords were then divided into three levels according to the body region, specific bone structure in body region as well as imaging direction. Different weights were given to each level of the keywords; they are then used to calculate the weightage for each category of medical images based on their ground truth annotation. The weightage computed from the generated annotation of query image was compared with the weightage of each category of medical images, and then the query image would be assigned to the category with closest weightage to the query image. The average accuracy rate reported is 87.5 %.

  12. Supporting One-Time Point Annotations for Gesture Recognition.

    Science.gov (United States)

    Nguyen-Dinh, Long-Van; Calatroni, Alberto; Troester, Gerhard

    2016-12-08

    This paper investigates a new annotation technique that reduces significantly the amount of time to annotate training data for gesture recognition. Conventionally, the annotations comprise the start and end times, and the corresponding labels of gestures in sensor recordings. In this work, we propose a one-time point annotation in which labelers do not have to select the start and end time carefully, but just mark a one-time point within the time a gesture is happening. The technique gives more freedom and reduces significantly the burden for labelers. To make the one-time point annotations applicable, we propose a novel BoundarySearch algorithm to find automatically the correct temporal boundaries of gestures by discovering data patterns around their given one-time point annotations. The corrected annotations are then used to train gesture models. We evaluate the method on three applications from wearable gesture recognition with various gesture classes (10-17 classes) recorded with different sensor modalities. The results show that training on the corrected annotations can achieve performances close to a fully supervised training on clean annotations (lower by just up to 5% F1-score on average). Furthermore, the BoundarySearch algorithm is also evaluated on the ChaLearn 2014 multi-modal gesture recognition challenge recorded with Kinect sensors from computer vision and achieves similar results.

  13. Correction of the Caulobacter crescentus NA1000 genome annotation.

    Directory of Open Access Journals (Sweden)

    Bert Ely

    Full Text Available Bacterial genome annotations are accumulating rapidly in the GenBank database and the use of automated annotation technologies to create these annotations has become the norm. However, these automated methods commonly result in a small, but significant percentage of genome annotation errors. To improve accuracy and reliability, we analyzed the Caulobacter crescentus NA1000 genome utilizing computer programs Artemis and MICheck to manually examine the third codon position GC content, alignment to a third codon position GC frame plot peak, and matches in the GenBank database. We identified 11 new genes, modified the start site of 113 genes, and changed the reading frame of 38 genes that had been incorrectly annotated. Furthermore, our manual method of identifying protein-coding genes allowed us to remove 112 non-coding regions that had been designated as coding regions. The improved NA1000 genome annotation resulted in a reduction in the use of rare codons since noncoding regions with atypical codon usage were removed from the annotation and 49 new coding regions were added to the annotation. Thus, a more accurate codon usage table was generated as well. These results demonstrate that a comparison of the location of peaks third codon position GC content to the location of protein coding regions could be used to verify the annotation of any genome that has a GC content that is greater than 60%.

  14. Correction of the Caulobacter crescentus NA1000 genome annotation.

    Science.gov (United States)

    Ely, Bert; Scott, LaTia Etheredge

    2014-01-01

    Bacterial genome annotations are accumulating rapidly in the GenBank database and the use of automated annotation technologies to create these annotations has become the norm. However, these automated methods commonly result in a small, but significant percentage of genome annotation errors. To improve accuracy and reliability, we analyzed the Caulobacter crescentus NA1000 genome utilizing computer programs Artemis and MICheck to manually examine the third codon position GC content, alignment to a third codon position GC frame plot peak, and matches in the GenBank database. We identified 11 new genes, modified the start site of 113 genes, and changed the reading frame of 38 genes that had been incorrectly annotated. Furthermore, our manual method of identifying protein-coding genes allowed us to remove 112 non-coding regions that had been designated as coding regions. The improved NA1000 genome annotation resulted in a reduction in the use of rare codons since noncoding regions with atypical codon usage were removed from the annotation and 49 new coding regions were added to the annotation. Thus, a more accurate codon usage table was generated as well. These results demonstrate that a comparison of the location of peaks third codon position GC content to the location of protein coding regions could be used to verify the annotation of any genome that has a GC content that is greater than 60%.

  15. Introduction to annotated logics foundations for paracomplete and paraconsistent reasoning

    CERN Document Server

    Abe, Jair Minoro; Nakamatsu, Kazumi

    2015-01-01

    This book is written as an introduction to annotated logics. It provides logical foundations for annotated logics, discusses some interesting applications of these logics and also includes the authors' contributions to annotated logics. The central idea of the book is to show how annotated logic can be applied as a tool to solve problems of technology and of applied science. The book will be of interest to pure and applied logicians, philosophers, and computer scientists as a monograph on a kind of paraconsistent logic. But, the layman will also take profit from its reading.

  16. Expert Systems: An Overview for Teacher-Librarians.

    Science.gov (United States)

    Orwig, Gary; Barron, Ann

    1992-01-01

    Provides an overview of expert systems for teacher librarians. Highlights include artificial intelligence and expert systems; the development of the MYCIN medical expert system; rule-based expert systems; the use of expert system shells to develop a specific system; and how to select an appropriate application for an expert system. (11 references)…

  17. Intrusion Detection Approach Using Connectionist Expert System

    Institute of Scientific and Technical Information of China (English)

    MA Rui; LIU Yu-shu; DU Yan-hui

    2005-01-01

    In order to improve the detection efficiency of rule-based expert systems, an intrusion detection approach using connectionist expert system is proposed. The approach converts the AND/OR nodes into the corresponding neurons, adopts the three-layered feed forward network with full interconnection between layers,translates the feature values into the continuous values belong to the interval [0, 1 ], shows the confidence degree about intrusion detection rules using the weight values of the neural networks and makes uncertain inference with sigmoid function. Compared with the rule-based expert system, the neural network expert system improves the inference efficiency.

  18. Towards a Library of Standard Operating Procedures (SOPs) for (meta)genomic annotation

    Energy Technology Data Exchange (ETDEWEB)

    Kyrpides, Nikos; Angiuoli, Samuel V.; Cochrane, Guy; Field, Dawn; Garrity, George; Gussman, Aaron; Kodira, Chinnappa D.; Klimke, William; Kyrpides, Nikos; Madupu, Ramana; Markowitz, Victor; Tatusova, Tatiana; Thomson, Nick; White, Owen

    2008-04-01

    Genome annotations describe the features of genomes and accompany sequences in genome databases. The methodologies used to generate genome annotation are diverse and typically vary amongst groups. Descriptions of the annotation procedure are helpful in interpreting genome annotation data. Standard Operating Procedures (SOPs) for genome annotation describe the processes that generate genome annotations. Some groups are currently documenting procedures but standards are lacking for structure and content of annotation SOPs. In addition, there is no central repository to store and disseminate procedures and protocols for genome annotation. We highlight the importance of SOPs for genome annotation and endorse a central online repository of SOPs.

  19. EFFICIENT VIDEO ANNOTATIONS BY AN IMAGE GROUPS

    Directory of Open Access Journals (Sweden)

    K . Mahi balan

    2015-10-01

    Full Text Available Searching desirable events in uncontrolled videos is a challenging task. So, researches mainly focus on obtaining concepts from numerous labelled videos. But it is time consuming and labour expensive to collect a large amount of required labelled videos for training event models under various condition. To avoid this problem, we propose to leverage abundant Web images for videos since Web images contain a rich source of information with many events roughly annotated and taken under various conditions. However, information from the Web is difficult .so,brute force knowledge transfer of images may hurt the video annotation performance. so, we propose a novel Group-based Domain Adaptation learning framework to leverage different groups of knowledge (source target queried from the Web image search engine to consumer videos (domain target. Different from old methods using multiple source domains of images, our method makes the Web images according to their intrinsic semantic relationships instead of source. Specifically, two different types of groups ( event-specific groups and concept-specific groups are exploited to respectively describe the event-level and concept-level semantic meanings of target-domain videos.

  20. A Novel Web-based Human Advisor Fuzzy Expert System

    Directory of Open Access Journals (Sweden)

    Vahid Rafe

    2013-01-01

    Full Text Available The applications of the Internet-based technologies and the concepts of fuzzy expert systems (FES have creatednew methods for sharing and distributing knowledge. However, there has been a general lack of investigation in thearea of web-based fuzzy expert systems. In this paper, the issues associated with the design, development, and useof web-based applications from a standpoint of the benefits and challenges of development and utilization areinvestigated. The original theory and concepts in conventional FES are reviewed and a knowledge engineeringframework for developing such systems is revised. For a human advisor to have a satisfying performance, expertise isa must. In addition, some of advisory rules are subject to change because of domain knowledge update. The humanrequests may have linguistic or crisp forms and a conventional expert system (ES is not able to overcome thefuzziness in the problem nature. In this research, a Web-based fuzzy expert system for Common Human Advisor(FES-CHA is developed and implemented to be used as a student advisor at the department's web portal. Thesystem is implemented by using Microsoft Visual Studio .NET 2010, MVC and Microsoft SQL Server 2012.

  1. An Annotated Bibliography on Social Reinforcement: Evaluative Abstracts of Research and Theory. Interim Report, June 1972-October 1973.

    Science.gov (United States)

    Klimoski, Richard J.; And Others

    An annotated bibliography of studies dealing with social reinforcement in diverse psychological and educational contexts is given. The research reviewed covers the period from 1964 to 1972, and individual studies are classified according to classes of variables which have been found to moderate the effectiveness of social reinforcement. All told,…

  2. Annotate-it: a Swiss-knife approach to annotation, analysis and interpretation of single nucleotide variation in human disease.

    Science.gov (United States)

    Sifrim, Alejandro; Van Houdt, Jeroen Kj; Tranchevent, Leon-Charles; Nowakowska, Beata; Sakai, Ryo; Pavlopoulos, Georgios A; Devriendt, Koen; Vermeesch, Joris R; Moreau, Yves; Aerts, Jan

    2012-01-01

    The increasing size and complexity of exome/genome sequencing data requires new tools for clinical geneticists to discover disease-causing variants. Bottlenecks in identifying the causative variation include poor cross-sample querying, constantly changing functional annotation and not considering existing knowledge concerning the phenotype. We describe a methodology that facilitates exploration of patient sequencing data towards identification of causal variants under different genetic hypotheses. Annotate-it facilitates handling, analysis and interpretation of high-throughput single nucleotide variant data. We demonstrate our strategy using three case studies. Annotate-it is freely available and test data are accessible to all users at http://www.annotate-it.org.

  3. Practical problems in aggregating expert opinions

    Energy Technology Data Exchange (ETDEWEB)

    Booker, J.M.; Picard, R.R.; Meyer, M.A.

    1993-11-01

    Expert opinion is data given by a qualified person in response to a technical question. In these analyses, expert opinion provides information where other data are either sparse or non-existent. Improvements in forecasting result from the advantageous addition of expert opinion to observed data in many areas, such as meteorology and econometrics. More generally, analyses of large, complex systems often involve experts on various components of the system supplying input to a decision process; applications include such wide-ranging areas as nuclear reactor safety, management science, and seismology. For large or complex applications, no single expert may be knowledgeable enough about the entire application. In other problems, decision makers may find it comforting that a consensus or aggregation of opinions is usually better than a single opinion. Many risk and reliability studies require a single estimate for modeling, analysis, reporting, and decision making purposes. For problems with large uncertainties, the strategy of combining as diverse a set of experts as possible hedges against underestimation of that uncertainty. Decision makers are frequently faced with the task of selecting the experts and combining their opinions. However, the aggregation is often the responsibility of an analyst. Whether the decision maker or the analyst does the aggregation, the input for it, such as providing weights for experts or estimating other parameters, is imperfect owing to a lack of omniscience. Aggregation methods for expert opinions have existed for over thirty years; yet many of the difficulties with their use remain unresolved. The bulk of these problem areas are summarized in the sections that follow: sensitivities of results to assumptions, weights for experts, correlation of experts, and handling uncertainties. The purpose of this paper is to discuss the sources of these problems and describe their effects on aggregation.

  4. Explosion probability of unexploded ordnance: expert beliefs.

    Science.gov (United States)

    MacDonald, Jacqueline Anne; Small, Mitchell J; Morgan, M G

    2008-08-01

    This article reports on a study to quantify expert beliefs about the explosion probability of unexploded ordnance (UXO). Some 1,976 sites at closed military bases in the United States are contaminated with UXO and are slated for cleanup, at an estimated cost of $15-140 billion. Because no available technology can guarantee 100% removal of UXO, information about explosion probability is needed to assess the residual risks of civilian reuse of closed military bases and to make decisions about how much to invest in cleanup. This study elicited probability distributions for the chance of UXO explosion from 25 experts in explosive ordnance disposal, all of whom have had field experience in UXO identification and deactivation. The study considered six different scenarios: three different types of UXO handled in two different ways (one involving children and the other involving construction workers). We also asked the experts to rank by sensitivity to explosion 20 different kinds of UXO found at a case study site at Fort Ord, California. We found that the experts do not agree about the probability of UXO explosion, with significant differences among experts in their mean estimates of explosion probabilities and in the amount of uncertainty that they express in their estimates. In three of the six scenarios, the divergence was so great that the average of all the expert probability distributions was statistically indistinguishable from a uniform (0, 1) distribution-suggesting that the sum of expert opinion provides no information at all about the explosion risk. The experts' opinions on the relative sensitivity to explosion of the 20 UXO items also diverged. The average correlation between rankings of any pair of experts was 0.41, which, statistically, is barely significant (p= 0.049) at the 95% confidence level. Thus, one expert's rankings provide little predictive information about another's rankings. The lack of consensus among experts suggests that empirical studies

  5. Training Technology Handbook Development. Phase I. Annotated Literature Review.

    Science.gov (United States)

    1981-08-01

    DTIC TAB ] " Unannounced " Just if icatiorl. D stribultion/ ’ OSTI\\Iv1ai~t ce Dist Spoc l iiiV...prepared by the Chief, Naval Education and Training (CNET) with assistance of a Training Resources Panel (TRP). Manpower planning as related to the...system requirements, define education /training requirements, develop objectives and tests, plan/develop/validate in- S struction, conduct and evaluate

  6. Management and Supervisory Training: A Review and Annotated Bibliography.

    Science.gov (United States)

    1980-09-01

    presented by sound films. It should be noted that no measures of actual performance as leaders were obtained. Moffie , Calhoon, and O’Brien (1964) reported a...Attitudes of Research and Development Supervisors." Journal of Applied Psychology, 1960, 44, 224-232. Moffie , D.J., Calhoon, R., and O’Brien, J.K

  7. The Test Score Decline: A Review and Annotated Bibliography

    Science.gov (United States)

    1981-08-01

    J.R., The Test Score Decline: Are the Public Schools the Scapegoat? Part Two =129. K%’apfer. P., Kapfer , M., & Woodruff, A., Declining Test Scores...Michigan State University, August 1976. 129. Kapfer , P.F., Kapfer , M.B., & Woodruff, A.D., Declining test scores: Inter- pretations, issues, and relationship

  8. 16 CFR 255.3 - Expert endorsements.

    Science.gov (United States)

    2010-01-01

    ... 16 Commercial Practices 1 2010-01-01 2010-01-01 false Expert endorsements. 255.3 Section 255.3 Commercial Practices FEDERAL TRADE COMMISSION GUIDES AND TRADE PRACTICE RULES GUIDES CONCERNING USE OF ENDORSEMENTS AND TESTIMONIALS IN ADVERTISING § 255.3 Expert endorsements. (a) Whenever an...

  9. Graphic Novels in Libraries: An Expert's Opinion

    Science.gov (United States)

    Foster, Katy

    2004-01-01

    Barbara Gordon a librarian and computer expert from Gotham city is a genius level intellect and photographic memory expert at research and analysis. According to her, graphic novels and comics are wildly appealing to readers of all ages and intensely popular with adolescents.

  10. Expert group formation using facility location analysis

    NARCIS (Netherlands)

    Neshati, Mahmood; Beigy, Hamid; Hiemstra, Djoerd

    2014-01-01

    In this paper, we propose an optimization framework to retrieve an optimal group of experts to perform a multi-aspect task. While a diverse set of skills are needed to perform a multi-aspect task, the group of assigned experts should be able to collectively cover all these required skills. We consid

  11. Using Expert Systems For Computational Tasks

    Science.gov (United States)

    Duke, Eugene L.; Regenie, Victoria A.; Brazee, Marylouise; Brumbaugh, Randal W.

    1990-01-01

    Transformation technique enables inefficient expert systems to run in real time. Paper suggests use of knowledge compiler to transform knowledge base and inference mechanism of expert-system computer program into conventional computer program. Main benefit, faster execution and reduced processing demands. In avionic systems, transformation reduces need for special-purpose computers.

  12. Contextual factors for finding similar experts

    NARCIS (Netherlands)

    K. Hofmann; K. Balog; T. Bogers; M. de Rijke

    2010-01-01

    Expertise-seeking research studies how people search for expertise and choose whom to contact in the context of a specific task. An important outcome are models that identify factors that influence expert finding. Expertise retrieval addresses the same problem, expert finding, but from a system-cent

  13. Reviews

    Science.gov (United States)

    2004-03-01

    WEB WATCH (204) Try unearthing some interesting information about archaeology BOOK REVIEWS (206) Teaching and assessing practical skills Book Review: Learn to drive with Sir Isaac Newton DVD REVIEW (207) Bring some sunshine into the classroom EQUIPMENT REVIEWS (208) Robust air puck takes a kicking Flowlog offers sensing options plus multimode datalogging Mastering Chladni figures takes practice but it offers surprises

  14. Expert and Competent Non-Expert Visual Cues during Simulated Diagnosis in Intensive Care

    Directory of Open Access Journals (Sweden)

    Clare eMcCormack

    2014-08-01

    Full Text Available The aim of this study was to examine the information acquisition strategies of expert and competent non-expert intensive care physicians during two simulated diagnostic scenarios involving respiratory distress in an infant. Specifically, the information acquisition performance of six experts and 12 competent non-experts was examined using an eye tracker during the initial 90 seconds of the assessment of the patient. The results indicated that, in comparison to competent non-experts, experts recorded longer mean fixations, irrespective of the scenario. When the dwell times were examined against specific areas of interest, the results revealed that competent non-experts recorded greater overall dwell times on the nurse, where experts recorded relatively greater dwell times on the head and face of the manikin. In the context of the scenarios, experts recorded differential dwell times, spending relatively more time on the head and face during the seizure scenario than during the coughing scenario. The differences evident between experts and competent non-experts were interpreted as evidence of the relative availability of task-specific cues or heuristics in memory that might direct the process of information acquisition amongst expert physicians. The implications are discussed for the training and assessment of diagnostic skills.

  15. Semi-automatic semantic annotation of PubMed queries: a study on quality, efficiency, satisfaction.

    Science.gov (United States)

    Névéol, Aurélie; Islamaj Doğan, Rezarta; Lu, Zhiyong

    2011-04-01

    Information processing algorithms require significant amounts of annotated data for training and testing. The availability of such data is often hindered by the complexity and high cost of production. In this paper, we investigate the benefits of a state-of-the-art tool to help with the semantic annotation of a large set of biomedical queries. Seven annotators were recruited to annotate a set of 10,000 PubMed® queries with 16 biomedical and bibliographic categories. About half of the queries were annotated from scratch, while the other half were automatically pre-annotated and manually corrected. The impact of the automatic pre-annotations was assessed on several aspects of the task: time, number of actions, annotator satisfaction, inter-annotator agreement, quality and number of the resulting annotations. The analysis of annotation results showed that the number of required hand annotations is 28.9% less when using pre-annotated results from automatic tools. As a result, the overall annotation time was substantially lower when pre-annotations were used, while inter-annotator agreement was significantly higher. In addition, there was no statistically significant difference in the semantic distribution or number of annotations produced when pre-annotations were used. The annotated query corpus is freely available to the research community. This study shows that automatic pre-annotations are found helpful by most annotators. Our experience suggests using an automatic tool to assist large-scale manual annotation projects. This helps speed-up the annotation time and improve annotation consistency while maintaining high quality of the final annotations.

  16. SELECTING EXPERTS USING DATA QUALITY CONCEPTS

    Directory of Open Access Journals (Sweden)

    Carlos Eduardo Barbosa

    2015-12-01

    Full Text Available Personal networks are not always diverse or large enough to reach those with the right information. This problem increases when assembling a group of experts from around the world, something which is a challenge in Future-oriented Technology Analysis (FTA. In this work, we address the formation of a panel of experts, specifically how to select a group of experts from a huge group of people. We propose an approach which uses data quality dimensions to improve expert selection quality and provide quality metrics to the forecaster. We performed a case study and successfully showed that it is possible to use data quality methods to support the expert search process.

  17. An Expert System Approach for Garden Designing

    Directory of Open Access Journals (Sweden)

    NiloofarMozafari

    2012-10-01

    Full Text Available In the recent years, the quality of human life is improved by artificial intelligencetechniques. In artificial intelligence, an expert system is a computer system that emulates thedecision-making ability of a human expert. Expert systems are designed to solve complexproblems by reasoning about knowledge, like an expert. In this paper, we propose an expertsystem with the aim of designing the garden with considering the different taste of thepeople. The proposed system can help people to design their garden themselves. Indeed, it isable to use by architectures to provide decision support system, interactive training tool andexpert advice. The system constitutes part of intelligent system of designing the garden. Aninitial evaluation of the expert system was carried out and a positive feedback was receivedfrom the users.

  18. Expert Evidence and International Criminal Justice

    DEFF Research Database (Denmark)

    Appazov, Artur

    The book is a comprehensive narration of the use of expertise in international criminal trials offering reflection on standards concerning the quality and presentation of expert evidence. It analyzes and critiques the rules governing expert evidence in international criminal trials...... and the strategies employed by counsel and courts relying upon expert evidence and challenges that courts face determining its reliability. In particular, the author considers how the procedural and evidentiary architecture of international criminal courts and tribunals influences the courts' ability to meaningfully...... incorporate expert evidence into the rational fact-finding process. The book provides analysis of the unique properties of expert evidence as compared with other forms of evidence and the challenges that these properties present for fact-finding in international criminal trials. It draws conclusions about...

  19. 李大钊著作编注与研究的前沿成果--评李继华、冯铁金等《李大钊轶文辑注与研究》%The Frontier Achievement of Edition, Annotation and Study on Li Da-zhao's Anecdotal Literature---A book Review of Edition and Annotation and Study on Li Da-zhao's Anecdotal Literature by Li Ji-hua, Feng Tie-jin

    Institute of Scientific and Technical Information of China (English)

    崔鲁威

    2014-01-01

    The authors of Edition and Annotation and Study on Li Dazhao's Anecdotal Literature have made focused searching for newspapers publishing Li Daozhao's anecdotes, and analyzed deeply those manuscripts without a signature or with a signature but difficult to confirm author's identity, and have verified that some works may be written by Li Dazhao. At the same time, they collect Li Dazhao's other anecdotes found by the other scholars in this book. There are several main features in this book:collecting extensively and striving to complete, combining search with textual research and structural integrity, treating innovation as equal as question.%李继华、冯铁金等编注的《李大钊轶文辑注与研究》一书,对曾经发表过李大钊文章的报刊进行了重点搜索,对那些没有署名,或虽有署名却难以确定作者的文稿进行深入辨析,考证出部分文章应该为李大钊所作;同时收录其他学者发现的李大钊轶文,一并汇集于《辑注与研究》之中。该书的主要特点有:广泛搜集,力求完备;搜考结合,结构完整;创新与存疑并重。

  20. Mastery Learning and Mastery Testing: An Annotated ERIC Bibliography.

    Science.gov (United States)

    Wildemuth, Barbara M., Comp.

    This 136-item annotated bibliography on mastery learning and mastery testing is the result of a computer search of the ERIC data base in February 1977. All entries are listed alphabetically by author. An abstract or annotation is provided for each entry. A subject index is included reflecting the major emphasis of each citation. (RC)

  1. Gene calling and bacterial genome annotation with BG7.

    Science.gov (United States)

    Tobes, Raquel; Pareja-Tobes, Pablo; Manrique, Marina; Pareja-Tobes, Eduardo; Kovach, Evdokim; Alekhin, Alexey; Pareja, Eduardo

    2015-01-01

    New massive sequencing technologies are providing many bacterial genome sequences from diverse taxa but a refined annotation of these genomes is crucial for obtaining scientific findings and new knowledge. Thus, bacterial genome annotation has emerged as a key point to investigate in bacteria. Any efficient tool designed specifically to annotate bacterial genomes sequenced with massively parallel technologies has to consider the specific features of bacterial genomes (absence of introns and scarcity of nonprotein-coding sequence) and of next-generation sequencing (NGS) technologies (presence of errors and not perfectly assembled genomes). These features make it convenient to focus on coding regions and, hence, on protein sequences that are the elements directly related with biological functions. In this chapter we describe how to annotate bacterial genomes with BG7, an open-source tool based on a protein-centered gene calling/annotation paradigm. BG7 is specifically designed for the annotation of bacterial genomes sequenced with NGS. This tool is sequence error tolerant maintaining their capabilities for the annotation of highly fragmented genomes or for annotating mixed sequences coming from several genomes (as those obtained through metagenomics samples). BG7 has been designed with scalability as a requirement, with a computing infrastructure completely based on cloud computing (Amazon Web Services).

  2. Collaborative Paper-Based Annotation of Lecture Slides

    Science.gov (United States)

    Steimle, Jurgen; Brdiczka, Oliver; Muhlhauser, Max

    2009-01-01

    In a study of notetaking in university courses, we found that the large majority of students prefer paper to computer-based media like Tablet PCs for taking notes and making annotations. Based on this finding, we developed CoScribe, a concept and system which supports students in making collaborative handwritten annotations on printed lecture…

  3. Product annotations - KOME | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us ...ile name: kome_product_annotation.zip File URL: ftp://ftp.biosciencedbc.jp/archiv...ate History of This Database Site Policy | Contact Us Product annotations - KOME | LSDB Archive ...

  4. Orienteering: An Annotated Bibliography = Orientierungslauf: Eine kommentierte Bibliographie.

    Science.gov (United States)

    Seiler, Roland, Ed.; Hartmann, Wolfgang, Ed.

    1994-01-01

    Annotated bibliography of 220 books, monographs, and journal articles on orienteering published 1984-94, from SPOLIT database of the Federal Institute of Sport Science (Cologne, Germany). Annotations in English or German. Ten sections including psychological, physiological, health, sociological, and environmental aspects; training and coaching;…

  5. Behavioral Contributions to "Teaching of Psychology": An Annotated Bibliography

    Science.gov (United States)

    Karsten, A. M.; Carr, J. E.

    2008-01-01

    An annotated bibliography that summarizes behavioral contributions to the journal "Teaching of Psychology" from 1974 to 2006 is provided. A total of 116 articles of potential utility to college-level instructors of behavior analysis and related areas were identified, annotated, and organized into nine categories for ease of accessibility.…

  6. Annotation-Based Whole Genomic Prediction and Selection

    DEFF Research Database (Denmark)

    Kadarmideen, Haja; Do, Duy Ngoc; Janss, Luc;

    in their contribution to estimated genomic variances and in prediction of genomic breeding values by applying SNP annotation approaches to feed efficiency. Ensembl Variant Predictor (EVP) and Pig QTL database were used as the source of genomic annotation for 60K chip. Genomic prediction was performed using the Bayes...... prove useful for less heritable traits such as diseases and fertility...

  7. The RAST Server: Rapid Annotations using Subsystems Technology

    Directory of Open Access Journals (Sweden)

    Overbeek Ross A

    2008-02-01

    Full Text Available Abstract Background The number of prokaryotic genome sequences becoming available is growing steadily and is growing faster than our ability to accurately annotate them. Description We describe a fully automated service for annotating bacterial and archaeal genomes. The service identifies protein-encoding, rRNA and tRNA genes, assigns functions to the genes, predicts which subsystems are represented in the genome, uses this information to reconstruct the metabolic network and makes the output easily downloadable for the user. In addition, the annotated genome can be browsed in an environment that supports comparative analysis with the annotated genomes maintained in the SEED environment. The service normally makes the annotated genome available within 12–24 hours of submission, but ultimately the quality of such a service will be judged in terms of accuracy, consistency, and completeness of the produced annotations. We summarize our attempts to address these issues and discuss plans for incrementally enhancing the service. Conclusion By providing accurate, rapid annotation freely to the community we have created an important community resource. The service has now been utilized by over 120 external users annotating over 350 distinct genomes.

  8. Solving the Problem: Genome Annotation Standards before the Data Deluge

    Science.gov (United States)

    Klimke, William; O'Donovan, Claire; White, Owen; Brister, J. Rodney; Clark, Karen; Fedorov, Boris; Mizrachi, Ilene; Pruitt, Kim D.; Tatusova, Tatiana

    2011-01-01

    The promise of genome sequencing was that the vast undiscovered country would be mapped out by comparison of the multitude of sequences available and would aid researchers in deciphering the role of each gene in every organism. Researchers recognize that there is a need for high quality data. However, different annotation procedures, numerous databases, and a diminishing percentage of experimentally determined gene functions have resulted in a spectrum of annotation quality. NCBI in collaboration with sequencing centers, archival databases, and researchers, has developed the first international annotation standards, a fundamental step in ensuring that high quality complete prokaryotic genomes are available as gold standard references. Highlights include the development of annotation assessment tools, community acceptance of protein naming standards, comparison of annotation resources to provide consistent annotation, and improved tracking of the evidence used to generate a particular annotation. The development of a set of minimal standards, including the requirement for annotated complete prokaryotic genomes to contain a full set of ribosomal RNAs, transfer RNAs, and proteins encoding core conserved functions, is an historic milestone. The use of these standards in existing genomes and future submissions will increase the quality of databases, enabling researchers to make accurate biological discoveries. PMID:22180819

  9. JAFA: a protein function annotation meta-server

    DEFF Research Database (Denmark)

    Friedberg, Iddo; Harder, Tim; Godzik, Adam

    2006-01-01

    With the high number of sequences and structures streaming in from genomic projects, there is a need for more powerful and sophisticated annotation tools. Most problematic of the annotation efforts is predicting gene and protein function. Over the past few years there has been considerable progre...

  10. The GATO gene annotation tool for research laboratories

    Directory of Open Access Journals (Sweden)

    A. Fujita

    2005-11-01

    Full Text Available Large-scale genome projects have generated a rapidly increasing number of DNA sequences. Therefore, development of computational methods to rapidly analyze these sequences is essential for progress in genomic research. Here we present an automatic annotation system for preliminary analysis of DNA sequences. The gene annotation tool (GATO is a Bioinformatics pipeline designed to facilitate routine functional annotation and easy access to annotated genes. It was designed in view of the frequent need of genomic researchers to access data pertaining to a common set of genes. In the GATO system, annotation is generated by querying some of the Web-accessible resources and the information is stored in a local database, which keeps a record of all previous annotation results. GATO may be accessed from everywhere through the internet or may be run locally if a large number of sequences are going to be annotated. It is implemented in PHP and Perl and may be run on any suitable Web server. Usually, installation and application of annotation systems require experience and are time consuming, but GATO is simple and practical, allowing anyone with basic skills in informatics to access it without any special training. GATO can be downloaded at [http://mariwork.iq.usp.br/gato/]. Minimum computer free space required is 2 MB.

  11. Online Metacognitive Strategies, Hypermedia Annotations, and Motivation on Hypertext Comprehension

    Science.gov (United States)

    Shang, Hui-Fang

    2016-01-01

    This study examined the effect of online metacognitive strategies, hypermedia annotations, and motivation on reading comprehension in a Taiwanese hypertext environment. A path analysis model was proposed based on the assumption that if English as a foreign language learners frequently use online metacognitive strategies and hypermedia annotations,…

  12. Design and implementation of a database for Brucella melitensis genome annotation.

    Science.gov (United States)

    De Hertogh, Benoît; Lahlimi, Leïla; Lambert, Christophe; Letesson, Jean-Jacques; Depiereux, Eric

    2008-03-18

    The genome sequences of three Brucella biovars and of some species close to Brucella sp. have become available, leading to new relationship analysis. Moreover, the automatic genome annotation of the pathogenic bacteria Brucella melitensis has been manually corrected by a consortium of experts, leading to 899 modifications of start sites predictions among the 3198 open reading frames (ORFs) examined. This new annotation, coupled with the results of automatic annotation tools of the complete genome sequences of the B. melitensis genome (including BLASTs to 9 genomes close to Brucella), provides numerous data sets related to predicted functions, biochemical properties and phylogenic comparisons. To made these results available, alphaPAGe, a functional auto-updatable database of the corrected sequence genome of B. melitensis, has been built, using the entity-relationship (ER) approach and a multi-purpose database structure. A friendly graphical user interface has been designed, and users can carry out different kinds of information by three levels of queries: (1) the basic search use the classical keywords or sequence identifiers; (2) the original advanced search engine allows to combine (by using logical operators) numerous criteria: (a) keywords (textual comparison) related to the pCDS's function, family domains and cellular localization; (b) physico-chemical characteristics (numerical comparison) such as isoelectric point or molecular weight and structural criteria such as the nucleic length or the number of transmembrane helix (TMH); (c) similarity scores with Escherichia coli and 10 species phylogenetically close to B. melitensis; (3) complex queries can be performed by using a SQL field, which allows all queries respecting the database's structure. The database is publicly available through a Web server at the following url: http://www.fundp.ac.be/urbm/bioinfo/aPAGe.

  13. Semantic annotation of clinical events for generating a problem list.

    Science.gov (United States)

    Mowery, Danielle L; Jordan, Pamela; Wiebe, Janyce; Harkema, Henk; Dowling, John; Chapman, Wendy W

    2013-01-01

    We present a pilot study of an annotation schema representing problems and their attributes, along with their relationship to temporal modifiers. We evaluated the ability for humans to annotate clinical reports using the schema and assessed the contribution of semantic annotations in determining the status of a problem mention as active, inactive, proposed, resolved, negated, or other. Our hypothesis is that the schema captures semantic information useful for generating an accurate problem list. Clinical named entities such as reference events, time points, time durations, aspectual phase, ordering words and their relationships including modifications and ordering relations can be annotated by humans with low to moderate recall. Once identified, most attributes can be annotated with low to moderate agreement. Some attributes - Experiencer, Existence, and Certainty - are more informative than other attributes - Intermittency and Generalized/Conditional - for predicting a problem mention's status. Support vector machine outperformed Naïve Bayes and Decision Tree for predicting a problem's status.

  14. The CLEF corpus: semantic annotation of clinical text.

    Science.gov (United States)

    Roberts, Angus; Gaizauskas, Robert; Hepple, Mark; Davis, Neil; Demetriou, George; Guo, Yikun; Kola, Jay; Roberts, Ian; Setzer, Andrea; Tapuria, Archana; Wheeldin, Bill

    2007-10-11

    The Clinical E-Science Framework (CLEF) project is building a framework for the capture, integration and presentation of clinical information: for clinical research, evidence-based health care and genotype-meets-phenotype informatics. A significant portion of the information required by such a framework originates as text, even in EHR-savvy organizations. CLEF uses Information Extraction (IE) to make this unstructured information available. An important part of IE is the identification of semantic entities and relationships. Typical approaches require human annotated documents to provide both evaluation standards and material for system development. CLEF has a corpus of clinical narratives, histopathology reports and imaging reports from 20 thousand patients. We describe the selection of a subset of this corpus for manual annotation of clinical entities and relationships. We describe an annotation methodology and report encouraging initial results of inter-annotator agreement. Comparisons are made between different text sub-genres, and between annotators with different skills.

  15. On Semantic Annotation in Clarin-PL Parallel Corpora

    Directory of Open Access Journals (Sweden)

    Violetta Koseska-Toszewa

    2015-12-01

    Full Text Available On Semantic Annotation in Clarin-PL Parallel Corpora In the article, the authors present a proposal for semantic annotation in Clarin-PL parallel corpora: Polish-Bulgarian-Russian and Polish-Lithuanian ones. Semantic annotation of quantification is a novum in developing sentence level semantics in multilingual parallel corpora. This is why our semantic annotation is manual. The authors hope it will be interesting to IT specialists working on automatic processing of the given natural languages. Semantic annotation defined the way it is defined here will make contrastive studies of natural languages more efficient, which in turn will help verify the results of those studies, and will certainly improve human and machine translations.

  16. Improving microbial genome annotations in an integrated database context.

    Directory of Open Access Journals (Sweden)

    I-Min A Chen

    Full Text Available Effective comparative analysis of microbial genomes requires a consistent and complete view of biological data. Consistency regards the biological coherence of annotations, while completeness regards the extent and coverage of functional characterization for genomes. We have developed tools that allow scientists to assess and improve the consistency and completeness of microbial genome annotations in the context of the Integrated Microbial Genomes (IMG family of systems. All publicly available microbial genomes are characterized in IMG using different functional annotation and pathway resources, thus providing a comprehensive framework for identifying and resolving annotation discrepancies. A rule based system for predicting phenotypes in IMG provides a powerful mechanism for validating functional annotations, whereby the phenotypic traits of an organism are inferred based on the presence of certain metabolic reactions and pathways and compared to experimentally observed phenotypes. The IMG family of systems are available at http://img.jgi.doe.gov/.

  17. SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals.

    Science.gov (United States)

    Nikolaichik, Yevgeny; Damienikan, Aliaksandr U

    2016-01-01

    The majority of bacterial genome annotations are currently automated and based on a 'gene by gene' approach. Regulatory signals and operon structures are rarely taken into account which often results in incomplete and even incorrect gene function assignments. Here we present SigmoID, a cross-platform (OS X, Linux and Windows) open-source application aiming at simplifying the identification of transcription regulatory sites (promoters, transcription factor binding sites and terminators) in bacterial genomes and providing assistance in correcting annotations in accordance with regulatory information. SigmoID combines a user-friendly graphical interface to well known command line tools with a genome browser for visualising regulatory elements in genomic context. Integrated access to online databases with regulatory information (RegPrecise and RegulonDB) and web-based search engines speeds up genome analysis and simplifies correction of genome annotation. We demonstrate some features of SigmoID by constructing a series of regulatory protein binding site profiles for two groups of bacteria: Soft Rot Enterobacteriaceae (Pectobacterium and Dickeya spp.) and Pseudomonas spp. Furthermore, we inferred over 900 transcription factor binding sites and alternative sigma factor promoters in the annotated genome of Pectobacterium atrosepticum. These regulatory signals control putative transcription units covering about 40% of the P. atrosepticum chromosome. Reviewing the annotation in cases where it didn't fit with regulatory information allowed us to correct product and gene names for over 300 loci.

  18. SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals

    Directory of Open Access Journals (Sweden)

    Yevgeny Nikolaichik

    2016-05-01

    Full Text Available The majority of bacterial genome annotations are currently automated and based on a ‘gene by gene’ approach. Regulatory signals and operon structures are rarely taken into account which often results in incomplete and even incorrect gene function assignments. Here we present SigmoID, a cross-platform (OS X, Linux and Windows open-source application aiming at simplifying the identification of transcription regulatory sites (promoters, transcription factor binding sites and terminators in bacterial genomes and providing assistance in correcting annotations in accordance with regulatory information. SigmoID combines a user-friendly graphical interface to well known command line tools with a genome browser for visualising regulatory elements in genomic context. Integrated access to online databases with regulatory information (RegPrecise and RegulonDB and web-based search engines speeds up genome analysis and simplifies correction of genome annotation. We demonstrate some features of SigmoID by constructing a series of regulatory protein binding site profiles for two groups of bacteria: Soft Rot Enterobacteriaceae (Pectobacterium and Dickeya spp. and Pseudomonas spp. Furthermore, we inferred over 900 transcription factor binding sites and alternative sigma factor promoters in the annotated genome of Pectobacterium atrosepticum. These regulatory signals control putative transcription units covering about 40% of the P. atrosepticum chromosome. Reviewing the annotation in cases where it didn’t fit with regulatory information allowed us to correct product and gene names for over 300 loci.

  19. Annotated bibliography of software engineering laboratory literature

    Science.gov (United States)

    Kistler, David; Bristow, John; Smith, Don

    1994-01-01

    This document is an annotated bibliography of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory. Nearly 200 publications are summarized. These publications cover many areas of software engineering and range from research reports to software documentation. This document has been updated and reorganized substantially since the original version (SEL-82-006, November 1982). All materials have been grouped into eight general subject areas for easy reference: (1) The Software Engineering Laboratory; (2) The Software Engineering Laboratory: Software Development Documents; (3) Software Tools; (4) Software Models; (5) Software Measurement; (6) Technology Evaluations; (7) Ada Technology; and (8) Data Collection. This document contains an index of these publications classified by individual author.

  20. Annotation of selection strengths in viral genomes

    DEFF Research Database (Denmark)

    McCauley, Stephen; de Groot, Saskia; Mailund, Thomas;

    2007-01-01

    Motivation: Viral genomes tend to code in overlapping reading frames to maximize information content. This may result in atypical codon bias and particular evolutionary constraints. Due to the fast mutation rate of viruses, there is additional strong evidence for varying selection between intra...... reading frames. We introduce an evolutionary model capable of accounting for varying levels of selection along the genome, and incorporate it into our prior single sequence HMM methodology, extending it now to a phylogenetic HMM. Given an alignment of several homologous viruses to a reference sequence, we...... may thus achieve an annotation both of coding regions as well as selection strengths, allowing us to investigate different selection patterns and hypotheses. Results: We illustrate our method by applying it to a multiple alignment of four HIV2 sequences, as well as four Hepatitis B sequences. We...

  1. Quality assessment of digital annotated ECG data from clinical trials by the FDA ECG Warehouse.

    Science.gov (United States)

    Sarapa, Nenad

    2007-09-01

    The FDA mandates that digital electrocardiograms (ECGs) from 'thorough' QTc trials be submitted into the ECG Warehouse in Health Level 7 extended markup language format with annotated onset and offset points of waveforms. The FDA did not disclose the exact Warehouse metrics and minimal acceptable quality standards. The author describes the Warehouse scoring algorithms and metrics used by FDA, points out ways to improve FDA review and suggests Warehouse benefits for pharmaceutical sponsors. The Warehouse ranks individual ECGs according to their score for each quality metric and produces histogram distributions with Warehouse-specific thresholds that identify ECGs of questionable quality. Automatic Warehouse algorithms assess the quality of QT annotation and duration of manual QT measurement by the central ECG laboratory.

  2. The UNO Aviation Monograph Series: Aviation Security: An Annotated Bibliography of Responses to the Gore Commission

    Science.gov (United States)

    Carrico, John S.; Schaaf, Michaela M.

    1998-01-01

    This monograph is a companion to UNOAI Monograph 96-2, "The Image of Airport Security: An Annotated Bibliography," compiled in June 1996. The White House Commission on Aviation Safety and Security, headed by Vice President Al Gore, was formed as a result of the TWA Flight 800 crash in August 1996. The Commission's final report included 31 recommendations addressed toward aviation security. The recommendations were cause for security issues to be revisited in the media and by the aviation industry. These developments necessitated the need for an updated bibliography to review the resulting literature. Many of the articles were written in response to the recommendations made by the Gore Commission. "Aviation Security: An Annotated Bibliography of Responses to the Gore Commission" is the result of this need.

  3. COLBERT: A Scoring Based Graphical Model for Expert Identification

    Science.gov (United States)

    Ahmad, Muhammad Aurangzeb; Zhao, Xin

    In recent years a number of graphical models have been proposed for Topic discovery in various contexts and network analysis. However there is one class of document corpus, documents with ratings, where the problem of topic discovery has not been explored in much detail. In such document corpuses reviews and ratings of documents in addition to the documents themselves are also available. In this paper we address the problem of discovery of latent structures in document-review corpus which can then be used to construct a social network of experts. We present a graphical model COLBERT that automatically discovers latent topics based on the contents of the document, the review of the document and the ratings of the review.

  4. Integrating semantic annotation and information visualization for the analysis of multichannel fluorescence micrographs from pancreatic tissue.

    Science.gov (United States)

    Herold, Julia; Zhou, Luxian; Abouna, Sylvie; Pelengaris, Stella; Epstein, David; Khan, Michael; Nattkemper, Tim W

    2010-09-01

    The challenging problem of computational bioimage analysis receives growing attention from life sciences. Fluorescence microscopy is capable of simultaneously visualizing multiple molecules by staining with different fluorescent dyes. In the analysis of the result multichannel images, segmentation of ROIs resembles only a first step which must be followed by a second step towards the analysis of the ROI's signals in the different channels. In this paper we present a system that combines image segmentation and information visualization principles for an integrated analysis of fluorescence micrographs of tissue samples. The analysis aims at the detection and annotation of cells of the Islets of Langerhans and the whole pancreas, which is of great importance in diabetes studies and in the search for new anti-diabetes treatments. The system operates with two modules. The automatic annotation module applies supervised machine learning for cell detection and segmentation. The second information visualization module can be used for an interactive classification and visualization of cell types following the link-and-brush principle for filtering. We can compare the results obtained with our system with results obtained manually by an expert, who evaluated a set of example images three times to account for his intra-observer variance. The comparison shows that using our system the images can be evaluated with high accuracy which allows a considerable speed up of the time-consuming evaluation process.

  5. About Certain Semantic Annotation in Parallel Corpora

    Directory of Open Access Journals (Sweden)

    Violetta Koseska-Toszewa

    2015-06-01

    Full Text Available About Certain Semantic Annotation in Parallel Corpora The semantic notation analyzed in this works is contained in the second stream of semantic theories presented here – in the direct approach semantics. We used this stream in our work on the Bulgarian-Polish Contrastive Grammar. Our semantic notation distinguishes quantificational meanings of names and predicates, and indicates aspectual and temporal meanings of verbs. It relies on logical scope-based quantification and on the contemporary theory of processes, known as “Petri nets”. Thanks to it, we can distinguish precisely between a language form and its contents, e.g. a perfective verb form has two meanings: an event or a sequence of events and states, finally ended with an event. An imperfective verb form also has two meanings: a state or a sequence of states and events, finally ended with a state. In turn, names are quantified universally or existentially when they are “undefined”, and uniquely (using the iota operator when they are “defined”. A fact worth emphasizing is the possibility of quantifying not only names, but also the predicate, and then quantification concerns time and aspect.  This is a novum in elaborating sentence-level semantics in parallel corpora. For this reason, our semantic notation is manual. We are hoping that it will raise the interest of computer scientists working on automatic methods for processing the given natural languages. Semantic annotation defined like in this work will facilitate contrastive studies of natural languages, and this in turn will verify the results of those studies, and will certainly facilitate human and machine translations.

  6. CCSI Risk Estimation: An Application of Expert Elicitation

    Energy Technology Data Exchange (ETDEWEB)

    Engel, David W.; Dalton, Angela C.

    2012-10-01

    The Carbon Capture Simulation Initiative (CCSI) is a multi-laboratory simulation-driven effort to develop carbon capture technologies with the goal of accelerating commercialization and adoption in the near future. One of the key CCSI technical challenges is representing and quantifying the inherent uncertainty and risks associated with developing, testing, and deploying the technology in simulated and real operational settings. To address this challenge, the CCSI Element 7 team developed a holistic risk analysis and decision-making framework. The purpose of this report is to document the CCSI Element 7 structured systematic expert elicitation to identify additional risk factors. We review the significance of and established approaches to expert elicitation, describe the CCSI risk elicitation plan and implementation strategies, and conclude by discussing the next steps and highlighting the contribution of risk elicitation toward the achievement of the overarching CCSI objectives.

  7. 6 Expert Tips for Flipping the Classroom

    Science.gov (United States)

    Demski, Jennifer

    2013-01-01

    In a flipped classroom, professors assign pre-class homework consisting of brief, recorded lectures and presentations, digital readings with collaborative annotation capabilities, and discussion board participation. This frees up classroom time to promote active learning through collaborative, project-based activities using simple display and…

  8. Expert Meeting. Optimized Heating Systems Using Condensing Boilers and Baseboard Convectors

    Energy Technology Data Exchange (ETDEWEB)

    Arena, L. [Steven Winter Associates, Inc., Norwalk, CT (United States)

    2013-01-01

    On August 11, 2011, in Denver, CO, a Building America Expert Meeting was held in conjunction with the Building America Residential Energy Efficiency Technical Update Meeting, to review and discuss results and future plans for research to improve the performance of hydronic heating systems using condensing boilers and baseboard convectors. A meeting objective was to provide an opportunity for other Building America teams and industry experts to provide feedback and specific suggestions for the planned research.

  9. Expert Meeting: Optimized Heating Systems Using Condensing Boilers and Baseboard Convectors

    Energy Technology Data Exchange (ETDEWEB)

    Arena, L.

    2013-01-01

    On August 11, 2011, in Denver, CO, a Building America Expert Meeting was held in conjunction with the Building America Residential Energy Efficiency Technical Update Meeting, to review and discuss results and future plans for research to improve the performance of hydronic heating systems using condensing boilers and baseboard convectors. A meeting objective was to provide an opportunity for other Building America teams and industry experts to provide feedback and specific suggestions for the planned research.

  10. Sherlock Holmes: an expert's view of expertise.

    Science.gov (United States)

    André, Didierjean; Fernand, Gobet

    2008-02-01

    In recent years, there has been an intense research effort to understand the cognitive processes and structures underlying expert behaviour. Work in different fields, including scientific domains, sports, games and mnemonics, has shown that there are vast differences in perceptual abilities between experts and novices, and that these differences may underpin other cognitive differences in learning, memory and problem solving. In this article, we evaluate the progress made in the last years through the eyes of an outstanding, albeit fictional, expert: Sherlock Holmes. We first use the Sherlock Holmes character to illustrate expert processes as described by current research and theories. In particular, the role of perception, as well as the nature and influence of expert knowledge, are all present in the description of Conan Doyle's hero. In the second part of the article, we discuss a number of issues that current research on expertise has barely addressed. These gaps include, for example, several forms of reasoning, the influence of emotions on cognition, and the effect of age on experts' knowledge and cognitive processes. Thus, although nearly 120-year-old, Conan Doyle's books show remarkable illustrations of expert behaviour, including the coverage of themes that have mostly been overlooked by current research.

  11. Developing Students' Reasoning about Samples and Sampling Variability as a Path to Expert Statistical Thinking

    Science.gov (United States)

    Garfield, Joan; Le, Laura; Zieffler, Andrew; Ben-Zvi, Dani

    2015-01-01

    This paper describes the importance of developing students' reasoning about samples and sampling variability as a foundation for statistical thinking. Research on expert-novice thinking as well as statistical thinking is reviewed and compared. A case is made that statistical thinking is a type of expert thinking, and as such, research…

  12. Subject Matter Experts from Academia

    Science.gov (United States)

    2009-08-06

    Citation Index – Psycinfo – Medline – Dissertation Abstracts – Others, consult with librarians UNCLASSIFIED – Approved for Public Release Databases will give you: Authors of articles – social scientists Click on author’s name and automatically access other works, other co-authors Institutions and Departments Other articles that cite the work Journals that publish relevant work Check journals for other scientists who publish there Check the editorial board Check reviewers UNCLASSIFIED – Approved for Public Release Finding

  13. 論美國專利訴訟之專家證人資格―以美國聯邦巡迴上訴法院與聯邦證據規則第702條有關之判決為中心 Qualification of Expert Witnesses in United States Patent Litigation: A Review of Federal Circuit Case Law Regarding Rule 702 of the Federal

    Directory of Open Access Journals (Sweden)

    陳秉訓 Ping-Hsun Chen

    2014-06-01

    monetary remedies. While expert witnesses play an important role in patent litigation, fewer studies explore the relevant case law about the qualification of experts or the admissibility of expert opinions. So, this paper is intended to address Federal Circuit case law regarding those issues. While Title 35 of the United States Code speaks nothing about expert witnesses, Rule 702 of the Federal Rules of Evidence is the only statutory basis for the requirements of qualified experts. In this paper, the case law review begins by examining the judicial interpretation of Rule 702. Three U.S. Supreme Court cases and several Federal Circuit cases will be analyzed. Then, this paper focuses on two categories of experts: technical experts and damages experts. Cases related to either category will be discussed. While Rule702 requires an expert to have “scientific, technical, or other specialized knowledge,” it is opt to a district court judge to admit or exclude expert witnesses or expert opinions as evidence heard by a jury. Besides, the Federal Circuit’s review standard is an abuse of discretion. So, a district court judge usually has much leeway. Furthermore, based on the analysis of the Federal Circuit cases, this article provides legal principles or propositions related to expert testimony.

  14. Fuzzy Emotional Semantic Analysis and Automated Annotation of Scene Images

    Directory of Open Access Journals (Sweden)

    Jianfang Cao

    2015-01-01

    Full Text Available With the advances in electronic and imaging techniques, the production of digital images has rapidly increased, and the extraction and automated annotation of emotional semantics implied by images have become issues that must be urgently addressed. To better simulate human subjectivity and ambiguity for understanding scene images, the current study proposes an emotional semantic annotation method for scene images based on fuzzy set theory. A fuzzy membership degree was calculated to describe the emotional degree of a scene image and was implemented using the Adaboost algorithm and a back-propagation (BP neural network. The automated annotation method was trained and tested using scene images from the SUN Database. The annotation results were then compared with those based on artificial annotation. Our method showed an annotation accuracy rate of 91.2% for basic emotional values and 82.4% after extended emotional values were added, which correspond to increases of 5.5% and 8.9%, respectively, compared with the results from using a single BP neural network algorithm. Furthermore, the retrieval accuracy rate based on our method reached approximately 89%. This study attempts to lay a solid foundation for the automated emotional semantic annotation of more types of images and therefore is of practical significance.

  15. Ontology modularization to improve semantic medical image annotation.

    Science.gov (United States)

    Wennerberg, Pinar; Schulz, Klaus; Buitelaar, Paul

    2011-02-01

    Searching for medical images and patient reports is a significant challenge in a clinical setting. The contents of such documents are often not described in sufficient detail thus making it difficult to utilize the inherent wealth of information contained within them. Semantic image annotation addresses this problem by describing the contents of images and reports using medical ontologies. Medical images and patient reports are then linked to each other through common annotations. Subsequently, search algorithms can more effectively find related sets of documents on the basis of these semantic descriptions. A prerequisite to realizing such a semantic search engine is that the data contained within should have been previously annotated with concepts from medical ontologies. One major challenge in this regard is the size and complexity of medical ontologies as annotation sources. Manual annotation is particularly time consuming labor intensive in a clinical environment. In this article we propose an approach to reducing the size of clinical ontologies for more efficient manual image and text annotation. More precisely, our goal is to identify smaller fragments of a large anatomy ontology that are relevant for annotating medical images from patients suffering from lymphoma. Our work is in the area of ontology modularization, which is a recent and active field of research. We describe our approach, methods and data set in detail and we discuss our results.

  16. Fuzzy emotional semantic analysis and automated annotation of scene images.

    Science.gov (United States)

    Cao, Jianfang; Chen, Lichao

    2015-01-01

    With the advances in electronic and imaging techniques, the production of digital images has rapidly increased, and the extraction and automated annotation of emotional semantics implied by images have become issues that must be urgently addressed. To better simulate human subjectivity and ambiguity for understanding scene images, the current study proposes an emotional semantic annotation method for scene images based on fuzzy set theory. A fuzzy membership degree was calculated to describe the emotional degree of a scene image and was implemented using the Adaboost algorithm and a back-propagation (BP) neural network. The automated annotation method was trained and tested using scene images from the SUN Database. The annotation results were then compared with those based on artificial annotation. Our method showed an annotation accuracy rate of 91.2% for basic emotional values and 82.4% after extended emotional values were added, which correspond to increases of 5.5% and 8.9%, respectively, compared with the results from using a single BP neural network algorithm. Furthermore, the retrieval accuracy rate based on our method reached approximately 89%. This study attempts to lay a solid foundation for the automated emotional semantic annotation of more types of images and therefore is of practical significance.

  17. Open semantic annotation of scientific publications using DOMEO

    Directory of Open Access Journals (Sweden)

    Ciccarese Paolo

    2012-04-01

    Full Text Available Abstract Background Our group has developed a useful shared software framework for performing, versioning, sharing and viewing Web annotations of a number of kinds, using an open representation model. Methods The Domeo Annotation Tool was developed in tandem with this open model, the Annotation Ontology (AO. Development of both the Annotation Framework and the open model was driven by requirements of several different types of alpha users, including bench scientists and biomedical curators from university research labs, online scientific communities, publishing and pharmaceutical companies. Several use cases were incrementally implemented by the toolkit. These use cases in biomedical communications include personal note-taking, group document annotation, semantic tagging, claim-evidence-context extraction, reagent tagging, and curation of textmining results from entity extraction algorithms. Results We report on the Domeo user interface here. Domeo has been deployed in beta release as part of the NIH Neuroscience Information Framework (NIF, http://www.neuinfo.org and is scheduled for production deployment in the NIF’s next full release. Future papers will describe other aspects of this work in detail, including Annotation Framework Services and components for integrating with external textmining services, such as the NCBO Annotator web service, and with other textmining applications using the Apache UIMA framework.

  18. Low-level radioactive waste technology: a selected, annotated bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Fore, C.S.; Vaughan, N.D.; Hyder, L.K.

    1980-10-01

    This annotated bibliography of 447 references contains scientific, technical, economic, and regulatory information relevant to low-level radioactive waste technology. The bibliography focuses on environmental transport, disposal site, and waste treatment studies. The publication covers both domestic and foreign literature for the period 1952 to 1979. Major chapters selected are Chemical and Physical Aspects; Container Design and Performance; Disposal Site; Environmental Transport; General Studies and Reviews; Geology, Hydrology and Site Resources; Regulatory and Economic Aspects; Transportation Technology; Waste Production; and Waste Treatment. Specialized data fields have been incorporated into the data file to improve the ease and accuracy of locating pertinent references. Specific radionuclides for which data are presented are listed in the Measured Radionuclides field, and specific parameters which affect the migration of these radionuclides are presented in the Measured Parameters field. In addition, each document referenced in this bibliography has been assigned a relevance number to facilitate sorting the documents according to their pertinence to low-level radioactive waste technology. The documents are rated 1, 2, 3, or 4, with 1 indicating direct applicability to low-level radioactive waste technology and 4 indicating that a considerable amount of interpretation is required for the information presented to be applied. The references within each chapter are arranged alphabetically by leading author, corporate affiliation, or title of the document. Indexes are provide for (1) author(s), (2) keywords, (3) subject category, (4) title, (5) geographic location, (6) measured parameters, (7) measured radionuclides, and (8) publication description.

  19. A Human-Curated Annotation of the Candida albicans Genome.

    Directory of Open Access Journals (Sweden)

    2005-07-01

    Full Text Available Recent sequencing and assembly of the genome for the fungal pathogen Candida albicans used simple automated procedures for the identification of putative genes. We have reviewed the entire assembly, both by hand and with additional bioinformatic resources, to accurately map and describe 6,354 genes and to identify 246 genes whose original database entries contained sequencing errors (or possibly mutations that affect their reading frame. Comparison with other fungal genomes permitted the identification of numerous fungus-specific genes that might be targeted for antifungal therapy. We also observed that, compared to other fungi, the protein-coding sequences in the C. albicans genome are especially rich in short sequence repeats. Finally, our improved annotation permitted a detailed analysis of several multigene families, and comparative genomic studies showed that C. albicans has a far greater catabolic range, encoding respiratory Complex 1, several novel oxidoreductases and ketone body degrading enzymes, malonyl-CoA and enoyl-CoA carriers, several novel amino acid degrading enzymes, a variety of secreted catabolic lipases and proteases, and numerous transporters to assimilate the resulting nutrients. The results of these efforts will ensure that the Candida research community has uniform and comprehensive genomic information for medical research as well as for future diagnostic and therapeutic applications.

  20. MimoSA: a system for minimotif annotation

    Directory of Open Access Journals (Sweden)

    Kundeti Vamsi

    2010-06-01

    Full Text Available Abstract Background Minimotifs are short peptide sequences within one protein, which are recognized by other proteins or molecules. While there are now several minimotif databases, they are incomplete. There are reports of many minimotifs in the primary literature, which have yet to be annotated, while entirely novel minimotifs continue to be published on a weekly basis. Our recently proposed function and sequence syntax for minimotifs enables us to build a general tool that will facilitate structured annotation and management of minimotif data from the biomedical literature. Results We have built the MimoSA application for minimotif annotation. The application supports management of the Minimotif Miner database, literature tracking, and annotation of new minimotifs. MimoSA enables the visualization, organization, selection and editing functions of minimotifs and their attributes in the MnM database. For the literature components, Mimosa provides paper status tracking and scoring of papers for annotation through a freely available machine learning approach, which is based on word correlation. The paper scoring algorithm is also available as a separate program, TextMine. Form-driven annotation of minimotif attributes enables entry of new minimotifs into the MnM database. Several supporting features increase the efficiency of annotation. The layered architecture of MimoSA allows for extensibility by separating the functions of paper scoring, minimotif visualization, and database management. MimoSA is readily adaptable to other annotation efforts that manually curate literature into a MySQL database. Conclusions MimoSA is an extensible application that facilitates minimotif annotation and integrates with the Minimotif Miner database. We have built MimoSA as an application that integrates dynamic abstract scoring with a high performance relational model of minimotif syntax. MimoSA's TextMine, an efficient paper-scoring algorithm, can be used to

  1. LiverCancerMarkerRIF: a liver cancer biomarker interactive curation system combining text mining and expert annotations

    Science.gov (United States)

    Dai, Hong-Jie; Wu, Johnny Chi-Yang; Lin, Wei-San; Reyes, Aaron James F.; dela Rosa, Mira Anne C.; Syed-Abdul, Shabbir; Tsai, Richard Tzong-Han; Hsu, Wen-Lian

    2014-01-01

    Biomarkers are biomolecules in the human body that can indicate disease states and abnormal biological processes. Biomarkers are often used during clinical trials to identify patients with cancers. Although biomedical research related to biomarkers has increased over the years and substantial effort has been expended to obtain results in these studies, the specific results obtained often contain ambiguities, and the results might contradict each other. Therefore, the information gathered from these studies must be appropriately integrated and organized to facilitate experimentation on biomarkers. In this study, we used liver cancer as the target and developed a text-mining–based curation system named LiverCancerMarkerRIF, which allows users to retrieve biomarker-related narrations and curators to curate supporting evidence on liver cancer biomarkers directly while browsing PubMed. In contrast to most of the other curation tools that require curators to navigate away from PubMed and accommodate distinct user interfaces or Web sites to complete the curation process, our system provides a user-friendly method for accessing text-mining–aided information and a concise interface to assist curators while they remain at the PubMed Web site. Biomedical text-mining techniques are applied to automatically recognize biomedical concepts such as genes, microRNA, diseases and investigative technologies, which can be used to evaluate the potential of a certain gene as a biomarker. Through the participation in the BioCreative IV user-interactive task, we examined the feasibility of using this novel type of augmented browsing-based curation method, and collaborated with curators to curate biomarker evidential sentences related to liver cancer. The positive feedback received from curators indicates that the proposed method can be effectively used for curation. A publicly available online database containing all the aforementioned information has been constructed at http://btm.tmu.edu.tw/livercancermarkerrif in an attempt to facilitate biomarker-related studies. Database URL: http://btm.tmu.edu.tw/LiverCancerMarkerRIF/ PMID:25168057

  2. 49 CFR 511.44 - Expert witnesses.

    Science.gov (United States)

    2010-10-01

    ...) Definition. An expert witness is one who, by reason of education, training, experience, or profession, has... the methodology underlying any analysis, and a full disclosure of the basis of any opinion. The...

  3. XPOS-MOPOS Expert Software Manual

    CERN Document Server

    De Vries, J C

    1997-01-01

    This document presents the software tools available for the experts to control and check the SPS orbit and trajectory systems. Presented are the configuration and acquisition data tools for XPOS and the timing diagnostics tools for MOPOS.

  4. Expert Network for Die Casing Defect Analysis

    Institute of Scientific and Technical Information of China (English)

    Jiadi WANG; Yongfeng JIANG; Chen LU; Wenjiang DING

    2003-01-01

    Due to the competition and high cost associated with die casting defects, it is urgent to adopt a rapid and effective method for defect analysis. In this research, a novel expert network approach was proposed to avoid some disadvantages of rulebased expert system. The main objective of the system is to assist die casting engineer in identifying defect, determining the probable causes of defect and proposing remedies to eliminate the defect. 14 common die casting defects could be identified quickly by expert system on the basis of their characteristics. BP neural network in combination with expert system was applied to map the complex relationship between causes and defects, and further explained the cause determination process.Cause determination gives due consideration to practical process conditions. Finally, corrective measures were recommended to eliminate the defect and implemented in the sequence of difficulty.

  5. An annotation system for 3D fluid flow visualization

    Science.gov (United States)

    Loughlin, Maria M.; Hughes, John F.

    1995-01-01

    Annotation is a key activity of data analysis. However, current systems for data analysis focus almost exclusively on visualization. We propose a system which integrates annotations into a visualization system. Annotations are embedded in 3D data space, using the Post-it metaphor. This embedding allows contextual-based information storage and retrieval, and facilitates information sharing in collaborative environments. We provide a traditional database filter and a Magic Lens filter to create specialized views of the data. The system has been customized for fluid flow applications, with features which allow users to store parameters of visualization tools and sketch 3D volumes.

  6. A resource-based Korean morphological annotation system

    CERN Document Server

    Huh, Hyun-Gue

    2007-01-01

    We describe a resource-based method of morphological annotation of written Korean text. Korean is an agglutinative language. The output of our system is a graph of morphemes annotated with accurate linguistic information. The language resources used by the system can be easily updated, which allows us-ers to control the evolution of the per-formances of the system. We show that morphological annotation of Korean text can be performed directly with a lexicon of words and without morpho-logical rules.

  7. Annotation of the protein coding regions of the equine genome

    DEFF Research Database (Denmark)

    Hestand, Matthew S.; Kalbfleisch, Theodore S.; Coleman, Stephen J.

    2015-01-01

    Current gene annotation of the horse genome is largely derived from in silico predictions and cross-species alignments. Only a small number of genes are annotated based on equine EST and mRNA sequences. To expand the number of equine genes annotated from equine experimental evidence, we sequenced m...... and appear to be small errors in the equine reference genome, since they are also identified as homozygous variants by genomic DNA resequencing of the reference horse. Taken together, we provide a resource of equine mRNA structures and protein coding variants that will enhance equine and cross...

  8. Jess, the Java expert system shell

    Energy Technology Data Exchange (ETDEWEB)

    Friedman-Hill, E.J.

    1997-11-01

    This report describes Jess, a clone of the popular CLIPS expert system shell written entirely in Java. Jess supports the development of rule-based expert systems which can be tightly coupled to code written in the powerful, portable Java language. The syntax of the Jess language is discussed, and a comprehensive list of supported functions is presented. A guide to extending Jess by writing Java code is also included.

  9. An active learning based classification strategy for the minority class problem: application to histopathology annotation

    Directory of Open Access Journals (Sweden)

    Doyle Scott

    2011-10-01

    Full Text Available Abstract Background Supervised classifiers for digital pathology can improve the ability of physicians to detect and diagnose diseases such as cancer. Generating training data for classifiers is problematic, since only domain experts (e.g. pathologists can correctly label ground truth data. Additionally, digital pathology datasets suffer from the "minority class problem", an issue where the number of exemplars from the non-target class outnumber target class exemplars which can bias the classifier and reduce accuracy. In this paper, we develop a training strategy combining active learning (AL with class-balancing. AL identifies unlabeled samples that are "informative" (i.e. likely to increase classifier performance for annotation, avoiding non-informative samples. This yields high accuracy with a smaller training set size compared with random learning (RL. Previous AL methods have not explicitly accounted for the minority class problem in biomedical images. Pre-specifying a target class ratio mitigates the problem of training bias. Finally, we develop a mathematical model to predict the number of annotations (cost required to achieve balanced training classes. In addition to predicting training cost, the model reveals the theoretical properties of AL in the context of the minority class problem. Results Using this class-balanced AL training strategy (CBAL, we build a classifier to distinguish cancer from non-cancer regions on digitized prostate histopathology. Our dataset consists of 12,000 image regions sampled from 100 biopsies (58 prostate cancer patients. We compare CBAL against: (1 unbalanced AL (UBAL, which uses AL but ignores class ratio; (2 class-balanced RL (CBRL, which uses RL with a specific class ratio; and (3 unbalanced RL (UBRL. The CBAL-trained classifier yields 2% greater accuracy and 3% higher area under the receiver operating characteristic curve (AUC than alternatively-trained classifiers. Our cost model accurately predicts

  10. Key attributes of expert NRL referees.

    Science.gov (United States)

    Morris, Gavin; O'Connor, Donna

    2017-05-01

    Experiential knowledge of elite National Rugby League (NRL) referees was investigated to determine the key attributes contributing to expert officiating performance. Fourteen current first-grade NRL referees were asked to identify the key attributes they believed contributed to their expert refereeing performance. The modified Delphi method involved a 3-round process of an initial semi-structured interview followed by 2 questionnaires to reach consensus of opinion. The data revealed 25 attributes that were rated as most important that underpin expert NRL refereeing performance. Results illustrate the significance of the cognitive category, with the top 6 ranked attributes all cognitive skills. Of these, the referees ranked decision-making accuracy as the most important attribute, followed by reading the game, communication, game understanding, game management and knowledge of the rules. Player rapport, positioning and teamwork were the top ranked game skill attributes underpinning performance excellence. Expert referees also highlighted a number of psychological attributes (e.g., concentration, composure and mental toughness) that were significant to performance. There were only 2 physiological attributes (fitness, aerobic endurance) that were identified as significant to elite officiating performance. In summary, expert consensus was attained which successfully provided a hierarchy of the most significant attributes of expert NRL refereeing performance.

  11. Correlation of Expert and Search Engine Rankings

    CERN Document Server

    Nelson, Michael L; Magudamudi, Manoranjan

    2008-01-01

    In previous research it has been shown that link-based web page metrics can be used to predict experts' assessment of quality. We are interested in a related question: do expert rankings of real-world entities correlate with search engine rankings of corresponding web resources? For example, each year US News & World Report publishes a list of (among others) top 50 graduate business schools. Does their expert ranking correlate with the search engine ranking of the URLs of those business schools? To answer this question we conducted 9 experiments using 8 expert rankings on a range of academic, athletic, financial and popular culture topics. We compared the expert rankings with the rankings in Google, Live Search (formerly MSN) and Yahoo (with list lengths of 10, 25, and 50). In 57 search engine vs. expert comparisons, only 1 strong and 4 moderate correlations were statistically significant. In 42 inter-search engine comparisons, only 2 strong and 4 moderate correlations were statistically significant. The ...

  12. A literature-based approach to annotation and browsing of Web resources

    Directory of Open Access Journals (Sweden)

    Miguel A. Sicilia

    2003-01-01

    Full Text Available The emerging Semantic Web technologies critically depend on the availability of shared knowledge representations called ontologies, which are intended to encode consensual knowledge about specific domains. Currently, the proposed processes for building and maintaining those ontologies entail the joint effort of groups of representative domain experts, which can be expensive in terms of co-ordination and in terms of time to reach consensus.In this paper, literature-based ontologies, which can be initially developed by a single expert and maintained continuously, are proposed as preliminary alternatives to group-generated domain ontologies, or as early versions for them. These ontologies encode domain knowledge in the form of terms and relations along with the (formal or informal bibliographical resources that define or deal with them, which makes them specially useful for domains in which a common terminology or jargon is not soundly established. A general-purpose metamodelling framework for literature-based ontologies - which has been used in two concrete domains - is described, along with a proposed methodology and a specific resource annotation approach. In addition, the implementation of an RDF-based Web resource browser - that uses the ontologies to guide the user in the exploration of a corpus of digital resources- is presented as a proof of concept.

  13. Automated annotation of functional imaging experiments via multi-label classification

    Directory of Open Access Journals (Sweden)

    Matthew D Turner

    2013-12-01

    Full Text Available Identifying the experimental methods in human neuroimaging papers is important for grouping meaningfully similar experiments for meta-analyses. Currently, this can only be done by human readers. We present the performance of common machine learning (text mining methods applied to the problem of automatically classifying or labeling this literature. Labeling terms are from the Cognitive Paradigm Ontology (CogPO, the text corpora are abstracts of published functional neuroimaging papers, and the methods use the performance of a human expert as training data. We aim to replicate the expert's annotation of multiple labels per abstract identifying the experimental stimuli, cognitive paradigms, response types, and other relevant dimensions of the experiments. We use several standard machine learning methods: naive Bayes, k-nearest neighbor, and support vector machines (specifically SMO or sequential minimal optimization. Exact match performance ranged from only 15% in the worst cases to 78% in the best cases. Naive Bayes methods combined with binary relevance transformations performed strongly and were robust to overfitting. This collection of results demonstrates what can be achieved with off-the-shelf software components and little to no pre-processing of raw text.

  14. Automated annotation of functional imaging experiments via multi-label classification.

    Science.gov (United States)

    Turner, Matthew D; Chakrabarti, Chayan; Jones, Thomas B; Xu, Jiawei F; Fox, Peter T; Luger, George F; Laird, Angela R; Turner, Jessica A

    2013-01-01

    Identifying the experimental methods in human neuroimaging papers is important for grouping meaningfully similar experiments for meta-analyses. Currently, this can only be done by human readers. We present the performance of common machine learning (text mining) methods applied to the problem of automatically classifying or labeling this literature. Labeling terms are from the Cognitive Paradigm Ontology (CogPO), the text corpora are abstracts of published functional neuroimaging papers, and the methods use the performance of a human expert as training data. We aim to replicate the expert's annotation of multiple labels per abstract identifying the experimental stimuli, cognitive paradigms, response types, and other relevant dimensions of the experiments. We use several standard machine learning methods: naive Bayes (NB), k-nearest neighbor, and support vector machines (specifically SMO or sequential minimal optimization). Exact match performance ranged from only 15% in the worst cases to 78% in the best cases. NB methods combined with binary relevance transformations performed strongly and were robust to overfitting. This collection of results demonstrates what can be achieved with off-the-shelf software components and little to no pre-processing of raw text.

  15. Computer-Assisted Diagnosis in Reading: An Expert Systems Approach.

    Science.gov (United States)

    McEneaney, John E.

    1992-01-01

    Introduces some basic concepts on which expert systems are based. Considers how expert systems might be productively applied in education. Describes an experimental expert system with applications in reading diagnosis and teacher training. (SR)

  16. Guidelines for the verification and validation of expert system software and conventional software: Survey and documentation of expert system verification and validation methodologies. Volume 3

    Energy Technology Data Exchange (ETDEWEB)

    Groundwater, E.H.; Miller, L.A.; Mirsky, S.M. [Science Applications International Corp., McLean, VA (United States)

    1995-03-01

    This report is the third volume in the final report for the Expert System Verification and Validation (V&V) project which was jointly sponsored by the Nuclear Regulatory Commission and the Electric Power Research Institute. The ultimate objective is the formulation of guidelines for the V&V of expert systems for use in nuclear power applications. The purpose of this activity was to survey and document techniques presently in use for expert system V&V. The survey effort included an extensive telephone interviewing program, site visits, and a thorough bibliographic search and compilation. The major finding was that V&V of expert systems is not nearly as established or prevalent as V&V of conventional software systems. When V&V was used for expert systems, it was almost always at the system validation stage after full implementation and integration usually employing the non-systematic dynamic method of {open_quotes}ad hoc testing.{close_quotes} There were few examples of employing V&V in the early phases of development and only weak sporadic mention of the possibilities in the literature. There is, however, a very active research area concerning the development of methods and tools to detect problems with, particularly, rule-based expert systems. Four such static-testing methods were identified which were not discovered in a comprehensive review of conventional V&V methods in an earlier task.

  17. Arthemis: annotation software in an integrated capturing and analysis system for colonoscopy.

    Science.gov (United States)

    Liu, Danyu; Cao, Yu; Kim, Ki-Hwan; Stanek, Sean; Doungratanaex-Chai, Bancha; Lin, Kungen; Tavanapong, Wallapak; Wong, Johnny; Oh, JungHwan; de Groen, Piet C

    2007-11-01

    Colonoscopy is an endoscopic technique that allows physicians to inspect the inside of the human colon. During a colonoscopic procedure, a tiny video camera at the tip of the endoscope generates a video signal of the internal mucosa of the colon. In current practice, the entire colonoscopic procedure is not routinely captured. Software tools providing easy access to important contents of videos that are digitally captured during colonoscopy are not available. Hence, it is very time consuming to review an entire video, locate important contents, annotate them, and extract the annotated contents for research, teaching, and training purposes. Arthemis, a software application, was developed to facilitate this process. For convenient data sharing, Arthemis allows annotation according to the European Gastrointestinal Society for Endoscopy (ESGE) Minimal Standard Terminology (MST), an internationally accepted standard for digestive endoscopy. Arthemis is part of our integrated capturing and content analysis system for colonoscopy called Endoscopic Multimedia Information System (EMIS). This paper presents Arthemis as a component of EMIS, the design and implementation of Arthemis, and key lessons learned from the development process.

  18. An expert EFL teacher’s class management

    Directory of Open Access Journals (Sweden)

    Elham Yazdanmehr

    2015-07-01

    Full Text Available The present research sought to investigate how expert EFL teachers manage their class and keep its discipline. To this aim, the existing prior ELT (English Language Teaching research on exemplary teachers’ practices were reviewed and the typical class management strategies used were extracted. Moreover, 20 ELT specialists including teacher educators, university professors of applied linguistics, mentor teachers and language institute supervisors were selected through purposive snowball and convenience sampling methods, and were interviewed. Since they were directly dealing with teachers as trainers, supervisors, and mentors, they were considered as qualified informants. There were finally 4 themes and 3 sub-themes extracted from the qualitative content analysis of the interviews, which were presented in this paper along with sample extracts of the actual interview content. The themes included: expert teachers’ identification power, use of external control, use of preventive management strategies and monitoring student behavior. The 3 sub-themes of the second theme were: clarification of expectations, use of body language and establishing rules and routines. Knowledge of these themes and sub-themes can shed light on a key behavioral aspect of expert English language teachers in class. These strategies, if followed properly, can set good examples for novice teachers and those who have problem managing their classes.

  19. Semantic annotation for biological information retrieval system.

    Science.gov (United States)

    Oshaiba, Mohamed Marouf Z; El Houby, Enas M F; Salah, Akram

    2015-01-01

    Online literatures are increasing in a tremendous rate. Biological domain is one of the fast growing domains. Biological researchers face a problem finding what they are searching for effectively and efficiently. The aim of this research is to find documents that contain any combination of biological process and/or molecular function and/or cellular component. This research proposes a framework that helps researchers to retrieve meaningful documents related to their asserted terms based on gene ontology (GO). The system utilizes GO by semantically decomposing it into three subontologies (cellular component, biological process, and molecular function). Researcher has the flexibility to choose searching terms from any combination of the three subontologies. Document annotation is taking a place in this research to create an index of biological terms in documents to speed the searching process. Query expansion is used to infer semantically related terms to asserted terms. It increases the search meaningful results using the term synonyms and term relationships. The system uses a ranking method to order the retrieved documents based on the ranking weights. The proposed system achieves researchers' needs to find documents that fit the asserted terms semantically.

  20. IncobotulinumtoxinA in aesthetics: Russian multidisciplinary expert consensus recommendations

    Directory of Open Access Journals (Sweden)

    Yutskovskaya Y

    2015-06-01

    Full Text Available Yana Yutskovskaya,1 Elena Gubanova,2 Irina Khrustaleva,3 Vasiliy Atamanov,4 Anastasiya Saybel,5 Elena Parsagashvili,6 Irina Dmitrieva,7 Elena Sanchez,8 Natalia Lapatina,9 Tatiana Korolkova,10 Alena Saromytskaya,11 Elena Goltsova,12 Elmira Satardinova13 1Department of Dermatovenereology and Cosmetology, Pacific State Medical University, Vladivostock, 2Department of Skin and Venereal Diseases, Postgraduate Medical Institute, Moscow National University of Food Production, Moscow, 3Department of Plastic Surgery, IP Pavlov Medical State University, St Petersburg, 4Department of Reconstructive and Plastic Surgery, SN Fedorova, Federal State Institution, Novosibirsk, 5Clinic Ideal, Laser Technologies Center, Moscow, 6Aestima-clinic, 7Clinic “Academy”, St Petersburg, 8Eklan Medical Center of Cosmetological Correction, 9Clinic of Aesthetic Medicine and Plastic Surgery, Moscow, 10Department of Cosmetology, II Mechnikov North-Western State Medical University, St Petersburg, 11Plastic Surgery Clinic, Center of Aesthetic Medicine and Beauty Cosmetology, 12“Neo-Clinic,” Tyumen, 13Botulinum Toxin Therapy Department, Diagnostic Center of the Irkutsk State Medical Academy of Postgraduate Education, Irkutsk, Russia Background: Although there are various international consensus recommendations on the use of botulinum neurotoxin type A (BoNT/A in facial aesthetics, there are no global or Russian guidelines on the optimal dose of incobotulinumtoxinA, free from complexing proteins, within specific aesthetic indications. This article reports the outcomes of two expert consensus meetings, conducted to review and analyze efficacy and tolerability data for incobotulinumtoxinA in various facial aesthetic indications and to give expert consensus recommendations to ensure best clinical practice among Russian clinicians. Methods: Thirteen dermatology and/or plastic surgery experts attended meetings held in Paris, France (November 2013, and Moscow, Russia (March 2014

  1. The European Union's four-man team of experts attending a demonstration of the DataGrid Project at CERN in early February.

    CERN Multimedia

    2003-01-01

    The DataGrid Project is reviewed by a team of European experts on a yearly basis. At the beginning of February it passed the second of these reviews with flying colours, the four experts issuing enthusiastic statements on the latest progress made, which was quite considerable in 2002.

  2. Exploitation de reformulations pour l'acquisition d'un vocabulaire expert/non expert

    OpenAIRE

    Antoine, Edwide; Grabar, Natalia

    2016-01-01

    International audience; Exploitation of reformulations for the acquisition of expert/non-expert vocabulary. Notions from technical areas, such as medicine, often present understanding difficulties for non-expert people. A vocabulary which associates technical terms with expressions used by lay people can help in making the technical texts easier to understand. The purpose of this work is to build such vocabulary. We propose to exploit the notion of reformulation through three methods : extrac...

  3. MitoBamAnnotator: A web-based tool for detecting and annotating heteroplasmy in human mitochondrial DNA sequences.

    Science.gov (United States)

    Zhidkov, Ilia; Nagar, Tal; Mishmar, Dan; Rubin, Eitan

    2011-11-01

    The use of Next-Generation Sequencing of mitochondrial DNA is becoming widespread in biological and clinical research. This, in turn, creates a need for a convenient tool that detects and analyzes heteroplasmy. Here we present MitoBamAnnotator, a user friendly web-based tool that allows maximum flexibility and control in heteroplasmy research. MitoBamAnnotator provides the user with a comprehensively annotated overview of mitochondrial genetic variation, allowing for an in-depth analysis with no prior knowledge in programming.

  4. Annotation et rature Annotation and Deletion: Outline of a Sociology of Forms

    Directory of Open Access Journals (Sweden)

    Axel Pohn-Weidinger

    2012-05-01

    Full Text Available Ce texte interroge les traces graphiques laissées sur un corpus de formulaires de demande de logement social telles qu’annotations, ratures, biffures et commentaires griffonnés. L’étude de ces traces, laissées en marge des catégories de l’imprimé administratif lors du remplissage, montre le recours au droit comme une opération problématique. Pour les administrés, il s’agit de décrire leur situation de vie de sorte à établir l’éligibilité à un droit, mais bien souvent il est impossible de traduire celle-ci dans les catégories préétablies du formulaire. Les annotations et commentaires laissés sur le formulaire tentent alors d’ouvrir la catégorisation juridique des situations à une prise en compte de la singularité des circonstances de vie du demandeur. Elles montrent le recours au droit comme un accomplissement réflexif, un travail à la fois sur sa propre perception de sa situation et sur celle que l’institution offre à travers le formulaire, et dont la négociation et la mise en œuvre sont au cœur de la production du dossier administratif.This text examines the graphical traces left on a collection of social housing application forms: annotations, erasures, crossed-out words and scribbled-out comments. The study of these traces, left in the margins of the categories on printed administrative forms in the process of being completed, shows the exercising of a right as a problematic operation. Citizens making applications must describe their living situation in a way that will establish their eligibility for a right, but quite often it is impossible to convey this through the form’s predetermined categories. The annotations and comments left on the form attempt to open the legal classification of situations to considering the uniqueness of the applicant’s living circumstances. They show the use of a right as an introspective accomplishment, requiring applicants to work both on their own perception of

  5. Analysis of Annotation on Documents for Recycling Information

    Science.gov (United States)

    Nakai, Tomohiro; Kondo, Nobuyuki; Kise, Koichi; Matsumoto, Keinosuke

    In order to make collaborative business activities fruitful, it is essential to know characteristics of organizations and persons in more details and to gather information relevant to the activities. In this paper, we describe a notion of “information recycle" that actualizes these requirements by analyzing documents. The key of recycling information is to utilize annotations on documents as clues for generating users' profiles and for weighting contents in the context of the activities. We also propose a method of extracting annotations on paper documents just by pressing one button with the help of techniques of camera-based document image analysis. Experimental results demonstrate that it is fundamentally capable of acquiring annotations on paper documents on condition that their electronic versions without annotations are available for the processing.

  6. Collaborative Semantic Annotation of Images : Ontology-Based Model

    Directory of Open Access Journals (Sweden)

    Damien E. ZOMAHOUN

    2015-12-01

    Full Text Available In the quest for models that could help to represen t the meaning of images, some approaches have used contextual knowledge by building semantic hierarchi es. Others have resorted to the integration of imag es analysis improvement knowledge and images interpret ation using ontologies. The images are often annotated with a set of keywords (or ontologies, w hose relevance remains highly subjective and relate d to only one interpretation (one annotator. However , an image can get many associated semantics because annotators can interpret it differently. Th e purpose of this paper is to propose a collaborati ve annotation system that brings out the meaning of im ages from the different interpretations of annotato rs. The different works carried out in this paper lead to a semantic model of an image, i.e. the different means that a picture may have. This method relies o n the different tools of the Semantic Web, especial ly ontologies.

  7. Creating New Medical Ontologies for Image Annotation A Case Study

    CERN Document Server

    Stanescu, Liana; Brezovan, Marius; Mihai, Cristian Gabriel

    2012-01-01

    Creating New Medical Ontologies for Image Annotation focuses on the problem of the medical images automatic annotation process, which is solved in an original manner by the authors. All the steps of this process are described in detail with algorithms, experiments and results. The original algorithms proposed by authors are compared with other efficient similar algorithms. In addition, the authors treat the problem of creating ontologies in an automatic way, starting from Medical Subject Headings (MESH). They have presented some efficient and relevant annotation models and also the basics of the annotation model used by the proposed system: Cross Media Relevance Models. Based on a text query the system will retrieve the images that contain objects described by the keywords.

  8. Bayesian Framework for Automatic Image Annotation Using Visual Keywords

    Science.gov (United States)

    Agrawal, Rajeev; Wu, Changhua; Grosky, William; Fotouhi, Farshad

    In this paper, we propose a Bayesian probability based framework, which uses visual keywords and already available text keywords to automatically annotate the images. Taking the cue from document classification, an image can be considered as a document and objects present in it as words. Using this concept, we can create visual keywords by dividing an image into tiles based on a certain template size. Visual keywords are simple vector quantization of small-sized image tiles. We estimate the conditional probability of a text keyword in the presence of visual keywords, described by a multivariate Gaussian distribution. We demonstrate the effectiveness of our approach by comparing predicted text annotations with manual annotations and analyze the effect of text annotation length on the performance.

  9. Effects of dehydration on performance in man: Annotated bibliography

    Science.gov (United States)

    Greenleaf, J. E.

    1973-01-01

    A compilation of studies on the effect of dehydration on human performance and related physiological mechanisms. The annotations are listed in alphabetical order by first author and cover material through June 1973.

  10. An Annotated Checklist of the Fishes of Samoa

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — All fishes currently known from the Samoan Islands are listed by their scientific and Samoan names. Species entries are annotated to include the initial Samoan...

  11. Homosexuality in Young Adult Fiction and Nonfiction: An Annotated Bibliography.

    Science.gov (United States)

    Webunder, Dave; Woodard, Sarah

    1996-01-01

    Contains a bibliography of 14 adolescent novels and journal articles (published between 1976 and 1994) relating to homosexuality and homophobia, with evaluative annotations outlining themes and plots and offering suggestions for instruction. (TB)

  12. Responsibility in Governmental-Political Communication: A Selected, Annotated Bibliography.

    Science.gov (United States)

    Johannesen, Richard L.

    This annotated bibliography lists 43 books, periodicals, and essays in the area of governmental-political communication. Topics include: social justice, lying, cheating, ethics, public duties, public policy, language, rhetorical strategies, and propaganda. (MS)

  13. Freedom of Speech: A Selected, Annotated Basic Bibliography.

    Science.gov (United States)

    Tedford, Thomas L.

    This bibliography lists 36 books related to problems of freedom of speech. General sources (history, analyses, texts, and anthologies) are listed separately from those dealing with censorship of obscenity and pornography. Each entry is briefly annotated. (AA)

  14. Using Apollo to browse and edit genome annotations.

    Science.gov (United States)

    Misra, Sima; Harris, Nomi

    2006-01-01

    An annotation is any feature that can be tied to genomic sequence, such as an exon, transcript, promoter, or transposable element. As biological knowledge increases, annotations of different types need to be added and modified, and links to other sources of information need to be incorporated, to allow biologists to easily access all of the available sequence analysis data and design appropriate experiments. The Apollo genome browser and editor offers biologists these capabilities. Apollo can display many different types of computational evidence, such as alignments and similarities based on BLAST searches (UNITS 3.3 & 3.4), and enables biologists to utilize computational evidence to create and edit gene models and other genomic features, e.g., using experimental evidence to refine exon-intron structures predicted by gene prediction algorithms. This protocol describes simple ways to browse genome annotation data, as well as techniques for editing annotations and loading data from different sources.

  15. OntoELAN: An Ontology-based Linguistic Multimedia Annotator

    CERN Document Server

    Chebotko, Artem; Lu, Shiyong; Fotouhi, Farshad; Aristar, Anthony; Brugman, Hennie; Klassmann, Alexander; Sloetjes, Han; Russel, Albert; Wittenburg, Peter

    2009-01-01

    Despite its scientific, political, and practical value, comprehensive information about human languages, in all their variety and complexity, is not readily obtainable and searchable. One reason is that many language data are collected as audio and video recordings which imposes a challenge to document indexing and retrieval. Annotation of multimedia data provides an opportunity for making the semantics explicit and facilitates the searching of multimedia documents. We have developed OntoELAN, an ontology-based linguistic multimedia annotator that features: (1) support for loading and displaying ontologies specified in OWL; (2) creation of a language profile, which allows a user to choose a subset of terms from an ontology and conveniently rename them if needed; (3) creation of ontological tiers, which can be annotated with profile terms and, therefore, corresponding ontological terms; and (4) saving annotations in the XML format as Multimedia Ontology class instances and, linked to them, class instances of o...

  16. Geothermal wetlands: an annotated bibliography of pertinent literature

    Energy Technology Data Exchange (ETDEWEB)

    Stanley, N.E.; Thurow, T.L.; Russell, B.F.; Sullivan, J.F.

    1980-05-01

    This annotated bibliography covers the following topics: algae, wetland ecosystems; institutional aspects; macrophytes - general, production rates, and mineral absorption; trace metal absorption; wetland soils; water quality; and other aspects of marsh ecosystems. (MHR)

  17. A Machine Learning Based Analytical Framework for Semantic Annotation Requirements

    CERN Document Server

    Hassanzadeh, Hamed; 10.5121/ijwest.2011.2203

    2011-01-01

    The Semantic Web is an extension of the current web in which information is given well-defined meaning. The perspective of Semantic Web is to promote the quality and intelligence of the current web by changing its contents into machine understandable form. Therefore, semantic level information is one of the cornerstones of the Semantic Web. The process of adding semantic metadata to web resources is called Semantic Annotation. There are many obstacles against the Semantic Annotation, such as multilinguality, scalability, and issues which are related to diversity and inconsistency in content of different web pages. Due to the wide range of domains and the dynamic environments that the Semantic Annotation systems must be performed on, the problem of automating annotation process is one of the significant challenges in this domain. To overcome this problem, different machine learning approaches such as supervised learning, unsupervised learning and more recent ones like, semi-supervised learning and active learn...

  18. GIFtS: annotation landscape analysis with GeneCards

    Directory of Open Access Journals (Sweden)

    Dalah Irina

    2009-10-01

    Full Text Available Abstract Background Gene annotation is a pivotal component in computational genomics, encompassing prediction of gene function, expression analysis, and sequence scrutiny. Hence, quantitative measures of the annotation landscape constitute a pertinent bioinformatics tool. GeneCards® is a gene-centric compendium of rich annotative information for over 50,000 human gene entries, building upon 68 data sources, including Gene Ontology (GO, pathways, interactions, phenotypes, publications and many more. Results We present the GeneCards Inferred Functionality Score (GIFtS which allows a quantitative assessment of a gene's annotation status, by exploiting the unique wealth and diversity of GeneCards information. The GIFtS tool, linked from the GeneCards home page, facilitates browsing the human genome by searching for the annotation level of a specified gene, retrieving a list of genes within a specified range of GIFtS value, obtaining random genes with a specific GIFtS value, and experimenting with the GIFtS weighting algorithm for a variety of annotation categories. The bimodal shape of the GIFtS distribution suggests a division of the human gene repertoire into two main groups: the high-GIFtS peak consists almost entirely of protein-coding genes; the low-GIFtS peak consists of genes from all of the categories. Cluster analysis of GIFtS annotation vectors provides the classification of gene groups by detailed positioning in the annotation arena. GIFtS also provide measures which enable the evaluation of the databases that serve as GeneCards sources. An inverse correlation is found (for GIFtS>25 between the number of genes annotated by each source, and the average GIFtS value of genes associated with that source. Three typical source prototypes are revealed by their GIFtS distribution: genome-wide sources, sources comprising mainly highly annotated genes, and sources comprising mainly poorly annotated genes. The degree of accumulated knowledge for a

  19. Annotating abstract pronominal anaphora in the DAD project

    DEFF Research Database (Denmark)

    Navarretta, Costanza; Olsen, Sussi Anni

    2008-01-01

    n this paper we present an extension of the MATE/GNOME annotation scheme for anaphora (Poesio 2004) which accounts for abstract anaphora in Danish and Italian. By abstract anaphora it is here meant pronouns whose linguistic antecedents are verbal phrases, clauses and discourse segments. The exten...... by applying the DAD annotation scheme on texts and dialogues in the two languages are given and show that th information proposed in the scheme can be recognised in a reliable way....

  20. Experimental Polish-Lithuanian Corpus with the Semantic Annotation Elements

    Directory of Open Access Journals (Sweden)

    Danuta Roszko

    2015-06-01

    Full Text Available Experimental Polish-Lithuanian Corpus with the Semantic Annotation Elements In the article the authors present the experimental Polish-Lithuanian corpus (ECorpPL-LT formed for the idea of Polish-Lithuanian theoretical contrastive studies, a Polish-Lithuanian electronic dictionary, and as help for a sworn translator. The semantic annotation being brought into ECorpPL-LT is extremely useful in Polish-Lithuanian contrastive studies, and also proves helpful in translation work.

  1. AmiGO: online access to ontology and annotation data

    Energy Technology Data Exchange (ETDEWEB)

    Carbon, Seth; Ireland, Amelia; Mungall, Christopher J.; Shu, ShengQiang; Marshall, Brad; Lewis, Suzanna

    2009-01-15

    AmiGO is a web application that allows users to query, browse, and visualize ontologies and related gene product annotation (association) data. AmiGO can be used online at the Gene Ontology (GO) website to access the data provided by the GO Consortium; it can also be downloaded and installed to browse local ontologies and annotations. AmiGO is free open source software developed and maintained by the GO Consortium.

  2. Improving the Caenorhabditis elegans genome annotation using machine learning.

    Directory of Open Access Journals (Sweden)

    Gunnar Rätsch

    2007-02-01

    Full Text Available For modern biology, precise genome annotations are of prime importance, as they allow the accurate definition of genic regions. We employ state-of-the-art machine learning methods to assay and improve the accuracy of the genome annotation of the nematode Caenorhabditis elegans. The proposed machine learning system is trained to recognize exons and introns on the unspliced mRNA, utilizing recent advances in support vector machines and label sequence learning. In 87% (coding and untranslated regions and 95% (coding regions only of all genes tested in several out-of-sample evaluations, our method correctly identified all exons and introns. Notably, only 37% and 50%, respectively, of the presently unconfirmed genes in the C. elegans genome annotation agree with our predictions, thus we hypothesize that a sizable fraction of those genes are not correctly annotated. A retrospective evaluation of the Wormbase WS120 annotation [] of C. elegans reveals that splice form predictions on unconfirmed genes in WS120 are inaccurate in about 18% of the considered cases, while our predictions deviate from the truth only in 10%-13%. We experimentally analyzed 20 controversial genes on which our system and the annotation disagree, confirming the superiority of our predictions. While our method correctly predicted 75% of those cases, the standard annotation was never completely correct. The accuracy of our system is further corroborated by a comparison with two other recently proposed systems that can be used for splice form prediction: SNAP and ExonHunter. We conclude that the genome annotation of C. elegans and other organisms can be greatly enhanced using modern machine learning technology.

  3. Semantic annotation of biological concepts interplaying microbial cellular responses

    Directory of Open Access Journals (Sweden)

    Carreira Rafael

    2011-11-01

    Full Text Available Abstract Background Automated extraction systems have become a time saving necessity in Systems Biology. Considerable human effort is needed to model, analyse and simulate biological networks. Thus, one of the challenges posed to Biomedical Text Mining tools is that of learning to recognise a wide variety of biological concepts with different functional roles to assist in these processes. Results Here, we present a novel corpus concerning the integrated cellular responses to nutrient starvation in the model-organism Escherichia coli. Our corpus is a unique resource in that it annotates biomedical concepts that play a functional role in expression, regulation and metabolism. Namely, it includes annotations for genetic information carriers (genes and DNA, RNA molecules, proteins (transcription factors, enzymes and transporters, small metabolites, physiological states and laboratory techniques. The corpus consists of 130 full-text papers with a total of 59043 annotations for 3649 different biomedical concepts; the two dominant classes are genes (highest number of unique concepts and compounds (most frequently annotated concepts, whereas other important cellular concepts such as proteins account for no more than 10% of the annotated concepts. Conclusions To the best of our knowledge, a corpus that details such a wide range of biological concepts has never been presented to the text mining community. The inter-annotator agreement statistics provide evidence of the importance of a consolidated background when dealing with such complex descriptions, the ambiguities naturally arising from the terminology and their impact for modelling purposes. Availability is granted for the full-text corpora of 130 freely accessible documents, the annotation scheme and the annotation guidelines. Also, we include a corpus of 340 abstracts.

  4. An Annotation Scheme for Free Word Order Languages

    CERN Document Server

    Skut, W; Brants, T; Uszkoreit, H; Skut, Wojciech; Krenn, Brigitte; Brants, Thorsten; Uszkoreit, Hans

    1997-01-01

    We describe an annotation scheme and a tool developed for creating linguistically annotated corpora for non-configurational languages. Since the requirements for such a formalism differ from those posited for configurational languages, several features have been added, influencing the architecture of the scheme. The resulting scheme reflects a stratificational notion of language, and makes only minimal assumptions about the interrelation of the particular representational strata.

  5. Challenges in Whole-Genome Annotation of Pyrosequenced Eukaryotic Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Kuo, Alan; Grigoriev, Igor

    2009-04-17

    Pyrosequencing technologies such as 454/Roche and Solexa/Illumina vastly lower the cost of nucleotide sequencing compared to the traditional Sanger method, and thus promise to greatly expand the number of sequenced eukaryotic genomes. However, the new technologies also bring new challenges such as shorter reads and new kinds and higher rates of sequencing errors, which complicate genome assembly and gene prediction. At JGI we are deploying 454 technology for the sequencing and assembly of ever-larger eukaryotic genomes. Here we describe our first whole-genome annotation of a purely 454-sequenced fungal genome that is larger than a yeast (>30 Mbp). The pezizomycotine (filamentous ascomycote) Aspergillus carbonarius belongs to the Aspergillus section Nigri species complex, members of which are significant as platforms for bioenergy and bioindustrial technology, as members of soil microbial communities and players in the global carbon cycle, and as agricultural toxigens. Application of a modified version of the standard JGI Annotation Pipeline has so far predicted ~;;10k genes. ~;;12percent of these preliminary annotations suffer a potential frameshift error, which is somewhat higher than the ~;;9percent rate in the Sanger-sequenced and conventionally assembled and annotated genome of fellow Aspergillus section Nigri member A. niger. Also,>90percent of A. niger genes have potential homologs in the A. carbonarius preliminary annotation. Weconclude, and with further annotation and comparative analysis expect to confirm, that 454 sequencing strategies provide a promising substrate for annotation of modestly sized eukaryotic genomes. We will also present results of annotation of a number of other pyrosequenced fungal genomes of bioenergy interest.

  6. Annotation Method (AM): SE16_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE16_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  7. Annotation Method (AM): SE41_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available se search. Peaks with no hit to these databases are then selected to secondary sear...ch using EX-HR2 (http://webs2.kazusa.or.jp/mfsearcher/) databases. After the database search processes, each database...SE41_AM1 PowerGet annotation In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary databa

  8. Annotation Method (AM): SE1_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available base search. Peaks with no hit to these databases are then selected to secondary se...arch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are ma...SE1_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary data

  9. Annotation Method (AM): SE29_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE29_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  10. Annotation Method (AM): SE28_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE28_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  11. Annotation Method (AM): SE25_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE25_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  12. Annotation Method (AM): SE40_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available se search. Peaks with no hit to these databases are then selected to secondary sear...ch using EX-HR2 (http://webs2.kazusa.or.jp/mfsearcher/) databases. After the database search processes, each database...SE40_AM1 PowerGet annotation In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary databa

  13. Annotation Method (AM): SE32_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE32_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  14. Annotation Method (AM): SE12_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE12_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  15. Annotation Method (AM): SE14_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE14_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  16. Annotation Method (AM): SE8_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available base search. Peaks with no hit to these databases are then selected to secondary se...arch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are ma...SE8_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary data

  17. Annotation Method (AM): SE9_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available base search. Peaks with no hit to these databases are then selected to secondary se...arch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are ma...SE9_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary data

  18. Annotation Method (AM): SE27_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE27_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  19. Annotation Method (AM): SE33_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE33_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat

  20. Annotation Method (AM): SE15_AM1 [Metabolonote[Archive

    Lifescience Database Archive (English)

    Full Text Available abase search. Peaks with no hit to these databases are then selected to secondary s...earch using exactMassDB and Pep1000 databases. After the database search processes, each database hits are m...SE15_AM1 PowerGet annotation A1 In annotation process, KEGG, KNApSAcK and LipidMAPS are used for primary dat