Challenging Google, Microsoft Unveils a Search Tool for Scholarly Articles

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Carlson, Scott

2006-01-01

Microsoft has introduced a new search tool to help people find scholarly articles online. The service, which includes journal articles from prominent academic societies and publishers, puts Microsoft in direct competition with Google Scholar. The new free search tool, which should work on most Web browsers, is called Windows Live Academic Search…

Web Search Engines

OpenAIRE

Rajashekar, TB

1998-01-01

The World Wide Web is emerging as an all-in-one information source. Tools for searching Web-based information include search engines, subject directories and meta search tools. We take a look at key features of these tools and suggest practical hints for effective Web searching.

A sensitive short read homology search tool for paired-end read sequencing data.

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Techa-Angkoon, Prapaporn; Sun, Yanni; Lei, Jikai

2017-10-16

Homology search is still a significant step in functional analysis for genomic data. Profile Hidden Markov Model-based homology search has been widely used in protein domain analysis in many different species. In particular, with the fast accumulation of transcriptomic data of non-model species and metagenomic data, profile homology search is widely adopted in integrated pipelines for functional analysis. While the state-of-the-art tool HMMER has achieved high sensitivity and accuracy in domain annotation, the sensitivity of HMMER on short reads declines rapidly. The low sensitivity on short read homology search can lead to inaccurate domain composition and abundance computation. Our experimental results showed that half of the reads were missed by HMMER for a RNA-Seq dataset. Thus, there is a need for better methods to improve the homology search performance for short reads. We introduce a profile homology search tool named Short-Pair that is designed for short paired-end reads. By using an approximate Bayesian approach employing distribution of fragment lengths and alignment scores, Short-Pair can retrieve the missing end and determine true domains. In particular, Short-Pair increases the accuracy in aligning short reads that are part of remote homologs. We applied Short-Pair to a RNA-Seq dataset and a metagenomic dataset and quantified its sensitivity and accuracy on homology search. The experimental results show that Short-Pair can achieve better overall performance than the state-of-the-art methodology of profile homology search. Short-Pair is best used for next-generation sequencing (NGS) data that lack reference genomes. It provides a complementary paired-end read homology search tool to HMMER. The source code is freely available at https://sourceforge.net/projects/short-pair/ .

Assessing teamwork performance in obstetrics: A systematic search and review of validated tools.

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Fransen, Annemarie F; de Boer, Liza; Kienhorst, Dieneke; Truijens, Sophie E; van Runnard Heimel, Pieter J; Oei, S Guid

2017-09-01

Teamwork performance is an essential component for the clinical efficiency of multi-professional teams in obstetric care. As patient safety is related to teamwork performance, it has become an important learning goal in simulation-based education. In order to improve teamwork performance, reliable assessment tools are required. These can be used to provide feedback during training courses, or to compare learning effects between different types of training courses. The aim of the current study is to (1) identify the available assessment tools to evaluate obstetric teamwork performance in a simulated environment, and (2) evaluate their psychometric properties in order to identify the most valuable tool(s) to use. We performed a systematic search in PubMed, MEDLINE, and EMBASE to identify articles describing assessment tools for the evaluation of obstetric teamwork performance in a simulated environment. In order to evaluate the quality of the identified assessment tools the standards and grading rules have been applied as recommended by the Accreditation Council for Graduate Medical Education (ACGME) Committee on Educational Outcomes. The included studies were also assessed according to the Oxford Centre for Evidence Based Medicine (OCEBM) levels of evidence. This search resulted in the inclusion of five articles describing the following six tools: Clinical Teamwork Scale, Human Factors Rating Scale, Global Rating Scale, Assessment of Obstetric Team Performance, Global Assessment of Obstetric Team Performance, and the Teamwork Measurement Tool. Based on the ACGME guidelines we assigned a Class 3, level C of evidence, to all tools. Regarding the OCEBM levels of evidence, a level 3b was assigned to two studies and a level 4 to four studies. The Clinical Teamwork Scale demonstrated the most comprehensive validation, and the Teamwork Measurement Tool demonstrated promising results, however it is recommended to further investigate its reliability. Copyright © 2017

A literature search tool for intelligent extraction of disease-associated genes.

Science.gov (United States)

Jung, Jae-Yoon; DeLuca, Todd F; Nelson, Tristan H; Wall, Dennis P

2014-01-01

To extract disorder-associated genes from the scientific literature in PubMed with greater sensitivity for literature-based support than existing methods. We developed a PubMed query to retrieve disorder-related, original research articles. Then we applied a rule-based text-mining algorithm with keyword matching to extract target disorders, genes with significant results, and the type of study described by the article. We compared our resulting candidate disorder genes and supporting references with existing databases. We demonstrated that our candidate gene set covers nearly all genes in manually curated databases, and that the references supporting the disorder-gene link are more extensive and accurate than other general purpose gene-to-disorder association databases. We implemented a novel publication search tool to find target articles, specifically focused on links between disorders and genotypes. Through comparison against gold-standard manually updated gene-disorder databases and comparison with automated databases of similar functionality we show that our tool can search through the entirety of PubMed to extract the main gene findings for human diseases rapidly and accurately.

Web Usage Mining Analysis of Federated Search Tools for Egyptian Scholars

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Mohamed, Khaled A.; Hassan, Ahmed

2008-01-01

Purpose: This paper aims to examine the behaviour of the Egyptian scholars while accessing electronic resources through two federated search tools. The main purpose of this article is to provide guidance for federated search tool technicians and support teams about user issues, including the need for training. Design/methodology/approach: Log…

The use of magnetic susceptibility as a forensic search tool.

Science.gov (United States)

Pringle, Jamie K; Giubertoni, Matteo; Cassidy, Nigel J; Wisniewski, Kristopher D; Hansen, James D; Linford, Neil T; Daniels, Rebecca M

2015-01-01

There are various techniques available for forensic search teams to employ to successfully detect a buried object. Near-surface geophysical search methods have been dominated by ground penetrating radar but recently other techniques, such as electrical resistivity, have become more common. This paper discusses magnetic susceptibility as a simple surface search tool illustrated by various research studies. These suggest magnetic susceptibility to be a relatively low cost, quick and effective tool, compared to other geophysical methods, to determine disturbed ground above buried objects and burnt surface remains in a variety of soil types. Further research should collect datasets over objects of known burial ages for comparison purposes and used in forensic search cases to validate the technique. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

Assessment and Comparison of Search capabilities of Web-based Meta-Search Engines: A Checklist Approach

Directory of Open Access Journals (Sweden)

Alireza Isfandiyari Moghadam

2010-03-01

Full Text Available   The present investigation concerns evaluation, comparison and analysis of search options existing within web-based meta-search engines. 64 meta-search engines were identified. 19 meta-search engines that were free, accessible and compatible with the objectives of the present study were selected. An author’s constructed check list was used for data collection. Findings indicated that all meta-search engines studied used the AND operator, phrase search, number of results displayed setting, previous search query storage and help tutorials. Nevertheless, none of them demonstrated any search options for hypertext searching and displaying the size of the pages searched. 94.7% support features such as truncation, keywords in title and URL search and text summary display. The checklist used in the study could serve as a model for investigating search options in search engines, digital libraries and other internet search tools.

Data Albums: An Event Driven Search, Aggregation and Curation Tool for Earth Science

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Ramachandran, Rahul; Kulkarni, Ajinkya; Maskey, Manil; Bakare, Rohan; Basyal, Sabin; Li, Xiang; Flynn, Shannon

2014-01-01

Approaches used in Earth science research such as case study analysis and climatology studies involve discovering and gathering diverse data sets and information to support the research goals. To gather relevant data and information for case studies and climatology analysis is both tedious and time consuming. Current Earth science data systems are designed with the assumption that researchers access data primarily by instrument or geophysical parameter. In cases where researchers are interested in studying a significant event, they have to manually assemble a variety of datasets relevant to it by searching the different distributed data systems. This paper presents a specialized search, aggregation and curation tool for Earth science to address these challenges. The search rool automatically creates curated 'Data Albums', aggregated collections of information related to a specific event, containing links to relevant data files [granules] from different instruments, tools and services for visualization and analysis, and information about the event contained in news reports, images or videos to supplement research analysis. Curation in the tool is driven via an ontology based relevancy ranking algorithm to filter out non relevant information and data.

BEST: Next-Generation Biomedical Entity Search Tool for Knowledge Discovery from Biomedical Literature.

Directory of Open Access Journals (Sweden)

Sunwon Lee

Full Text Available As the volume of publications rapidly increases, searching for relevant information from the literature becomes more challenging. To complement standard search engines such as PubMed, it is desirable to have an advanced search tool that directly returns relevant biomedical entities such as targets, drugs, and mutations rather than a long list of articles. Some existing tools submit a query to PubMed and process retrieved abstracts to extract information at query time, resulting in a slow response time and limited coverage of only a fraction of the PubMed corpus. Other tools preprocess the PubMed corpus to speed up the response time; however, they are not constantly updated, and thus produce outdated results. Further, most existing tools cannot process sophisticated queries such as searches for mutations that co-occur with query terms in the literature. To address these problems, we introduce BEST, a biomedical entity search tool. BEST returns, as a result, a list of 10 different types of biomedical entities including genes, diseases, drugs, targets, transcription factors, miRNAs, and mutations that are relevant to a user's query. To the best of our knowledge, BEST is the only system that processes free text queries and returns up-to-date results in real time including mutation information in the results. BEST is freely accessible at http://best.korea.ac.kr.

A Secured Cognitive Agent based Multi-strategic Intelligent Search System

Directory of Open Access Journals (Sweden)

Neha Gulati

2018-04-01

Full Text Available Search Engine (SE is the most preferred information retrieval tool ubiquitously used. In spite of vast scale involvement of users in SE’s, their limited capabilities to understand the user/searcher context and emotions places high cognitive, perceptual and learning load on the user to maintain the search momentum. In this regard, the present work discusses a Cognitive Agent (CA based approach to support the user in Web-based search process. The work suggests a framework called Secured Cognitive Agent based Multi-strategic Intelligent Search System (CAbMsISS to assist the user in search process. It helps to reduce the contextual and emotional mismatch between the SE’s and user. After implementation of the proposed framework, performance analysis shows that CAbMsISS framework improves Query Retrieval Time (QRT and effectiveness for retrieving relevant results as compared to Present Search Engine (PSE. Supplementary to this, it also provides search suggestions when user accesses a resource previously tagged with negative emotions. Overall, the goal of the system is to enhance the search experience for keeping the user motivated. The framework provides suggestions through the search log that tracks the queries searched, resources accessed and emotions experienced during the search. The implemented framework also considers user security. Keywords: BDI model, Cognitive Agent, Emotion, Information retrieval, Intelligent search, Search Engine

Web-Based Tools for Text-Based Patient-Provider Communication in Chronic Conditions: Scoping Review.

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Voruganti, Teja; Grunfeld, Eva; Makuwaza, Tutsirai; Bender, Jacqueline L

2017-10-27

Patients with chronic conditions require ongoing care which not only necessitates support from health care providers outside appointments but also self-management. Web-based tools for text-based patient-provider communication, such as secure messaging, allow for sharing of contextual information and personal narrative in a simple accessible medium, empowering patients and enabling their providers to address emerging care needs. The objectives of this study were to (1) conduct a systematic search of the published literature and the Internet for Web-based tools for text-based communication between patients and providers; (2) map tool characteristics, their intended use, contexts in which they were used, and by whom; (3) describe the nature of their evaluation; and (4) understand the terminology used to describe the tools. We conducted a scoping review using the MEDLINE (Medical Literature Analysis and Retrieval System Online) and EMBASE (Excerpta Medica Database) databases. We summarized information on the characteristics of the tools (structure, functions, and communication paradigm), intended use, context and users, evaluation (study design and outcomes), and terminology. We performed a parallel search of the Internet to compare with tools identified in the published literature. We identified 54 papers describing 47 unique tools from 13 countries studied in the context of 68 chronic health conditions. The majority of tools (77%, 36/47) had functions in addition to communication (eg, viewable care plan, symptom diary, or tracker). Eight tools (17%, 8/47) were described as allowing patients to communicate with the team or multiple health care providers. Most of the tools were intended to support communication regarding symptom reporting (49%, 23/47), and lifestyle or behavior modification (36%, 17/47). The type of health care providers who used tools to communicate with patients were predominantly allied health professionals of various disciplines (30%, 14

Utilizing AFIS searching tools to reduce errors in fingerprint casework.

Science.gov (United States)

Langenburg, Glenn; Hall, Carey; Rosemarie, Quincy

2015-12-01

Fifty-six (56) adjudicated, property crime cases involving fingerprint evidence were reviewed using a case-specific AFIS database tool. This tool allowed fingerprint experts to search latent prints in the cases against a database of friction ridge exemplars limited to only the individuals specific to that particular case. We utilized three different methods to encode and search the latent prints: automatic feature extraction, manual encoding performed by a student intern, and manual encoding performed by a fingerprint expert. Performance in the study was strongest when the encoding was conducted by the fingerprint expert. The results of the study showed that while the AFIS tools failed to locate all of the identifications originally reported by the initial fingerprint expert that worked the case, the AFIS tools helped to identify 7 additional latent prints that were not reported by the initial fingerprint expert. We conclude that this technology, when combined with fingerprint expertise, will reduce the number of instances where an erroneous exclusion could occur, increase the efficiency of a fingerprint unit, and be a useful tool for reviewing active or cold cases for missed opportunities to report identifications. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Project GRACE A grid based search tool for the global digital library

CERN Document Server

Scholze, Frank; Vigen, Jens; Prazak, Petra; The Seventh International Conference on Electronic Theses and Dissertations

2004-01-01

The paper will report on the progress of an ongoing EU project called GRACE - Grid Search and Categorization Engine (http://www.grace-ist.org). The project participants are CERN, Sheffield Hallam University, Stockholm University, Stuttgart University, GL 2006 and Telecom Italia. The project started in 2002 and will finish in 2005, resulting in a Grid based search engine that will search across a variety of content sources including a number of electronic thesis and dissertation repositories. The Open Archives Initiative (OAI) is expanding and is clearly an interesting movement for a community advocating open access to ETD. However, the OAI approach alone may not be sufficiently scalable to achieve a truly global ETD Digital Library. Many universities simply offer their collections to the world via their local web services without being part of any federated system for archiving and even those dissertations that are provided with OAI compliant metadata will not necessarily be picked up by a centralized OAI Ser...

Three dimensional pattern recognition using feature-based indexing and rule-based search

Science.gov (United States)

Lee, Jae-Kyu

In flexible automated manufacturing, robots can perform routine operations as well as recover from atypical events, provided that process-relevant information is available to the robot controller. Real time vision is among the most versatile sensing tools, yet the reliability of machine-based scene interpretation can be questionable. The effort described here is focused on the development of machine-based vision methods to support autonomous nuclear fuel manufacturing operations in hot cells. This thesis presents a method to efficiently recognize 3D objects from 2D images based on feature-based indexing. Object recognition is the identification of correspondences between parts of a current scene and stored views of known objects, using chains of segments or indexing vectors. To create indexed object models, characteristic model image features are extracted during preprocessing. Feature vectors representing model object contours are acquired from several points of view around each object and stored. Recognition is the process of matching stored views with features or patterns detected in a test scene. Two sets of algorithms were developed, one for preprocessing and indexed database creation, and one for pattern searching and matching during recognition. At recognition time, those indexing vectors with the highest match probability are retrieved from the model image database, using a nearest neighbor search algorithm. The nearest neighbor search predicts the best possible match candidates. Extended searches are guided by a search strategy that employs knowledge-base (KB) selection criteria. The knowledge-based system simplifies the recognition process and minimizes the number of iterations and memory usage. Novel contributions include the use of a feature-based indexing data structure together with a knowledge base. Both components improve the efficiency of the recognition process by improved structuring of the database of object features and reducing data base size

An end user evaluation of query formulation and results review tools in three medical meta-search engines.

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Leroy, Gondy; Xu, Jennifer; Chung, Wingyan; Eggers, Shauna; Chen, Hsinchun

2007-01-01

Retrieving sufficient relevant information online is difficult for many people because they use too few keywords to search and search engines do not provide many support tools. To further complicate the search, users often ignore support tools when available. Our goal is to evaluate in a realistic setting when users use support tools and how they perceive these tools. We compared three medical search engines with support tools that require more or less effort from users to form a query and evaluate results. We carried out an end user study with 23 users who were asked to find information, i.e., subtopics and supporting abstracts, for a given theme. We used a balanced within-subjects design and report on the effectiveness, efficiency and usability of the support tools from the end user perspective. We found significant differences in efficiency but did not find significant differences in effectiveness between the three search engines. Dynamic user support tools requiring less effort led to higher efficiency. Fewer searches were needed and more documents were found per search when both query reformulation and result review tools dynamically adjust to the user query. The query reformulation tool that provided a long list of keywords, dynamically adjusted to the user query, was used most often and led to more subtopics. As hypothesized, the dynamic result review tools were used more often and led to more subtopics than static ones. These results were corroborated by the usability questionnaires, which showed that support tools that dynamically optimize output were preferred.

A semantics-based method for clustering of Chinese web search results

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Zhang, Hui; Wang, Deqing; Wang, Li; Bi, Zhuming; Chen, Yong

2014-01-01

Information explosion is a critical challenge to the development of modern information systems. In particular, when the application of an information system is over the Internet, the amount of information over the web has been increasing exponentially and rapidly. Search engines, such as Google and Baidu, are essential tools for people to find the information from the Internet. Valuable information, however, is still likely submerged in the ocean of search results from those tools. By clustering the results into different groups based on subjects automatically, a search engine with the clustering feature allows users to select most relevant results quickly. In this paper, we propose an online semantics-based method to cluster Chinese web search results. First, we employ the generalised suffix tree to extract the longest common substrings (LCSs) from search snippets. Second, we use the HowNet to calculate the similarities of the words derived from the LCSs, and extract the most representative features by constructing the vocabulary chain. Third, we construct a vector of text features and calculate snippets' semantic similarities. Finally, we improve the Chameleon algorithm to cluster snippets. Extensive experimental results have shown that the proposed algorithm has outperformed over the suffix tree clustering method and other traditional clustering methods.

Utilization and perceived problems of online medical resources and search tools among different groups of European physicians.

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Kritz, Marlene; Gschwandtner, Manfred; Stefanov, Veronika; Hanbury, Allan; Samwald, Matthias

2013-06-26

There is a large body of research suggesting that medical professionals have unmet information needs during their daily routines. To investigate which online resources and tools different groups of European physicians use to gather medical information and to identify barriers that prevent the successful retrieval of medical information from the Internet. A detailed Web-based questionnaire was sent out to approximately 15,000 physicians across Europe and disseminated through partner websites. 500 European physicians of different levels of academic qualification and medical specialization were included in the analysis. Self-reported frequency of use of different types of online resources, perceived importance of search tools, and perceived search barriers were measured. Comparisons were made across different levels of qualification (qualified physicians vs physicians in training, medical specialists without professorships vs medical professors) and specialization (general practitioners vs specialists). Most participants were Internet-savvy, came from Austria (43%, 190/440) and Switzerland (31%, 137/440), were above 50 years old (56%, 239/430), stated high levels of medical work experience, had regular patient contact and were employed in nonacademic health care settings (41%, 177/432). All groups reported frequent use of general search engines and cited "restricted accessibility to good quality information" as a dominant barrier to finding medical information on the Internet. Physicians in training reported the most frequent use of Wikipedia (56%, 31/55). Specialists were more likely than general practitioners to use medical research databases (68%, 185/274 vs 27%, 24/88; χ²₂=44.905, Presources on the Internet and frequent reliance on general search engines and social media among physicians require further attention. Possible solutions may be increased governmental support for the development and popularization of user-tailored medical search tools and open

Searching in the Context of a Task: A Review of Methods and Tools

Directory of Open Access Journals (Sweden)

Ana Maguitman

2018-04-01

Full Text Available Contextual information extracted from the user task can help to better target retrieval to task-relevant content. In particular, topical context can be exploited to identify the subject of the information needs, contributing to reduce the information overload problem. A great number of methods exist to extract raw context data and contextual interaction patterns from the user task and to model this information using higher-level representations. Context can then be used as a source for automatic query generation, or as a means to refine or disambiguate user-generated queries. It can also be used to filter and rank results as well as to select domain-specific search engines with better capabilities to satisfy specific information requests. This article reviews methods that have been applied to deal with the problem of reflecting the current and long-term interests of a user in the search process. It discusses major difficulties encountered in the research area of context-based information retrieval and presents an overview of tools proposed since the mid-nineties to deal with the problem of context-based search.

In Silico PCR Tools for a Fast Primer, Probe, and Advanced Searching.

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Kalendar, Ruslan; Muterko, Alexandr; Shamekova, Malika; Zhambakin, Kabyl

2017-01-01

The polymerase chain reaction (PCR) is fundamental to molecular biology and is the most important practical molecular technique for the research laboratory. The principle of this technique has been further used and applied in plenty of other simple or complex nucleic acid amplification technologies (NAAT). In parallel to laboratory "wet bench" experiments for nucleic acid amplification technologies, in silico or virtual (bioinformatics) approaches have been developed, among which in silico PCR analysis. In silico NAAT analysis is a useful and efficient complementary method to ensure the specificity of primers or probes for an extensive range of PCR applications from homology gene discovery, molecular diagnosis, DNA fingerprinting, and repeat searching. Predicting sensitivity and specificity of primers and probes requires a search to determine whether they match a database with an optimal number of mismatches, similarity, and stability. In the development of in silico bioinformatics tools for nucleic acid amplification technologies, the prospects for the development of new NAAT or similar approaches should be taken into account, including forward-looking and comprehensive analysis that is not limited to only one PCR technique variant. The software FastPCR and the online Java web tool are integrated tools for in silico PCR of linear and circular DNA, multiple primer or probe searches in large or small databases and for advanced search. These tools are suitable for processing of batch files that are essential for automation when working with large amounts of data. The FastPCR software is available for download at http://primerdigital.com/fastpcr.html and the online Java version at http://primerdigital.com/tools/pcr.html .

Google vs. the Library (Part II): Student Search Patterns and Behaviors When Using Google and a Federated Search Tool

Science.gov (United States)

Georgas, Helen

2014-01-01

This study examines the information-seeking behavior of undergraduate students within a research context. Student searches were recorded while the participants used Google and a library (federated) search tool to find sources (one book, two articles, and one other source of their choosing) for a selected topic. The undergraduates in this study…

Impact of Glaucoma and Dry Eye on Text-Based Searching

Science.gov (United States)

Sun, Michelle J.; Rubin, Gary S.; Akpek, Esen K.; Ramulu, Pradeep Y.

2017-01-01

Purpose We determine if visual field loss from glaucoma and/or measures of dry eye severity are associated with difficulty searching, as judged by slower search times on a text-based search task. Methods Glaucoma patients with bilateral visual field (VF) loss, patients with clinically significant dry eye, and normally-sighted controls were enrolled from the Wilmer Eye Institute clinics. Subjects searched three Yellow Pages excerpts for a specific phone number, and search time was recorded. Results A total of 50 glaucoma subjects, 40 dry eye subjects, and 45 controls completed study procedures. On average, glaucoma patients exhibited 57% longer search times compared to controls (95% confidence interval [CI], 26%–96%, P Dry eye subjects demonstrated similar search times compared to controls, though worse Ocular Surface Disease Index (OSDI) vision-related subscores were associated with longer search times (P dry eye (P > 0.08 for Schirmer's testing without anesthesia, corneal fluorescein staining, and tear film breakup time). Conclusions Text-based visual search is slower for glaucoma patients with greater levels of VF loss and dry eye patients with greater self-reported visual difficulty, and these difficulties may contribute to decreased quality of life in these groups. Translational Relevance Visual search is impaired in glaucoma and dry eye groups compared to controls, highlighting the need for compensatory strategies and tools to assist individuals in overcoming their deficiencies. PMID:28670502

Exploratory search in an audio-visual archive: evaluating a professional search tool for non-professional users

NARCIS (Netherlands)

Bron, M.; van Gorp, J.; Nack, F.; de Rijke, M.

2011-01-01

As archives are opening up and publishing their content online, the general public can now directly access archive collections. To support access, archives typically provide the public with their internal search tools that were originally intended for professional archivists. We conduct a

PhAST: pharmacophore alignment search tool.

Science.gov (United States)

Hähnke, Volker; Hofmann, Bettina; Grgat, Tomislav; Proschak, Ewgenij; Steinhilber, Dieter; Schneider, Gisbert

2009-04-15

We present a ligand-based virtual screening technique (PhAST) for rapid hit and lead structure searching in large compound databases. Molecules are represented as strings encoding the distribution of pharmacophoric features on the molecular graph. In contrast to other text-based methods using SMILES strings, we introduce a new form of text representation that describes the pharmacophore of molecules. This string representation opens the opportunity for revealing functional similarity between molecules by sequence alignment techniques in analogy to homology searching in protein or nucleic acid sequence databases. We favorably compared PhAST with other current ligand-based virtual screening methods in a retrospective analysis using the BEDROC metric. In a prospective application, PhAST identified two novel inhibitors of 5-lipoxygenase product formation with minimal experimental effort. This outcome demonstrates the applicability of PhAST to drug discovery projects and provides an innovative concept of sequence-based compound screening with substantial scaffold hopping potential. 2008 Wiley Periodicals, Inc.

Simrank: Rapid and sensitive general-purpose k-mer search tool

Energy Technology Data Exchange (ETDEWEB)

DeSantis, T.Z.; Keller, K.; Karaoz, U.; Alekseyenko, A.V; Singh, N.N.S.; Brodie, E.L; Pei, Z.; Andersen, G.L; Larsen, N.

2011-04-01

Terabyte-scale collections of string-encoded data are expected from consortia efforts such as the Human Microbiome Project (http://nihroadmap.nih.gov/hmp). Intra- and inter-project data similarity searches are enabled by rapid k-mer matching strategies. Software applications for sequence database partitioning, guide tree estimation, molecular classification and alignment acceleration have benefited from embedded k-mer searches as sub-routines. However, a rapid, general-purpose, open-source, flexible, stand-alone k-mer tool has not been available. Here we present a stand-alone utility, Simrank, which allows users to rapidly identify database strings the most similar to query strings. Performance testing of Simrank and related tools against DNA, RNA, protein and human-languages found Simrank 10X to 928X faster depending on the dataset. Simrank provides molecular ecologists with a high-throughput, open source choice for comparing large sequence sets to find similarity.

Students are Confident Using Federated Search Tools as much as Single Databases. A Review of: Armstrong, A. (2009. Student perceptions of federated searching vs. single database searching. Reference Services Review, 37(3, 291-303. doi:10.1108/00907320910982785

Directory of Open Access Journals (Sweden)

Deena Yanofsky

2011-09-01

Full Text Available Objective – To measure students’ perceptions of the ease-of-use and efficacy of a federated search tool versus a single multidisciplinary database.Design – An evaluation worksheet, employing a combination of quantitative and qualitative questions.Setting – A required, first-year English composition course taught at the University of Illinois at Chicago (UIC.Subjects – Thirty-one undergraduate students completed and submitted the worksheet.Methods – Students attended two library instruction sessions. The first session introduced participants to basic Boolean searching (using AND only, selecting appropriate keywords and searching for books in the library catalogue. In the second library session, students were handed an evaluation worksheet and, with no introduction to the process of searching article databases, were asked to find relevant articles on a research topic of their own choosing using both a federated search tool and a single multidisciplinary database. The evaluation worksheet was divided into four sections: step-by-step instructions for accessing the single multidisciplinary database and the federated search tool; space to record search strings in both resources; space to record the titles of up to five relevant articles; and a series of quantitative and qualitative questions regarding ease-of-use, relevancy of results, overall preference (if any between the two resources, likeliness of future use and other preferred research tools. Half of the participants received a worksheet with instructions to search the federated search tool before the single database; the order was reversed for the other half of the students. The evaluation worksheet was designed to be completed in one hour.Participant responses to qualitative questions were analyzed, codified and grouped into thematic categories. If a student mentioned more than one factor in responding to a question, their response was recorded in multiple categories.Main Results �

PubMed and beyond: a survey of web tools for searching biomedical literature

Science.gov (United States)

Lu, Zhiyong

2011-01-01

The past decade has witnessed the modern advances of high-throughput technology and rapid growth of research capacity in producing large-scale biological data, both of which were concomitant with an exponential growth of biomedical literature. This wealth of scholarly knowledge is of significant importance for researchers in making scientific discoveries and healthcare professionals in managing health-related matters. However, the acquisition of such information is becoming increasingly difficult due to its large volume and rapid growth. In response, the National Center for Biotechnology Information (NCBI) is continuously making changes to its PubMed Web service for improvement. Meanwhile, different entities have devoted themselves to developing Web tools for helping users quickly and efficiently search and retrieve relevant publications. These practices, together with maturity in the field of text mining, have led to an increase in the number and quality of various Web tools that provide comparable literature search service to PubMed. In this study, we review 28 such tools, highlight their respective innovations, compare them to the PubMed system and one another, and discuss directions for future development. Furthermore, we have built a website dedicated to tracking existing systems and future advances in the field of biomedical literature search. Taken together, our work serves information seekers in choosing tools for their needs and service providers and developers in keeping current in the field. Database URL: http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/search PMID:21245076

PubMed and beyond: a survey of web tools for searching biomedical literature.

Science.gov (United States)

Lu, Zhiyong

2011-01-01

The past decade has witnessed the modern advances of high-throughput technology and rapid growth of research capacity in producing large-scale biological data, both of which were concomitant with an exponential growth of biomedical literature. This wealth of scholarly knowledge is of significant importance for researchers in making scientific discoveries and healthcare professionals in managing health-related matters. However, the acquisition of such information is becoming increasingly difficult due to its large volume and rapid growth. In response, the National Center for Biotechnology Information (NCBI) is continuously making changes to its PubMed Web service for improvement. Meanwhile, different entities have devoted themselves to developing Web tools for helping users quickly and efficiently search and retrieve relevant publications. These practices, together with maturity in the field of text mining, have led to an increase in the number and quality of various Web tools that provide comparable literature search service to PubMed. In this study, we review 28 such tools, highlight their respective innovations, compare them to the PubMed system and one another, and discuss directions for future development. Furthermore, we have built a website dedicated to tracking existing systems and future advances in the field of biomedical literature search. Taken together, our work serves information seekers in choosing tools for their needs and service providers and developers in keeping current in the field. Database URL: http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/search.

Analysis of semantic search within the domains of uncertainty: using Keyword Effectiveness Indexing as an evaluation tool.

Science.gov (United States)

Lorence, Daniel; Abraham, Joanna

2006-01-01

Medical and health-related searches pose a special case of risk when using the web as an information resource. Uninsured consumers, lacking access to a trained provider, will often rely on information from the internet for self-diagnosis and treatment. In areas where treatments are uncertain or controversial, most consumers lack the knowledge to make an informed decision. This exploratory technology assessment examines the use of Keyword Effectiveness Indexing (KEI) analysis as a potential tool for profiling information search and keyword retrieval patterns. Results demonstrate that the KEI methodology can be useful in identifying e-health search patterns, but is limited by semantic or text-based web environments.

Generating "fragment-based virtual library" using pocket similarity search of ligand-receptor complexes.

Science.gov (United States)

Khashan, Raed S

2015-01-01

As the number of available ligand-receptor complexes is increasing, researchers are becoming more dedicated to mine these complexes to aid in the drug design and development process. We present free software which is developed as a tool for performing similarity search across ligand-receptor complexes for identifying binding pockets which are similar to that of a target receptor. The search is based on 3D-geometric and chemical similarity of the atoms forming the binding pocket. For each match identified, the ligand's fragment(s) corresponding to that binding pocket are extracted, thus forming a virtual library of fragments (FragVLib) that is useful for structure-based drug design. The program provides a very useful tool to explore available databases.

IRSS: a web-based tool for automatic layout and analysis of IRES secondary structure prediction and searching system in silico

Directory of Open Access Journals (Sweden)

Hong Jun-Jie

2009-05-01

Full Text Available Abstract Background Internal ribosomal entry sites (IRESs provide alternative, cap-independent translation initiation sites in eukaryotic cells. IRES elements are important factors in viral genomes and are also useful tools for bi-cistronic expression vectors. Most existing RNA structure prediction programs are unable to deal with IRES elements. Results We designed an IRES search system, named IRSS, to obtain better results for IRES prediction. RNA secondary structure prediction and comparison software programs were implemented to construct our two-stage strategy for the IRSS. Two software programs formed the backbone of IRSS: the RNAL fold program, used to predict local RNA secondary structures by minimum free energy method; and the RNA Align program, used to compare predicted structures. After complete viral genome database search, the IRSS have low error rate and up to 72.3% sensitivity in appropriated parameters. Conclusion IRSS is freely available at this website http://140.135.61.9/ires/. In addition, all source codes, precompiled binaries, examples and documentations are downloadable for local execution. This new search approach for IRES elements will provide a useful research tool on IRES related studies.

Artificial Intelligence Based Selection of Optimal Cutting Tool and Process Parameters for Effective Turning and Milling Operations

Science.gov (United States)

Saranya, Kunaparaju; John Rozario Jegaraj, J.; Ramesh Kumar, Katta; Venkateshwara Rao, Ghanta

2016-06-01

With the increased trend in automation of modern manufacturing industry, the human intervention in routine, repetitive and data specific activities of manufacturing is greatly reduced. In this paper, an attempt has been made to reduce the human intervention in selection of optimal cutting tool and process parameters for metal cutting applications, using Artificial Intelligence techniques. Generally, the selection of appropriate cutting tool and parameters in metal cutting is carried out by experienced technician/cutting tool expert based on his knowledge base or extensive search from huge cutting tool database. The present proposed approach replaces the existing practice of physical search for tools from the databooks/tool catalogues with intelligent knowledge-based selection system. This system employs artificial intelligence based techniques such as artificial neural networks, fuzzy logic and genetic algorithm for decision making and optimization. This intelligence based optimal tool selection strategy is developed using Mathworks Matlab Version 7.11.0 and implemented. The cutting tool database was obtained from the tool catalogues of different tool manufacturers. This paper discusses in detail, the methodology and strategies employed for selection of appropriate cutting tool and optimization of process parameters based on multi-objective optimization criteria considering material removal rate, tool life and tool cost.

Health literacy and usability of clinical trial search engines.

Science.gov (United States)

Utami, Dina; Bickmore, Timothy W; Barry, Barbara; Paasche-Orlow, Michael K

2014-01-01

Several web-based search engines have been developed to assist individuals to find clinical trials for which they may be interested in volunteering. However, these search engines may be difficult for individuals with low health and computer literacy to navigate. The authors present findings from a usability evaluation of clinical trial search tools with 41 participants across the health and computer literacy spectrum. The study consisted of 3 parts: (a) a usability study of an existing web-based clinical trial search tool; (b) a usability study of a keyword-based clinical trial search tool; and (c) an exploratory study investigating users' information needs when deciding among 2 or more candidate clinical trials. From the first 2 studies, the authors found that users with low health literacy have difficulty forming queries using keywords and have significantly more difficulty using a standard web-based clinical trial search tool compared with users with adequate health literacy. From the third study, the authors identified the search factors most important to individuals searching for clinical trials and how these varied by health literacy level.

Location-based Services using Image Search

DEFF Research Database (Denmark)

Vertongen, Pieter-Paulus; Hansen, Dan Witzner

2008-01-01

Recent developments in image search has made them sufficiently efficient to be used in real-time applications. GPS has become a popular navigation tool. While GPS information provide reasonably good accuracy, they are not always present in all hand held devices nor are they accurate in all situat...... of the image search engine and database image location knowledge, the location is determined of the query image and associated data can be presented to the user....

A tool for model based diagnostics of the AGS Booster

International Nuclear Information System (INIS)

Luccio, A.

1993-01-01

A model-based algorithmic tool was developed to search for lattice errors by a systematic analysis of orbit data in the AGS Booster synchrotron. The algorithm employs transfer matrices calculated with MAD between points in the ring. Iterative model fitting of the data allows one to find and eventually correct magnet displacements and angles or field errors. The tool, implemented on a HP-Apollo workstation system, has proved very general and of immediate physical interpretation

Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

National Research Council Canada - National Science Library

Nodine, Calvin

1999-01-01

The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

National Research Council Canada - National Science Library

Nodine, Calvin

1998-01-01

The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

National Research Council Canada - National Science Library

Nodine, Calvin

2000-01-01

The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

Data-base tools for enhanced analysis of TMX-U data

International Nuclear Information System (INIS)

Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

1986-01-01

The authors use a commercial data-base software package to create several data-base products that enhance the ability of experimental physicists to analyze data from the TMX-U experiment. This software resides on a Dec-20 computer in M-Divisions's user service center (USC), where data can be analyzed separately from the main acquisition computers. When these data-base tools are combined with interactive data analysis programs, physicists can perform automated (batch-style) processing or interactive data analysis on the computers in the USC or on the supercomputers of the NMFECC, in addition to the normal processing done on the acquisition system. One data-base tool provides highly reduced data for searching and correlation analysis of several diagnostic signals for a single shot or many shots. A second data-base tool provides retrieval and storage of unreduced data for detailed analysis of one or more diagnostic signals. The authors report how these data-base tools form the core of an evolving off-line data-analysis environment on the USC computers

Footprints: A Visual Search Tool that Supports Discovery and Coverage Tracking.

Science.gov (United States)

Isaacs, Ellen; Domico, Kelly; Ahern, Shane; Bart, Eugene; Singhal, Mudita

2014-12-01

Searching a large document collection to learn about a broad subject involves the iterative process of figuring out what to ask, filtering the results, identifying useful documents, and deciding when one has covered enough material to stop searching. We are calling this activity "discoverage," discovery of relevant material and tracking coverage of that material. We built a visual analytic tool called Footprints that uses multiple coordinated visualizations to help users navigate through the discoverage process. To support discovery, Footprints displays topics extracted from documents that provide an overview of the search space and are used to construct searches visuospatially. Footprints allows users to triage their search results by assigning a status to each document (To Read, Read, Useful), and those status markings are shown on interactive histograms depicting the user's coverage through the documents across dates, sources, and topics. Coverage histograms help users notice biases in their search and fill any gaps in their analytic process. To create Footprints, we used a highly iterative, user-centered approach in which we conducted many evaluations during both the design and implementation stages and continually modified the design in response to feedback.

Content Based Searching for INIS

International Nuclear Information System (INIS)

Jain, V.; Jain, R.K.

2016-01-01

Full text: Whatever a user wants is available on the internet, but to retrieve the information efficiently, a multilingual and most-relevant document search engine is a must. Most current search engines are word based or pattern based. They do not consider the meaning of the query posed to them; purely based on the keywords of the query; no support of multilingual query and and dismissal of nonrelevant results. Current information-retrieval techniques either rely on an encoding process, using a certain perspective or classification scheme, to describe a given item, or perform a full-text analysis, searching for user-specified words. Neither case guarantees content matching because an encoded description might reflect only part of the content and the mere occurrence of a word does not necessarily reflect the document’s content. For general documents, there doesn’t yet seem to be a much better option than lazy full-text analysis, by manually going through those endless results pages. In contrast to this, new search engine should extract the meaning of the query and then perform the search based on this extracted meaning. New search engine should also employ Interlingua based machine translation technology to present information in the language of choice of the user. (author

Tool-Body Assimilation Model Based on Body Babbling and Neurodynamical System

Directory of Open Access Journals (Sweden)

Kuniyuki Takahashi

2015-01-01

Full Text Available We propose the new method of tool use with a tool-body assimilation model based on body babbling and a neurodynamical system for robots to use tools. Almost all existing studies for robots to use tools require predetermined motions and tool features; the motion patterns are limited and the robots cannot use novel tools. Other studies fully search for all available parameters for novel tools, but this leads to massive amounts of calculations. To solve these problems, we took the following approach: we used a humanoid robot model to generate random motions based on human body babbling. These rich motion experiences were used to train recurrent and deep neural networks for modeling a body image. Tool features were self-organized in parametric bias, modulating the body image according to the tool in use. Finally, we designed a neural network for the robot to generate motion only from the target image. Experiments were conducted with multiple tools for manipulating a cylindrical target object. The results show that the tool-body assimilation model is capable of motion generation.

(Re)interpreting LHC New Physics Search Results : Tools and Methods, 3rd Workshop

CERN Document Server

The quest for new physics beyond the SM is arguably the driving topic for LHC Run2. LHC collaborations are pursuing searches for new physics in a vast variety of channels. Although collaborations provide various interpretations for their search results, the full understanding of these results requires a much wider interpretation scope involving all kinds of theoretical models. This is a very active field, with close theory-experiment interaction. In particular, development of dedicated methodologies and tools is crucial for such scale of interpretation. Recently, a Forum was initiated to host discussions among LHC experimentalists and theorists on topics related to the BSM (re)interpretation of LHC data, and especially on the development of relevant interpretation tools and infrastructure: https://twiki.cern.ch/twiki/bin/view/LHCPhysics/InterpretingLHCresults Two meetings were held at CERN, where active discussions and concrete work on (re)interpretation methods and tools took place, with valuable cont...

Visibiome: an efficient microbiome search engine based on a scalable, distributed architecture.

Science.gov (United States)

Azman, Syafiq Kamarul; Anwar, Muhammad Zohaib; Henschel, Andreas

2017-07-24

Given the current influx of 16S rRNA profiles of microbiota samples, it is conceivable that large amounts of them eventually are available for search, comparison and contextualization with respect to novel samples. This process facilitates the identification of similar compositional features in microbiota elsewhere and therefore can help to understand driving factors for microbial community assembly. We present Visibiome, a microbiome search engine that can perform exhaustive, phylogeny based similarity search and contextualization of user-provided samples against a comprehensive dataset of 16S rRNA profiles environments, while tackling several computational challenges. In order to scale to high demands, we developed a distributed system that combines web framework technology, task queueing and scheduling, cloud computing and a dedicated database server. To further ensure speed and efficiency, we have deployed Nearest Neighbor search algorithms, capable of sublinear searches in high-dimensional metric spaces in combination with an optimized Earth Mover Distance based implementation of weighted UniFrac. The search also incorporates pairwise (adaptive) rarefaction and optionally, 16S rRNA copy number correction. The result of a query microbiome sample is the contextualization against a comprehensive database of microbiome samples from a diverse range of environments, visualized through a rich set of interactive figures and diagrams, including barchart-based compositional comparisons and ranking of the closest matches in the database. Visibiome is a convenient, scalable and efficient framework to search microbiomes against a comprehensive database of environmental samples. The search engine leverages a popular but computationally expensive, phylogeny based distance metric, while providing numerous advantages over the current state of the art tool.

A Web-based Tool for SDSS and 2MASS Database Searches

Science.gov (United States)

Hendrickson, M. A.; Uomoto, A.; Golimowski, D. A.

We have developed a web site using HTML, Php, Python, and MySQL that extracts, processes, and displays data from the Sloan Digital Sky Survey (SDSS) and the Two-Micron All-Sky Survey (2MASS). The goal is to locate brown dwarf candidates in the SDSS database by looking at color cuts; however, this site could also be useful for targeted searches of other databases as well. MySQL databases are created from broad searches of SDSS and 2MASS data. Broad queries on the SDSS and 2MASS database servers are run weekly so that observers have the most up-to-date information from which to select candidates for observation. Observers can look at detailed information about specific objects including finding charts, images, and available spectra. In addition, updates from previous observations can be added by any collaborators; this format makes observational collaboration simple. Observers can also restrict the database search, just before or during an observing run, to select objects of special interest.

Top-k Keyword Search Over Graphs Based On Backward Search

Directory of Open Access Journals (Sweden)

Zeng Jia-Hui

2017-01-01

Full Text Available Keyword search is one of the most friendly and intuitive information retrieval methods. Using the keyword search to get the connected subgraph has a lot of application in the graph-based cognitive computation, and it is a basic technology. This paper focuses on the top-k keyword searching over graphs. We implemented a keyword search algorithm which applies the backward search idea. The algorithm locates the keyword vertices firstly, and then applies backward search to find rooted trees that contain query keywords. The experiment shows that query time is affected by the iteration number of the algorithm.

Process planning optimization on turning machine tool using a hybrid genetic algorithm with local search approach

Directory of Open Access Journals (Sweden)

Yuliang Su

2015-04-01

Full Text Available A turning machine tool is a kind of new type of machine tool that is equipped with more than one spindle and turret. The distinctive simultaneous and parallel processing abilities of turning machine tool increase the complexity of process planning. The operations would not only be sequenced and satisfy precedence constraints, but also should be scheduled with multiple objectives such as minimizing machining cost, maximizing utilization of turning machine tool, and so on. To solve this problem, a hybrid genetic algorithm was proposed to generate optimal process plans based on a mixed 0-1 integer programming model. An operation precedence graph is used to represent precedence constraints and help generate a feasible initial population of hybrid genetic algorithm. Encoding strategy based on data structure was developed to represent process plans digitally in order to form the solution space. In addition, a local search approach for optimizing the assignments of available turrets would be added to incorporate scheduling with process planning. A real-world case is used to prove that the proposed approach could avoid infeasible solutions and effectively generate a global optimal process plan.

Dyniqx: a novel meta-search engine for metadata based cross search

OpenAIRE

Zhu, Jianhan; Song, Dawei; Eisenstadt, Marc; Barladeanu, Cristi; Rüger, Stefan

2008-01-01

The effect of metadata in collection fusion has not been sufficiently studied. In response to this, we present a novel meta-search engine called Dyniqx for metadata based cross search. Dyniqx exploits the availability of metadata in academic search services such as PubMed and Google Scholar etc for fusing search results from heterogeneous search engines. In addition, metadata from these search engines are used for generating dynamic query controls such as sliders and tick boxes etc which are ...

Querying archetype-based EHRs by search ontology-based XPath engineering.

Science.gov (United States)

Kropf, Stefan; Uciteli, Alexandr; Schierle, Katrin; Krücken, Peter; Denecke, Kerstin; Herre, Heinrich

2018-05-11

Legacy data and new structured data can be stored in a standardized format as XML-based EHRs on XML databases. Querying documents on these databases is crucial for answering research questions. Instead of using free text searches, that lead to false positive results, the precision can be increased by constraining the search to certain parts of documents. A search ontology-based specification of queries on XML documents defines search concepts and relates them to parts in the XML document structure. Such query specification method is practically introduced and evaluated by applying concrete research questions formulated in natural language on a data collection for information retrieval purposes. The search is performed by search ontology-based XPath engineering that reuses ontologies and XML-related W3C standards. The key result is that the specification of research questions can be supported by the usage of search ontology-based XPath engineering. A deeper recognition of entities and a semantic understanding of the content is necessary for a further improvement of precision and recall. Key limitation is that the application of the introduced process requires skills in ontology and software development. In future, the time consuming ontology development could be overcome by implementing a new clinical role: the clinical ontologist. The introduced Search Ontology XML extension connects Search Terms to certain parts in XML documents and enables an ontology-based definition of queries. Search ontology-based XPath engineering can support research question answering by the specification of complex XPath expressions without deep syntax knowledge about XPaths.

Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis.

Science.gov (United States)

Huang, Yan Xin; Bao, Yong Li; Guo, Shu Yan; Wang, Yan; Zhou, Chun Guang; Li, Yu Xin

2008-12-16

The prediction of conformational B-cell epitopes is one of the most important goals in immunoinformatics. The solution to this problem, even if approximate, would help in designing experiments to precisely map the residues of interaction between an antigen and an antibody. Consequently, this area of research has received considerable attention from immunologists, structural biologists and computational biologists. Phage-displayed random peptide libraries are powerful tools used to obtain mimotopes that are selected by binding to a given monoclonal antibody (mAb) in a similar way to the native epitope. These mimotopes can be considered as functional epitope mimics. Mimotope analysis based methods can predict not only linear but also conformational epitopes and this has been the focus of much research in recent years. Though some algorithms based on mimotope analysis have been proposed, the precise localization of the interaction site mimicked by the mimotopes is still a challenging task. In this study, we propose a method for B-cell epitope prediction based on mimotope analysis called Pep-3D-Search. Given the 3D structure of an antigen and a set of mimotopes (or a motif sequence derived from the set of mimotopes), Pep-3D-Search can be used in two modes: mimotope or motif. To evaluate the performance of Pep-3D-Search to predict epitopes from a set of mimotopes, 10 epitopes defined by crystallography were compared with the predicted results from a Pep-3D-Search: the average Matthews correlation coefficient (MCC), sensitivity and precision were 0.1758, 0.3642 and 0.6948. Compared with other available prediction algorithms, Pep-3D-Search showed comparable MCC, specificity and precision, and could provide novel, rational results. To verify the capability of Pep-3D-Search to align a motif sequence to a 3D structure for predicting epitopes, 6 test cases were used. The predictive performance of Pep-3D-Search was demonstrated to be superior to that of other similar programs

Architecture for knowledge-based and federated search of online clinical evidence.

Science.gov (United States)

Coiera, Enrico; Walther, Martin; Nguyen, Ken; Lovell, Nigel H

2005-10-24

It is increasingly difficult for clinicians to keep up-to-date with the rapidly growing biomedical literature. Online evidence retrieval methods are now seen as a core tool to support evidence-based health practice. However, standard search engine technology is not designed to manage the many different types of evidence sources that are available or to handle the very different information needs of various clinical groups, who often work in widely different settings. The objectives of this paper are (1) to describe the design considerations and system architecture of a wrapper-mediator approach to federate search system design, including the use of knowledge-based, meta-search filters, and (2) to analyze the implications of system design choices on performance measurements. A trial was performed to evaluate the technical performance of a federated evidence retrieval system, which provided access to eight distinct online resources, including e-journals, PubMed, and electronic guidelines. The Quick Clinical system architecture utilized a universal query language to reformulate queries internally and utilized meta-search filters to optimize search strategies across resources. We recruited 227 family physicians from across Australia who used the system to retrieve evidence in a routine clinical setting over a 4-week period. The total search time for a query was recorded, along with the duration of individual queries sent to different online resources. Clinicians performed 1662 searches over the trial. The average search duration was 4.9 +/- 3.2 s (N = 1662 searches). Mean search duration to the individual sources was between 0.05 s and 4.55 s. Average system time (ie, system overhead) was 0.12 s. The relatively small system overhead compared to the average time it takes to perform a search for an individual source shows that the system achieves a good trade-off between performance and reliability. Furthermore, despite the additional effort required to incorporate the

Development of a Google-based search engine for data mining radiology reports.

Science.gov (United States)

Erinjeri, Joseph P; Picus, Daniel; Prior, Fred W; Rubin, David A; Koppel, Paul

2009-08-01

The aim of this study is to develop a secure, Google-based data-mining tool for radiology reports using free and open source technologies and to explore its use within an academic radiology department. A Health Insurance Portability and Accountability Act (HIPAA)-compliant data repository, search engine and user interface were created to facilitate treatment, operations, and reviews preparatory to research. The Institutional Review Board waived review of the project, and informed consent was not required. Comprising 7.9 GB of disk space, 2.9 million text reports were downloaded from our radiology information system to a fileserver. Extensible markup language (XML) representations of the reports were indexed using Google Desktop Enterprise search engine software. A hypertext markup language (HTML) form allowed users to submit queries to Google Desktop, and Google's XML response was interpreted by a practical extraction and report language (PERL) script, presenting ranked results in a web browser window. The query, reason for search, results, and documents visited were logged to maintain HIPAA compliance. Indexing averaged approximately 25,000 reports per hour. Keyword search of a common term like "pneumothorax" yielded the first ten most relevant results of 705,550 total results in 1.36 s. Keyword search of a rare term like "hemangioendothelioma" yielded the first ten most relevant results of 167 total results in 0.23 s; retrieval of all 167 results took 0.26 s. Data mining tools for radiology reports will improve the productivity of academic radiologists in clinical, educational, research, and administrative tasks. By leveraging existing knowledge of Google's interface, radiologists can quickly perform useful searches.

Tree decomposition based fast search of RNA structures including pseudoknots in genomes.

Science.gov (United States)

Song, Yinglei; Liu, Chunmei; Malmberg, Russell; Pan, Fangfang; Cai, Liming

2005-01-01

Searching genomes for RNA secondary structure with computational methods has become an important approach to the annotation of non-coding RNAs. However, due to the lack of efficient algorithms for accurate RNA structure-sequence alignment, computer programs capable of fast and effectively searching genomes for RNA secondary structures have not been available. In this paper, a novel RNA structure profiling model is introduced based on the notion of a conformational graph to specify the consensus structure of an RNA family. Tree decomposition yields a small tree width t for such conformation graphs (e.g., t = 2 for stem loops and only a slight increase for pseudo-knots). Within this modelling framework, the optimal alignment of a sequence to the structure model corresponds to finding a maximum valued isomorphic subgraph and consequently can be accomplished through dynamic programming on the tree decomposition of the conformational graph in time O(k(t)N(2)), where k is a small parameter; and N is the size of the projiled RNA structure. Experiments show that the application of the alignment algorithm to search in genomes yields the same search accuracy as methods based on a Covariance model with a significant reduction in computation time. In particular; very accurate searches of tmRNAs in bacteria genomes and of telomerase RNAs in yeast genomes can be accomplished in days, as opposed to months required by other methods. The tree decomposition based searching tool is free upon request and can be downloaded at our site h t t p ://w.uga.edu/RNA-informatics/software/index.php.

Older Cancer Patients' User Experiences With Web-Based Health Information Tools: A Think-Aloud Study.

Science.gov (United States)

Bolle, Sifra; Romijn, Geke; Smets, Ellen M A; Loos, Eugene F; Kunneman, Marleen; van Weert, Julia C M

2016-07-25

Health information is increasingly presented on the Internet. Several Web design guidelines for older Web users have been proposed; however, these guidelines are often not applied in website development. Furthermore, although we know that older individuals use the Internet to search for health information, we lack knowledge on how they use and evaluate Web-based health information. This study evaluates user experiences with existing Web-based health information tools among older (≥ 65 years) cancer patients and survivors and their partners. The aim was to gain insight into usability issues and the perceived usefulness of cancer-related Web-based health information tools. We conducted video-recorded think-aloud observations for 7 Web-based health information tools, specifically 3 websites providing cancer-related information, 3 Web-based question prompt lists (QPLs), and 1 values clarification tool, with colorectal cancer patients or survivors (n=15) and their partners (n=8) (median age: 73; interquartile range 70-79). Participants were asked to think aloud while performing search, evaluation, and application tasks using the Web-based health information tools. Overall, participants perceived Web-based health information tools as highly useful and indicated a willingness to use such tools. However, they experienced problems in terms of usability and perceived usefulness due to difficulties in using navigational elements, shortcomings in the layout, a lack of instructions on how to use the tools, difficulties with comprehensibility, and a large amount of variety in terms of the preferred amount of information. Although participants frequently commented that it was easy for them to find requested information, we observed that the large majority of the participants were not able to find it. Overall, older cancer patients appreciate and are able to use cancer information websites. However, this study shows the importance of maintaining awareness of age-related problems

Older Cancer Patients’ User Experiences With Web-Based Health Information Tools: A Think-Aloud Study

Science.gov (United States)

Romijn, Geke; Smets, Ellen M A; Loos, Eugene F; Kunneman, Marleen; van Weert, Julia C M

2016-01-01

Background Health information is increasingly presented on the Internet. Several Web design guidelines for older Web users have been proposed; however, these guidelines are often not applied in website development. Furthermore, although we know that older individuals use the Internet to search for health information, we lack knowledge on how they use and evaluate Web-based health information. Objective This study evaluates user experiences with existing Web-based health information tools among older (≥ 65 years) cancer patients and survivors and their partners. The aim was to gain insight into usability issues and the perceived usefulness of cancer-related Web-based health information tools. Methods We conducted video-recorded think-aloud observations for 7 Web-based health information tools, specifically 3 websites providing cancer-related information, 3 Web-based question prompt lists (QPLs), and 1 values clarification tool, with colorectal cancer patients or survivors (n=15) and their partners (n=8) (median age: 73; interquartile range 70-79). Participants were asked to think aloud while performing search, evaluation, and application tasks using the Web-based health information tools. Results Overall, participants perceived Web-based health information tools as highly useful and indicated a willingness to use such tools. However, they experienced problems in terms of usability and perceived usefulness due to difficulties in using navigational elements, shortcomings in the layout, a lack of instructions on how to use the tools, difficulties with comprehensibility, and a large amount of variety in terms of the preferred amount of information. Although participants frequently commented that it was easy for them to find requested information, we observed that the large majority of the participants were not able to find it. Conclusions Overall, older cancer patients appreciate and are able to use cancer information websites. However, this study shows the importance

Parallel Harmony Search Based Distributed Energy Resource Optimization

Energy Technology Data Exchange (ETDEWEB)

Ceylan, Oguzhan [ORNL; Liu, Guodong [ORNL; Tomsovic, Kevin [University of Tennessee, Knoxville (UTK)

2015-01-01

This paper presents a harmony search based parallel optimization algorithm to minimize voltage deviations in three phase unbalanced electrical distribution systems and to maximize active power outputs of distributed energy resources (DR). The main contribution is to reduce the adverse impacts on voltage profile during a day as photovoltaics (PVs) output or electrical vehicles (EVs) charging changes throughout a day. The IEEE 123- bus distribution test system is modified by adding DRs and EVs under different load profiles. The simulation results show that by using parallel computing techniques, heuristic methods may be used as an alternative optimization tool in electrical power distribution systems operation.

Google vs. the Library: Student Preferences and Perceptions when Doing Research Using Google and a Federated Search Tool

Science.gov (United States)

Georgas, Helen

2013-01-01

Federated searching was once touted as the library world's answer to Google, but ten years since federated searching technology's inception, how does it actually compare? This study focuses on undergraduate student preferences and perceptions when doing research using both Google and a federated search tool. Students were asked about their…

HTTP-based Search and Ordering Using ECHO's REST-based and OpenSearch APIs

Science.gov (United States)

Baynes, K.; Newman, D. J.; Pilone, D.

2012-12-01

Metadata is an important entity in the process of cataloging, discovering, and describing Earth science data. NASA's Earth Observing System (EOS) ClearingHOuse (ECHO) acts as the core metadata repository for EOSDIS data centers, providing a centralized mechanism for metadata and data discovery and retrieval. By supporting both the ESIP's Federated Search API and its own search and ordering interfaces, ECHO provides multiple capabilities that facilitate ease of discovery and access to its ever-increasing holdings. Users are able to search and export metadata in a variety of formats including ISO 19115, json, and ECHO10. This presentation aims to inform technically savvy clients interested in automating search and ordering of ECHO's metadata catalog. The audience will be introduced to practical and applicable examples of end-to-end workflows that demonstrate finding, sub-setting and ordering data that is bound by keyword, temporal and spatial constraints. Interaction with the ESIP OpenSearch Interface will be highlighted, as will ECHO's own REST-based API.

Similarity-based search of model organism, disease and drug effect phenotypes

KAUST Repository

Hoehndorf, Robert

2015-02-19

Background: Semantic similarity measures over phenotype ontologies have been demonstrated to provide a powerful approach for the analysis of model organism phenotypes, the discovery of animal models of human disease, novel pathways, gene functions, druggable therapeutic targets, and determination of pathogenicity. Results: We have developed PhenomeNET 2, a system that enables similarity-based searches over a large repository of phenotypes in real-time. It can be used to identify strains of model organisms that are phenotypically similar to human patients, diseases that are phenotypically similar to model organism phenotypes, or drug effect profiles that are similar to the phenotypes observed in a patient or model organism. PhenomeNET 2 is available at http://aber-owl.net/phenomenet. Conclusions: Phenotype-similarity searches can provide a powerful tool for the discovery and investigation of molecular mechanisms underlying an observed phenotypic manifestation. PhenomeNET 2 facilitates user-defined similarity searches and allows researchers to analyze their data within a large repository of human, mouse and rat phenotypes.

Mathematical programming solver based on local search

CERN Document Server

Gardi, Frédéric; Darlay, Julien; Estellon, Bertrand; Megel, Romain

2014-01-01

This book covers local search for combinatorial optimization and its extension to mixed-variable optimization. Although not yet understood from the theoretical point of view, local search is the paradigm of choice for tackling large-scale real-life optimization problems. Today's end-users demand interactivity with decision support systems. For optimization software, this means obtaining good-quality solutions quickly. Fast iterative improvement methods, like local search, are suited to satisfying such needs. Here the authors show local search in a new light, in particular presenting a new kind of mathematical programming solver, namely LocalSolver, based on neighborhood search. First, an iconoclast methodology is presented to design and engineer local search algorithms. The authors' concern about industrializing local search approaches is of particular interest for practitioners. This methodology is applied to solve two industrial problems with high economic stakes. Software based on local search induces ex...

Web-based drug repurposing tools: a survey.

Science.gov (United States)

Sam, Elizabeth; Athri, Prashanth

2017-10-06

Drug repurposing (a.k.a. drug repositioning) is the search for new indications or molecular targets distinct from a drug's putative activity, pharmacological effect or binding specificities. With the ever-increasing rates of termination of drugs in clinical trials, drug repositioning has risen as one of the effective solutions against the risk of drug failures. Repositioning finds a way to reverse the grim but real trend that Eroom's law portends for the pharmaceutical and biotech industry, and drug discovery in general. Further, the advent of high-throughput technologies to explore biological systems has enabled the generation of zeta bytes of data and a massive collection of databases that store them. Computational analytics and mining are frequently used as effective tools to explore this byzantine series of biological and biomedical data. However, advanced computational tools are often difficult to understand or use, thereby limiting their accessibility to scientists without a strong computational background. Hence it is of great importance to build user-friendly interfaces to extend the user-base beyond computational scientists, to include life scientists who may have deeper chemical and biological insights. This survey is focused on systematically presenting the available Web-based tools that aid in repositioning drugs. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

ASCOT: a text mining-based web-service for efficient search and assisted creation of clinical trials

Science.gov (United States)

2012-01-01

Clinical trials are mandatory protocols describing medical research on humans and among the most valuable sources of medical practice evidence. Searching for trials relevant to some query is laborious due to the immense number of existing protocols. Apart from search, writing new trials includes composing detailed eligibility criteria, which might be time-consuming, especially for new researchers. In this paper we present ASCOT, an efficient search application customised for clinical trials. ASCOT uses text mining and data mining methods to enrich clinical trials with metadata, that in turn serve as effective tools to narrow down search. In addition, ASCOT integrates a component for recommending eligibility criteria based on a set of selected protocols. PMID:22595088

Applying Russian Search Engines to market Finnish Corporates

OpenAIRE

Pankratovs, Vladimirs

2013-01-01

The goal of this thesis work is to provide basic knowledge of Russia-based Search Engines marketing capabilities. After reading this material, the user is able to diverge different kinds of Search Engine Marketing tools and can perform advertising campaigns. This study includes information about the majority of tools available to the user and provides up to date screenshots of Russian Search engines front-end, which can be useful in further work. Study discusses the main principles and ba...

IBRI-CASONTO: Ontology-based semantic search engine

Directory of Open Access Journals (Sweden)

Awny Sayed

2017-11-01

Full Text Available The vast availability of information, that added in a very fast pace, in the data repositories creates a challenge in extracting correct and accurate information. Which has increased the competition among developers in order to gain access to technology that seeks to understand the intent researcher and contextual meaning of terms. While the competition for developing an Arabic Semantic Search systems are still in their infancy, and the reason could be traced back to the complexity of Arabic Language. It has a complex morphological, grammatical and semantic aspects, as it is a highly inflectional and derivational language. In this paper, we try to highlight and present an Ontological Search Engine called IBRI-CASONTO for Colleges of Applied Sciences, Oman. Our proposed engine supports both Arabic and English language. It is also employed two types of search which are a keyword-based search and a semantics-based search. IBRI-CASONTO is based on different technologies such as Resource Description Framework (RDF data and Ontological graph. The experiments represent in two sections, first it shows a comparison among Entity-Search and the Classical-Search inside the IBRI-CASONTO itself, second it compares the Entity-Search of IBRI-CASONTO with currently used search engines, such as Kngine, Wolfram Alpha and the most popular engine nowadays Google, in order to measure their performance and efficiency.

Needle Custom Search: Recall-oriented search on the Web using semantic annotations

NARCIS (Netherlands)

Kaptein, Rianne; Koot, Gijs; Huis in 't Veld, Mirjam A.A.; van den Broek, Egon; de Rijke, Maarten; Kenter, Tom; de Vries, A.P.; Zhai, Chen Xiang; de Jong, Franciska M.G.; Radinsky, Kira; Hofmann, Katja

Web search engines are optimized for early precision, which makes it difficult to perform recall-oriented tasks using these search engines. In this article, we present our tool Needle Custom Search. This tool exploits semantic annotations of Web search results and, thereby, increase the efficiency

Needle Custom Search : Recall-oriented search on the web using semantic annotations

NARCIS (Netherlands)

Kaptein, Rianne; Koot, Gijs; Huis in 't Veld, Mirjam A.A.; van den Broek, Egon L.

2014-01-01

Web search engines are optimized for early precision, which makes it difficult to perform recall-oriented tasks using these search engines. In this article, we present our tool Needle Custom Search. This tool exploits semantic annotations of Web search results and, thereby, increase the efficiency

RASOnD - A comprehensive resource and search tool for RAS superfamily oncogenes from various species

Directory of Open Access Journals (Sweden)

Singh Tej P

2011-07-01

Full Text Available Abstract Background The Ras superfamily plays an important role in the control of cell signalling and division. Mutations in the Ras genes convert them into active oncogenes. The Ras oncogenes form a major thrust of global cancer research as they are involved in the development and progression of tumors. This has resulted in the exponential growth of data on Ras superfamily across different public databases and in literature. However, no dedicated public resource is currently available for data mining and analysis on this family. The present database was developed to facilitate straightforward accession, retrieval and analysis of information available on Ras oncogenes from one particular site. Description We have developed the RAS Oncogene Database (RASOnD as a comprehensive knowledgebase that provides integrated and curated information on a single platform for oncogenes of Ras superfamily. RASOnD encompasses exhaustive genomics and proteomics data existing across diverse publicly accessible databases. This resource presently includes overall 199,046 entries from 101 different species. It provides a search tool to generate information about their nucleotide and amino acid sequences, single nucleotide polymorphisms, chromosome positions, orthologies, motifs, structures, related pathways and associated diseases. We have implemented a number of user-friendly search interfaces and sequence analysis tools. At present the user can (i browse the data (ii search any field through a simple or advance search interface and (iii perform a BLAST search and subsequently CLUSTALW multiple sequence alignment by selecting sequences of Ras oncogenes. The Generic gene browser, GBrowse, JMOL for structural visualization and TREEVIEW for phylograms have been integrated for clear perception of retrieved data. External links to related databases have been included in RASOnD. Conclusions This database is a resource and search tool dedicated to Ras oncogenes. It has

Real-Time Search in Clouds

OpenAIRE

Uddin, Misbah; Skinner, Amy; Stadler, Rolf; Clemm, Alexander

2013-01-01

We developed a novel approach for management of networks/networked systems based on network search [4]. Network search provides a simple, uniform interface, through which human administrators and management applications can obtain network information, configuration or operational, without knowing its schema and location. We believe that the capability of network search will spur the development of new tools for human administrators and enable the rapid development of new classes of network co...

Search Engines for Tomorrow's Scholars

Science.gov (United States)

Fagan, Jody Condit

2011-01-01

Today's scholars face an outstanding array of choices when choosing search tools: Google Scholar, discipline-specific abstracts and index databases, library discovery tools, and more recently, Microsoft's re-launch of their academic search tool, now dubbed Microsoft Academic Search. What are these tools' strengths for the emerging needs of…

Computer-based literature search in medical institutions in India

Directory of Open Access Journals (Sweden)

Kalita Jayantee

2007-01-01

Full Text Available Aim: To study the use of computer-based literature search and its application in clinical training and patient care as a surrogate marker of evidence-based medicine. Materials and Methods: A questionnaire comprising of questions on purpose (presentation, patient management, research, realm (site accessed, nature and frequency of search, effect, infrastructure, formal training in computer based literature search and suggestions for further improvement were sent to residents and faculty of a Postgraduate Medical Institute (PGI and a Medical College. The responses were compared amongst different subgroups of respondents. Results: Out of 300 subjects approached 194 responded; of whom 103 were from PGI and 91 from Medical College. There were 97 specialty residents, 58 super-specialty residents and 39 faculty members. Computer-based literature search was done at least once a month by 89% though there was marked variability in frequency and extent. The motivation for computer-based literature search was for presentation in 90%, research in 65% and patient management in 60.3%. The benefit of search was acknowledged in learning and teaching by 80%, research by 65% and patient care by 64.4% of respondents. Formal training in computer based literature search was received by 41% of whom 80% were residents. Residents from PGI did more frequent and more extensive computer-based literature search, which was attributed to better infrastructure and training. Conclusion: Training and infrastructure both are crucial for computer-based literature search, which may translate into evidence based medicine.

Searching PubMed for molecular epidemiology studies: the case of chromosome aberrations

DEFF Research Database (Denmark)

Ugolini, Donatella; Neri, Monica; Knudsen, Lisbeth E

2006-01-01

to environmental pollutants. The search, done on the PubMed/MedLine database, was based on a strategy combining descriptors listed in the PubMed Medical Subject Headings (MeSH) Thesaurus and other available tools (free text or phrase search tools). 178 articles were retrieved by searching the period from January 1...

Electronic tools for health information exchange: an evidence-based analysis.

Science.gov (United States)

2013-01-01

As patients experience transitions in care, there is a need to share information between care providers in an accurate and timely manner. With the push towards electronic medical records and other electronic tools (eTools) (and away from paper-based health records) for health information exchange, there remains uncertainty around the impact of eTools as a form of communication. To examine the impact of eTools for health information exchange in the context of care coordination for individuals with chronic disease in the community. A literature search was performed on April 26, 2012, using OVID MEDLINE, OVID MEDLINE In-Process and Other Non-Indexed Citations, OVID EMBASE, EBSCO Cumulative Index to Nursing & Allied Health Literature (CINAHL), the Wiley Cochrane Library, and the Centre for Reviews and Dissemination database, for studies published until April 26, 2012 (no start date limit was applied). A systematic literature search was conducted, and meta-analysis conducted where appropriate. Outcomes of interest fell into 4 categories: health services utilization, disease-specific clinical outcomes, process-of-care indicators, and measures of efficiency. The quality of the evidence was assessed individually for each outcome. Expert panels were assembled for stakeholder engagement and contextualization. Eleven articles were identified (4 randomized controlled trials and 7 observational studies). There was moderate quality evidence of a reduction in hospitalizations, hospital length of stay, and emergency department visits following the implementation of an electronically generated laboratory report with recommendations based on clinical guidelines. The evidence showed no difference in disease-specific outcomes; there was no evidence of a positive impact on process-of-care indicators or measures of efficiency. A limited body of research specifically examined eTools for health information exchange in the population and setting of interest. This evidence included a

Towards the Development of Web-based Business intelligence Tools

DEFF Research Database (Denmark)

Georgiev, Lachezar; Tanev, Stoyan

2011-01-01

This paper focuses on using web search techniques in examining the co-creation strategies of technology driven firms. It does not focus on the co-creation results but describes the implementation of a software tool using data mining techniques to analyze the content on firms’ websites. The tool...

Multi-objective Search-based Mobile Testing

OpenAIRE

Mao, K.

2017-01-01

Despite the tremendous popularity of mobile applications, mobile testing still relies heavily on manual testing. This thesis presents mobile test automation approaches based on multi-objective search. We introduce three approaches: Sapienz (for native Android app testing), Octopuz (for hybrid/web JavaScript app testing) and Polariz (for using crowdsourcing to support search-based mobile testing). These three approaches represent the primary scientific and technical contributions of the thesis...

Omicseq: a web-based search engine for exploring omics datasets

Science.gov (United States)

Sun, Xiaobo; Pittard, William S.; Xu, Tianlei; Chen, Li; Zwick, Michael E.; Jiang, Xiaoqian; Wang, Fusheng

2017-01-01

Abstract The development and application of high-throughput genomics technologies has resulted in massive quantities of diverse omics data that continue to accumulate rapidly. These rich datasets offer unprecedented and exciting opportunities to address long standing questions in biomedical research. However, our ability to explore and query the content of diverse omics data is very limited. Existing dataset search tools rely almost exclusively on the metadata. A text-based query for gene name(s) does not work well on datasets wherein the vast majority of their content is numeric. To overcome this barrier, we have developed Omicseq, a novel web-based platform that facilitates the easy interrogation of omics datasets holistically to improve ‘findability’ of relevant data. The core component of Omicseq is trackRank, a novel algorithm for ranking omics datasets that fully uses the numerical content of the dataset to determine relevance to the query entity. The Omicseq system is supported by a scalable and elastic, NoSQL database that hosts a large collection of processed omics datasets. In the front end, a simple, web-based interface allows users to enter queries and instantly receive search results as a list of ranked datasets deemed to be the most relevant. Omicseq is freely available at http://www.omicseq.org. PMID:28402462

Patient-completed or symptom-based screening tools for endometriosis: a scoping review.

Science.gov (United States)

Surrey, Eric; Carter, Cathryn M; Soliman, Ahmed M; Khan, Shahnaz; DiBenedetti, Dana B; Snabes, Michael C

2017-08-01

The objective of this review was to evaluate existing patient-completed screening questionnaires and/or symptom-based predictive models with respect to their potential for use as screening tools for endometriosis in adult women. Validated instruments were of particular interest. We conducted structured searches of PubMed and targeted searches of the gray literature to identify studies reporting on screening instruments used in endometriosis. Studies were screened according to inclusion and exclusion criteria that followed the PICOS (population, intervention, comparison, outcomes, study design) framework. A total of 16 studies were identified, of which 10 described measures for endometriosis in general, 2 described measures for endometriosis at specific sites, and 4 described measures for deep-infiltrating endometriosis. Only 1 study evaluated a questionnaire that was solely patient-completed. Most measures required physician, imaging, or laboratory assessments in addition to patient-completed questionnaires, and several measures relied on complex scoring. Validation for use as a screening tool in adult women with potential endometriosis was lacking in all studies, as most studies focused on diagnosis versus screening. This literature review did not identify any fully validated, symptom-based, patient-reported questionnaires for endometriosis screening in adult women.

A multi-variate discrimination technique based on range-searching

International Nuclear Information System (INIS)

Carli, T.; Koblitz, B.

2003-01-01

We present a fast and transparent multi-variate event classification technique, called PDE-RS, which is based on sampling the signal and background densities in a multi-dimensional phase space using range-searching. The employed algorithm is presented in detail and its behaviour is studied with simple toy examples representing basic patterns of problems often encountered in High Energy Physics data analyses. In addition an example relevant for the search for instanton-induced processes in deep-inelastic scattering at HERA is discussed. For all studied examples, the new presented method performs as good as artificial Neural Networks and has furthermore the advantage to need less computation time. This allows to carefully select the best combination of observables which optimally separate the signal and background and for which the simulations describe the data best. Moreover, the systematic and statistical uncertainties can be easily evaluated. The method is therefore a powerful tool to find a small number of signal events in the large data samples expected at future particle colliders

METHODOLODICAL TOOLS FOR ORGANIZING THE PROCESS OF STAFF1 SEARCH AND SELECTION

Directory of Open Access Journals (Sweden)

T. Bilorus

2015-08-01

Full Text Available The relevance and the basic stages to meet the demand in personnel in the contemporary economy were determined. The necessity and requirements for the formation of maps of competencies as tools for personnel selection were proved and generalized. The algorithm of choosing the sources of candidates search for the vacant position was developed. Practical recommendations of candidates selection procedure for the organization were provided using the method of “ideal point”.

Experience of Developing a Meta-Semantic Search Engine

OpenAIRE

Mukhopadhyay, Debajyoti; Sharma, Manoj; Joshi, Gajanan; Pagare, Trupti; Palwe, Adarsha

2013-01-01

Thinking of todays web search scenario which is mainly keyword based, leads to the need of effective and meaningful search provided by Semantic Web. Existing search engines are vulnerable to provide relevant answers to users query due to their dependency on simple data available in web pages. On other hand, semantic search engines provide efficient and relevant results as the semantic web manages information with well defined meaning using ontology. A Meta-Search engine is a search tool that ...

HDAPD: a web tool for searching the disease-associated protein structures

Science.gov (United States)

2010-01-01

Background The protein structures of the disease-associated proteins are important for proceeding with the structure-based drug design to against a particular disease. Up until now, proteins structures are usually searched through a PDB id or some sequence information. However, in the HDAPD database presented here the protein structure of a disease-associated protein can be directly searched through the associated disease name keyed in. Description The search in HDAPD can be easily initiated by keying some key words of a disease, protein name, protein type, or PDB id. The protein sequence can be presented in FASTA format and directly copied for a BLAST search. HDAPD is also interfaced with Jmol so that users can observe and operate a protein structure with Jmol. The gene ontological data such as cellular components, molecular functions, and biological processes are provided once a hyperlink to Gene Ontology (GO) is clicked. Further, HDAPD provides a link to the KEGG map such that where the protein is placed and its relationship with other proteins in a metabolic pathway can be found from the map. The latest literatures namely titles, journals, authors, and abstracts searched from PubMed for the protein are also presented as a length controllable list. Conclusions Since the HDAPD data content can be routinely updated through a PHP-MySQL web page built, the new database presented is useful for searching the structures for some disease-associated proteins that may play important roles in the disease developing process for performing the structure-based drug design to against the diseases. PMID:20158919

Omicseq: a web-based search engine for exploring omics datasets.

Science.gov (United States)

Sun, Xiaobo; Pittard, William S; Xu, Tianlei; Chen, Li; Zwick, Michael E; Jiang, Xiaoqian; Wang, Fusheng; Qin, Zhaohui S

2017-07-03

The development and application of high-throughput genomics technologies has resulted in massive quantities of diverse omics data that continue to accumulate rapidly. These rich datasets offer unprecedented and exciting opportunities to address long standing questions in biomedical research. However, our ability to explore and query the content of diverse omics data is very limited. Existing dataset search tools rely almost exclusively on the metadata. A text-based query for gene name(s) does not work well on datasets wherein the vast majority of their content is numeric. To overcome this barrier, we have developed Omicseq, a novel web-based platform that facilitates the easy interrogation of omics datasets holistically to improve 'findability' of relevant data. The core component of Omicseq is trackRank, a novel algorithm for ranking omics datasets that fully uses the numerical content of the dataset to determine relevance to the query entity. The Omicseq system is supported by a scalable and elastic, NoSQL database that hosts a large collection of processed omics datasets. In the front end, a simple, web-based interface allows users to enter queries and instantly receive search results as a list of ranked datasets deemed to be the most relevant. Omicseq is freely available at http://www.omicseq.org. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

A web-based endodontic case difficulty assessment tool.

Science.gov (United States)

Shah, P K; Chong, B S

2018-01-25

To develop a web-based tool to facilitate identification, evaluation and management of teeth requiring endodontic treatment. Following a literature search and thorough analysis of existing case difficulty assessment forms, the web-based tool was developed using an online survey builder (Qualtrics, Qualtrics Lab, UT, USA). Following feedback from a pilot study, it was refined and improved. A study was performed, using the updated version (EndoApp) on a cohort (n = 53) of dental professionals and dental students. The participants were e-mailed instructions detailing the assessment of five test cases using EndoApp, followed by completion of a structured feedback form. Analysis of the EndoApp responses was used to evaluate usage times, whereas the results of the feedback forms were used to assess user experience and relevance, other potential applications and comments on further improvement/s. The average usage time was 2 min 7 s; the average times needed for the last three (Cases 3-5) were significantly less than the preceding two (Cases 1 & 2) test cases. An overwhelming majority of participants expressed favourable views on user experience and relevance of the web-based case difficulty assessment tool. Only two participants (4%) were unlikely or very unlikely to use EndoApp again. The potential application of EndoApp as an 'educational tool' and for 'primary care triage' was deemed the most popular features and of greater importance than the secondary options of 'fee setting' and as a 'dento-legal justification tool'. Within the study limitations, owing to its ability to quantify the level of difficulty and provide guidance, EndoApp was considered user-friendly and helped facilitate endodontic case difficulty assessment. From the feedback, further improvements and the development of a Smartphone App version are in progress. EndoApp may facilitate treatment planning, improve treatment cost-effectiveness and reduce frequency of procedural errors by providing

Building and evaluating an informatics tool to facilitate analysis of a biomedical literature search service in an academic medical center library.

Science.gov (United States)

Hinton, Elizabeth G; Oelschlegel, Sandra; Vaughn, Cynthia J; Lindsay, J Michael; Hurst, Sachiko M; Earl, Martha

2013-01-01

This study utilizes an informatics tool to analyze a robust literature search service in an academic medical center library. Structured interviews with librarians were conducted focusing on the benefits of such a tool, expectations for performance, and visual layout preferences. The resulting application utilizes Microsoft SQL Server and .Net Framework 3.5 technologies, allowing for the use of a web interface. Customer tables and MeSH terms are included. The National Library of Medicine MeSH database and entry terms for each heading are incorporated, resulting in functionality similar to searching the MeSH database through PubMed. Data reports will facilitate analysis of the search service.

Analysis of Search Engines and Meta Search Engines\\\\\\' Position by University of Isfahan Users Based on Rogers\\\\\\' Diffusion of Innovation Theory

Directory of Open Access Journals (Sweden)

Maryam Akbari

2012-10-01

Full Text Available The present study investigated the analysis of search engines and meta search engines adoption process by University of Isfahan users during 2009-2010 based on the Rogers' diffusion of innovation theory. The main aim of the research was to study the rate of adoption and recognizing the potentials and effective tools in search engines and meta search engines adoption among University of Isfahan users. The research method was descriptive survey study. The cases of the study were all of the post graduate students of the University of Isfahan. 351 students were selected as the sample and categorized by a stratified random sampling method. Questionnaire was used for collecting data. The collected data was analyzed using SPSS 16 in both descriptive and analytic statistic. For descriptive statistic frequency, percentage and mean were used, while for analytic statistic t-test and Kruskal-Wallis non parametric test (H-test were used. The finding of t-test and Kruscal-Wallis indicated that the mean of search engines and meta search engines adoption did not show statistical differences gender, level of education and the faculty. Special search engines adoption process was different in terms of gender but not in terms of the level of education and the faculty. Other results of the research indicated that among general search engines, Google had the most adoption rate. In addition, among the special search engines, Google Scholar and among the meta search engines Mamma had the most adopting rate. Findings also showed that friends played an important role on how students adopted general search engines while professors had important role on how students adopted special search engines and meta search engines. Moreover, results showed that the place where students got the most acquaintance with search engines and meta search engines was in the university. The finding showed that the curve of adoption rate was not normal and it was not also in S-shape. Morover

Transmission network expansion planning based on hybridization model of neural networks and harmony search algorithm

Directory of Open Access Journals (Sweden)

Mohammad Taghi Ameli

2012-01-01

Full Text Available Transmission Network Expansion Planning (TNEP is a basic part of power network planning that determines where, when and how many new transmission lines should be added to the network. So, the TNEP is an optimization problem in which the expansion purposes are optimized. Artificial Intelligence (AI tools such as Genetic Algorithm (GA, Simulated Annealing (SA, Tabu Search (TS and Artificial Neural Networks (ANNs are methods used for solving the TNEP problem. Today, by using the hybridization models of AI tools, we can solve the TNEP problem for large-scale systems, which shows the effectiveness of utilizing such models. In this paper, a new approach to the hybridization model of Probabilistic Neural Networks (PNNs and Harmony Search Algorithm (HSA was used to solve the TNEP problem. Finally, by considering the uncertain role of the load based on a scenario technique, this proposed model was tested on the Garver’s 6-bus network.

Attribute-based proxy re-encryption with keyword search.

Science.gov (United States)

Shi, Yanfeng; Liu, Jiqiang; Han, Zhen; Zheng, Qingji; Zhang, Rui; Qiu, Shuo

2014-01-01

Keyword search on encrypted data allows one to issue the search token and conduct search operations on encrypted data while still preserving keyword privacy. In the present paper, we consider the keyword search problem further and introduce a novel notion called attribute-based proxy re-encryption with keyword search (ABRKS), which introduces a promising feature: In addition to supporting keyword search on encrypted data, it enables data owners to delegate the keyword search capability to some other data users complying with the specific access control policy. To be specific, ABRKS allows (i) the data owner to outsource his encrypted data to the cloud and then ask the cloud to conduct keyword search on outsourced encrypted data with the given search token, and (ii) the data owner to delegate other data users keyword search capability in the fine-grained access control manner through allowing the cloud to re-encrypted stored encrypted data with a re-encrypted data (embedding with some form of access control policy). We formalize the syntax and security definitions for ABRKS, and propose two concrete constructions for ABRKS: key-policy ABRKS and ciphertext-policy ABRKS. In the nutshell, our constructions can be treated as the integration of technologies in the fields of attribute-based cryptography and proxy re-encryption cryptography.

Attribute-Based Proxy Re-Encryption with Keyword Search

Science.gov (United States)

Shi, Yanfeng; Liu, Jiqiang; Han, Zhen; Zheng, Qingji; Zhang, Rui; Qiu, Shuo

2014-01-01

Keyword search on encrypted data allows one to issue the search token and conduct search operations on encrypted data while still preserving keyword privacy. In the present paper, we consider the keyword search problem further and introduce a novel notion called attribute-based proxy re-encryption with keyword search (), which introduces a promising feature: In addition to supporting keyword search on encrypted data, it enables data owners to delegate the keyword search capability to some other data users complying with the specific access control policy. To be specific, allows (i) the data owner to outsource his encrypted data to the cloud and then ask the cloud to conduct keyword search on outsourced encrypted data with the given search token, and (ii) the data owner to delegate other data users keyword search capability in the fine-grained access control manner through allowing the cloud to re-encrypted stored encrypted data with a re-encrypted data (embedding with some form of access control policy). We formalize the syntax and security definitions for , and propose two concrete constructions for : key-policy and ciphertext-policy . In the nutshell, our constructions can be treated as the integration of technologies in the fields of attribute-based cryptography and proxy re-encryption cryptography. PMID:25549257

A Critical Study of Effect of Web-Based Software Tools in Finding and Sharing Digital Resources--A Literature Review

Science.gov (United States)

Baig, Muntajeeb Ali

2010-01-01

The purpose of this paper is to review the effect of web-based software tools for finding and sharing digital resources. A positive correlation between learning and studying through online tools has been found in recent researches. In traditional classroom, searching resources are limited to the library and sharing of resources is limited to the…

Design and Testing of BACRA, a Web-Based Tool for Middle Managers at Health Care Facilities to Lead the Search for Solutions to Patient Safety Incidents

Science.gov (United States)

Mira, José Joaquín; Vicente, Maria Asuncion; Fernandez, Cesar; Guilabert, Mercedes; Ferrús, Lena; Zavala, Elena; Silvestre, Carmen; Pérez-Pérez, Pastora

2016-01-01

Background Lack of time, lack of familiarity with root cause analysis, or suspicion that the reporting may result in negative consequences hinder involvement in the analysis of safety incidents and the search for preventive actions that can improve patient safety. Objective The aim was develop a tool that enables hospitals and primary care professionals to immediately analyze the causes of incidents and to propose and implement measures intended to prevent their recurrence. Methods The design of the Web-based tool (BACRA) considered research on the barriers for reporting, review of incident analysis tools, and the experience of eight managers from the field of patient safety. BACRA’s design was improved in successive versions (BACRA v1.1 and BACRA v1.2) based on feedback from 86 middle managers. BACRA v1.1 was used by 13 frontline professionals to analyze incidents of safety; 59 professionals used BACRA v1.2 and assessed the respective usefulness and ease of use of both versions. Results BACRA contains seven tabs that guide the user through the process of analyzing a safety incident and proposing preventive actions for similar future incidents. BACRA does not identify the person completing each analysis since the password introduced to hide said analysis only is linked to the information concerning the incident and not to any personal data. The tool was used by 72 professionals from hospitals and primary care centers. BACRA v1.2 was assessed more favorably than BACRA v1.1, both in terms of its usefulness (z=2.2, P=.03) and its ease of use (z=3.0, P=.003). Conclusions BACRA helps to analyze incidents of safety and to propose preventive actions. BACRA guarantees anonymity of the analysis and reduces the reluctance of professionals to carry out this task. BACRA is useful and easy to use. PMID:27678308

Design and Testing of BACRA, a Web-Based Tool for Middle Managers at Health Care Facilities to Lead the Search for Solutions to Patient Safety Incidents.

Science.gov (United States)

Carrillo, Irene; Mira, José Joaquín; Vicente, Maria Asuncion; Fernandez, Cesar; Guilabert, Mercedes; Ferrús, Lena; Zavala, Elena; Silvestre, Carmen; Pérez-Pérez, Pastora

2016-09-27

Lack of time, lack of familiarity with root cause analysis, or suspicion that the reporting may result in negative consequences hinder involvement in the analysis of safety incidents and the search for preventive actions that can improve patient safety. The aim was develop a tool that enables hospitals and primary care professionals to immediately analyze the causes of incidents and to propose and implement measures intended to prevent their recurrence. The design of the Web-based tool (BACRA) considered research on the barriers for reporting, review of incident analysis tools, and the experience of eight managers from the field of patient safety. BACRA's design was improved in successive versions (BACRA v1.1 and BACRA v1.2) based on feedback from 86 middle managers. BACRA v1.1 was used by 13 frontline professionals to analyze incidents of safety; 59 professionals used BACRA v1.2 and assessed the respective usefulness and ease of use of both versions. BACRA contains seven tabs that guide the user through the process of analyzing a safety incident and proposing preventive actions for similar future incidents. BACRA does not identify the person completing each analysis since the password introduced to hide said analysis only is linked to the information concerning the incident and not to any personal data. The tool was used by 72 professionals from hospitals and primary care centers. BACRA v1.2 was assessed more favorably than BACRA v1.1, both in terms of its usefulness (z=2.2, P=.03) and its ease of use (z=3.0, P=.003). BACRA helps to analyze incidents of safety and to propose preventive actions. BACRA guarantees anonymity of the analysis and reduces the reluctance of professionals to carry out this task. BACRA is useful and easy to use.

Nutrition screening tools: an analysis of the evidence.

Science.gov (United States)

Skipper, Annalynn; Ferguson, Maree; Thompson, Kyle; Castellanos, Victoria H; Porcari, Judy

2012-05-01

In response to questions about tools for nutrition screening, an evidence analysis project was developed to identify the most valid and reliable nutrition screening tools for use in acute care and hospital-based ambulatory care settings. An oversight group defined nutrition screening and literature search criteria. A trained analyst conducted structured searches of the literature for studies of nutrition screening tools according to predetermined criteria. Eleven nutrition screening tools designed to detect undernutrition in patients in acute care and hospital-based ambulatory care were identified. Trained analysts evaluated articles for quality using criteria specified by the American Dietetic Association's Evidence Analysis Library. Members of the oversight group assigned quality grades to the tools based on the quality of the supporting evidence, including reliability and validity data. One tool, the NRS-2002, received a grade I, and 4 tools-the Simple Two-Part Tool, the Mini-Nutritional Assessment-Short Form (MNA-SF), the Malnutrition Screening Tool (MST), and Malnutrition Universal Screening Tool (MUST)-received a grade II. The MST was the only tool shown to be both valid and reliable for identifying undernutrition in the settings studied. Thus, validated nutrition screening tools that are simple and easy to use are available for application in acute care and hospital-based ambulatory care settings.

Developing a Data Discovery Tool for Interdisciplinary Science: Leveraging a Web-based Mapping Application and Geosemantic Searching

Science.gov (United States)

Albeke, S. E.; Perkins, D. G.; Ewers, S. L.; Ewers, B. E.; Holbrook, W. S.; Miller, S. N.

2015-12-01

The sharing of data and results is paramount for advancing scientific research. The Wyoming Center for Environmental Hydrology and Geophysics (WyCEHG) is a multidisciplinary group that is driving scientific breakthroughs to help manage water resources in the Western United States. WyCEHG is mandated by the National Science Foundation (NSF) to share their data. However, the infrastructure from which to share such diverse, complex and massive amounts of data did not exist within the University of Wyoming. We developed an innovative framework to meet the data organization, sharing, and discovery requirements of WyCEHG by integrating both open and closed source software, embedded metadata tags, semantic web technologies, and a web-mapping application. The infrastructure uses a Relational Database Management System as the foundation, providing a versatile platform to store, organize, and query myriad datasets, taking advantage of both structured and unstructured formats. Detailed metadata are fundamental to the utility of datasets. We tag data with Uniform Resource Identifiers (URI's) to specify concepts with formal descriptions (i.e. semantic ontologies), thus allowing users the ability to search metadata based on the intended context rather than conventional keyword searches. Additionally, WyCEHG data are geographically referenced. Using the ArcGIS API for Javascript, we developed a web mapping application leveraging database-linked spatial data services, providing a means to visualize and spatially query available data in an intuitive map environment. Using server-side scripting (PHP), the mapping application, in conjunction with semantic search modules, dynamically communicates with the database and file system, providing access to available datasets. Our approach provides a flexible, comprehensive infrastructure from which to store and serve WyCEHG's highly diverse research-based data. This framework has not only allowed WyCEHG to meet its data stewardship

Cross entropy-based memetic algorithms: An application study over the tool switching problem

Directory of Open Access Journals (Sweden)

Jhon Edgar Amaya

2013-05-01

Full Text Available This paper presents a parameterized schema for building memetic algorithms based on cross-entropy (CE methods. This novel schema is general in nature, and features multiple probability mass functions and Lamarckian learning. The applicability of the approach is assessed by considering the Tool Switching Problem, a complex combinatorial problem in the field of Flexible Manufacturing Systems. An exhaustive evaluation (including techniques ranging from local search and evolutionary algorithms to constructive methods provides evidence of the effectiveness of CE-based memetic algorithms.

[Advanced online search techniques and dedicated search engines for physicians].

Science.gov (United States)

Nahum, Yoav

2008-02-01

In recent years search engines have become an essential tool in the work of physicians. This article will review advanced search techniques from the world of information specialists, as well as some advanced search engine operators that may help physicians improve their online search capabilities, and maximize the yield of their searches. This article also reviews popular dedicated scientific and biomedical literature search engines.

Review of ''close-mass'' heavy lepton searches

International Nuclear Information System (INIS)

Riles, K.

1989-05-01

Results from recent searches in e + e/sup /minus// annihilation at PEP (√s = 29 GeV) for a fourth-generation charged lepton associated with a slightly lighter neutrino partner are presented. Some emphasis is given to the most recent search, which uses a novel approach based on radiative tagging, an approach that holds promise as a general tool in searching for exotic events characterized by very low visible energy. Prospects for upcoming sequential lepton searches at SLC and LEP experiments are also discussed. 11 refs., 4 figs

Using the open Web as an information resource and scholarly Web search engines as retrieval tools for academic and research purposes

Directory of Open Access Journals (Sweden)

Filistea Naude

2010-08-01

Full Text Available This study provided insight into the significance of the open Web as an information resource and Web search engines as research tools amongst academics. The academic staff establishment of the University of South Africa (Unisa was invited to participate in a questionnaire survey and included 1188 staff members from five colleges. This study culminated in a PhD dissertation in 2008. One hundred and eighty seven respondents participated in the survey which gave a response rate of 15.7%. The results of this study show that academics have indeed accepted the open Web as a useful information resource and Web search engines as retrieval tools when seeking information for academic and research work. The majority of respondents used the open Web and Web search engines on a daily or weekly basis to source academic and research information. The main obstacles presented by using the open Web and Web search engines included lack of time to search and browse the Web, information overload, poor network speed and the slow downloading speed of webpages.

Using the open Web as an information resource and scholarly Web search engines as retrieval tools for academic and research purposes

Directory of Open Access Journals (Sweden)

Filistea Naude

2010-12-01

Full Text Available This study provided insight into the significance of the open Web as an information resource and Web search engines as research tools amongst academics. The academic staff establishment of the University of South Africa (Unisa was invited to participate in a questionnaire survey and included 1188 staff members from five colleges. This study culminated in a PhD dissertation in 2008. One hundred and eighty seven respondents participated in the survey which gave a response rate of 15.7%. The results of this study show that academics have indeed accepted the open Web as a useful information resource and Web search engines as retrieval tools when seeking information for academic and research work. The majority of respondents used the open Web and Web search engines on a daily or weekly basis to source academic and research information. The main obstacles presented by using the open Web and Web search engines included lack of time to search and browse the Web, information overload, poor network speed and the slow downloading speed of webpages.

Tools for model-independent bounds in direct dark matter searches

DEFF Research Database (Denmark)

Cirelli, M.; Del Nobile, E.; Panci, P.

2013-01-01

We discuss a framework (based on non-relativistic operators) and a self-contained set of numerical tools to derive the bounds from some current direct detection experiments on virtually any arbitrary model of Dark Matter elastically scattering on nuclei.......We discuss a framework (based on non-relativistic operators) and a self-contained set of numerical tools to derive the bounds from some current direct detection experiments on virtually any arbitrary model of Dark Matter elastically scattering on nuclei....

Data Mining and Optimization Tools for Developing Engine Parameters Tools

Science.gov (United States)

Dhawan, Atam P.

1998-01-01

This project was awarded for understanding the problem and developing a plan for Data Mining tools for use in designing and implementing an Engine Condition Monitoring System. Tricia Erhardt and I studied the problem domain for developing an Engine Condition Monitoring system using the sparse and non-standardized datasets to be available through a consortium at NASA Lewis Research Center. We visited NASA three times to discuss additional issues related to dataset which was not made available to us. We discussed and developed a general framework of data mining and optimization tools to extract useful information from sparse and non-standard datasets. These discussions lead to the training of Tricia Erhardt to develop Genetic Algorithm based search programs which were written in C++ and used to demonstrate the capability of GA algorithm in searching an optimal solution in noisy, datasets. From the study and discussion with NASA LeRC personnel, we then prepared a proposal, which is being submitted to NASA for future work for the development of data mining algorithms for engine conditional monitoring. The proposed set of algorithm uses wavelet processing for creating multi-resolution pyramid of tile data for GA based multi-resolution optimal search.

Mastering Search Analytics Measuring SEO, SEM and Site Search

CERN Document Server

Chaters, Brent

2011-01-01

Many companies still approach Search Engine Optimization (SEO) and paid search as separate initiatives. This in-depth guide shows you how to use these programs as part of a comprehensive strategy-not just to improve your site's search rankings, but to attract the right people and increase your conversion rate. Learn how to measure, test, analyze, and interpret all of your search data with a wide array of analytic tools. Gain the knowledge you need to determine the strategy's return on investment. Ideal for search specialists, webmasters, and search marketing managers, Mastering Search Analyt

Neural network based pattern matching and spike detection tools and services--in the CARMEN neuroinformatics project.

Science.gov (United States)

Fletcher, Martyn; Liang, Bojian; Smith, Leslie; Knowles, Alastair; Jackson, Tom; Jessop, Mark; Austin, Jim

2008-10-01

In the study of information flow in the nervous system, component processes can be investigated using a range of electrophysiological and imaging techniques. Although data is difficult and expensive to produce, it is rarely shared and collaboratively exploited. The Code Analysis, Repository and Modelling for e-Neuroscience (CARMEN) project addresses this challenge through the provision of a virtual neuroscience laboratory: an infrastructure for sharing data, tools and services. Central to the CARMEN concept are federated CARMEN nodes, which provide: data and metadata storage, new, thirdparty and legacy services, and tools. In this paper, we describe the CARMEN project as well as the node infrastructure and an associated thick client tool for pattern visualisation and searching, the Signal Data Explorer (SDE). We also discuss new spike detection methods, which are central to the services provided by CARMEN. The SDE is a client application which can be used to explore data in the CARMEN repository, providing data visualization, signal processing and a pattern matching capability. It performs extremely fast pattern matching and can be used to search for complex conditions composed of many different patterns across the large datasets that are typical in neuroinformatics. Searches can also be constrained by specifying text based metadata filters. Spike detection services which use wavelet and morphology techniques are discussed, and have been shown to outperform traditional thresholding and template based systems. A number of different spike detection and sorting techniques will be deployed as services within the CARMEN infrastructure, to allow users to benchmark their performance against a wide range of reference datasets.

How to perform a systematic search

DEFF Research Database (Denmark)

Bartels, Else Marie

2013-01-01

All medical practice and research must be evidence-based, as far as this is possible. With medical knowledge constantly growing, it has become necessary to possess a high level of information literacy to stay competent and professional. Furthermore, as patients can now search information...... on the Internet, clinicians must be able to respond to this type of information in a professional way, when needed. Here, the development of viable systematic search strategies for journal articles, books, book chapters and other sources, selection of appropriate databases, search tools and selection methods...

Utilization of a radiology-centric search engine.

Science.gov (United States)

Sharpe, Richard E; Sharpe, Megan; Siegel, Eliot; Siddiqui, Khan

2010-04-01

Internet-based search engines have become a significant component of medical practice. Physicians increasingly rely on information available from search engines as a means to improve patient care, provide better education, and enhance research. Specialized search engines have emerged to more efficiently meet the needs of physicians. Details about the ways in which radiologists utilize search engines have not been documented. The authors categorized every 25th search query in a radiology-centric vertical search engine by radiologic subspecialty, imaging modality, geographic location of access, time of day, use of abbreviations, misspellings, and search language. Musculoskeletal and neurologic imagings were the most frequently searched subspecialties. The least frequently searched were breast imaging, pediatric imaging, and nuclear medicine. Magnetic resonance imaging and computed tomography were the most frequently searched modalities. A majority of searches were initiated in North America, but all continents were represented. Searches occurred 24 h/day in converted local times, with a majority occurring during the normal business day. Misspellings and abbreviations were common. Almost all searches were performed in English. Search engine utilization trends are likely to mirror trends in diagnostic imaging in the region from which searches originate. Internet searching appears to function as a real-time clinical decision-making tool, a research tool, and an educational resource. A more thorough understanding of search utilization patterns can be obtained by analyzing phrases as actually entered as well as the geographic location and time of origination. This knowledge may contribute to the development of more efficient and personalized search engines.

Considerations for the development of task-based search engines

DEFF Research Database (Denmark)

Petcu, Paula; Dragusin, Radu

2013-01-01

Based on previous experience from working on a task-based search engine, we present a list of suggestions and ideas for an Information Retrieval (IR) framework that could inform the development of next generation professional search systems. The specific task that we start from is the clinicians......' information need in finding rare disease diagnostic hypotheses at the time and place where medical decisions are made. Our experience from the development of a search engine focused on supporting clinicians in completing this task has provided us valuable insights in what aspects should be considered...... by the developers of vertical search engines....

Object-based target templates guide attention during visual search

OpenAIRE

Berggren, Nick; Eimer, Martin

2018-01-01

During visual search, attention is believed to be controlled in a strictly feature-based fashion, without any guidance by object-based target representations. To challenge this received view, we measured electrophysiological markers of attentional selection (N2pc component) and working memory (SPCN) in search tasks where two possible targets were defined by feature conjunctions (e.g., blue circles and green squares). Critically, some search displays also contained nontargets with two target f...

A method of searching LDAP directories using XQuery

International Nuclear Information System (INIS)

Hesselroth, Ted

2011-01-01

A method by which an LDAP directory can be searched using XQuery is described. The strategy behind the tool consists of four steps. First the XQuery script is examined and relevant XPath expressions are extracted, determined to be sufficient to define all information needed to perform the query. Then the XPath expressions are converted into their equivalent LDAP search filters by use of the published LDAP schema of the service, and search requests are made to the LDAP host. The search results are then merged and converted to an XML document that conforms to the hierarchy of the LDAP schema. Finally, the XQuery script is executed on the working XML document by conventional means. Examples are given of application of the tool in the Open Science Grid, which for discovery purposes operates an LDAP server that contains Glue schema-based information on site configuration and authorization policies. The XQuery scripts compactly replace hundreds of lines of custom python code that relied on the unix ldapsearch utility. Installation of the tool is available through the Virtual Data Toolkit.

Supporting inter-topic entity search for biomedical Linked Data based on heterogeneous relationships.

Science.gov (United States)

Zong, Nansu; Lee, Sungin; Ahn, Jinhyun; Kim, Hong-Gee

2017-08-01

The keyword-based entity search restricts search space based on the preference of search. When given keywords and preferences are not related to the same biomedical topic, existing biomedical Linked Data search engines fail to deliver satisfactory results. This research aims to tackle this issue by supporting an inter-topic search-improving search with inputs, keywords and preferences, under different topics. This study developed an effective algorithm in which the relations between biomedical entities were used in tandem with a keyword-based entity search, Siren. The algorithm, PERank, which is an adaptation of Personalized PageRank (PPR), uses a pair of input: (1) search preferences, and (2) entities from a keyword-based entity search with a keyword query, to formalize the search results on-the-fly based on the index of the precomputed Individual Personalized PageRank Vectors (IPPVs). Our experiments were performed over ten linked life datasets for two query sets, one with keyword-preference topic correspondence (intra-topic search), and the other without (inter-topic search). The experiments showed that the proposed method achieved better search results, for example a 14% increase in precision for the inter-topic search than the baseline keyword-based search engine. The proposed method improved the keyword-based biomedical entity search by supporting the inter-topic search without affecting the intra-topic search based on the relations between different entities. Copyright © 2017 Elsevier Ltd. All rights reserved.

Ontology-Driven Search and Triage: Design of a Web-Based Visual Interface for MEDLINE.

Science.gov (United States)

Demelo, Jonathan; Parsons, Paul; Sedig, Kamran

2017-02-02

Diverse users need to search health and medical literature to satisfy open-ended goals such as making evidence-based decisions and updating their knowledge. However, doing so is challenging due to at least two major difficulties: (1) articulating information needs using accurate vocabulary and (2) dealing with large document sets returned from searches. Common search interfaces such as PubMed do not provide adequate support for exploratory search tasks. Our objective was to improve support for exploratory search tasks by combining two strategies in the design of an interactive visual interface by (1) using a formal ontology to help users build domain-specific knowledge and vocabulary and (2) providing multi-stage triaging support to help mitigate the information overload problem. We developed a Web-based tool, Ontology-Driven Visual Search and Triage Interface for MEDLINE (OVERT-MED), to test our design ideas. We implemented a custom searchable index of MEDLINE, which comprises approximately 25 million document citations. We chose a popular biomedical ontology, the Human Phenotype Ontology (HPO), to test our solution to the vocabulary problem. We implemented multistage triaging support in OVERT-MED, with the aid of interactive visualization techniques, to help users deal with large document sets returned from searches. Formative evaluation suggests that the design features in OVERT-MED are helpful in addressing the two major difficulties described above. Using a formal ontology seems to help users articulate their information needs with more accurate vocabulary. In addition, multistage triaging combined with interactive visualizations shows promise in mitigating the information overload problem. Our strategies appear to be valuable in addressing the two major problems in exploratory search. Although we tested OVERT-MED with a particular ontology and document collection, we anticipate that our strategies can be transferred successfully to other contexts. �

Google Sets, Google Suggest, and Google Search History: Three More Tools for the Reference Librarian's Bag of Tricks

OpenAIRE

Cirasella, Jill

2008-01-01

This article examines the features, quirks, and uses of Google Sets, Google Suggest, and Google Search History and argues that these three lesser-known Google tools warrant inclusion in the resourceful reference librarian’s bag of tricks.

Meta-analysis diagnostic accuracy of SNP-based pathogenicity detection tools: a case of UTG1A1 gene mutations.

Science.gov (United States)

Galehdari, Hamid; Saki, Najmaldin; Mohammadi-Asl, Javad; Rahim, Fakher

2013-01-01

Crigler-Najjar syndrome (CNS) type I and type II are usually inherited as autosomal recessive conditions that result from mutations in the UGT1A1 gene. The main objective of the present review is to summarize results of all available evidence on the accuracy of SNP-based pathogenicity detection tools compared to published clinical result for the prediction of in nsSNPs that leads to disease using prediction performance method. A comprehensive search was performed to find all mutations related to CNS. Database searches included dbSNP, SNPdbe, HGMD, Swissvar, ensemble, and OMIM. All the mutation related to CNS was extracted. The pathogenicity prediction was done using SNP-based pathogenicity detection tools include SIFT, PHD-SNP, PolyPhen2, fathmm, Provean, and Mutpred. Overall, 59 different SNPs related to missense mutations in the UGT1A1 gene, were reviewed. Comparing the diagnostic OR, PolyPhen2 and Mutpred have the highest detection 4.983 (95% CI: 1.24 - 20.02) in both, following by SIFT (diagnostic OR: 3.25, 95% CI: 1.07 - 9.83). The highest MCC of SNP-based pathogenicity detection tools, was belong to SIFT (34.19%) followed by Provean, PolyPhen2, and Mutpred (29.99%, 29.89%, and 29.89%, respectively). Hence the highest SNP-based pathogenicity detection tools ACC, was fit to SIFT (62.71%) followed by PolyPhen2, and Mutpred (61.02%, in both). Our results suggest that some of the well-established SNP-based pathogenicity detection tools can appropriately reflect the role of a disease-associated SNP in both local and global structures.

Time analysis in astronomy: Tools for periodicity searches

International Nuclear Information System (INIS)

Buccheri, R.; Sacco, B.

1985-01-01

The authors discuss periodicity searches in radio and gamma-ray astronomy with special considerations for pulsar searches. The basic methodologies of fast Fourier transform, Rayleigh test, and epoch folding are reviewed with the main objective to compare cost and sensitivities in different applications. It is found that FFT procedures are convenient in unbiased searches for periodicity in radio astronomy, while in spark chamber gamma-ray astronomy, where the measurements are spread over a long integration time, unbiased searches are very difficult with the existing computing facilities and analyses with a-priori knowledge on the period values to look for are better done using the Rayleigh test with harmonics folding (Z /sub n/ test)

New generation of the multimedia search engines

Science.gov (United States)

Mijes Cruz, Mario Humberto; Soto Aldaco, Andrea; Maldonado Cano, Luis Alejandro; López Rodríguez, Mario; Rodríguez Vázqueza, Manuel Antonio; Amaya Reyes, Laura Mariel; Cano Martínez, Elizabeth; Pérez Rosas, Osvaldo Gerardo; Rodríguez Espejo, Luis; Flores Secundino, Jesús Abimelek; Rivera Martínez, José Luis; García Vázquez, Mireya Saraí; Zamudio Fuentes, Luis Miguel; Sánchez Valenzuela, Juan Carlos; Montoya Obeso, Abraham; Ramírez Acosta, Alejandro Álvaro

2016-09-01

Current search engines are based upon search methods that involve the combination of words (text-based search); which has been efficient until now. However, the Internet's growing demand indicates that there's more diversity on it with each passing day. Text-based searches are becoming limited, as most of the information on the Internet can be found in different types of content denominated multimedia content (images, audio files, video files). Indeed, what needs to be improved in current search engines is: search content, and precision; as well as an accurate display of expected search results by the user. Any search can be more precise if it uses more text parameters, but it doesn't help improve the content or speed of the search itself. One solution is to improve them through the characterization of the content for the search in multimedia files. In this article, an analysis of the new generation multimedia search engines is presented, focusing the needs according to new technologies. Multimedia content has become a central part of the flow of information in our daily life. This reflects the necessity of having multimedia search engines, as well as knowing the real tasks that it must comply. Through this analysis, it is shown that there are not many search engines that can perform content searches. The area of research of multimedia search engines of new generation is a multidisciplinary area that's in constant growth, generating tools that satisfy the different needs of new generation systems.

Chemical Information in Scirus and BASE (Bielefeld Academic Search Engine)

Science.gov (United States)

Bendig, Regina B.

2009-01-01

The author sought to determine to what extent the two search engines, Scirus and BASE (Bielefeld Academic Search Engines), would be useful to first-year university students as the first point of searching for chemical information. Five topics were searched and the first ten records of each search result were evaluated with regard to the type of…

A Hybrid Model Ranking Search Result for Research Paper Searching on Social Bookmarking

Directory of Open Access Journals (Sweden)

pijitra jomsri

2015-11-01

Full Text Available Social bookmarking and publication sharing systems are essential tools for web resource discovery. The performance and capabilities of search results from research paper bookmarking system are vital. Many researchers use social bookmarking for searching papers related to their topics of interest. This paper proposes a combination of similarity based indexing “tag title and abstract” and static ranking to improve search results. In this particular study, the year of the published paper and type of research paper publication are combined with similarity ranking called (HybridRank. Different weighting scores are employed. The retrieval performance of these weighted combination rankings are evaluated using mean values of NDCG. The results suggest that HybridRank and similarity rank with weight 75:25 has the highest NDCG scores. From the preliminary result of experiment, the combination ranking technique provide more relevant research paper search results. Furthermore the chosen heuristic ranking can improve the efficiency of research paper searching on social bookmarking websites.

When does a protein become an allergen? Searching for a dynamic definition based on most advanced technology tools.

Science.gov (United States)

Mari, A

2008-07-01

Since the early beginning of allergology as a science considerable efforts have been made by clinicians and researchers to identify and characterize allergic triggers as raw allergenic materials, allergenic sources and tissues, and more recently basic allergenic structures defined as molecules. The last 15-20 years have witnessed many centres focusing on the identification and characterization of allergenic molecules leading to an expanding wealth of knowledge. The need to organize this information leads to the most important question 'when does a protein become an allergen?' In this article, I try to address this question by reviewing a few basic concepts of the immunology of IgE-mediated diseases, reporting on the current diagnostic and epidemiological tools used for allergic disease studies and discussing the usefulness of novel biotechnology tools (i.e. proteomics and molecular biology approaches), information technology tools (i.e. Internet-based resources) and microtechnology tools (i.e. proteomic microarray for IgE testing on molecular allergens). A step-wise staging of the identification and characterization process, including bench, clinical and epidemiological aspects, is proposed, in order to classify allergenic molecules dynamically. This proposal reflects the application and use of all the new tools available from current technologies.

Content-based Music Search and Recommendation System

Science.gov (United States)

Takegawa, Kazuki; Hijikata, Yoshinori; Nishida, Shogo

Recently, the turn volume of music data on the Internet has increased rapidly. This has increased the user's cost to find music data suiting their preference from such a large data set. We propose a content-based music search and recommendation system. This system has an interface for searching and finding music data and an interface for editing a user profile which is necessary for music recommendation. By exploiting the visualization of the feature space of music and the visualization of the user profile, the user can search music data and edit the user profile. Furthermore, by exploiting the infomation which can be acquired from each visualized object in a mutually complementary manner, we make it easier for the user to search music data and edit the user profile. Concretely, the system gives to the user an information obtained from the user profile when searching music data and an information obtained from the feature space of music when editing the user profile.

Understanding the foundation: the state of generalist search education in library schools as related to the needs of expert searchers in medical libraries.

Science.gov (United States)

Nicholson, Scott

2005-01-01

The paper explores the current state of generalist search education in library schools and considers that foundation in respect to the Medical Library Association's statement on expert searching. Syllabi from courses with significant searching components were examined from ten of the top library schools, as determined by the U.S. News & World Report rankings. Mixed methods were used, but primarily quantitative bibliometric methods were used. The educational focus in these searching components was on understanding the generalist searching resources and typical users and on performing a reflective search through application of search strategies, controlled vocabulary, and logic appropriate to the search tool. There is a growing emphasis on Web-based search tools and a movement away from traditional set-based searching and toward free-text search strategies. While a core set of authors is used in these courses, no core set of readings is used. While library schools provide a strong foundation, future medical librarians still need to take courses that introduce them to the resources, settings, and users associated with medical libraries. In addition, as more emphasis is placed on Web-based search tools and free-text searching, instructors of the specialist medical informatics courses will need to focus on teaching traditional search methods appropriate for common tools in the medical domain.

GeoSearcher: Location-Based Ranking of Search Engine Results.

Science.gov (United States)

Watters, Carolyn; Amoudi, Ghada

2003-01-01

Discussion of Web queries with geospatial dimensions focuses on an algorithm that assigns location coordinates dynamically to Web sites based on the URL. Describes a prototype search system that uses the algorithm to re-rank search engine results for queries with a geospatial dimension, thus providing an alternative ranking order for search engine…

The EMBL-EBI bioinformatics web and programmatic tools framework.

Science.gov (United States)

Li, Weizhong; Cowley, Andrew; Uludag, Mahmut; Gur, Tamer; McWilliam, Hamish; Squizzato, Silvano; Park, Young Mi; Buso, Nicola; Lopez, Rodrigo

2015-07-01

Since 2009 the EMBL-EBI Job Dispatcher framework has provided free access to a range of mainstream sequence analysis applications. These include sequence similarity search services (https://www.ebi.ac.uk/Tools/sss/) such as BLAST, FASTA and PSI-Search, multiple sequence alignment tools (https://www.ebi.ac.uk/Tools/msa/) such as Clustal Omega, MAFFT and T-Coffee, and other sequence analysis tools (https://www.ebi.ac.uk/Tools/pfa/) such as InterProScan. Through these services users can search mainstream sequence databases such as ENA, UniProt and Ensembl Genomes, utilising a uniform web interface or systematically through Web Services interfaces (https://www.ebi.ac.uk/Tools/webservices/) using common programming languages, and obtain enriched results with novel visualisations. Integration with EBI Search (https://www.ebi.ac.uk/ebisearch/) and the dbfetch retrieval service (https://www.ebi.ac.uk/Tools/dbfetch/) further expands the usefulness of the framework. New tools and updates such as NCBI BLAST+, InterProScan 5 and PfamScan, new categories such as RNA analysis tools (https://www.ebi.ac.uk/Tools/rna/), new databases such as ENA non-coding, WormBase ParaSite, Pfam and Rfam, and new workflow methods, together with the retirement of depreciated services, ensure that the framework remains relevant to today's biological community. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Knowledge-based personalized search engine for the Web-based Human Musculoskeletal System Resources (HMSR) in biomechanics.

Science.gov (United States)

Dao, Tien Tuan; Hoang, Tuan Nha; Ta, Xuan Hien; Tho, Marie Christine Ho Ba

2013-02-01

Human musculoskeletal system resources of the human body are valuable for the learning and medical purposes. Internet-based information from conventional search engines such as Google or Yahoo cannot response to the need of useful, accurate, reliable and good-quality human musculoskeletal resources related to medical processes, pathological knowledge and practical expertise. In this present work, an advanced knowledge-based personalized search engine was developed. Our search engine was based on a client-server multi-layer multi-agent architecture and the principle of semantic web services to acquire dynamically accurate and reliable HMSR information by a semantic processing and visualization approach. A security-enhanced mechanism was applied to protect the medical information. A multi-agent crawler was implemented to develop a content-based database of HMSR information. A new semantic-based PageRank score with related mathematical formulas were also defined and implemented. As the results, semantic web service descriptions were presented in OWL, WSDL and OWL-S formats. Operational scenarios with related web-based interfaces for personal computers and mobile devices were presented and analyzed. Functional comparison between our knowledge-based search engine, a conventional search engine and a semantic search engine showed the originality and the robustness of our knowledge-based personalized search engine. In fact, our knowledge-based personalized search engine allows different users such as orthopedic patient and experts or healthcare system managers or medical students to access remotely into useful, accurate, reliable and good-quality HMSR information for their learning and medical purposes. Copyright © 2012 Elsevier Inc. All rights reserved.

Search Engine : an effective tool for exploring the Internet

OpenAIRE

Ranasinghe, W.M. Tharanga Dilruk

2006-01-01

The Internet has become the largest source of information. Today, millions of Websites exist and this number continuous to grow. Finding the right information at the right time is the challenge in the Internet age. Search engine is searchable database which allows locating the information on the Internet by submitting the keywords. Search engines can be divided into two categories as the Individual and Meta Search engines. This article discusses the features of these search engines in detail.

Research on perturbation based Monte Carlo reactor criticality search

International Nuclear Information System (INIS)

Li Zeguang; Wang Kan; Li Yangliu; Deng Jingkang

2013-01-01

Criticality search is a very important aspect in reactor physics analysis. Due to the advantages of Monte Carlo method and the development of computer technologies, Monte Carlo criticality search is becoming more and more necessary and feasible. Traditional Monte Carlo criticality search method is suffered from large amount of individual criticality runs and uncertainty and fluctuation of Monte Carlo results. A new Monte Carlo criticality search method based on perturbation calculation is put forward in this paper to overcome the disadvantages of traditional method. By using only one criticality run to get initial k_e_f_f and differential coefficients of concerned parameter, the polynomial estimator of k_e_f_f changing function is solved to get the critical value of concerned parameter. The feasibility of this method was tested. The results show that the accuracy and efficiency of perturbation based criticality search method are quite inspiring and the method overcomes the disadvantages of traditional one. (authors)

A new generation of tools for search, recovery and quality evaluation of World Wide Web medical resources.

Science.gov (United States)

Aguillo, I

2000-01-01

Although the Internet is already a valuable information resource in medicine, there are important challenges to be faced before physicians and general users will have extensive access to this information. As a result of a research effort to compile a health-related Internet directory, new tools and strategies have been developed to solve key problems derived from the explosive growth of medical information on the Net and the great concern over the quality of such critical information. The current Internet search engines lack some important capabilities. We suggest using second generation tools (client-side based) able to deal with large quantities of data and to increase the usability of the records recovered. We tested the capabilities of these programs to solve health-related information problems, recognising six groups according to the kind of topics addressed: Z39.50 clients, downloaders, multisearchers, tracing agents, indexers and mappers. The evaluation of the quality of health information available on the Internet could require a large amount of human effort. A possible solution may be to use quantitative indicators based on the hypertext visibility of the Web sites. The cybermetric measures are valid for quality evaluation if they are derived from indirect peer review by experts with Web pages citing the site. The hypertext links acting as citations need to be extracted from a controlled sample of quality super-sites.

Model-Based Fault Diagnosis Techniques Design Schemes, Algorithms and Tools

CERN Document Server

Ding, Steven X

2013-01-01

Guaranteeing a high system performance over a wide operating range is an important issue surrounding the design of automatic control systems with successively increasing complexity. As a key technology in the search for a solution, advanced fault detection and identification (FDI) is receiving considerable attention. This book introduces basic model-based FDI schemes, advanced analysis and design algorithms, and mathematical and control-theoretic tools. This second edition of Model-Based Fault Diagnosis Techniques contains: ·         new material on fault isolation and identification, and fault detection in feedback control loops; ·         extended and revised treatment of systematic threshold determination for systems with both deterministic unknown inputs and stochastic noises; addition of the continuously-stirred tank heater as a representative process-industrial benchmark; and ·         enhanced discussion of residual evaluation in stochastic processes. Model-based Fault Diagno...

Automated Search-Based Robustness Testing for Autonomous Vehicle Software

Directory of Open Access Journals (Sweden)

Kevin M. Betts

2016-01-01

Full Text Available Autonomous systems must successfully operate in complex time-varying spatial environments even when dealing with system faults that may occur during a mission. Consequently, evaluating the robustness, or ability to operate correctly under unexpected conditions, of autonomous vehicle control software is an increasingly important issue in software testing. New methods to automatically generate test cases for robustness testing of autonomous vehicle control software in closed-loop simulation are needed. Search-based testing techniques were used to automatically generate test cases, consisting of initial conditions and fault sequences, intended to challenge the control software more than test cases generated using current methods. Two different search-based testing methods, genetic algorithms and surrogate-based optimization, were used to generate test cases for a simulated unmanned aerial vehicle attempting to fly through an entryway. The effectiveness of the search-based methods in generating challenging test cases was compared to both a truth reference (full combinatorial testing and the method most commonly used today (Monte Carlo testing. The search-based testing techniques demonstrated better performance than Monte Carlo testing for both of the test case generation performance metrics: (1 finding the single most challenging test case and (2 finding the set of fifty test cases with the highest mean degree of challenge.

A Systematic Understanding of Successful Web Searches in Information-Based Tasks

Science.gov (United States)

Zhou, Mingming

2013-01-01

The purpose of this study is to research how Chinese university students solve information-based problems. With the Search Performance Index as the measure of search success, participants were divided into high, medium and low-performing groups. Based on their web search logs, these three groups were compared along five dimensions of the search…

Development of health information search engine based on metadata and ontology.

Science.gov (United States)

Song, Tae-Min; Park, Hyeoun-Ae; Jin, Dal-Lae

2014-04-01

The aim of the study was to develop a metadata and ontology-based health information search engine ensuring semantic interoperability to collect and provide health information using different application programs. Health information metadata ontology was developed using a distributed semantic Web content publishing model based on vocabularies used to index the contents generated by the information producers as well as those used to search the contents by the users. Vocabulary for health information ontology was mapped to the Systematized Nomenclature of Medicine Clinical Terms (SNOMED CT), and a list of about 1,500 terms was proposed. The metadata schema used in this study was developed by adding an element describing the target audience to the Dublin Core Metadata Element Set. A metadata schema and an ontology ensuring interoperability of health information available on the internet were developed. The metadata and ontology-based health information search engine developed in this study produced a better search result compared to existing search engines. Health information search engine based on metadata and ontology will provide reliable health information to both information producer and information consumers.

Computer-aided tool for the teaching of relational algebra in data base courses

Directory of Open Access Journals (Sweden)

Johnny Villalobos Murillo

2016-03-01

Full Text Available This article describes the design and implementation of computer-aided tool called Relational Algebra Translator (RAT in data base courses, for the teaching of relational algebra. There was a problem when introducing the relational algebra topic in the course EIF 211 Design and Implementation of Databases, which belongs to the career of Engineering in Information Systems of the National University of Costa Rica, because students attending this course were lacking profound mathematical knowledge, which led to a learning problem, being this an important subject to understand what the data bases search and request do RAT comes along to enhance the teaching-learning process. It introduces the architectural and design principles required for its implementation, such as: the language symbol table, the gramatical rules and the basic algorithms that RAT uses to translate from relational algebra to SQL language. This tool has been used for one periods and has demonstrated to be effective in the learning-teaching process.  This urged investigators to publish it in the web site: www.slinfo.una.ac.cr in order for this tool to be used in other university courses.

PTree: pattern-based, stochastic search for maximum parsimony phylogenies

Directory of Open Access Journals (Sweden)

Ivan Gregor

2013-06-01

Full Text Available Phylogenetic reconstruction is vital to analyzing the evolutionary relationship of genes within and across populations of different species. Nowadays, with next generation sequencing technologies producing sets comprising thousands of sequences, robust identification of the tree topology, which is optimal according to standard criteria such as maximum parsimony, maximum likelihood or posterior probability, with phylogenetic inference methods is a computationally very demanding task. Here, we describe a stochastic search method for a maximum parsimony tree, implemented in a software package we named PTree. Our method is based on a new pattern-based technique that enables us to infer intermediate sequences efficiently where the incorporation of these sequences in the current tree topology yields a phylogenetic tree with a lower cost. Evaluation across multiple datasets showed that our method is comparable to the algorithms implemented in PAUP* or TNT, which are widely used by the bioinformatics community, in terms of topological accuracy and runtime. We show that our method can process large-scale datasets of 1,000–8,000 sequences. We believe that our novel pattern-based method enriches the current set of tools and methods for phylogenetic tree inference. The software is available under: http://algbio.cs.uni-duesseldorf.de/webapps/wa-download/.

PTree: pattern-based, stochastic search for maximum parsimony phylogenies.

Science.gov (United States)

Gregor, Ivan; Steinbrück, Lars; McHardy, Alice C

2013-01-01

Phylogenetic reconstruction is vital to analyzing the evolutionary relationship of genes within and across populations of different species. Nowadays, with next generation sequencing technologies producing sets comprising thousands of sequences, robust identification of the tree topology, which is optimal according to standard criteria such as maximum parsimony, maximum likelihood or posterior probability, with phylogenetic inference methods is a computationally very demanding task. Here, we describe a stochastic search method for a maximum parsimony tree, implemented in a software package we named PTree. Our method is based on a new pattern-based technique that enables us to infer intermediate sequences efficiently where the incorporation of these sequences in the current tree topology yields a phylogenetic tree with a lower cost. Evaluation across multiple datasets showed that our method is comparable to the algorithms implemented in PAUP* or TNT, which are widely used by the bioinformatics community, in terms of topological accuracy and runtime. We show that our method can process large-scale datasets of 1,000-8,000 sequences. We believe that our novel pattern-based method enriches the current set of tools and methods for phylogenetic tree inference. The software is available under: http://algbio.cs.uni-duesseldorf.de/webapps/wa-download/.

Perturbation based Monte Carlo criticality search in density, enrichment and concentration

International Nuclear Information System (INIS)

Li, Zeguang; Wang, Kan; Deng, Jingkang

2015-01-01

Highlights: • A new perturbation based Monte Carlo criticality search method is proposed. • The method could get accurate results with only one individual criticality run. • The method is used to solve density, enrichment and concentration search problems. • Results show the feasibility and good performances of this method. • The relationship between results’ accuracy and perturbation order is discussed. - Abstract: Criticality search is a very important aspect in reactor physics analysis. Due to the advantages of Monte Carlo method and the development of computer technologies, Monte Carlo criticality search is becoming more and more necessary and feasible. Existing Monte Carlo criticality search methods need large amount of individual criticality runs and may have unstable results because of the uncertainties of criticality results. In this paper, a new perturbation based Monte Carlo criticality search method is proposed and discussed. This method only needs one individual criticality calculation with perturbation tallies to estimate k eff changing function using initial k eff and differential coefficients results, and solves polynomial equations to get the criticality search results. The new perturbation based Monte Carlo criticality search method is implemented in the Monte Carlo code RMC, and criticality search problems in density, enrichment and concentration are taken out. Results show that this method is quite inspiring in accuracy and efficiency, and has advantages compared with other criticality search methods

Evidence-based librarianship: searching for the needed EBL evidence.

Science.gov (United States)

Eldredge, J D

2000-01-01

This paper discusses the challenges of finding evidence needed to implement Evidence-Based Librarianship (EBL). Focusing first on database coverage for three health sciences librarianship journals, the article examines the information contents of different databases. Strategies are needed to search for relevant evidence in the library literature via these databases, and the problems associated with searching the grey literature of librarianship. Database coverage, plausible search strategies, and the grey literature of library science all pose challenges to finding the needed research evidence for practicing EBL. Health sciences librarians need to ensure that systems are designed that can track and provide access to needed research evidence to support Evidence-Based Librarianship (EBL).

Robust object tacking based on self-adaptive search area

Science.gov (United States)

Dong, Taihang; Zhong, Sheng

2018-02-01

Discriminative correlation filter (DCF) based trackers have recently achieved excellent performance with great computational efficiency. However, DCF based trackers suffer boundary effects, which result in the unstable performance in challenging situations exhibiting fast motion. In this paper, we propose a novel method to mitigate this side-effect in DCF based trackers. We change the search area according to the prediction of target motion. When the object moves fast, broad search area could alleviate boundary effects and reserve the probability of locating object. When the object moves slowly, narrow search area could prevent effect of useless background information and improve computational efficiency to attain real-time performance. This strategy can impressively soothe boundary effects in situations exhibiting fast motion and motion blur, and it can be used in almost all DCF based trackers. The experiments on OTB benchmark show that the proposed framework improves the performance compared with the baseline trackers.

Knowledge base, information search and intention to adopt innovation

NARCIS (Netherlands)

Rijnsoever, van F.J.; Castaldi, C.

2008-01-01

Innovation is a process that involves searching for new information. This paper builds upon theoretical insights on individual and organizational learning and proposes a knowledge based model of how actors search for information when confronted with innovation. The model takes into account different

Development and Evaluation of Thesauri-Based Bibliographic Biomedical Search Engine

Science.gov (United States)

Alghoson, Abdullah

2017-01-01

Due to the large volume and exponential growth of biomedical documents (e.g., books, journal articles), it has become increasingly challenging for biomedical search engines to retrieve relevant documents based on users' search queries. Part of the challenge is the matching mechanism of free-text indexing that performs matching based on…

Automated Patent Searching in the EPO: From Online Searching to Document Delivery.

Science.gov (United States)

Nuyts, Annemie; Jonckheere, Charles

The European Patent Office (EPO) has recently implemented the last part of its ambitious automation project aimed at creating an automated search environment for approximately 1200 EPO patent search examiners. The examiners now have at their disposal an integrated set of tools offering a full range of functionalities from online searching, via…

Search Analytics: Automated Learning, Analysis, and Search with Open Source

Science.gov (United States)

Hundman, K.; Mattmann, C. A.; Hyon, J.; Ramirez, P.

2016-12-01

The sheer volume of unstructured scientific data makes comprehensive human analysis impossible, resulting in missed opportunities to identify relationships, trends, gaps, and outliers. As the open source community continues to grow, tools like Apache Tika, Apache Solr, Stanford's DeepDive, and Data-Driven Documents (D3) can help address this challenge. With a focus on journal publications and conference abstracts often in the form of PDF and Microsoft Office documents, we've initiated an exploratory NASA Advanced Concepts project aiming to use the aforementioned open source text analytics tools to build a data-driven justification for the HyspIRI Decadal Survey mission. We call this capability Search Analytics, and it fuses and augments these open source tools to enable the automatic discovery and extraction of salient information. In the case of HyspIRI, a hyperspectral infrared imager mission, key findings resulted from the extractions and visualizations of relationships from thousands of unstructured scientific documents. The relationships include links between satellites (e.g. Landsat 8), domain-specific measurements (e.g. spectral coverage) and subjects (e.g. invasive species). Using the above open source tools, Search Analytics mined and characterized a corpus of information that would be infeasible for a human to process. More broadly, Search Analytics offers insights into various scientific and commercial applications enabled through missions and instrumentation with specific technical capabilities. For example, the following phrases were extracted in close proximity within a publication: "In this study, hyperspectral images…with high spatial resolution (1 m) were analyzed to detect cutleaf teasel in two areas. …Classification of cutleaf teasel reached a users accuracy of 82 to 84%." Without reading a single paper we can use Search Analytics to automatically identify that a 1 m spatial resolution provides a cutleaf teasel detection users accuracy of 82

In search of the true universe the tools, shaping, and cost of cosmological thought

CERN Document Server

Harwit, Martin

2013-01-01

Astrophysicist and scholar Martin Harwit examines how our understanding of the cosmos advanced rapidly during the twentieth century and identifies the factors contributing to this progress. Astronomy, whose tools were largely imported from physics and engineering, benefited mid-century from the US policy of coupling basic research with practical national priorities. This strategy, initially developed for military and industrial purposes, provided astronomy with powerful tools yielding access - at virtually no cost - to radio, infrared, X-ray, and gamma-ray observations. Today, astronomers are investigating the new frontiers of dark matter and dark energy, critical to understanding the cosmos but of indeterminate socio-economic promise. Harwit addresses these current challenges in view of competing national priorities and proposes alternative new approaches in search of the true Universe. This is an engaging read for astrophysicists, policy makers, historians, and sociologists of science looking to learn and a...

Pharmacophore definition and 3D searches.

Science.gov (United States)

Langer, T; Wolber, G

2004-12-01

The most common pharmacophore building concepts based on either 3D structure of the target or ligand information are discussed together with the application of such models as queries for 3D database search. An overview of the key techniques available on the market is given and differences with respect to algorithms used and performance obtained are highlighted. Pharmacophore modelling and 3D database search are shown to be successful tools for enriching screening experiments aimed at the discovery of novel bio-active compounds.: © 2004 Elsevier Ltd . All rights reserved.

SciRide Finder: a citation-based paradigm in biomedical literature search.

Science.gov (United States)

Volanakis, Adam; Krawczyk, Konrad

2018-04-18

There are more than 26 million peer-reviewed biomedical research items according to Medline/PubMed. This breadth of information is indicative of the progress in biomedical sciences on one hand, but an overload for scientists performing literature searches on the other. A major portion of scientific literature search is to find statements, numbers and protocols that can be cited to build an evidence-based narrative for a new manuscript. Because science builds on prior knowledge, such information has likely been written out and cited in an older manuscript. Thus, Cited Statements, pieces of text from scientific literature supported by citing other peer-reviewed publications, carry significant amount of condensed information on prior art. Based on this principle, we propose a literature search service, SciRide Finder (finder.sciride.org), which constrains the search corpus to such Cited Statements only. We demonstrate that Cited Statements can carry different information to this found in titles/abstracts and full text, giving access to alternative literature search results than traditional search engines. We further show how presenting search results as a list of Cited Statements allows researchers to easily find information to build an evidence-based narrative for their own manuscripts.

Object-based target templates guide attention during visual search.

Science.gov (United States)

Berggren, Nick; Eimer, Martin

2018-05-03

During visual search, attention is believed to be controlled in a strictly feature-based fashion, without any guidance by object-based target representations. To challenge this received view, we measured electrophysiological markers of attentional selection (N2pc component) and working memory (sustained posterior contralateral negativity; SPCN) in search tasks where two possible targets were defined by feature conjunctions (e.g., blue circles and green squares). Critically, some search displays also contained nontargets with two target features (incorrect conjunction objects, e.g., blue squares). Because feature-based guidance cannot distinguish these objects from targets, any selective bias for targets will reflect object-based attentional control. In Experiment 1, where search displays always contained only one object with target-matching features, targets and incorrect conjunction objects elicited identical N2pc and SPCN components, demonstrating that attentional guidance was entirely feature-based. In Experiment 2, where targets and incorrect conjunction objects could appear in the same display, clear evidence for object-based attentional control was found. The target N2pc became larger than the N2pc to incorrect conjunction objects from 250 ms poststimulus, and only targets elicited SPCN components. This demonstrates that after an initial feature-based guidance phase, object-based templates are activated when they are required to distinguish target and nontarget objects. These templates modulate visual processing and control access to working memory, and their activation may coincide with the start of feature integration processes. Results also suggest that while multiple feature templates can be activated concurrently, only a single object-based target template can guide attention at any given time. (PsycINFO Database Record (c) 2018 APA, all rights reserved).

The Arabidopsis co-expression tool (act): a WWW-based tool and database for microarray-based gene expression analysis

DEFF Research Database (Denmark)

Jen, C. H.; Manfield, I. W.; Michalopoulos, D. W.

2006-01-01

be examined using the novel clique finder tool to determine the sets of genes most likely to be regulated in a similar manner. In combination, these tools offer three levels of analysis: creation of correlation lists of co-expressed genes, refinement of these lists using two-dimensional scatter plots......We present a new WWW-based tool for plant gene analysis, the Arabidopsis Co-Expression Tool (act) , based on a large Arabidopsis thaliana microarray data set obtained from the Nottingham Arabidopsis Stock Centre. The co-expression analysis tool allows users to identify genes whose expression...

Teaching AI Search Algorithms in a Web-Based Educational System

Science.gov (United States)

Grivokostopoulou, Foteini; Hatzilygeroudis, Ioannis

2013-01-01

In this paper, we present a way of teaching AI search algorithms in a web-based adaptive educational system. Teaching is based on interactive examples and exercises. Interactive examples, which use visualized animations to present AI search algorithms in a step-by-step way with explanations, are used to make learning more attractive. Practice…

Surveillance Tools Emerging From Search Engines and Social Media Data for Determining Eye Disease Patterns.

Science.gov (United States)

Deiner, Michael S; Lietman, Thomas M; McLeod, Stephen D; Chodosh, James; Porco, Travis C

2016-09-01

Internet-based search engine and social media data may provide a novel complementary source for better understanding the epidemiologic factors of infectious eye diseases, which could better inform eye health care and disease prevention. To assess whether data from internet-based social media and search engines are associated with objective clinic-based diagnoses of conjunctivitis. Data from encounters of 4143 patients diagnosed with conjunctivitis from June 3, 2012, to April 26, 2014, at the University of California San Francisco (UCSF) Medical Center, were analyzed using Spearman rank correlation of each weekly observation to compare demographics and seasonality of nonallergic conjunctivitis with allergic conjunctivitis. Data for patient encounters with diagnoses for glaucoma and influenza were also obtained for the same period and compared with conjunctivitis. Temporal patterns of Twitter and Google web search data, geolocated to the United States and associated with these clinical diagnoses, were compared with the clinical encounters. The a priori hypothesis was that weekly internet-based searches and social media posts about conjunctivitis may reflect the true weekly clinical occurrence of conjunctivitis. Weekly total clinical diagnoses at UCSF of nonallergic conjunctivitis, allergic conjunctivitis, glaucoma, and influenza were compared using Spearman rank correlation with equivalent weekly data on Tweets related to disease or disease-related keyword searches obtained from Google Trends. Seasonality of clinical diagnoses of nonallergic conjunctivitis among the 4143 patients (2364 females [57.1%] and 1776 males [42.9%]) with 5816 conjunctivitis encounters at UCSF correlated strongly with results of Google searches in the United States for the term pink eye (ρ, 0.68 [95% CI, 0.52 to 0.78]; P < .001) and correlated moderately with Twitter results about pink eye (ρ, 0.38 [95% CI, 0.16 to 0.56]; P < .001) and with clinical diagnosis of influenza (ρ, 0

Designing the Search Service for Enterprise Portal based on Oracle Universal Content Management

Science.gov (United States)

Bauer, K. S.; Kuznetsov, D. Y.; Pominov, A. D.

2017-01-01

Enterprise Portal is an important part of an organization in informative and innovative space. The portal provides collaboration between employees and the organization. This article gives a valuable background of Enterprise Portal and technologies. The paper presents Oracle WebCenter Portal and UCM Server integration in detail. The focus is on tools for Enterprise Portal and on Search Service in particular. The paper also presents several UML diagrams to describe the use of cases for Search Service and main components of this application.

Protein structural similarity search by Ramachandran codes

Directory of Open Access Journals (Sweden)

Chang Chih-Hung

2007-08-01

Full Text Available Abstract Background Protein structural data has increased exponentially, such that fast and accurate tools are necessary to access structure similarity search. To improve the search speed, several methods have been designed to reduce three-dimensional protein structures to one-dimensional text strings that are then analyzed by traditional sequence alignment methods; however, the accuracy is usually sacrificed and the speed is still unable to match sequence similarity search tools. Here, we aimed to improve the linear encoding methodology and develop efficient search tools that can rapidly retrieve structural homologs from large protein databases. Results We propose a new linear encoding method, SARST (Structural similarity search Aided by Ramachandran Sequential Transformation. SARST transforms protein structures into text strings through a Ramachandran map organized by nearest-neighbor clustering and uses a regenerative approach to produce substitution matrices. Then, classical sequence similarity search methods can be applied to the structural similarity search. Its accuracy is similar to Combinatorial Extension (CE and works over 243,000 times faster, searching 34,000 proteins in 0.34 sec with a 3.2-GHz CPU. SARST provides statistically meaningful expectation values to assess the retrieved information. It has been implemented into a web service and a stand-alone Java program that is able to run on many different platforms. Conclusion As a database search method, SARST can rapidly distinguish high from low similarities and efficiently retrieve homologous structures. It demonstrates that the easily accessible linear encoding methodology has the potential to serve as a foundation for efficient protein structural similarity search tools. These search tools are supposed applicable to automated and high-throughput functional annotations or predictions for the ever increasing number of published protein structures in this post-genomic era.

GeNemo: a search engine for web-based functional genomic data.

Science.gov (United States)

Zhang, Yongqing; Cao, Xiaoyi; Zhong, Sheng

2016-07-08

A set of new data types emerged from functional genomic assays, including ChIP-seq, DNase-seq, FAIRE-seq and others. The results are typically stored as genome-wide intensities (WIG/bigWig files) or functional genomic regions (peak/BED files). These data types present new challenges to big data science. Here, we present GeNemo, a web-based search engine for functional genomic data. GeNemo searches user-input data against online functional genomic datasets, including the entire collection of ENCODE and mouse ENCODE datasets. Unlike text-based search engines, GeNemo's searches are based on pattern matching of functional genomic regions. This distinguishes GeNemo from text or DNA sequence searches. The user can input any complete or partial functional genomic dataset, for example, a binding intensity file (bigWig) or a peak file. GeNemo reports any genomic regions, ranging from hundred bases to hundred thousand bases, from any of the online ENCODE datasets that share similar functional (binding, modification, accessibility) patterns. This is enabled by a Markov Chain Monte Carlo-based maximization process, executed on up to 24 parallel computing threads. By clicking on a search result, the user can visually compare her/his data with the found datasets and navigate the identified genomic regions. GeNemo is available at www.genemo.org. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

Q-learning-based adjustable fixed-phase quantum Grover search algorithm

International Nuclear Information System (INIS)

Guo Ying; Shi Wensha; Wang Yijun; Hu, Jiankun

2017-01-01

We demonstrate that the rotation phase can be suitably chosen to increase the efficiency of the phase-based quantum search algorithm, leading to a dynamic balance between iterations and success probabilities of the fixed-phase quantum Grover search algorithm with Q-learning for a given number of solutions. In this search algorithm, the proposed Q-learning algorithm, which is a model-free reinforcement learning strategy in essence, is used for performing a matching algorithm based on the fraction of marked items λ and the rotation phase α. After establishing the policy function α = π(λ), we complete the fixed-phase Grover algorithm, where the phase parameter is selected via the learned policy. Simulation results show that the Q-learning-based Grover search algorithm (QLGA) enables fewer iterations and gives birth to higher success probabilities. Compared with the conventional Grover algorithms, it avoids the optimal local situations, thereby enabling success probabilities to approach one. (author)

Construction of web-based nutrition education contents and searching engine for usage of healthy menu of children

Science.gov (United States)

Lee, Tae-Kyong; Chung, Hea-Jung; Park, Hye-Kyung; Lee, Eun-Ju; Nam, Hye-Seon; Jung, Soon-Im; Cho, Jee-Ye; Lee, Jin-Hee; Kim, Gon; Kim, Min-Chan

2008-01-01

A diet habit, which is developed in childhood, lasts for a life time. In this sense, nutrition education and early exposure to healthy menus in childhood is important. Children these days have easy access to the internet. Thus, a web-based nutrition education program for children is an effective tool for nutrition education of children. This site provides the material of the nutrition education for children with characters which are personified nutrients. The 151 menus are stored in the site together with video script of the cooking process. The menus are classified by the criteria based on age, menu type and the ethnic origin of the menu. The site provides a search function. There are three kinds of search conditions which are key words, menu type and "between" expression of nutrients such as calorie and other nutrients. The site is developed with the operating system Windows 2003 Server, the web server ZEUS 5, development language JSP, and database management system Oracle 10 g. PMID:20126375

Search-based model identification of smart-structure damage

Science.gov (United States)

Glass, B. J.; Macalou, A.

1991-01-01

This paper describes the use of a combined model and parameter identification approach, based on modal analysis and artificial intelligence (AI) techniques, for identifying damage or flaws in a rotating truss structure incorporating embedded piezoceramic sensors. This smart structure example is representative of a class of structures commonly found in aerospace systems and next generation space structures. Artificial intelligence techniques of classification, heuristic search, and an object-oriented knowledge base are used in an AI-based model identification approach. A finite model space is classified into a search tree, over which a variant of best-first search is used to identify the model whose stored response most closely matches that of the input. Newly-encountered models can be incorporated into the model space. This adaptativeness demonstrates the potential for learning control. Following this output-error model identification, numerical parameter identification is used to further refine the identified model. Given the rotating truss example in this paper, noisy data corresponding to various damage configurations are input to both this approach and a conventional parameter identification method. The combination of the AI-based model identification with parameter identification is shown to lead to smaller parameter corrections than required by the use of parameter identification alone.

Parallel content-based sub-image retrieval using hierarchical searching.

Science.gov (United States)

Yang, Lin; Qi, Xin; Xing, Fuyong; Kurc, Tahsin; Saltz, Joel; Foran, David J

2014-04-01

The capacity to systematically search through large image collections and ensembles and detect regions exhibiting similar morphological characteristics is central to pathology diagnosis. Unfortunately, the primary methods used to search digitized, whole-slide histopathology specimens are slow and prone to inter- and intra-observer variability. The central objective of this research was to design, develop, and evaluate a content-based image retrieval system to assist doctors for quick and reliable content-based comparative search of similar prostate image patches. Given a representative image patch (sub-image), the algorithm will return a ranked ensemble of image patches throughout the entire whole-slide histology section which exhibits the most similar morphologic characteristics. This is accomplished by first performing hierarchical searching based on a newly developed hierarchical annular histogram (HAH). The set of candidates is then further refined in the second stage of processing by computing a color histogram from eight equally divided segments within each square annular bin defined in the original HAH. A demand-driven master-worker parallelization approach is employed to speed up the searching procedure. Using this strategy, the query patch is broadcasted to all worker processes. Each worker process is dynamically assigned an image by the master process to search for and return a ranked list of similar patches in the image. The algorithm was tested using digitized hematoxylin and eosin (H&E) stained prostate cancer specimens. We have achieved an excellent image retrieval performance. The recall rate within the first 40 rank retrieved image patches is ∼90%. Both the testing data and source code can be downloaded from http://pleiad.umdnj.edu/CBII/Bioinformatics/.

Particle swarm as optimization tool in complex nuclear engineering problems

International Nuclear Information System (INIS)

Medeiros, Jose Antonio Carlos Canedo

2005-06-01

Due to its low computational cost, gradient-based search techniques associated to linear programming techniques are being used as optimization tools. These techniques, however, when applied to multimodal search spaces, can lead to local optima. When finding solutions for complex multimodal domains, random search techniques are being used with great efficacy. In this work we exploit the swarm optimization algorithm search power capacity as an optimization tool for the solution of complex high dimension and multimodal search spaces of nuclear problems. Due to its easy and natural representation of high dimension domains, the particle swarm optimization was applied with success for the solution of complex nuclear problems showing its efficacy in the search of solutions in high dimension and complex multimodal spaces. In one of these applications it enabled a natural and trivial solution in a way not obtained with other methods confirming the validity of its application. (author)

A Framework for IT-based Design Tools

DEFF Research Database (Denmark)

Hartvig, Susanne C

The thesis presents a new apprach to develop design tools that can be integrated, bypresenting a framework consisting of a set of guidelines for design tools, an integration andcommunication scheme, and a set of design tool schemes.This framework has been based onanalysis of requirements to integ...... to integrated design enviornments, and analysis of engineeringdesign and design problem solving methods. And the developed framework has been testedby applying it to development of prototype design tools for realistic design scenarios.......The thesis presents a new apprach to develop design tools that can be integrated, bypresenting a framework consisting of a set of guidelines for design tools, an integration andcommunication scheme, and a set of design tool schemes.This framework has been based onanalysis of requirements...

Short-term Internet search using makes people rely on search engines when facing unknown issues.

Science.gov (United States)

Wang, Yifan; Wu, Lingdan; Luo, Liang; Zhang, Yifen; Dong, Guangheng

2017-01-01

The Internet search engines, which have powerful search/sort functions and ease of use features, have become an indispensable tool for many individuals. The current study is to test whether the short-term Internet search training can make people more dependent on it. Thirty-one subjects out of forty subjects completed the search training study which included a pre-test, a six-day's training of Internet search, and a post-test. During the pre- and post- tests, subjects were asked to search online the answers to 40 unusual questions, remember the answers and recall them in the scanner. Un-learned questions were randomly presented at the recalling stage in order to elicited search impulse. Comparing to the pre-test, subjects in the post-test reported higher impulse to use search engines to answer un-learned questions. Consistently, subjects showed higher brain activations in dorsolateral prefrontal cortex and anterior cingulate cortex in the post-test than in the pre-test. In addition, there were significant positive correlations self-reported search impulse and brain responses in the frontal areas. The results suggest that a simple six-day's Internet search training can make people dependent on the search tools when facing unknown issues. People are easily dependent on the Internet search engines.

Short-term Internet search using makes people rely on search engines when facing unknown issues.

Directory of Open Access Journals (Sweden)

Yifan Wang

Full Text Available The Internet search engines, which have powerful search/sort functions and ease of use features, have become an indispensable tool for many individuals. The current study is to test whether the short-term Internet search training can make people more dependent on it. Thirty-one subjects out of forty subjects completed the search training study which included a pre-test, a six-day's training of Internet search, and a post-test. During the pre- and post- tests, subjects were asked to search online the answers to 40 unusual questions, remember the answers and recall them in the scanner. Un-learned questions were randomly presented at the recalling stage in order to elicited search impulse. Comparing to the pre-test, subjects in the post-test reported higher impulse to use search engines to answer un-learned questions. Consistently, subjects showed higher brain activations in dorsolateral prefrontal cortex and anterior cingulate cortex in the post-test than in the pre-test. In addition, there were significant positive correlations self-reported search impulse and brain responses in the frontal areas. The results suggest that a simple six-day's Internet search training can make people dependent on the search tools when facing unknown issues. People are easily dependent on the Internet search engines.

Google Power Search

CERN Document Server

Spencer, Stephan

2011-01-01

Behind Google's deceptively simple interface is immense power for both market and competitive research-if you know how to use it well. Sure, basic searches are easy, but complex searches require specialized skills. This concise book takes you through the full range of Google's powerful search-refinement features, so you can quickly find the specific information you need. Learn techniques ranging from simple Boolean logic to URL parameters and other advanced tools, and see how they're applied to real-world market research examples. Incorporate advanced search operators such as filetype:, intit

AN OVERVIEW OF SEARCHING AND DISCOVERING WEB BASED INFORMATION RESOURCES

Directory of Open Access Journals (Sweden)

Cezar VASILESCU

2010-01-01

Full Text Available The Internet becomes for most of us a daily used instrument, for professional or personal reasons. We even do not remember the times when a computer and a broadband connection were luxury items. More and more people are relying on the complicated web network to find the needed information.This paper presents an overview of Internet search related issues, upon search engines and describes the parties and the basic mechanism that is embedded in a search for web based information resources. Also presents ways to increase the efficiency of web searches, through a better understanding of what search engines ignore at websites content.

A GIS-based Quantitative Approach for the Search of Clandestine Graves, Italy.

Science.gov (United States)

Somma, Roberta; Cascio, Maria; Silvestro, Massimiliano; Torre, Eliana

2018-05-01

Previous research on the RAG color-coded prioritization systems for the discovery of clandestine graves has not considered all the factors influencing the burial site choice within a GIS project. The goal of this technical note was to discuss a GIS-based quantitative approach for the search of clandestine graves. The method is based on cross-referenced RAG maps with cumulative suitability factors to host a burial, leading to the editing of different search scenarios for ground searches showing high-(Red), medium-(Amber), and low-(Green) priority areas. The application of this procedure allowed several outcomes to be determined: If the concealment occurs at night, then the "search scenario without the visibility" will be the most effective one; if the concealment occurs in daylight, then the "search scenario with the DSM-based visibility" will be most appropriate; the different search scenarios may be cross-referenced with offender's confessions and eyewitnesses' testimonies to verify the veracity of their statements. © 2017 American Academy of Forensic Sciences.

PLACNETw: a web-based tool for plasmid reconstruction from bacterial genomes.

Science.gov (United States)

Vielva, Luis; de Toro, María; Lanza, Val F; de la Cruz, Fernando

2017-12-01

PLACNET is a graph-based tool for reconstruction of plasmids from next generation sequence pair-end datasets. PLACNET graphs contain two types of nodes (assembled contigs and reference genomes) and two types of edges (scaffold links and homology to references). Manual pruning of the graphs is a necessary requirement in PLACNET, but this is difficult for users without solid bioinformatic background. PLACNETw, a webtool based on PLACNET, provides an interactive graphic interface, automates BLAST searches, and extracts the relevant information for decision making. It allows a user with domain expertise to visualize the scaffold graphs and related information of contigs as well as reference sequences, so that the pruning operations can be done interactively from a personal computer without the need for additional tools. After successful pruning, each plasmid becomes a separate connected component subgraph. The resulting data are automatically downloaded by the user. PLACNETw is freely available at https://castillo.dicom.unican.es/upload/. delacruz@unican.es. A tutorial video and several solved examples are available at https://castillo.dicom.unican.es/placnetw_video/ and https://castillo.dicom.unican.es/examples/. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com

Search for brown dwarfs in the IRAS data bases

International Nuclear Information System (INIS)

Low, F.J.

1986-01-01

A report is given on the initial searches for brown dwarf stars in the IRAS data bases. The paper was presented to the workshop on 'Astrophysics of brown dwarfs', Virginia, USA, 1985. To date no brown dwarfs have been discovered in the solar neighbourhood. Opportunities for future searches with greater sensitivity and different wavelengths are outlined. (U.K.)

IntegromeDB: an integrated system and biological search engine.

Science.gov (United States)

Baitaluk, Michael; Kozhenkov, Sergey; Dubinina, Yulia; Ponomarenko, Julia

2012-01-19

With the growth of biological data in volume and heterogeneity, web search engines become key tools for researchers. However, general-purpose search engines are not specialized for the search of biological data. Here, we present an approach at developing a biological web search engine based on the Semantic Web technologies and demonstrate its implementation for retrieving gene- and protein-centered knowledge. The engine is available at http://www.integromedb.org. The IntegromeDB search engine allows scanning data on gene regulation, gene expression, protein-protein interactions, pathways, metagenomics, mutations, diseases, and other gene- and protein-related data that are automatically retrieved from publicly available databases and web pages using biological ontologies. To perfect the resource design and usability, we welcome and encourage community feedback.

Pathfinder: multiresolution region-based searching of pathology images using IRM.

OpenAIRE

Wang, J. Z.

2000-01-01

The fast growth of digitized pathology slides has created great challenges in research on image database retrieval. The prevalent retrieval technique involves human-supplied text annotations to describe slide contents. These pathology images typically have very high resolution, making it difficult to search based on image content. In this paper, we present Pathfinder, an efficient multiresolution region-based searching system for high-resolution pathology image libraries. The system uses wave...

Project Lefty: More Bang for the Search Query

Science.gov (United States)

Varnum, Ken

2010-01-01

This article describes the Project Lefty, a search system that, at a minimum, adds a layer on top of traditional federated search tools that will make the wait for results more worthwhile for researchers. At best, Project Lefty improves search queries and relevance rankings for web-scale discovery tools to make the results themselves more relevant…

Multilevel Thresholding Segmentation Based on Harmony Search Optimization

Directory of Open Access Journals (Sweden)

Diego Oliva

2013-01-01

Full Text Available In this paper, a multilevel thresholding (MT algorithm based on the harmony search algorithm (HSA is introduced. HSA is an evolutionary method which is inspired in musicians improvising new harmonies while playing. Different to other evolutionary algorithms, HSA exhibits interesting search capabilities still keeping a low computational overhead. The proposed algorithm encodes random samples from a feasible search space inside the image histogram as candidate solutions, whereas their quality is evaluated considering the objective functions that are employed by the Otsu’s or Kapur’s methods. Guided by these objective values, the set of candidate solutions are evolved through the HSA operators until an optimal solution is found. Experimental results demonstrate the high performance of the proposed method for the segmentation of digital images.

PMD2HD--a web tool aligning a PubMed search results page with the local German Cancer Research Centre library collection.

Science.gov (United States)

Bohne-Lang, Andreas; Lang, Elke; Taube, Anke

2005-06-27

Web-based searching is the accepted contemporary mode of retrieving relevant literature, and retrieving as many full text articles as possible is a typical prerequisite for research success. In most cases only a proportion of references will be directly accessible as digital reprints through displayed links. A large number of references, however, have to be verified in library catalogues and, depending on their availability, are accessible as print holdings or by interlibrary loan request. The problem of verifying local print holdings from an initial retrieval set of citations can be solved using Z39.50, an ANSI protocol for interactively querying library information systems. Numerous systems include Z39.50 interfaces and therefore can process Z39.50 interactive requests. However, the programmed query interaction command structure is non-intuitive and inaccessible to the average biomedical researcher. For the typical user, it is necessary to implement the protocol within a tool that hides and handles Z39.50 syntax, presenting a comfortable user interface. PMD2HD is a web tool implementing Z39.50 to provide an appropriately functional and usable interface to integrate into the typical workflow that follows an initial PubMed literature search, providing users with an immediate asset to assist in the most tedious step in literature retrieval, checking for subscription holdings against a local online catalogue. PMD2HD can facilitate literature access considerably with respect to the time and cost of manual comparisons of search results with local catalogue holdings. The example presented in this article is related to the library system and collections of the German Cancer Research Centre. However, the PMD2HD software architecture and use of common Z39.50 protocol commands allow for transfer to a broad range of scientific libraries using Z39.50-compatible library information systems.

Nature-inspired novel Cuckoo Search Algorithm for genome ...

Indian Academy of Sciences (India)

compared their results with other methods such as the genetic algorithm. ... It is a population-based search procedure used as an optimization tool, in ... In this section, the problem formulation, fitness evaluation, flowchart and implementation of the ..... Machine Learning 21: 11–33 ... Numerical Optimization 1: 330–343.

Quantum signature scheme based on a quantum search algorithm

International Nuclear Information System (INIS)

Yoon, Chun Seok; Kang, Min Sung; Lim, Jong In; Yang, Hyung Jin

2015-01-01

We present a quantum signature scheme based on a two-qubit quantum search algorithm. For secure transmission of signatures, we use a quantum search algorithm that has not been used in previous quantum signature schemes. A two-step protocol secures the quantum channel, and a trusted center guarantees non-repudiation that is similar to other quantum signature schemes. We discuss the security of our protocol. (paper)

GENECODIS-Grid: An online grid-based tool to predict functional information in gene lists

International Nuclear Information System (INIS)

Nogales, R.; Mejia, E.; Vicente, C.; Montes, E.; Delgado, A.; Perez Griffo, F. J.; Tirado, F.; Pascual-Montano, A.

2007-01-01

In this work we introduce GeneCodis-Grid, a grid-based alternative to a bioinformatics tool named Genecodis that integrates different sources of biological information to search for biological features (annotations) that frequently co-occur in a set of genes and rank them by statistical significance. GeneCodis-Grid is a web-based application that takes advantage of two independent grid networks and a computer cluster managed by a meta-scheduler and a web server that host the application. The mining of concurrent biological annotations provides significant information for the functional analysis of gene list obtained by high throughput experiments in biology. Due to the large popularity of this tool, that has registered more than 13000 visits since its publication in January 2007, there is a strong need to facilitate users from different sites to access the system simultaneously. In addition, the complexity of some of the statistical tests used in this approach has made this technique a good candidate for its implementation in a Grid opportunistic environment. (Author)

Cost Based Value Stream Mapping as a Sustainable Construction Tool for Underground Pipeline Construction Projects

Directory of Open Access Journals (Sweden)

Murat Gunduz

2017-11-01

Full Text Available This paper deals with application of Value Stream Mapping (VSM as a sustainable construction tool on a real construction project of installation of underground pipelines. VSM was adapted to reduce the high percentage of non-value-added activities and time wastes during each construction stage and the paper searched for an effective way to consider the cost for studied construction of underground pipeline. This paper is unique in its way that it adopts cost implementation of VSM to improve the productivity in underground pipeline projects. The data was observed and collected from site during construction, indicating the cycle time, value added and non-value added of each construction stage. The current state was built based on these details. This was an eye-opening exercise and a process management tool as a trigger for improvement. After the current state assessment, a future state is attempted by Value Stream Mapping tool balancing the resources using a Line of Balance (LOB technique. Moreover, a sustainable cost estimation model was developed during current state and future state to calculate the cost of underground pipeline construction. The result shows a cost reduction of 20.8% between current and future states. This reflects the importance of the cost based Value Stream Mapping in construction as a sustainable measurement tool. This new tool could be utilized in construction industry to add the sustainability and effective cost management.

Novel citation-based search method for scientific literature: application to meta-analyses

NARCIS (Netherlands)

Janssens, A.C.J.W.; Gwinn, M.

2015-01-01

Background: Finding eligible studies for meta-analysis and systematic reviews relies on keyword-based searching as the gold standard, despite its inefficiency. Searching based on direct citations is not sufficiently comprehensive. We propose a novel strategy that ranks articles on their degree of

Selecting a risk-based tool to aid in decision making

Energy Technology Data Exchange (ETDEWEB)

Bendure, A.O.

1995-03-01

Selecting a risk-based tool to aid in decision making is as much of a challenge as properly using the tool once it has been selected. Failure to consider customer and stakeholder requirements and the technical bases and differences in risk-based decision making tools will produce confounding and/or politically unacceptable results when the tool is used. Selecting a risk-based decisionmaking tool must therefore be undertaken with the same, if not greater, rigor than the use of the tool once it is selected. This paper presents a process for selecting a risk-based tool appropriate to a set of prioritization or resource allocation tasks, discusses the results of applying the process to four risk-based decision-making tools, and identifies the ``musts`` for successful selection and implementation of a risk-based tool to aid in decision making.

Order Tracking Based on Robust Peak Search Instantaneous Frequency Estimation

International Nuclear Information System (INIS)

Gao, Y; Guo, Y; Chi, Y L; Qin, S R

2006-01-01

Order tracking plays an important role in non-stationary vibration analysis of rotating machinery, especially to run-up or coast down. An instantaneous frequency estimation (IFE) based order tracking of rotating machinery is introduced. In which, a peak search algorithms of spectrogram of time-frequency analysis is employed to obtain IFE of vibrations. An improvement to peak search is proposed, which can avoid strong non-order components or noises disturbing to the peak search work. Compared with traditional methods of order tracking, IFE based order tracking is simplified in application and only software depended. Testing testify the validity of the method. This method is an effective supplement to traditional methods, and the application in condition monitoring and diagnosis of rotating machinery is imaginable

THE METHOD OF APPLICATION OF A COLLECTIVE SEARCH ACTIVITY AS A TOOL DEVELOPING METHODOLOGICAL THINKING OF A TEACHER

Directory of Open Access Journals (Sweden)

Ibragimova Luiza Vahaevna

2013-02-01

Full Text Available To realize any pedagogical theory into practice it is necessary to transform the theoretical concepts in teaching methods. The development of all abilities, including thinking, occurs only in the activity, which is specially organized by creating the required pedagogical conditions, in this case – it is a the application of enhanced mental activity in teachers training course and vocational training b establishment of a "virtual university" for teachers in an institute of professional training c the organization of interdisciplinary interaction of teachers, based on conditions of the nonlinear didactics (training teachers of different subjects. The presented method is implemented for two years and consists of three phases: the motivational and educational, intellectual and developmental, innovative and reflective. At the motivational and educational stage, possibilities of collective search activity actualize during the course of training, group goals are set and chosen methods of their achieving by using the first pedagogical conditions. At intellectual and developmental stage, the development of skills to the collective search for effective teaching decisions during intercourse training with the first-and second-pedagogical conditions is carried out. The innovative step is the promotion of teachers to self-determination of techniques and tools that improve the quality of the educational process, providing assistance to each other in the development of teaching manuals, which is achieved with the help of all three pedagogical conditions.

World Wide Web-based system for the calculation of substituent parameters and substituent similarity searches.

Science.gov (United States)

Ertl, P

1998-02-01

Easy to use, interactive, and platform-independent WWW-based tools are ideal for development of chemical applications. By using the newly emerging Web technologies such as Java applets and sophisticated scripting, it is possible to deliver powerful molecular processing capabilities directly to the desk of synthetic organic chemists. In Novartis Crop Protection in Basel, a Web-based molecular modelling system has been in use since 1995. In this article two new modules of this system are presented: a program for interactive calculation of important hydrophobic, electronic, and steric properties of organic substituents, and a module for substituent similarity searches enabling the identification of bioisosteric functional groups. Various possible applications of calculated substituent parameters are also discussed, including automatic design of molecules with the desired properties and creation of targeted virtual combinatorial libraries.

Update on CERN Search based on SharePoint 2013

Science.gov (United States)

Alvarez, E.; Fernandez, S.; Lossent, A.; Posada, I.; Silva, B.; Wagner, A.

2017-10-01

CERN’s enterprise Search solution “CERN Search” provides a central search solution for users and CERN service providers. A total of about 20 million public and protected documents from a wide range of document collections is indexed, including Indico, TWiki, Drupal, SharePoint, JACOW, E-group archives, EDMS, and CERN Web pages. In spring 2015, CERN Search was migrated to a new infrastructure based on SharePoint 2013. In the context of this upgrade, the document pre-processing and indexing process was redesigned and generalised. The new data feeding framework allows to profit from new functionality and it facilitates the long term maintenance of the system.

Epsilon-Q: An Automated Analyzer Interface for Mass Spectral Library Search and Label-Free Protein Quantification.

Science.gov (United States)

Cho, Jin-Young; Lee, Hyoung-Joo; Jeong, Seul-Ki; Paik, Young-Ki

2017-12-01

Mass spectrometry (MS) is a widely used proteome analysis tool for biomedical science. In an MS-based bottom-up proteomic approach to protein identification, sequence database (DB) searching has been routinely used because of its simplicity and convenience. However, searching a sequence DB with multiple variable modification options can increase processing time, false-positive errors in large and complicated MS data sets. Spectral library searching is an alternative solution, avoiding the limitations of sequence DB searching and allowing the detection of more peptides with high sensitivity. Unfortunately, this technique has less proteome coverage, resulting in limitations in the detection of novel and whole peptide sequences in biological samples. To solve these problems, we previously developed the "Combo-Spec Search" method, which uses manually multiple references and simulated spectral library searching to analyze whole proteomes in a biological sample. In this study, we have developed a new analytical interface tool called "Epsilon-Q" to enhance the functions of both the Combo-Spec Search method and label-free protein quantification. Epsilon-Q performs automatically multiple spectral library searching, class-specific false-discovery rate control, and result integration. It has a user-friendly graphical interface and demonstrates good performance in identifying and quantifying proteins by supporting standard MS data formats and spectrum-to-spectrum matching powered by SpectraST. Furthermore, when the Epsilon-Q interface is combined with the Combo-Spec search method, called the Epsilon-Q system, it shows a synergistic function by outperforming other sequence DB search engines for identifying and quantifying low-abundance proteins in biological samples. The Epsilon-Q system can be a versatile tool for comparative proteome analysis based on multiple spectral libraries and label-free quantification.

Tales from the Field: Search Strategies Applied in Web Searching

Directory of Open Access Journals (Sweden)

Soohyung Joo

2010-08-01

Full Text Available In their web search processes users apply multiple types of search strategies, which consist of different search tactics. This paper identifies eight types of information search strategies with associated cases based on sequences of search tactics during the information search process. Thirty-one participants representing the general public were recruited for this study. Search logs and verbal protocols offered rich data for the identification of different types of search strategies. Based on the findings, the authors further discuss how to enhance web-based information retrieval (IR systems to support each type of search strategy.

ATLAS searches for New Physics with Boosted Objects

CERN Multimedia

CERN. Geneva

2013-01-01

With the increase of energy and luminosity at the LHC, searches for new physics are focusing on the multi-TeV mass range. Decays of heavy resonances associated with new physics in this mass range often result in highly boosted very massive objects such as W/Z bosons or Top quarks. New reconstruction techniques, based on jet sub-structure algorithms, are needed to efficiently reconstruct such decay signatures. We will review recent ATLAS developments of jet sub-structure reconstruction tools, and their application to searches for physics beyond the Standard Model.

Search Method Based on Figurative Indexation of Folksonomic Features of Graphic Files

Directory of Open Access Journals (Sweden)

Oleg V. Bisikalo

2013-11-01

Full Text Available In this paper the search method based on usage of figurative indexation of folksonomic characteristics of graphical files is described. The method takes into account extralinguistic information, is based on using a model of figurative thinking of humans. The paper displays the creation of a method of searching image files based on their formal, including folksonomical clues.

Clinician search behaviors may be influenced by search engine design.

Science.gov (United States)

Lau, Annie Y S; Coiera, Enrico; Zrimec, Tatjana; Compton, Paul

2010-06-30

Searching the Web for documents using information retrieval systems plays an important part in clinicians' practice of evidence-based medicine. While much research focuses on the design of methods to retrieve documents, there has been little examination of the way different search engine capabilities influence clinician search behaviors. Previous studies have shown that use of task-based search engines allows for faster searches with no loss of decision accuracy compared with resource-based engines. We hypothesized that changes in search behaviors may explain these differences. In all, 75 clinicians (44 doctors and 31 clinical nurse consultants) were randomized to use either a resource-based or a task-based version of a clinical information retrieval system to answer questions about 8 clinical scenarios in a controlled setting in a university computer laboratory. Clinicians using the resource-based system could select 1 of 6 resources, such as PubMed; clinicians using the task-based system could select 1 of 6 clinical tasks, such as diagnosis. Clinicians in both systems could reformulate search queries. System logs unobtrusively capturing clinicians' interactions with the systems were coded and analyzed for clinicians' search actions and query reformulation strategies. The most frequent search action of clinicians using the resource-based system was to explore a new resource with the same query, that is, these clinicians exhibited a "breadth-first" search behaviour. Of 1398 search actions, clinicians using the resource-based system conducted 401 (28.7%, 95% confidence interval [CI] 26.37-31.11) in this way. In contrast, the majority of clinicians using the task-based system exhibited a "depth-first" search behavior in which they reformulated query keywords while keeping to the same task profiles. Of 585 search actions conducted by clinicians using the task-based system, 379 (64.8%, 95% CI 60.83-68.55) were conducted in this way. This study provides evidence that

Software Tools Streamline Project Management

Science.gov (United States)

2009-01-01

Three innovative software inventions from Ames Research Center (NETMARK, Program Management Tool, and Query-Based Document Management) are finding their way into NASA missions as well as industry applications. The first, NETMARK, is a program that enables integrated searching of data stored in a variety of databases and documents, meaning that users no longer have to look in several places for related information. NETMARK allows users to search and query information across all of these sources in one step. This cross-cutting capability in information analysis has exponentially reduced the amount of time needed to mine data from days or weeks to mere seconds. NETMARK has been used widely throughout NASA, enabling this automatic integration of information across many documents and databases. NASA projects that use NETMARK include the internal reporting system and project performance dashboard, Erasmus, NASA s enterprise management tool, which enhances organizational collaboration and information sharing through document routing and review; the Integrated Financial Management Program; International Space Station Knowledge Management; Mishap and Anomaly Information Reporting System; and management of the Mars Exploration Rovers. Approximately $1 billion worth of NASA s projects are currently managed using Program Management Tool (PMT), which is based on NETMARK. PMT is a comprehensive, Web-enabled application tool used to assist program and project managers within NASA enterprises in monitoring, disseminating, and tracking the progress of program and project milestones and other relevant resources. The PMT consists of an integrated knowledge repository built upon advanced enterprise-wide database integration techniques and the latest Web-enabled technologies. The current system is in a pilot operational mode allowing users to automatically manage, track, define, update, and view customizable milestone objectives and goals. The third software invention, Query-Based

Neutral Supersymmetric Higgs Boson Searches

Energy Technology Data Exchange (ETDEWEB)

Robinson, Stephen Luke [Imperial College, London (United Kingdom)

2008-07-01

In some Supersymmetric extensions of the Standard Model, including the Minimal Supersymmetric Standard Model (MSSM), the coupling of Higgs bosons to b-quarks is enhanced. This enhancement makes the associated production of the Higgs with b-quarks an interesting search channel for the Higgs and Supersymmetry at D0. The identification of b-quarks, both online and offline, is essential to this search effort. This thesis describes the author's involvement in the development of both types of b-tagging and in the application of these techniques to the MSSM Higgs search. Work was carried out on the Level-3 trigger b-tagging algorithms. The impact parameter (IP) b-tagger was retuned and the effects of increased instantaneous luminosity on the tagger were studied. An extension of the IP-tagger to use the z-tracking information was developed. A new b-tagger using secondary vertices was developed and commissioned. A tool was developed to allow the use of large multi-run samples for trigger studies involving b-quarks. Offline, a neural network (NN) b-tagger was trained combining the existing offline lifetime based b-tagging tools. The efficiency and fake rate of the NN b-tagger were measured in data and MC. This b-tagger was internally reviewed and certified by the Collaboration and now provides the official b-tagging for all analyses using the Run IIa dataset at D0. A search was performed for neutral MSSM Higgs bosons decaying to a b{bar b} pair and produced in association with one or more b-quarks. Limits are set on the cross-section times the branching ratio for such a process. The limits were interpreted in various MSSM scenarios. This analysis uses the NN b-tagger and was the first to use this tool. The analysis also relies on triggers using the Level-3 IP b-tagging tool described previously. A likelihood discriminant was used to improve the analysis and a neural network was developed to cross-check this technique. The result of the analysis has been submitted to PRL

A Full-Text-Based Search Engine for Finding Highly Matched Documents Across Multiple Categories

Science.gov (United States)

Nguyen, Hung D.; Steele, Gynelle C.

2016-01-01

This report demonstrates the full-text-based search engine that works on any Web-based mobile application. The engine has the capability to search databases across multiple categories based on a user's queries and identify the most relevant or similar. The search results presented here were found using an Android (Google Co.) mobile device; however, it is also compatible with other mobile phones.

Global Search Trends of Oral Problems using Google Trends from 2004 to 2016: An Exploratory Analysis.

Science.gov (United States)

Patthi, Basavaraj; Kumar, Jishnu Krishna; Singla, Ashish; Gupta, Ritu; Prasad, Monika; Ali, Irfan; Dhama, Kuldeep; Niraj, Lav Kumar

2017-09-01

Oral diseases are pandemic cause of morbidity with widespread geographic distribution. This technology based era has brought about easy knowledge transfer than traditional dependency on information obtained from family doctors. Hence, harvesting this system of trends can aid in oral disease quantification. To conduct an exploratory analysis of the changes in internet search volumes of oral diseases by using Google Trends © (GT © ). GT © were utilized to provide real world facts based on search terms related to categories, interest by region and interest over time. Time period chosen was from January 2004 to December 2016. Five different search terms were explored and compared based on the highest relative search volumes along with comma separated value files to obtain an insight into highest search traffic. The search volume measured over the time span noted the term "Dental caries" to be the most searched in Japan, "Gingivitis" in Jordan, "Oral Cancer" in Taiwan, "No Teeth" in Australia, "HIV symptoms" in Zimbabwe, "Broken Teeth" in United Kingdom, "Cleft palate" in Philippines, "Toothache" in Indonesia and the comparison of top five searched terms provided the "Gingivitis" with highest search volume. The results from the present study offers an insight into a competent tool that can analyse and compare oral diseases over time. The trend research platform can be used on emerging diseases and their drift in geographic population with great acumen. This tool can be utilized in forecasting, modulating marketing strategies and planning disability limitation techniques.

A product feature-based user-centric product search model

OpenAIRE

Ben Jabeur, Lamjed; Soulier, Laure; Tamine, Lynda; Mousset, Paul

2016-01-01

During the online shopping process, users would search for interesting products and quickly access those that fit with their needs among a long tail of similar or closely related products. Our contribution addresses head queries that are frequently submitted on e-commerce Web sites. Head queries usually target featured products with several variations, accessories, and complementary products. We present in this paper a product feature-based user-centric model for product search involving in a...

Water Pollution Search | ECHO | US EPA

Science.gov (United States)

The Water Pollution Search within the Water Pollutant Loading Tool gives users options to search for pollutant loading information from Discharge Monitoring Report (DMR) and Toxic Release Inventory (TRI) data.

Heuristic Search Theory and Applications

CERN Document Server

Edelkamp, Stefan

2011-01-01

Search has been vital to artificial intelligence from the very beginning as a core technique in problem solving. The authors present a thorough overview of heuristic search with a balance of discussion between theoretical analysis and efficient implementation and application to real-world problems. Current developments in search such as pattern databases and search with efficient use of external memory and parallel processing units on main boards and graphics cards are detailed. Heuristic search as a problem solving tool is demonstrated in applications for puzzle solving, game playing, constra

Livestock associated epidemiological information profiling in New Sandwip Island (Jahajerchar of the Meghna estuary, Noakhali using participatory disease searching tool

Directory of Open Access Journals (Sweden)

SK Shaheenur Islam

2017-09-01

Conclusion: This place is potential for sheep and buffalo raising rather than cattle. The study has validated the significance of accepting participatory disease searching tool in order to capture voluntarily submitted epidemiological data towards establishing a cost effective, unique national disease surveillance system in Bangladesh. [J Adv Vet Anim Res 2017; 4(3.000: 267-273

Proceedings of the ECIR 2012 Workshop on Task-Based and Aggregated Search (TBAS2012)

DEFF Research Database (Denmark)

2012-01-01

Task-based search aims to understand the user's current task and desired outcomes, and how this may provide useful context for the Information Retrieval (IR) process. An example of task-based search is situations where additional user information on e.g. the purpose of the search or what the user...

IPeak: An open source tool to combine results from multiple MS/MS search engines.

Science.gov (United States)

Wen, Bo; Du, Chaoqin; Li, Guilin; Ghali, Fawaz; Jones, Andrew R; Käll, Lukas; Xu, Shaohang; Zhou, Ruo; Ren, Zhe; Feng, Qiang; Xu, Xun; Wang, Jun

2015-09-01

Liquid chromatography coupled tandem mass spectrometry (LC-MS/MS) is an important technique for detecting peptides in proteomics studies. Here, we present an open source software tool, termed IPeak, a peptide identification pipeline that is designed to combine the Percolator post-processing algorithm and multi-search strategy to enhance the sensitivity of peptide identifications without compromising accuracy. IPeak provides a graphical user interface (GUI) as well as a command-line interface, which is implemented in JAVA and can work on all three major operating system platforms: Windows, Linux/Unix and OS X. IPeak has been designed to work with the mzIdentML standard from the Proteomics Standards Initiative (PSI) as an input and output, and also been fully integrated into the associated mzidLibrary project, providing access to the overall pipeline, as well as modules for calling Percolator on individual search engine result files. The integration thus enables IPeak (and Percolator) to be used in conjunction with any software packages implementing the mzIdentML data standard. IPeak is freely available and can be downloaded under an Apache 2.0 license at https://code.google.com/p/mzidentml-lib/. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Global polar geospatial information service retrieval based on search engine and ontology reasoning

Science.gov (United States)

Chen, Nengcheng; E, Dongcheng; Di, Liping; Gong, Jianya; Chen, Zeqiang

2007-01-01

In order to improve the access precision of polar geospatial information service on web, a new methodology for retrieving global spatial information services based on geospatial service search and ontology reasoning is proposed, the geospatial service search is implemented to find the coarse service from web, the ontology reasoning is designed to find the refined service from the coarse service. The proposed framework includes standardized distributed geospatial web services, a geospatial service search engine, an extended UDDI registry, and a multi-protocol geospatial information service client. Some key technologies addressed include service discovery based on search engine and service ontology modeling and reasoning in the Antarctic geospatial context. Finally, an Antarctica multi protocol OWS portal prototype based on the proposed methodology is introduced.

Inference-Based Similarity Search in Randomized Montgomery Domains for Privacy-Preserving Biometric Identification.

Science.gov (United States)

Wang, Yi; Wan, Jianwu; Guo, Jun; Cheung, Yiu-Ming; C Yuen, Pong

2017-07-14

Similarity search is essential to many important applications and often involves searching at scale on high-dimensional data based on their similarity to a query. In biometric applications, recent vulnerability studies have shown that adversarial machine learning can compromise biometric recognition systems by exploiting the biometric similarity information. Existing methods for biometric privacy protection are in general based on pairwise matching of secured biometric templates and have inherent limitations in search efficiency and scalability. In this paper, we propose an inference-based framework for privacy-preserving similarity search in Hamming space. Our approach builds on an obfuscated distance measure that can conceal Hamming distance in a dynamic interval. Such a mechanism enables us to systematically design statistically reliable methods for retrieving most likely candidates without knowing the exact distance values. We further propose to apply Montgomery multiplication for generating search indexes that can withstand adversarial similarity analysis, and show that information leakage in randomized Montgomery domains can be made negligibly small. Our experiments on public biometric datasets demonstrate that the inference-based approach can achieve a search accuracy close to the best performance possible with secure computation methods, but the associated cost is reduced by orders of magnitude compared to cryptographic primitives.

Cluster-based DBMS Management Tool with High-Availability

Directory of Open Access Journals (Sweden)

Jae-Woo Chang

2005-02-01

Full Text Available A management tool which is needed for monitoring and managing cluster-based DBMSs has been little studied. So, we design and implement a cluster-based DBMS management tool with high-availability that monitors the status of nodes in a cluster system as well as the status of DBMS instances in a node. The tool enables users to recognize a single virtual system image and provides them with the status of all the nodes and resources in the system by using a graphic user interface (GUI. By using a load balancer, our management tool can increase the performance of a cluster-based DBMS as well as can overcome the limitation of the existing parallel DBMSs.

Process-Based Quality (PBQ) Tools Development

Energy Technology Data Exchange (ETDEWEB)

Cummins, J.L.

2001-12-03

The objective of this effort is to benchmark the development of process-based quality tools for application in CAD (computer-aided design) model-based applications. The processes of interest are design, manufacturing, and quality process applications. A study was commissioned addressing the impact, current technologies, and known problem areas in application of 3D MCAD (3-dimensional mechanical computer-aided design) models and model integrity on downstream manufacturing and quality processes. The downstream manufacturing and product quality processes are profoundly influenced and dependent on model quality and modeling process integrity. The goal is to illustrate and expedite the modeling and downstream model-based technologies for available or conceptual methods and tools to achieve maximum economic advantage and advance process-based quality concepts.

THE METHOD OF APPLICATION OF A COLLECTIVE SEARCH ACTIVITY AS A TOOL DEVELOPING METHODOLOGICAL THINKING OF A TEACHER

Directory of Open Access Journals (Sweden)

Луиза Вахаевна Ибрагимова

2013-04-01

Full Text Available To realize any pedagogical theory into practice it is necessary to transform the theoretical concepts in teaching methods. The development of all abilities, including thinking, occurs only in the activity, which is specially organized by creating the required pedagogical conditions, in this case – it is a the application of enhanced mental activity in teachers training course and vocational training b establishment of a "virtual university" for teachers in an institute of professional training c the organization of interdisciplinary interaction of teachers, based on conditions of the nonlinear didactics (training teachers of different subjects. The presented method is implemented for two years and consists of three phases: the motivational and educational, intellectual and developmental, innovative and reflective. At the motivational and educational stage, possibilities of collective search activity actualize during the course of training, group goals are set and chosen methods of their achieving by using the first pedagogical conditions. At intellectual and developmental stage, the development of skills to the collective search for effective teaching decisions during intercourse training with the first-and second-pedagogical conditions is carried out. The innovative step is the promotion of teachers to self-determination of techniques and tools that improve the quality of the educational process, providing assistance to each other in the development of teaching manuals, which is achieved with the help of all three pedagogical conditions.DOI: http://dx.doi.org/10.12731/2218-7405-2013-2-17

COSMID: A Web-based Tool for Identifying and Validating CRISPR/Cas Off-target Sites

Directory of Open Access Journals (Sweden)

Thomas J Cradick

2014-01-01

Full Text Available Precise genome editing using engineered nucleases can significantly facilitate biological studies and disease treatment. In particular, clustered regularly interspaced short palindromic repeats (CRISPR with CRISPR-associated (Cas proteins are a potentially powerful tool for modifying a genome by targeted cleavage of DNA sequences complementary to designed guide strand RNAs. Although CRISPR/Cas systems can have on-target cleavage rates close to the transfection rates, they may also have relatively high off-target cleavage at similar genomic sites that contain one or more base pair mismatches, and insertions or deletions relative to the guide strand. We have developed a bioinformatics-based tool, COSMID (CRISPR Off-target Sites with Mismatches, Insertions, and Deletions that searches genomes for potential off-target sites (http://crispr.bme.gatech.edu. Based on the user-supplied guide strand and input parameters, COSMID identifies potential off-target sites with the specified number of mismatched bases and insertions or deletions when compared with the guide strand. For each site, amplification primers optimal for the chosen application are also given as output. This ranked-list of potential off-target sites assists the choice and evaluation of intended target sites, thus helping the design of CRISPR/Cas systems with minimal off-target effects, as well as the identification and quantification of CRISPR/Cas induced off-target cleavage in cells.

SearchResultFinder: federated search made easy

NARCIS (Netherlands)

Trieschnigg, Rudolf Berend; Tjin-Kam-Jet, Kien; Hiemstra, Djoerd

Building a federated search engine based on a large number existing web search engines is a challenge: implementing the programming interface (API) for each search engine is an exacting and time-consuming job. In this demonstration we present SearchResultFinder, a browser plugin which speeds up

Computer-Assisted Search Of Large Textual Data Bases

Science.gov (United States)

Driscoll, James R.

1995-01-01

"QA" denotes high-speed computer system for searching diverse collections of documents including (but not limited to) technical reference manuals, legal documents, medical documents, news releases, and patents. Incorporates previously available and emerging information-retrieval technology to help user intelligently and rapidly locate information found in large textual data bases. Technology includes provision for inquiries in natural language; statistical ranking of retrieved information; artificial-intelligence implementation of semantics, in which "surface level" knowledge found in text used to improve ranking of retrieved information; and relevance feedback, in which user's judgements of relevance of some retrieved documents used automatically to modify search for further information.

How Users Search the Mobile Web: A Model for Understanding the Impact of Motivation and Context on Search Behaviors

Directory of Open Access Journals (Sweden)

Dan Wu

2016-03-01

Full Text Available Purpose: This study explores how search motivation and context influence mobile Web search behaviors. Design/methodology/approach: We studied 30 experienced mobile Web users via questionnaires, semi-structured interviews, and an online diary tool that participants used to record their daily search activities. SQLite Developer was used to extract data from the users' phone logs for correlation analysis in Statistical Product and Service Solutions (SPSS. Findings: One quarter of mobile search sessions were driven by two or more search motivations. It was especially difficult to distinguish curiosity from time killing in particular user reporting. Multi-dimensional contexts and motivations influenced mobile search behaviors, and among the context dimensions, gender, place, activities they engaged in while searching, task importance, portal, and interpersonal relations (whether accompanied or alone when searching correlated with each other. Research limitations: The sample was comprised entirely of college students, so our findings may not generalize to other populations. More participants and longer experimental duration will improve the accuracy and objectivity of the research. Practical implications: Motivation analysis and search context recognition can help mobile service providers design applications and services for particular mobile contexts and usages. Originality/value: Most current research focuses on specific contexts, such as studies on place, or other contextual influences on mobile search, and lacks a systematic analysis of mobile search context. Based on analysis of the impact of mobile search motivations and search context on search behaviors, we built a multi-dimensional model of mobile search behaviors.

OS2: Oblivious similarity based searching for encrypted data outsourced to an untrusted domain

Science.gov (United States)

Pervez, Zeeshan; Ahmad, Mahmood; Khattak, Asad Masood; Ramzan, Naeem

2017-01-01

Public cloud storage services are becoming prevalent and myriad data sharing, archiving and collaborative services have emerged which harness the pay-as-you-go business model of public cloud. To ensure privacy and confidentiality often encrypted data is outsourced to such services, which further complicates the process of accessing relevant data by using search queries. Search over encrypted data schemes solve this problem by exploiting cryptographic primitives and secure indexing to identify outsourced data that satisfy the search criteria. Almost all of these schemes rely on exact matching between the encrypted data and search criteria. A few schemes which extend the notion of exact matching to similarity based search, lack realism as those schemes rely on trusted third parties or due to increase storage and computational complexity. In this paper we propose Oblivious Similarity based Search (OS2) for encrypted data. It enables authorized users to model their own encrypted search queries which are resilient to typographical errors. Unlike conventional methodologies, OS2 ranks the search results by using similarity measure offering a better search experience than exact matching. It utilizes encrypted bloom filter and probabilistic homomorphic encryption to enable authorized users to access relevant data without revealing results of search query evaluation process to the untrusted cloud service provider. Encrypted bloom filter based search enables OS2 to reduce search space to potentially relevant encrypted data avoiding unnecessary computation on public cloud. The efficacy of OS2 is evaluated on Google App Engine for various bloom filter lengths on different cloud configurations. PMID:28692697

Development and Validation of a Self-reported Questionnaire for Measuring Internet Search Dependence.

Science.gov (United States)

Wang, Yifan; Wu, Lingdan; Zhou, Hongli; Xu, Jiaojing; Dong, Guangheng

2016-01-01

Internet search has become the most common way that people deal with issues and problems in everyday life. The wide use of Internet search has largely changed the way people search for and store information. There is a growing interest in the impact of Internet search on users' affect, cognition, and behavior. Thus, it is essential to develop a tool to measure the changes in psychological characteristics as a result of long-term use of Internet search. The aim of this study is to develop a Questionnaire on Internet Search Dependence (QISD) and test its reliability and validity. We first proposed a preliminary structure and items of the QISD based on literature review, supplemental investigations, and interviews. And then, we assessed the psychometric properties and explored the factor structure of the initial version via exploratory factor analysis (EFA). The EFA results indicated that four dimensions of the QISD were very reliable, i.e., habitual use of Internet search, withdrawal reaction, Internet search trust, and external storage under Internet search. Finally, we tested the factor solution obtained from EFA through confirmatory factor analysis (CFA). The results of CFA confirmed that the four dimensions model fits the data well. In all, this study suggests that the 12-item QISD is of high reliability and validity and can serve as a preliminary tool to measure the features of Internet search dependence.

Development and Validation of a Self-reported Questionnaire for Measuring Internet Search Dependence

Directory of Open Access Journals (Sweden)

Yifan Wang

2016-12-01

Full Text Available Internet search has become the most common way that people deal with issues and problems in everyday life. The wide use of Internet search has largely changed the way people search for and store information. There is a growing interest in the impact of Internet search on users’ affect, cognition and behavior. Thus, it is essential to develop a tool to measure the changes in psychological characteristics as a result of long-term use of Internet search. The present study aimed to develop a Questionnaire on Internet Search Dependence (QISD, and test its reliability and validity. We first proposed a preliminary structure and items of the QISD based on literature review, supplemental investigations, and interviews. And then, we assessed the psychometric properties and explored the factor structure of the initial version via exploratory factor analysis (EFA. The EFA results indicated that four dimensions of the QISD were very reliable, i.e., habitual use of Internet search, withdrawal reaction, Internet search trust and external storage under Internet search. Lastly, we tested the factor solution obtained from EFA through confirmatory factor analysis (CFA. The results of CFA confirmed that the four dimensions model fits the data well. In all, the present study suggests that the 12-item QISD is of high reliability and validity, and can serve as a preliminary tool to measure the features of Internet search dependence.

Infodemiology of status epilepticus: A systematic validation of the Google Trends-based search queries.

Science.gov (United States)

Bragazzi, Nicola Luigi; Bacigaluppi, Susanna; Robba, Chiara; Nardone, Raffaele; Trinka, Eugen; Brigo, Francesco

2016-02-01

People increasingly use Google looking for health-related information. We previously demonstrated that in English-speaking countries most people use this search engine to obtain information on status epilepticus (SE) definition, types/subtypes, and treatment. Now, we aimed at providing a quantitative analysis of SE-related web queries. This analysis represents an advancement, with respect to what was already previously discussed, in that the Google Trends (GT) algorithm has been further refined and correlational analyses have been carried out to validate the GT-based query volumes. Google Trends-based SE-related query volumes were well correlated with information concerning causes and pharmacological and nonpharmacological treatments. Google Trends can provide both researchers and clinicians with data on realities and contexts that are generally overlooked and underexplored by classic epidemiology. In this way, GT can foster new epidemiological studies in the field and can complement traditional epidemiological tools. Copyright © 2015 Elsevier Inc. All rights reserved.

Pro SharePoint 2010 Search

CERN Document Server

Noble, J; Bakman-Mikalski, Dan

2011-01-01

Pro SharePoint 2010 Search gives you expert advice on planning, deploying and customizing searches in SharePoint 2010. Drawing on the authors' extensive experience of working with real-world SharePoint deployments, this book teaches everything you'll need to know to create well-designed SharePoint solutions that always keep the end-user's experience in mind. Increase your search efficiency with SharePoint 2010's search functionality: extend the search user interface using third-party tools, and utilize analytics to improve relevancy. This practical hands-on book is a must-have resource for any

Evidence Based Management as a Tool for Special Libraries

Directory of Open Access Journals (Sweden)

Bill Fisher

2007-12-01

Full Text Available Objective ‐ To examine the evidence based management literature, as an example of evidence based practice, and determine how applicable evidence based management might be in the special library environment. Methods ‐ Recent general management literature and the subject‐focused literature of evidence based management were reviewed; likewise recent library/information science management literature and the subject‐focused literature of evidence based librarianshipwere reviewed to identify relevant examples of the introduction and use of evidence based practice in organizations. Searches were conducted in major business/management databases, major library/information science databases, and relevant Web sites, blogs and wikis. Citation searches on key articles and follow‐up searches on cited references were also conducted. Analysis of the retrieved literature was conducted to find similarities and/or differences between the management literature and the library/information scienceliterature, especially as it related to special libraries.Results ‐ The barriers to introducing evidence based management into most organizations were found to apply to many special libraries and are similar to issues involved with evidence based practice in librarianship in general. Despite these barriers, a set of resources to assist special librarians in accessing research‐based information to help them use principles of evidence based management is identified.Conclusion ‐ While most special librarians are faced with a number of barriers to using evidence based management, resources do exist to help overcome these obstacles.

From people to entities new semantic search paradigms for the web

CERN Document Server

Demartini, G

2014-01-01

The exponential growth of digital information available in companies and on the Web creates the need for search tools that can respond to the most sophisticated information needs. Many user tasks would be simplified if Search Engines would support typed search, and return entities instead of just Web documents. For example, an executive who tries to solve a problem needs to find people in the company who are knowledgeable about a certain topic.In the first part of the book, we propose a model for expert finding based on the well-consolidated vector space model for Information Retrieval and inv

Personalizing Web Search based on User Profile

OpenAIRE

Utage, Sharyu; Ahire, Vijaya

2016-01-01

Web Search engine is most widely used for information retrieval from World Wide Web. These Web Search engines help user to find most useful information. When different users Searches for same information, search engine provide same result without understanding who is submitted that query. Personalized web search it is search technique for proving useful result. This paper models preference of users as hierarchical user profiles. a framework is proposed called UPS. It generalizes profile and m...

Optimization process planning using hybrid genetic algorithm and intelligent search for job shop machining.

Science.gov (United States)

Salehi, Mojtaba; Bahreininejad, Ardeshir

2011-08-01

Optimization of process planning is considered as the key technology for computer-aided process planning which is a rather complex and difficult procedure. A good process plan of a part is built up based on two elements: (1) the optimized sequence of the operations of the part; and (2) the optimized selection of the machine, cutting tool and Tool Access Direction (TAD) for each operation. In the present work, the process planning is divided into preliminary planning, and secondary/detailed planning. In the preliminary stage, based on the analysis of order and clustering constraints as a compulsive constraint aggregation in operation sequencing and using an intelligent searching strategy, the feasible sequences are generated. Then, in the detailed planning stage, using the genetic algorithm which prunes the initial feasible sequences, the optimized operation sequence and the optimized selection of the machine, cutting tool and TAD for each operation based on optimization constraints as an additive constraint aggregation are obtained. The main contribution of this work is the optimization of sequence of the operations of the part, and optimization of machine selection, cutting tool and TAD for each operation using the intelligent search and genetic algorithm simultaneously.

Noesis: Ontology based Scoped Search Engine and Resource Aggregator for Atmospheric Science

Science.gov (United States)

Ramachandran, R.; Movva, S.; Li, X.; Cherukuri, P.; Graves, S.

2006-12-01

The goal for search engines is to return results that are both accurate and complete. The search engines should find only what you really want and find everything you really want. Search engines (even meta search engines) lack semantics. The basis for search is simply based on string matching between the user's query term and the resource database and the semantics associated with the search string is not captured. For example, if an atmospheric scientist is searching for "pressure" related web resources, most search engines return inaccurate results such as web resources related to blood pressure. In this presentation Noesis, which is a meta-search engine and a resource aggregator that uses domain ontologies to provide scoped search capabilities will be described. Noesis uses domain ontologies to help the user scope the search query to ensure that the search results are both accurate and complete. The domain ontologies guide the user to refine their search query and thereby reduce the user's burden of experimenting with different search strings. Semantics are captured by refining the query terms to cover synonyms, specializations, generalizations and related concepts. Noesis also serves as a resource aggregator. It categorizes the search results from different online resources such as education materials, publications, datasets, web search engines that might be of interest to the user.

The role of space and time in object-based visual search

NARCIS (Netherlands)

Schreij, D.B.B.; Olivers, C.N.L.

2013-01-01

Recently we have provided evidence that observers more readily select a target from a visual search display if the motion trajectory of the display object suggests that the observer has dealt with it before. Here we test the prediction that this object-based memory effect on search breaks down if

Uncovering Web search strategies in South African higher education

Directory of Open Access Journals (Sweden)

Surika Civilcharran

2016-11-01

Full Text Available Background: In spite of the enormous amount of information available on the Web and the fact that search engines are continuously evolving to enhance the search experience, students are nevertheless faced with the difficulty of effectively retrieving information. It is, therefore, imperative for the interaction between students and search tools to be understood and search strategies to be identified, in order to promote successful information retrieval. Objectives: This study identifies the Web search strategies used by postgraduate students and forms part of a wider study into information retrieval strategies used by postgraduate students at the University of KwaZulu-Natal (UKZN, Pietermaritzburg campus, South Africa. Method: Largely underpinned by Thatcher’s cognitive search strategies, the mixed-methods approach was utilised for this study, in which questionnaires were employed in Phase 1 and structured interviews in Phase 2. This article reports and reflects on the findings of Phase 2, which focus on identifying the Web search strategies employed by postgraduate students. The Phase 1 results were reported in Civilcharran, Hughes and Maharaj (2015. Results: Findings reveal the Web search strategies used for academic information retrieval. In spite of easy access to the invisible Web and the advent of meta-search engines, the use of Web search engines still remains the preferred search tool. The UKZN online library databases and especially the UKZN online library, Online Public Access Catalogue system, are being underutilised. Conclusion: Being ranked in the top three percent of the world’s universities, UKZN is investing in search tools that are not being used to their full potential. This evidence suggests an urgent need for students to be trained in Web searching and to have a greater exposure to a variety of search tools. This article is intended to further contribute to the design of undergraduate training programmes in order to deal

RNA motif search with data-driven element ordering.

Science.gov (United States)

Rampášek, Ladislav; Jimenez, Randi M; Lupták, Andrej; Vinař, Tomáš; Brejová, Broňa

2016-05-18

In this paper, we study the problem of RNA motif search in long genomic sequences. This approach uses a combination of sequence and structure constraints to uncover new distant homologs of known functional RNAs. The problem is NP-hard and is traditionally solved by backtracking algorithms. We have designed a new algorithm for RNA motif search and implemented a new motif search tool RNArobo. The tool enhances the RNAbob descriptor language, allowing insertions in helices, which enables better characterization of ribozymes and aptamers. A typical RNA motif consists of multiple elements and the running time of the algorithm is highly dependent on their ordering. By approaching the element ordering problem in a principled way, we demonstrate more than 100-fold speedup of the search for complex motifs compared to previously published tools. We have developed a new method for RNA motif search that allows for a significant speedup of the search of complex motifs that include pseudoknots. Such speed improvements are crucial at a time when the rate of DNA sequencing outpaces growth in computing. RNArobo is available at http://compbio.fmph.uniba.sk/rnarobo .

Differential Search Coils Based Magnetometers: Conditioning, Magnetic Sensitivity, Spatial Resolution

Directory of Open Access Journals (Sweden)

Timofeeva Maria

2012-03-01

Full Text Available A theoretical and experimental comparison of optimized search coils based magnetometers, operating either in the Flux mode or in the classical Lenz-Faraday mode, is presented. The improvements provided by the Flux mode in terms of bandwidth and measuring range of the sensor are detailed. Theory, SPICE model and measurements are in good agreement. The spatial resolution of the sensor is studied which is an important parameter for applications in non destructive evaluation. A general expression of the magnetic sensitivity of search coils sensors is derived. Solutions are proposed to design magnetometers with reduced weight and volume without degrading the magnetic sensitivity. An original differential search coil based magnetometer, made of coupled coils, operating in flux mode and connected to a differential transimpedance amplifier is proposed. It is shown that this structure is better in terms of volume occupancy than magnetometers using two separated coils without any degradation in magnetic sensitivity. Experimental results are in good agreement with calculations.

Search Engine Optimization

CERN Document Server

Davis, Harold

2006-01-01

SEO--short for Search Engine Optimization--is the art, craft, and science of driving web traffic to web sites. Web traffic is food, drink, and oxygen--in short, life itself--to any web-based business. Whether your web site depends on broad, general traffic, or high-quality, targeted traffic, this PDF has the tools and information you need to draw more traffic to your site. You'll learn how to effectively use PageRank (and Google itself); how to get listed, get links, and get syndicated; and much more. The field of SEO is expanding into all the possible ways of promoting web traffic. This

COREMIC: a web-tool to search for a niche associated CORE MICrobiome

Directory of Open Access Journals (Sweden)

Richard R. Rodrigues

2018-02-01

Full Text Available Microbial diversity on earth is extraordinary, and soils alone harbor thousands of species per gram of soil. Understanding how this diversity is sorted and selected into habitat niches is a major focus of ecology and biotechnology, but remains only vaguely understood. A systems-biology approach was used to mine information from databases to show how it can be used to answer questions related to the core microbiome of habitat-microbe relationships. By making use of the burgeoning growth of information from databases, our tool “COREMIC” meets a great need in the search for understanding niche partitioning and habitat-function relationships. The work is unique, furthermore, because it provides a user-friendly statistically robust web-tool (http://coremic2.appspot.com or http://core-mic.com, developed using Google App Engine, to help in the process of database mining to identify the “core microbiome” associated with a given habitat. A case study is presented using data from 31 switchgrass rhizosphere community habitats across a diverse set of soil and sampling environments. The methodology utilizes an outgroup of 28 non-switchgrass (other grasses and forbs to identify a core switchgrass microbiome. Even across a diverse set of soils (five environments, and conservative statistical criteria (presence in more than 90% samples and FDR q-val <0.05% for Fisher’s exact test a core set of bacteria associated with switchgrass was observed. These included, among others, closely related taxa from Lysobacter spp., Mesorhizobium spp, and Chitinophagaceae. These bacteria have been shown to have functions related to the production of bacterial and fungal antibiotics and plant growth promotion. COREMIC can be used as a hypothesis generating or confirmatory tool that shows great potential for identifying taxa that may be important to the functioning of a habitat (e.g. host plant. The case study, in conclusion, shows that COREMIC can identify key habitat

Optimal Search Strategy of Robotic Assembly Based on Neural Vibration Learning

Directory of Open Access Journals (Sweden)

Lejla Banjanovic-Mehmedovic

2011-01-01

Full Text Available This paper presents implementation of optimal search strategy (OSS in verification of assembly process based on neural vibration learning. The application problem is the complex robot assembly of miniature parts in the example of mating the gears of one multistage planetary speed reducer. Assembly of tube over the planetary gears was noticed as the most difficult problem of overall assembly. The favourable influence of vibration and rotation movement on compensation of tolerance was also observed. With the proposed neural-network-based learning algorithm, it is possible to find extended scope of vibration state parameter. Using optimal search strategy based on minimal distance path between vibration parameter stage sets (amplitude and frequencies of robots gripe vibration and recovery parameter algorithm, we can improve the robot assembly behaviour, that is, allow the fastest possible way of mating. We have verified by using simulation programs that search strategy is suitable for the situation of unexpected events due to uncertainties.

Integration of ROOT Notebooks as an ATLAS analysis web-based tool in outreach and public data release

CERN Document Server

Sanchez, Arturo; The ATLAS collaboration

2016-01-01

The integration of the ROOT data analysis framework with the Jupyter Notebook technology presents an incredible potential in the enhance and expansion of educational and training programs: starting from university students in their early years, passing to new ATLAS PhD students and post doctoral researchers, to those senior analysers and professors that want to restart their contact with the analysis of data or to include a more friendly but yet very powerful open source tool in the classroom. Such tools have been already tested in several environments and a fully web-based integration together with Open Access Data repositories brings the possibility to go a step forward in the search of ATLAS for integration between several CERN projects in the field of the education and training, developing new computing solutions on the way.

GPU-BSM: a GPU-based tool to map bisulfite-treated reads.

Directory of Open Access Journals (Sweden)

Andrea Manconi

Full Text Available Cytosine DNA methylation is an epigenetic mark implicated in several biological processes. Bisulfite treatment of DNA is acknowledged as the gold standard technique to study methylation. This technique introduces changes in the genomic DNA by converting cytosines to uracils while 5-methylcytosines remain nonreactive. During PCR amplification 5-methylcytosines are amplified as cytosine, whereas uracils and thymines as thymine. To detect the methylation levels, reads treated with the bisulfite must be aligned against a reference genome. Mapping these reads to a reference genome represents a significant computational challenge mainly due to the increased search space and the loss of information introduced by the treatment. To deal with this computational challenge we devised GPU-BSM, a tool based on modern Graphics Processing Units. Graphics Processing Units are hardware accelerators that are increasingly being used successfully to accelerate general-purpose scientific applications. GPU-BSM is a tool able to map bisulfite-treated reads from whole genome bisulfite sequencing and reduced representation bisulfite sequencing, and to estimate methylation levels, with the goal of detecting methylation. Due to the massive parallelization obtained by exploiting graphics cards, GPU-BSM aligns bisulfite-treated reads faster than other cutting-edge solutions, while outperforming most of them in terms of unique mapped reads.

Westinghouse loading pattern search methodology for complex core designs

International Nuclear Information System (INIS)

Chao, Y.A.; Alsop, B.H.; Johansen, B.J.; Morita, T.

1991-01-01

Pressurized water reactor core designs have become more complex and must meet a plethora of design constraints. Trends have been toward longer cycles with increased discharge burnup, increased burnable absorber (BA) number, mixed BA types, reduced radial leakage, axially blanketed fuel, and multiple-batch feed fuel regions. Obtaining economical reload core loading patterns (LPs) that meet design criteria is a difficult task to do manually. Automated LP search tools are needed. An LP search tool cannot possibly perform an exhaustive search because of the sheer size of the combinatorial problem. On the other hand, evolving complexity of the design features and constraints often invalidates expert rules based on past design experiences. Westinghouse has developed a sophisticated loading pattern search methodology. This methodology is embodied in the LPOP code, which Westinghouse nuclear designers use extensively. The LPOP code generates a variety of LPs meeting design constraints and performs a two-cycle economic evaluation of the generated LPs. The designer selects the most appropriate patterns for fine tuning and evaluation by the design codes. This paper describes the major features of the LPOP methodology that are relevant to fulfilling the aforementioned requirements. Data and examples are also provided to demonstrate the performance of LPOP in meeting the complex design needs

WCSTools 3.0: More Tools for Image Astrometry and Catalog Searching

Science.gov (United States)

Mink, Douglas J.

For five years, WCSTools has provided image astrometry for astronomers who need accurate positions for objects they wish to observe. Other functions have been added and improved since the package was first released. Support has been added for new catalogs, such as the GSC-ACT, 2MASS Point Source Catalog, and GSC II, as they have been published. A simple command line interface can search any supported catalog, returning information in several standard formats, whether the catalog is on a local disk or searchable over the World Wide Web. The catalog searching routine can be located on either end (or both ends!) of such a web connection, and the output from one catalog search can be used as the input to another search.

ONTOLOGY BASED MEANINGFUL SEARCH USING SEMANTIC WEB AND NATURAL LANGUAGE PROCESSING TECHNIQUES

Directory of Open Access Journals (Sweden)

K. Palaniammal

2013-10-01

Full Text Available The semantic web extends the current World Wide Web by adding facilities for the machine understood description of meaning. The ontology based search model is used to enhance efficiency and accuracy of information retrieval. Ontology is the core technology for the semantic web and this mechanism for representing formal and shared domain descriptions. In this paper, we proposed ontology based meaningful search using semantic web and Natural Language Processing (NLP techniques in the educational domain. First we build the educational ontology then we present the semantic search system. The search model consisting three parts which are embedding spell-check, finding synonyms using WordNet API and querying ontology using SPARQL language. The results are both sensitive to spell check and synonymous context. This paper provides more accurate results and the complete details for the selected field in a single page.

Federated Search Tools in Fusion Centers: Bridging Databases in the Information Sharing Environment

Science.gov (United States)

2012-09-01

Suspicious Activity Reporting Initiative ODNI Office of the Director of National Intelligence OSINT Open Source Intelligence PERF Police Executive...Fusion centers are encouraged to explore all available information sources to enhance the intelligence analysis process. It follows then that fusion...WSIC also utilizes ACCURINT, a web-based, subscription service. ACCURINT searches open source information and is able to collect and collate

XSemantic: An Extension of LCA Based XML Semantic Search

Science.gov (United States)

Supasitthimethee, Umaporn; Shimizu, Toshiyuki; Yoshikawa, Masatoshi; Porkaew, Kriengkrai

One of the most convenient ways to query XML data is a keyword search because it does not require any knowledge of XML structure or learning a new user interface. However, the keyword search is ambiguous. The users may use different terms to search for the same information. Furthermore, it is difficult for a system to decide which node is likely to be chosen as a return node and how much information should be included in the result. To address these challenges, we propose an XML semantic search based on keywords called XSemantic. On the one hand, we give three definitions to complete in terms of semantics. Firstly, the semantic term expansion, our system is robust from the ambiguous keywords by using the domain ontology. Secondly, to return semantic meaningful answers, we automatically infer the return information from the user queries and take advantage of the shortest path to return meaningful connections between keywords. Thirdly, we present the semantic ranking that reflects the degree of similarity as well as the semantic relationship so that the search results with the higher relevance are presented to the users first. On the other hand, in the LCA and the proximity search approaches, we investigated the problem of information included in the search results. Therefore, we introduce the notion of the Lowest Common Element Ancestor (LCEA) and define our simple rule without any requirement on the schema information such as the DTD or XML Schema. The first experiment indicated that XSemantic not only properly infers the return information but also generates compact meaningful results. Additionally, the benefits of our proposed semantics are demonstrated by the second experiment.

Extended-Search, Bézier Curve-Based Lane Detection and Reconstruction System for an Intelligent Vehicle

Directory of Open Access Journals (Sweden)

Xiaoyun Huang

2015-09-01

Full Text Available To improve the real-time performance and detection rate of a Lane Detection and Reconstruction (LDR system, an extended-search-based lane detection method and a Bézier curve-based lane reconstruction algorithm are proposed in this paper. The extended-search-based lane detection method is designed to search boundary blocks from the initial position, in an upwards direction and along the lane, with small search areas including continuous search, discontinuous search and bending search in order to detect different lane boundaries. The Bézier curve-based lane reconstruction algorithm is employed to describe a wide range of lane boundary forms with comparatively simple expressions. In addition, two Bézier curves are adopted to reconstruct the lanes' outer boundaries with large curvature variation. The lane detection and reconstruction algorithm — including initial-blocks' determining, extended search, binarization processing and lane boundaries' fitting in different scenarios — is verified in road tests. The results show that this algorithm is robust against different shadows and illumination variations; the average processing time per frame is 13 ms. Significantly, it presents an 88.6% high-detection rate on curved lanes with large or variable curvatures, where the accident rate is higher than that of straight lanes.

Evaluation of Federated Searching Options for the School Library

Science.gov (United States)

Abercrombie, Sarah E.

2008-01-01

Three hosted federated search tools, Follett One Search, Gale PowerSearch Plus, and WebFeat Express, were configured and implemented in a school library. Databases from five vendors and the OPAC were systematically searched. Federated search results were compared with each other and to the results of the same searches in the database's native…

Testing search strategies for systematic reviews in the Medline literature database through PubMed.

Science.gov (United States)

Volpato, Enilze S N; Betini, Marluci; El Dib, Regina

2014-04-01

A high-quality electronic search is essential in ensuring accuracy and completeness in retrieved records for the conducting of a systematic review. We analysed the available sample of search strategies to identify the best method for searching in Medline through PubMed, considering the use or not of parenthesis, double quotation marks, truncation and use of a simple search or search history. In our cross-sectional study of search strategies, we selected and analysed the available searches performed during evidence-based medicine classes and in systematic reviews conducted in the Botucatu Medical School, UNESP, Brazil. We analysed 120 search strategies. With regard to the use of phrase searches with parenthesis, there was no difference between the results with and without parenthesis and simple searches or search history tools in 100% of the sample analysed (P = 1.0). The number of results retrieved by the searches analysed was smaller using double quotations marks and using truncation compared with the standard strategy (P = 0.04 and P = 0.08, respectively). There is no need to use phrase-searching parenthesis to retrieve studies; however, we recommend the use of double quotation marks when an investigator attempts to retrieve articles in which a term appears to be exactly the same as what was proposed in the search form. Furthermore, we do not recommend the use of truncation in search strategies in the Medline via PubMed. Although the results of simple searches or search history tools were the same, we recommend using the latter.

Using Search Engine Data as a Tool to Predict Syphilis.

Science.gov (United States)

Young, Sean D; Torrone, Elizabeth A; Urata, John; Aral, Sevgi O

2018-07-01

Researchers have suggested that social media and online search data might be used to monitor and predict syphilis and other sexually transmitted diseases. Because people at risk for syphilis might seek sexual health and risk-related information on the internet, we investigated associations between internet state-level search query data (e.g., Google Trends) and reported weekly syphilis cases. We obtained weekly counts of reported primary and secondary syphilis for 50 states from 2012 to 2014 from the US Centers for Disease Control and Prevention. We collected weekly internet search query data regarding 25 risk-related keywords from 2012 to 2014 for 50 states using Google Trends. We joined 155 weeks of Google Trends data with 1-week lag to weekly syphilis data for a total of 7750 data points. Using the least absolute shrinkage and selection operator, we trained three linear mixed models on the first 10 weeks of each year. We validated models for 2012 and 2014 for the following 52 weeks and the 2014 model for the following 42 weeks. The models, consisting of different sets of keyword predictors for each year, accurately predicted 144 weeks of primary and secondary syphilis counts for each state, with an overall average R of 0.9 and overall average root mean squared error of 4.9. We used Google Trends search data from the prior week to predict cases of syphilis in the following weeks for each state. Further research could explore how search data could be integrated into public health monitoring systems.

search.bioPreprint: a discovery tool for cutting edge, preprint biomedical research articles [version 2; referees: 2 approved

Directory of Open Access Journals (Sweden)

Carrie L. Iwema

2016-07-01

Full Text Available The time it takes for a completed manuscript to be published traditionally can be extremely lengthy. Article publication delay, which occurs in part due to constraints associated with peer review, can prevent the timely dissemination of critical and actionable data associated with new information on rare diseases or developing health concerns such as Zika virus. Preprint servers are open access online repositories housing preprint research articles that enable authors (1 to make their research immediately and freely available and (2 to receive commentary and peer review prior to journal submission. There is a growing movement of preprint advocates aiming to change the current journal publication and peer review system, proposing that preprints catalyze biomedical discovery, support career advancement, and improve scientific communication. While the number of articles submitted to and hosted by preprint servers are gradually increasing, there has been no simple way to identify biomedical research published in a preprint format, as they are not typically indexed and are only discoverable by directly searching the specific preprint server websites. To address this issue, we created a search engine that quickly compiles preprints from disparate host repositories and provides a one-stop search solution. Additionally, we developed a web application that bolsters the discovery of preprints by enabling each and every word or phrase appearing on any web site to be integrated with articles from preprint servers. This tool, search.bioPreprint, is publicly available at http://www.hsls.pitt.edu/resources/preprint.

Tag-Based Social Image Search: Toward Relevant and Diverse Results

Science.gov (United States)

Yang, Kuiyuan; Wang, Meng; Hua, Xian-Sheng; Zhang, Hong-Jiang

Recent years have witnessed a great success of social media websites. Tag-based image search is an important approach to access the image content of interest on these websites. However, the existing ranking methods for tag-based image search frequently return results that are irrelevant or lack of diversity. This chapter presents a diverse relevance ranking scheme which simultaneously takes relevance and diversity into account by exploring the content of images and their associated tags. First, it estimates the relevance scores of images with respect to the query term based on both visual information of images and semantic information of associated tags. Then semantic similarities of social images are estimated based on their tags. Based on the relevance scores and the similarities, the ranking list is generated by a greedy ordering algorithm which optimizes Average Diverse Precision (ADP), a novel measure that is extended from the conventional Average Precision (AP). Comprehensive experiments and user studies demonstrate the effectiveness of the approach.

A smarter way to search, share and utilize open-spatial online data for energy R&D - Custom machine learning and GIS tools in U.S. DOE's virtual data library & laboratory, EDX

Science.gov (United States)

Rose, K.; Bauer, J.; Baker, D.; Barkhurst, A.; Bean, A.; DiGiulio, J.; Jones, K.; Jones, T.; Justman, D.; Miller, R., III; Romeo, L.; Sabbatino, M.; Tong, A.

2017-12-01

As spatial datasets are increasingly accessible through open, online systems, the opportunity to use these resources to address a range of Earth system questions grows. Simultaneously, there is a need for better infrastructure and tools to find and utilize these resources. We will present examples of advanced online computing capabilities, hosted in the U.S. DOE's Energy Data eXchange (EDX), that address these needs for earth-energy research and development. In one study the computing team developed a custom, machine learning, big data computing tool designed to parse the web and return priority datasets to appropriate servers to develop an open-source global oil and gas infrastructure database. The results of this spatial smart search approach were validated against expert-driven, manual search results which required a team of seven spatial scientists three months to produce. The custom machine learning tool parsed online, open systems, including zip files, ftp sites and other web-hosted resources, in a matter of days. The resulting resources were integrated into a geodatabase now hosted for open access via EDX. Beyond identifying and accessing authoritative, open spatial data resources, there is also a need for more efficient tools to ingest, perform, and visualize multi-variate, spatial data analyses. Within the EDX framework, there is a growing suite of processing, analytical and visualization capabilities that allow multi-user teams to work more efficiently in private, virtual workspaces. An example of these capabilities are a set of 5 custom spatio-temporal models and data tools that form NETL's Offshore Risk Modeling suite that can be used to quantify oil spill risks and impacts. Coupling the data and advanced functions from EDX with these advanced spatio-temporal models has culminated with an integrated web-based decision-support tool. This platform has capabilities to identify and combine data across scales and disciplines, evaluate potential environmental

TECHNIQUES USED IN SEARCH ENGINE MARKETING

OpenAIRE

Assoc. Prof. Liviu Ion Ciora Ph. D; Lect. Ion Buligiu Ph. D

2010-01-01

Search engine marketing (SEM) is a generic term covering a variety of marketing techniques intended for attracting web traffic in search engines and directories. SEM is a popular tool since it has the potential of substantial gains with minimum investment. On the one side, most search engines and directories offer free or extremely cheap listing. On the other side, the traffic coming from search engines and directories tends to be motivated for acquisitions, making these visitors some of the ...

Develop risk-based procurement management tools for SMEs

NARCIS (Netherlands)

Staal, Anne; Hagelaar, Geoffrey; Walhof, Gert; Holman, Richard

2016-01-01

This paper provides guidance for developing risk-based management tools to improve the procurement (purchasing) performance of SMEs. Extant academic literature only offers little support on developing such tools and does not consider the wide variety of SMEs. The paper defines a procurement tool for

Tool-Based Curricula and Visual Learning

Directory of Open Access Journals (Sweden)

Dragica Vasileska

2013-12-01

Full Text Available In the last twenty years nanotechnology hasrevolutionized the world of information theory, computers andother important disciplines, such as medicine, where it hascontributed significantly in the creation of more sophisticateddiagnostic tools. Therefore, it is important for people working innanotechnology to better understand basic concepts to be morecreative and productive. To further foster the progress onNanotechnology in the USA, the National Science Foundation hascreated the Network for Computational Nanotechnology (NCNand the dissemination of all the information from member andnon-member participants of the NCN is enabled by thecommunity website www.nanoHUB.org. nanoHUB’s signatureservices online simulation that enables the operation ofsophisticated research and educational simulation engines with acommon browser. No software installation or local computingpower is needed. The simulation tools as well as nano-conceptsare augmented by educational materials, assignments, and toolbasedcurricula, which are assemblies of tools that help studentsexcel in a particular area.As elaborated later in the text, it is the visual mode of learningthat we are exploiting in achieving faster and better results withstudents that go through simulation tool-based curricula. Thereare several tool based curricula already developed on thenanoHUB and undergoing further development, out of which fiveare directly related to nanoelectronics. They are: ABACUS –device simulation module; ACUTE – Computational Electronicsmodule; ANTSY – bending toolkit; and AQME – quantummechanics module. The methodology behind tool-based curriculais discussed in details. Then, the current status of each module ispresented, including user statistics and student learningindicatives. Particular simulation tool is explored further todemonstrate the ease by which students can grasp information.Representative of Abacus is PN-Junction Lab; representative ofAQME is PCPBT tool; and

Snippet-based relevance predictions for federated web search

NARCIS (Netherlands)

Demeester, Thomas; Nguyen, Dong-Phuong; Trieschnigg, Rudolf Berend; Develder, Chris; Hiemstra, Djoerd

How well can the relevance of a page be predicted, purely based on snippets? This would be highly useful in a Federated Web Search setting where caching large amounts of result snippets is more feasible than caching entire pages. The experiments reported in this paper make use of result snippets and

Making Temporal Search More Central in Spatial Data Infrastructures

Science.gov (United States)

Corti, P.; Lewis, B.

2017-10-01

A temporally enabled Spatial Data Infrastructure (SDI) is a framework of geospatial data, metadata, users, and tools intended to provide an efficient and flexible way to use spatial information which includes the historical dimension. One of the key software components of an SDI is the catalogue service which is needed to discover, query, and manage the metadata. A search engine is a software system capable of supporting fast and reliable search, which may use any means necessary to get users to the resources they need quickly and efficiently. These techniques may include features such as full text search, natural language processing, weighted results, temporal search based on enrichment, visualization of patterns in distributions of results in time and space using temporal and spatial faceting, and many others. In this paper we will focus on the temporal aspects of search which include temporal enrichment using a time miner - a software engine able to search for date components within a larger block of text, the storage of time ranges in the search engine, handling historical dates, and the use of temporal histograms in the user interface to display the temporal distribution of search results.

Text mining for search term development in systematic reviewing: A discussion of some methods and challenges.

Science.gov (United States)

Stansfield, Claire; O'Mara-Eves, Alison; Thomas, James

2017-09-01

Using text mining to aid the development of database search strings for topics described by diverse terminology has potential benefits for systematic reviews; however, methods and tools for accomplishing this are poorly covered in the research methods literature. We briefly review the literature on applications of text mining for search term development for systematic reviewing. We found that the tools can be used in 5 overarching ways: improving the precision of searches; identifying search terms to improve search sensitivity; aiding the translation of search strategies across databases; searching and screening within an integrated system; and developing objectively derived search strategies. Using a case study and selected examples, we then reflect on the utility of certain technologies (term frequency-inverse document frequency and Termine, term frequency, and clustering) in improving the precision and sensitivity of searches. Challenges in using these tools are discussed. The utility of these tools is influenced by the different capabilities of the tools, the way the tools are used, and the text that is analysed. Increased awareness of how the tools perform facilitates the further development of methods for their use in systematic reviews. Copyright © 2017 John Wiley & Sons, Ltd.

Mercury monohalides: suitability for electron electric dipole moment searches.

Science.gov (United States)

Prasannaa, V S; Vutha, A C; Abe, M; Das, B P

2015-05-08

Heavy polar diatomic molecules are the primary tools for searching for the T-violating permanent electric dipole moment of the electron (eEDM). Valence electrons in some molecules experience extremely large effective electric fields due to relativistic interactions. These large effective electric fields are crucial to the success of polar-molecule-based eEDM search experiments. Here we report on the results of relativistic ab initio calculations of the effective electric fields in a series of molecules that are highly sensitive to an eEDM, the mercury monohalides (HgF, HgCl, HgBr, and HgI). We study the influence of the halide anions on E_{eff}, and identify HgBr and HgI as attractive candidates for future electric dipole moment search experiments.

A search for $W\\pm H \\to\\mu\

CERN Document Server

Anastasoaie, Mirunna; Filthaut, F

2008-01-01

This thesis describes a search for the Higgs boson in $D0$ data taken between April 2002 and February 2006. The search focuses on associated $W^{\\pm} H$ production, where the $W^{\\pm}$ decays to a muon and a neutrino and the Higgs boson into a $b\\overline{b}$ pair. Chapter 2 introduces the Standard Model and the Higgs mechanism. Chapter 3 describes the Tevatron particle accelerator and the $D0$ detector. The methods and algorithms used to acquire and reconstruct the data used in the analysis are presented in Chapter 4. Since the Higgs boson most often decays into a bb pair, the identification of jets originating from bottom quarks is very important. Chapter 5 describes in detail a Neural Net-based tool used for the identification of b-jets. The tool uses information from previously developed tagging algorithms used in $D0$ and improves the efficiency for finding b-jets.

Composition-based statistics and translated nucleotide searches: Improving the TBLASTN module of BLAST

Directory of Open Access Journals (Sweden)

Schäffer Alejandro A

2006-12-01

Full Text Available Abstract Background TBLASTN is a mode of operation for BLAST that aligns protein sequences to a nucleotide database translated in all six frames. We present the first description of the modern implementation of TBLASTN, focusing on new techniques that were used to implement composition-based statistics for translated nucleotide searches. Composition-based statistics use the composition of the sequences being aligned to generate more accurate E-values, which allows for a more accurate distinction between true and false matches. Until recently, composition-based statistics were available only for protein-protein searches. They are now available as a command line option for recent versions of TBLASTN and as an option for TBLASTN on the NCBI BLAST web server. Results We evaluate the statistical and retrieval accuracy of the E-values reported by a baseline version of TBLASTN and by two variants that use different types of composition-based statistics. To test the statistical accuracy of TBLASTN, we ran 1000 searches using scrambled proteins from the mouse genome and a database of human chromosomes. To test retrieval accuracy, we modernize and adapt to translated searches a test set previously used to evaluate the retrieval accuracy of protein-protein searches. We show that composition-based statistics greatly improve the statistical accuracy of TBLASTN, at a small cost to the retrieval accuracy. Conclusion TBLASTN is widely used, as it is common to wish to compare proteins to chromosomes or to libraries of mRNAs. Composition-based statistics improve the statistical accuracy, and therefore the reliability, of TBLASTN results. The algorithms used by TBLASTN are not widely known, and some of the most important are reported here. The data used to test TBLASTN are available for download and may be useful in other studies of translated search algorithms.

Application of a faith-based integration tool to assess mental and physical health interventions.

Science.gov (United States)

Saunders, Donna M; Leak, Jean; Carver, Monique E; Smith, Selina A

2017-01-01

To build on current research involving faith-based interventions (FBIs) for addressing mental and physical health, this study a) reviewed the extent to which relevant publications integrate faith concepts with health and b) initiated analysis of the degree of FBI integration with intervention outcomes. Derived from a systematic search of articles published between 2007 and 2017, 36 studies were assessed with a Faith-Based Integration Assessment Tool (FIAT) to quantify faith-health integration. Basic statistical procedures were employed to determine the association of faith-based integration with intervention outcomes. The assessed studies possessed (on average) moderate, inconsistent integration because of poor use of faith measures, and moderate, inconsistent use of faith practices. Analysis procedures for determining the effect of FBI integration on intervention outcomes were inadequate for formulating practical conclusions. Regardless of integration, interventions were associated with beneficial outcomes. To determine the link between FBI integration and intervention outcomes, additional analyses are needed.

Particle Swarm Optimization and harmony search based clustering and routing in Wireless Sensor Networks

Directory of Open Access Journals (Sweden)

Veena Anand

2017-01-01

Full Text Available Wireless Sensor Networks (WSN has the disadvantage of limited and non-rechargeable energy resource in WSN creates a challenge and led to development of various clustering and routing algorithms. The paper proposes an approach for improving network lifetime by using Particle swarm optimization based clustering and Harmony Search based routing in WSN. So in this paper, global optimal cluster head are selected and Gateway nodes are introduced to decrease the energy consumption of the CH while sending aggregated data to the Base station (BS. Next, the harmony search algorithm based Local Search strategy finds best routing path for gateway nodes to the Base Station. Finally, the proposed algorithm is presented.

Information Interaction Criteria Among Students in Process of Task-Based Information Searching (Role of Objective Complexity and Type of Product

Directory of Open Access Journals (Sweden)

Marziyeh Saeedizadeh

2016-08-01

Full Text Available Purpose:  human-information interactions must be considered in order to be able to interactively design Information Retrieval Systems (IRS. In this regard, study of users’ interactions must be based on their socio-cultural context (specifically work tasks. Accordingly, this paper aims to explore the use of information-interaction criteria among students in the information searching process according to different kinds of their work tasks.  Methodology: This research is applied qualitative method using exploratory study. The research population consisted of MSc students of Ferdowsi university of Mashhad enrolled in 2012-13  academic year. In 3 stages of sampling (random stratified, quota, and voluntary sampling, 30 cases were selected. Each of these cases searched 6 different types of simulated work tasks. Interaction criteria were extracted ? Content analysis of aloud thinking reports. Validity of tools was verified through Faculties of KIS at Ferdowsi university of Mashhad. Also,0.78  Kripendorff’s alpha ratio based on an agreement between the inter – coder indicates the Dependability  of content analysis. Findings: The findings show that in addition to ‘topic’ criteria, other interaction criteria impact on information- interaction of users, such as: ‘search results ranking’, ‘domain knowledge of user’, ‘layout’, ‘type of information resource’ and etc. based on the level of objective complexity and product of  work tasks, information-interaction criteria change. Conclusion: the users pay attention to different information-interaction criteria in process of information searching, considering to variety of work tasks (level of objective complexity and product. So, it is necessary to pay attention to work task characteristics in order to design interactive and personalized IR systems.

Software tools for microprocessor based systems

International Nuclear Information System (INIS)

Halatsis, C.

1981-01-01

After a short review of the hardware and/or software tools for the development of single-chip, fixed instruction set microprocessor-based sytems we focus on the software tools for designing systems based on microprogrammed bit-sliced microprocessors. Emphasis is placed on meta-microassemblers and simulation facilties at the register-transfer-level and architecture level. We review available meta-microassemblers giving their most important features, advantages and disadvantages. We also make extentions to higher-level microprogramming languages and associated systems specifically developed for bit-slices. In the area of simulation facilities we first discuss the simulation objectives and the criteria for chosing the right simulation language. We consertrate to simulation facilities already used in bit-slices projects and discuss the gained experience. We conclude by describing the way the Signetics meta-microassembler and the ISPS simulation tool have been employed in the design of a fast microprogrammed machine, called MICE, made out of ECL bit-slices. (orig.)

Search Engines for Tomorrow's Scholars, Part Two

Science.gov (United States)

Fagan, Jody Condit

2012-01-01

This two-part article considers how well some of today's search tools support scholars' work. The first part of the article reviewed Google Scholar and Microsoft Academic Search using a modified version of Carole L. Palmer, Lauren C. Teffeau, and Carrier M. Pirmann's framework (2009). Microsoft Academic Search is a strong contender when…

Google searches help with diagnosis in dermatology.

Science.gov (United States)

Amri, Montassar; Feroz, Kaliyadan

2014-01-01

Several previous studies have tried to assess the usefulness of Google search as a diagnostic aid. The results were discordant and have led to controversies. To investigate how often Google search is helpful to reach correct diagnoses in dermatology. Two fifth-year students (A and B) and one demonstrator (C) have participated as investigators in this paper. Twenty-five diagnostic dermatological cases were selected from all the clinical cases published in the Web only images in clinical medicine from March 2005 to November 2009. The main outcome measure of our paper was to compare the number of correct diagnoses provided by the investigators without, and with Google search. Investigator A gave correct diagnoses in 9/25 (36%) cases without Google search, his diagnostic success after Google search was 18/25 (72%). Investigator B results were 11/25 (44%) correct diagnoses without Google search, and 19/25 (76%) after this search. For investigator C, the results were 12/25 (48%) without Google search, and 18/25 (72%) after the use of this tool. Thus, the total correct diagnoses provided by the three investigators were 32 (42.6%) without Google search, and 55 (73.3%) when using this facility. The difference was statistically significant between the total number of correct diagnoses given by the three investigators without, and with Google search (p = 0.0002). In the light of our paper, Google search appears to be an interesting diagnostic aid in dermatology. However, we emphasize that diagnosis is primarily an art based on clinical skills and experience.

Automatic Planning of External Search Engine Optimization

Directory of Open Access Journals (Sweden)

Vita Jasevičiūtė

2015-07-01

Full Text Available This paper describes an investigation of the external search engine optimization (SEO action planning tool, dedicated to automatically extract a small set of most important keywords for each month during whole year period. The keywords in the set are extracted accordingly to external measured parameters, such as average number of searches during the year and for every month individually. Additionally the position of the optimized web site for each keyword is taken into account. The generated optimization plan is similar to the optimization plans prepared manually by the SEO professionals and can be successfully used as a support tool for web site search engine optimization.

Category Theory Approach to Solution Searching Based on Photoexcitation Transfer Dynamics

Directory of Open Access Journals (Sweden)

Makoto Naruse

2017-07-01

Full Text Available Solution searching that accompanies combinatorial explosion is one of the most important issues in the age of artificial intelligence. Natural intelligence, which exploits natural processes for intelligent functions, is expected to help resolve or alleviate the difficulties of conventional computing paradigms and technologies. In fact, we have shown that a single-celled organism such as an amoeba can solve constraint satisfaction problems and related optimization problems as well as demonstrate experimental systems based on non-organic systems such as optical energy transfer involving near-field interactions. However, the fundamental mechanisms and limitations behind solution searching based on natural processes have not yet been understood. Herein, we present a theoretical background of solution searching based on optical excitation transfer from a category-theoretic standpoint. One important indication inspired by the category theory is that the satisfaction of short exact sequences is critical for an adequate computational operation that determines the flow of time for the system and is termed as “short-exact-sequence-based time.” In addition, the octahedral and braid structures known in triangulated categories provide a clear understanding of the underlying mechanisms, including a quantitative indication of the difficulties of obtaining solutions based on homology dimension. This study contributes to providing a fundamental background of natural intelligence.

A novel line segment detection algorithm based on graph search

Science.gov (United States)

Zhao, Hong-dan; Liu, Guo-ying; Song, Xu

2018-02-01

To overcome the problem of extracting line segment from an image, a method of line segment detection was proposed based on the graph search algorithm. After obtaining the edge detection result of the image, the candidate straight line segments are obtained in four directions. For the candidate straight line segments, their adjacency relationships are depicted by a graph model, based on which the depth-first search algorithm is employed to determine how many adjacent line segments need to be merged. Finally we use the least squares method to fit the detected straight lines. The comparative experimental results verify that the proposed algorithm has achieved better results than the line segment detector (LSD).

An informatics supported web-based data annotation and query tool to expedite translational research for head and neck malignancies

International Nuclear Information System (INIS)

Amin, Waqas; Kang, Hyunseok P; Egloff, Ann Marie; Singh, Harpreet; Trent, Kerry; Ridge-Hetrick, Jennifer; Seethala, Raja R; Grandis, Jennifer; Parwani, Anil V

2009-01-01

The Specialized Program of Research Excellence (SPORE) in Head and Neck Cancer neoplasm virtual biorepository is a bioinformatics-supported system to incorporate data from various clinical, pathological, and molecular systems into a single architecture based on a set of common data elements (CDEs) that provides semantic and syntactic interoperability of data sets. The various components of this annotation tool include the Development of Common Data Elements (CDEs) that are derived from College of American Pathologists (CAP) Checklist and North American Association of Central Cancer Registries (NAACR) standards. The Data Entry Tool is a portable and flexible Oracle-based data entry device, which is an easily mastered web-based tool. The Data Query Tool helps investigators and researchers to search de-identified information within the warehouse/resource through a 'point and click' interface, thus enabling only the selected data elements to be essentially copied into a data mart using a multi dimensional model from the warehouse's relational structure. The SPORE Head and Neck Neoplasm Database contains multimodal datasets that are accessible to investigators via an easy to use query tool. The database currently holds 6553 cases and 10607 tumor accessions. Among these, there are 965 metastatic, 4227 primary, 1369 recurrent, and 483 new primary cases. The data disclosure is strictly regulated by user's authorization. The SPORE Head and Neck Neoplasm Virtual Biorepository is a robust translational biomedical informatics tool that can facilitate basic science, clinical, and translational research. The Data Query Tool acts as a central source providing a mechanism for researchers to efficiently find clinically annotated datasets and biospecimens that are relevant to their research areas. The tool protects patient privacy by revealing only de-identified data in accordance with regulations and approvals of the IRB and scientific review committee

[Formula: see text]: Oblivious similarity based searching for encrypted data outsourced to an untrusted domain.

Science.gov (United States)

Pervez, Zeeshan; Ahmad, Mahmood; Khattak, Asad Masood; Ramzan, Naeem; Khan, Wajahat Ali

2017-01-01

Public cloud storage services are becoming prevalent and myriad data sharing, archiving and collaborative services have emerged which harness the pay-as-you-go business model of public cloud. To ensure privacy and confidentiality often encrypted data is outsourced to such services, which further complicates the process of accessing relevant data by using search queries. Search over encrypted data schemes solve this problem by exploiting cryptographic primitives and secure indexing to identify outsourced data that satisfy the search criteria. Almost all of these schemes rely on exact matching between the encrypted data and search criteria. A few schemes which extend the notion of exact matching to similarity based search, lack realism as those schemes rely on trusted third parties or due to increase storage and computational complexity. In this paper we propose Oblivious Similarity based Search ([Formula: see text]) for encrypted data. It enables authorized users to model their own encrypted search queries which are resilient to typographical errors. Unlike conventional methodologies, [Formula: see text] ranks the search results by using similarity measure offering a better search experience than exact matching. It utilizes encrypted bloom filter and probabilistic homomorphic encryption to enable authorized users to access relevant data without revealing results of search query evaluation process to the untrusted cloud service provider. Encrypted bloom filter based search enables [Formula: see text] to reduce search space to potentially relevant encrypted data avoiding unnecessary computation on public cloud. The efficacy of [Formula: see text] is evaluated on Google App Engine for various bloom filter lengths on different cloud configurations.

Effect of Reading Ability and Internet Experience on Keyword-Based Image Search

Science.gov (United States)

Lei, Pei-Lan; Lin, Sunny S. J.; Sun, Chuen-Tsai

2013-01-01

Image searches are now crucial for obtaining information, constructing knowledge, and building successful educational outcomes. We investigated how reading ability and Internet experience influence keyword-based image search behaviors and performance. We categorized 58 junior-high-school students into four groups of high/low reading ability and…

Accurate estimation of influenza epidemics using Google search data via ARGO.

Science.gov (United States)

Yang, Shihao; Santillana, Mauricio; Kou, S C

2015-11-24

Accurate real-time tracking of influenza outbreaks helps public health officials make timely and meaningful decisions that could save lives. We propose an influenza tracking model, ARGO (AutoRegression with GOogle search data), that uses publicly available online search data. In addition to having a rigorous statistical foundation, ARGO outperforms all previously available Google-search-based tracking models, including the latest version of Google Flu Trends, even though it uses only low-quality search data as input from publicly available Google Trends and Google Correlate websites. ARGO not only incorporates the seasonality in influenza epidemics but also captures changes in people's online search behavior over time. ARGO is also flexible, self-correcting, robust, and scalable, making it a potentially powerful tool that can be used for real-time tracking of other social events at multiple temporal and spatial resolutions.

UV-POSIT: Web-Based Tools for Rapid and Facile Structural Interpretation of Ultraviolet Photodissociation (UVPD) Mass Spectra

Science.gov (United States)

Rosenberg, Jake; Parker, W. Ryan; Cammarata, Michael B.; Brodbelt, Jennifer S.

2018-04-01

UV-POSIT (Ultraviolet Photodissociation Online Structure Interrogation Tools) is a suite of web-based tools designed to facilitate the rapid interpretation of data from native mass spectrometry experiments making use of 193 nm ultraviolet photodissociation (UVPD). The suite includes four separate utilities which assist in the calculation of fragment ion abundances as a function of backbone cleavage sites and sequence position; the localization of charge sites in intact proteins; the calculation of hydrogen elimination propensity for a-type fragment ions; and mass-offset searching of UVPD spectra to identify unknown modifications and assess false positive fragment identifications. UV-POSIT is implemented as a Python/Flask web application hosted at http://uv-posit.cm.utexas.edu. UV-POSIT is available under the MIT license, and the source code is available at https://github.com/jarosenb/UV_POSIT. [Figure not available: see fulltext.

UV-POSIT: Web-Based Tools for Rapid and Facile Structural Interpretation of Ultraviolet Photodissociation (UVPD) Mass Spectra.

Science.gov (United States)

Rosenberg, Jake; Parker, W Ryan; Cammarata, Michael B; Brodbelt, Jennifer S

2018-04-06

UV-POSIT (Ultraviolet Photodissociation Online Structure Interrogation Tools) is a suite of web-based tools designed to facilitate the rapid interpretation of data from native mass spectrometry experiments making use of 193 nm ultraviolet photodissociation (UVPD). The suite includes four separate utilities which assist in the calculation of fragment ion abundances as a function of backbone cleavage sites and sequence position; the localization of charge sites in intact proteins; the calculation of hydrogen elimination propensity for a-type fragment ions; and mass-offset searching of UVPD spectra to identify unknown modifications and assess false positive fragment identifications. UV-POSIT is implemented as a Python/Flask web application hosted at http://uv-posit.cm.utexas.edu . UV-POSIT is available under the MIT license, and the source code is available at https://github.com/jarosenb/UV_POSIT . Graphical Abstract.

Selecting a Free Web-Hosted Survey Tool for Student Use

Science.gov (United States)

Elbeck, Matt

2014-01-01

This study provides marketing educators a review of free web-based survey services and guidance for student use. A mixed methods approach started with online searches and metrics identifying 13 free web-hosted survey services, described as demonstration or project tools, and ranked using popularity and importance web-based metrics. For each…

Rare disease diagnosis: A review of web search, social media and large-scale data-mining approaches.

Science.gov (United States)

Svenstrup, Dan; Jørgensen, Henrik L; Winther, Ole

2015-01-01

Physicians and the general public are increasingly using web-based tools to find answers to medical questions. The field of rare diseases is especially challenging and important as shown by the long delay and many mistakes associated with diagnoses. In this paper we review recent initiatives on the use of web search, social media and data mining in data repositories for medical diagnosis. We compare the retrieval accuracy on 56 rare disease cases with known diagnosis for the web search tools google.com, pubmed.gov, omim.org and our own search tool findzebra.com. We give a detailed description of IBM's Watson system and make a rough comparison between findzebra.com and Watson on subsets of the Doctor's dilemma dataset. The recall@10 and recall@20 (fraction of cases where the correct result appears in top 10 and top 20) for the 56 cases are found to be be 29%, 16%, 27% and 59% and 32%, 18%, 34% and 64%, respectively. Thus, FindZebra has a significantly (p mining tools and social media are some of the areas that hold promise.

Web Feet Guide to Search Engines: Finding It on the Net.

Science.gov (United States)

Web Feet, 2001

2001-01-01

This guide to search engines for the World Wide Web discusses selecting the right search engine; interpreting search results; major search engines; online tutorials and guides; search engines for kids; specialized search tools for various subjects; and other specialized engines and gateways. (LRW)

Automated Indexing and Search of Video Data in Large Collections with inVideo

Directory of Open Access Journals (Sweden)

Shuangbao Paul Wang

2017-08-01

Full Text Available In this paper, we present a novel system, inVideo, for automatically indexing and searching videos based on the keywords spoken in the audio track and the visual content of the video frames. Using the highly efficient video indexing engine we developed, inVideo is able to analyze videos using machine learning and pattern recognition without the need for initial viewing by a human. The time-stamped commenting and tagging features refine the accuracy of search results. The cloud-based implementation makes it possible to conduct elastic search, augmented search, and data analytics. Our research shows that inVideo presents an efficient tool in processing and analyzing videos and increasing interactions in video-based online learning environment. Data from a cybersecurity program with more than 500 students show that applying inVideo to current video material, interactions between student-student and student-faculty increased significantly across 24 sections program-wide.

PROSPECT improves cis-acting regulatory element prediction by integrating expression profile data with consensus pattern searches

Science.gov (United States)

Fujibuchi, Wataru; Anderson, John S. J.; Landsman, David

2001-01-01

Consensus pattern and matrix-based searches designed to predict cis-acting transcriptional regulatory sequences have historically been subject to large numbers of false positives. We sought to decrease false positives by incorporating expression profile data into a consensus pattern-based search method. We have systematically analyzed the expression phenotypes of over 6000 yeast genes, across 121 expression profile experiments, and correlated them with the distribution of 14 known regulatory elements over sequences upstream of the genes. Our method is based on a metric we term probabilistic element assessment (PEA), which is a ranking of potential sites based on sequence similarity in the upstream regions of genes with similar expression phenotypes. For eight of the 14 known elements that we examined, our method had a much higher selectivity than a naïve consensus pattern search. Based on our analysis, we have developed a web-based tool called PROSPECT, which allows consensus pattern-based searching of gene clusters obtained from microarray data. PMID:11574681

Upgrading Enterprise Search

Energy Technology Data Exchange (ETDEWEB)

McDunn, R

2005-04-28

This presentation will describe the process we went through this past year to upgrade our enterprise search tool from a very old version of Inktomi to the latest version of Verity Ultraseek. We started with requirements gathering and then compared requirements against several available products to determine which product to choose. After purchasing the product, we worked through several defined phases of implementation and customization, with initial rollout late January 2004. Finally, we will show you where we are today and describe future search plans.

Open meta-search with OpenSearch: a case study

OpenAIRE

O'Riordan, Adrian P.

2007-01-01

The goal of this project was to demonstrate the possibilities of open source search engine and aggregation technology in a Web environment by building a meta-search engine which employs free open search engines and open protocols. In contrast many meta-search engines on the Internet use proprietary search systems. The search engines employed in this case study are all based on the OpenSearch protocol. OpenSearch-compliant systems support XML technologies such as RSS and Atom for aggregation a...

Hybrid Search for Faster Production and Safer Process Conditions in Friction Stir Welding

DEFF Research Database (Denmark)

Tutum, Cem Celal; Deb, Kalyanmoy; Hattel, Jesper Henri

2011-01-01

The objective of this paper is to investigate optimum process parameters and tool geometries in Friction Stir Welding (FSW) to minimize temperature difference between the leading edge of the tool probe and the work piece material in front of the tool shoulder, and simultaneously maximize traverse...... welding speed, which conflicts with the former objective. An evolutionary multi-objective optimization algorithm (i.e. NSGA-II), is applied to find multiple trade-off solutions followed by a gradient-based local search (i.e. SQP) to improve the convergence of the obtained Pareto-optimal front. In order...... choices have been offered based on several process specific performance and cost related criteria....

The AXES-lite video search engine

NARCIS (Netherlands)

Chen, Shu; McGuinness, Kevin; Aly, Robin; de Jong, Franciska M.G.; O' Connor, Noel E.

The aim of AXES is to develop tools that provide various types of users with new engaging ways to interact with audiovisual libraries, helping them discover, browse, navigate, search, and enrich archives. This paper describes the initial (lite) version of the AXES search engine, which is targeted at

Constraint-Based Local Search for Constrained Optimum Paths Problems

Science.gov (United States)

Pham, Quang Dung; Deville, Yves; van Hentenryck, Pascal

Constrained Optimum Path (COP) problems arise in many real-life applications and are ubiquitous in communication networks. They have been traditionally approached by dedicated algorithms, which are often hard to extend with side constraints and to apply widely. This paper proposes a constraint-based local search (CBLS) framework for COP applications, bringing the compositionality, reuse, and extensibility at the core of CBLS and CP systems. The modeling contribution is the ability to express compositional models for various COP applications at a high level of abstraction, while cleanly separating the model and the search procedure. The main technical contribution is a connected neighborhood based on rooted spanning trees to find high-quality solutions to COP problems. The framework, implemented in COMET, is applied to Resource Constrained Shortest Path (RCSP) problems (with and without side constraints) and to the edge-disjoint paths problem (EDP). Computational results show the potential significance of the approach.

Process-Based Quality (PBQ) Tools Development; TOPICAL

International Nuclear Information System (INIS)

Cummins, J.L.

2001-01-01

The objective of this effort is to benchmark the development of process-based quality tools for application in CAD (computer-aided design) model-based applications. The processes of interest are design, manufacturing, and quality process applications. A study was commissioned addressing the impact, current technologies, and known problem areas in application of 3D MCAD (3-dimensional mechanical computer-aided design) models and model integrity on downstream manufacturing and quality processes. The downstream manufacturing and product quality processes are profoundly influenced and dependent on model quality and modeling process integrity. The goal is to illustrate and expedite the modeling and downstream model-based technologies for available or conceptual methods and tools to achieve maximum economic advantage and advance process-based quality concepts

Path Searching Based Fault Automated Recovery Scheme for Distribution Grid with DG

Science.gov (United States)

Xia, Lin; Qun, Wang; Hui, Xue; Simeng, Zhu

2016-12-01

Applying the method of path searching based on distribution network topology in setting software has a good effect, and the path searching method containing DG power source is also applicable to the automatic generation and division of planned islands after the fault. This paper applies path searching algorithm in the automatic division of planned islands after faults: starting from the switch of fault isolation, ending in each power source, and according to the line load that the searching path traverses and the load integrated by important optimized searching path, forming optimized division scheme of planned islands that uses each DG as power source and is balanced to local important load. Finally, COBASE software and distribution network automation software applied are used to illustrate the effectiveness of the realization of such automatic restoration program.

Sound Search Engine Concept

DEFF Research Database (Denmark)

2006-01-01

Sound search is provided by the major search engines, however, indexing is text based, not sound based. We will establish a dedicated sound search services with based on sound feature indexing. The current demo shows the concept of the sound search engine. The first engine will be realased June...

Interactive text mining with Pipeline Pilot: a bibliographic web-based tool for PubMed.

Science.gov (United States)

Vellay, S G P; Latimer, N E Miller; Paillard, G

2009-06-01

Text mining has become an integral part of all research in the medical field. Many text analysis software platforms support particular use cases and only those. We show an example of a bibliographic tool that can be used to support virtually any use case in an agile manner. Here we focus on a Pipeline Pilot web-based application that interactively analyzes and reports on PubMed search results. This will be of interest to any scientist to help identify the most relevant papers in a topical area more quickly and to evaluate the results of query refinement. Links with Entrez databases help both the biologist and the chemist alike. We illustrate this application with Leishmaniasis, a neglected tropical disease, as a case study.

Applying Cuckoo Search for analysis of LFSR based cryptosystem

Directory of Open Access Journals (Sweden)

Maiya Din

2016-09-01

Full Text Available Cryptographic techniques are employed for minimizing security hazards to sensitive information. To make the systems more robust, cyphers or crypts being used need to be analysed for which cryptanalysts require ways to automate the process, so that cryptographic systems can be tested more efficiently. Evolutionary algorithms provide one such resort as these are capable of searching global optimal solution very quickly. Cuckoo Search (CS Algorithm has been used effectively in cryptanalysis of conventional systems like Vigenere and Transposition cyphers. Linear Feedback Shift Register (LFSR is a crypto primitive used extensively in design of cryptosystems. In this paper, we analyse LFSR based cryptosystem using Cuckoo Search to find correct initial states of used LFSR. Primitive polynomials of degree 11, 13, 17 and 19 are considered to analyse text crypts of length 200, 300 and 400 characters. Optimal solutions were obtained for the following CS parameters: Levy distribution parameter (β = 1.5 and Alien eggs discovering probability (pa = 0.25.

Creation of a Web-Based GIS Server and Custom Geoprocessing Tools for Enhanced Hydrologic Applications

Science.gov (United States)

Welton, B.; Chouinard, K.; Sultan, M.; Becker, D.; Milewski, A.; Becker, R.

2010-12-01

Rising populations in the arid and semi arid parts of the World are increasing the demand for fresh water supplies worldwide. Many data sets needed for assessment of hydrologic applications across vast regions of the world are expensive, unpublished, difficult to obtain, or at varying scales which complicates their use. Fortunately, this situation is changing with the development of global remote sensing datasets and web-based platforms such as GIS Server. GIS provides a cost effective vehicle for comparing, analyzing, and querying a variety of spatial datasets as geographically referenced layers. We have recently constructed a web-based GIS, that incorporates all relevant geological, geochemical, geophysical, and remote sensing data sets that were readily used to identify reservoir types and potential well locations on local and regional scales in various tectonic settings including: (1) extensional environment (Red Sea rift), (2) transcurrent fault system (Najd Fault in the Arabian-Nubian Shield), and (3) compressional environments (Himalayas). The web-based GIS could also be used to detect spatial and temporal trends in precipitation, recharge, and runoff in large watersheds on local, regional, and continental scales. These applications were enabled through the construction of a web-based ArcGIS Server with Google Map’s interface and the development of customized geoprocessing tools. ArcGIS Server provides out-of-the-box setups that are generic in nature. This platform includes all of the standard web based GIS tools (e.g. pan, zoom, identify, search, data querying, and measurement). In addition to the standard suite of tools provided by ArcGIS Server an additional set of advanced data manipulation and display tools was also developed to allow for a more complete and customizable view of the area of interest. The most notable addition to the standard GIS Server tools is the custom on-demand geoprocessing tools (e.g., graph, statistical functions, custom raster

SoftSearch: integration of multiple sequence features to identify breakpoints of structural variations.

Directory of Open Access Journals (Sweden)

Steven N Hart

Full Text Available BACKGROUND: Structural variation (SV represents a significant, yet poorly understood contribution to an individual's genetic makeup. Advanced next-generation sequencing technologies are widely used to discover such variations, but there is no single detection tool that is considered a community standard. In an attempt to fulfil this need, we developed an algorithm, SoftSearch, for discovering structural variant breakpoints in Illumina paired-end next-generation sequencing data. SoftSearch combines multiple strategies for detecting SV including split-read, discordant read-pair, and unmated pairs. Co-localized split-reads and discordant read pairs are used to refine the breakpoints. RESULTS: We developed and validated SoftSearch using real and synthetic datasets. SoftSearch's key features are 1 not requiring secondary (or exhaustive primary alignment, 2 portability into established sequencing workflows, and 3 is applicable to any DNA-sequencing experiment (e.g. whole genome, exome, custom capture, etc.. SoftSearch identifies breakpoints from a small number of soft-clipped bases from split reads and a few discordant read-pairs which on their own would not be sufficient to make an SV call. CONCLUSIONS: We show that SoftSearch can identify more true SVs by combining multiple sequence features. SoftSearch was able to call clinically relevant SVs in the BRCA2 gene not reported by other tools while offering significantly improved overall performance.

A unified architecture for biomedical search engines based on semantic web technologies.

Science.gov (United States)

Jalali, Vahid; Matash Borujerdi, Mohammad Reza

2011-04-01

There is a huge growth in the volume of published biomedical research in recent years. Many medical search engines are designed and developed to address the over growing information needs of biomedical experts and curators. Significant progress has been made in utilizing the knowledge embedded in medical ontologies and controlled vocabularies to assist these engines. However, the lack of common architecture for utilized ontologies and overall retrieval process, hampers evaluating different search engines and interoperability between them under unified conditions. In this paper, a unified architecture for medical search engines is introduced. Proposed model contains standard schemas declared in semantic web languages for ontologies and documents used by search engines. Unified models for annotation and retrieval processes are other parts of introduced architecture. A sample search engine is also designed and implemented based on the proposed architecture in this paper. The search engine is evaluated using two test collections and results are reported in terms of precision vs. recall and mean average precision for different approaches used by this search engine.

Road Traffic Congestion Management Based on a Search-Allocation Approach

Directory of Open Access Journals (Sweden)

Raiyn Jamal

2017-03-01

Full Text Available This paper introduces a new scheme for road traffic management in smart cities, aimed at reducing road traffic congestion. The scheme is based on a combination of searching, updating, and allocation techniques (SUA. An SUA approach is proposed to reduce the processing time for forecasting the conditions of all road sections in real-time, which is typically considerable and complex. It searches for the shortest route based on historical observations, then computes travel time forecasts based on vehicular location in real-time. Using updated information, which includes travel time forecasts and accident forecasts, the vehicle is allocated the appropriate section. The novelty of the SUA scheme lies in its updating of vehicles in every time to reduce traffic congestion. Furthermore, the SUA approach supports autonomy and management by self-regulation, which recommends its use in smart cities that support internet of things (IoT technologies.

Chapter 11: Web-based Tools - VO Region Inventory Service

Science.gov (United States)

Good, J. C.

As the size and number of datasets available through the VO grows, it becomes increasingly critical to have services that aid in locating and characterizing data pertinent to a particular scientific problem. At the same time, this same increase makes that goal more and more difficult to achieve. With a small number of datasets, it is feasible to simply retrieve the data itself (as the NVO DataScope service does). At intermediate scales, "count" DBMS searches (searches of the actual datasets which return record counts rather than full data subsets) sent to each data provider will work. However, neither of these approaches scale as the number of datasets expands into the hundreds or thousands. Dealing with the same problem internally, IRSA developed a compact and extremely fast scheme for determining source counts for positional catalogs (and in some cases image metadata) over arbitrarily large regions for multiple catalogs in a fraction of a second. To show applicability to the VO in general, this service has been extended with indices for all 4000+ catalogs in CDS Vizier (essentially all published catalogs and source tables). In this chapter, we will briefly describe the architecture of this service, and then describe how this can be used in a distributed system to retrieve rapid inventories of all VO holdings in a way that places an insignificant load on any data supplier. Further, we show and this tool can be used in conjunction with VO Registries and catalog services to zero in on those datasets that are appropriate to the user's needs. The initial implementation of this service consolidates custom binary index file structures (external to any DBMS and therefore portable) at a single site to minimize search times and implements the search interface as a simple CGI program. However, the architecture is amenable to distribution. The next phase of development will focus on metadata harvesting from data archives through a standard program interface and distribution

Agent-oriented Architecture for Task-based Information Search System

NARCIS (Netherlands)

Aroyo, Lora; de Bra, Paul M.E.; De Bra, P.; Hardman, L.

1999-01-01

The topic of the reported research discusses an agent-oriented architecture of an educational information search system AIMS - a task-based learner support system. It is implemented within the context of 'Courseware Engineering' on-line course at the Faculty of Educational Science and Technology,

Making Statistical Data More Easily Accessible on the Web Results of the StatSearch Case Study

CERN Document Server

Rajman, M; Boynton, I M; Fridlund, B; Fyhrlund, A; Sundgren, B; Lundquist, P; Thelander, H; Wänerskär, M

2005-01-01

In this paper we present the results of the StatSearch case study that aimed at providing an enhanced access to statistical data available on the Web. In the scope of this case study we developed a prototype of an information access tool combining a query-based search engine with semi-automated navigation techniques exploiting the hierarchical structuring of the available data. This tool enables a better control of the information retrieval, improving the quality and ease of the access to statistical information. The central part of the presented StatSearch tool consists in the design of an algorithm for automated navigation through a tree-like hierarchical document structure. The algorithm relies on the computation of query related relevance score distributions over the available database to identify the most relevant clusters in the data structure. These most relevant clusters are then proposed to the user for navigation, or, alternatively, are the support for the automated navigation process. Several appro...

TOOLS AND TECHNIQUES FOR IMPROVING THE MODULAR FIXTURE DESIGN IN AUTODESK INVENTOR

Directory of Open Access Journals (Sweden)

PĂUNESCU Rodica

2015-06-01

Full Text Available The paper presents some strategies achieving significant productivity gains in modular fixture design like: intelligent tools iParts, iAssembly, iProperties, Constraint and Joint, Interference, Relationships tools, working with subassemblies, using Autodesk Inventor new releases. Another objective is to minimize modular fixture systems databases and to optimize searching and inserting components. All this techniques and tools are exemplified by a modular fixture based on grid patterns with multipurpose holes.

Internet-based tools for behaviour change

Energy Technology Data Exchange (ETDEWEB)

Bottrill, Catherine [Environmental Change Inst., Oxford Unversity Centre for the Environment (United Kingdom)

2007-07-01

Internet-based carbon calculators have the potential to be powerful tools for helping people to understand their personal energy use derived from fossil fuels and to take action to reduce the related carbon emissions. This paper reviews twenty-three calculators concluding that in most cases this environmental learning tool is falling short of giving people the ability to accurately monitor their energy use; to receive meaningful feedback and guidance for altering their energy use; or to connect with others also going through the same learning process of saving energy and conserving carbon. This paper presents the findings of research into the accuracy and effectiveness of carbon calculators. Based on the assessment of the calculators the paper discusses the opportunities Internet technology could be offering for engagement, communication, encouragement and guidance on low-carbon lifestyle choices. Finally, recommendations are made for the development of accurate, informative and social Internet-based carbon calculators.

Mutagenesis Objective Search and Selection Tool (MOSST: an algorithm to predict structure-function related mutations in proteins

Directory of Open Access Journals (Sweden)

Asenjo Juan A

2011-04-01

Full Text Available Abstract Background Functionally relevant artificial or natural mutations are difficult to assess or predict if no structure-function information is available for a protein. This is especially important to correctly identify functionally significant non-synonymous single nucleotide polymorphisms (nsSNPs or to design a site-directed mutagenesis strategy for a target protein. A new and powerful methodology is proposed to guide these two decision strategies, based only on conservation rules of physicochemical properties of amino acids extracted from a multiple alignment of a protein family where the target protein belongs, with no need of explicit structure-function relationships. Results A statistical analysis is performed over each amino acid position in the multiple protein alignment, based on different amino acid physical or chemical characteristics, including hydrophobicity, side-chain volume, charge and protein conformational parameters. The variances of each of these properties at each position are combined to obtain a global statistical indicator of the conservation degree of each property. Different types of physicochemical conservation are defined to characterize relevant and irrelevant positions. The differences between statistical variances are taken together as the basis of hypothesis tests at each position to search for functionally significant mutable sites and to identify specific mutagenesis targets. The outcome is used to statistically predict physicochemical consensus sequences based on different properties and to calculate the amino acid propensities at each position in a given protein. Hence, amino acid positions are identified that are putatively responsible for function, specificity, stability or binding interactions in a family of proteins. Once these key functional positions are identified, position-specific statistical distributions are applied to divide the 20 common protein amino acids in each position of the protein

Online tools for individuals with depression and neurologic conditions: A scoping review.

Science.gov (United States)

Lukmanji, Sara; Pham, Tram; Blaikie, Laura; Clark, Callie; Jetté, Nathalie; Wiebe, Samuel; Bulloch, Andrew; Holroyd-Leduc, Jayna; Macrodimitris, Sophia; Mackie, Aaron; Patten, Scott B

2017-08-01

Patients with neurologic conditions commonly have depression. Online tools have the potential to improve outcomes in these patients in an efficient and accessible manner. We aimed to identify evidence-informed online tools for patients with comorbid neurologic conditions and depression. A scoping review of online tools (free, publicly available, and not requiring a facilitator) for patients with depression and epilepsy, Parkinson disease (PD), multiple sclerosis (MS), traumatic brain injury (TBI), or migraine was conducted. MEDLINE, EMBASE, PsycINFO, Cochrane Database of Systematic Reviews, and Cochrane CENTRAL Register of Controlled Trials were searched from database inception to January 2017 for all 5 neurologic conditions. Gray literature using Google and Google Scholar as well as app stores for both Android and Apple devices were searched. Self-management or self-efficacy online tools were not included unless they were specifically targeted at depression and one of the neurologic conditions and met the other eligibility criteria. Only 4 online tools were identified. Of these 4 tools, 2 were web-based self-management programs for patients with migraine or MS and depression. The other 2 were mobile apps for patients with PD or TBI and depression. No online tools were found for epilepsy. There are limited depression tools for people with neurologic conditions that are evidence-informed, publicly available, and free. Future research should focus on the development of high-quality, evidence-based online tools targeted at neurologic patients.

The Effect of Internet Searches on Afforestation: The Case of a Green Search Engine

Directory of Open Access Journals (Sweden)

Pedro Palos-Sanchez

2018-01-01

Full Text Available Ecosia is an Internet search engine that plants trees with the income obtained from advertising. This study explored the factors that affect the adoption of Ecosia.org from the perspective of technology adoption and trust. This was done by using the Unified Theory of Acceptance and Use of Technology (UTAUT2 and then analyzing the results with PLS-SEM (Partial Least Squares-Structural Equation Modeling. Subsequently, a survey was conducted with a structured questionnaire on search engines, which yielded the following results: (1 the idea of a company helping to mitigate the effects of climate change by planting trees is well received by Internet users. However, few people accept the idea of changing their habits from using traditional search engines; (2 Ecosia is a search engine believed to have higher compatibility rates, and needing less hardware resources, and (3 ecological marketing is an appropriate and future strategy that can increase the intention to use a technological product. Based on the results obtained, this study shows that a search engine or other service provided by the Internet, which can be audited (visits, searches, files, etc., can also contribute to curb the effects of deforestation and climate change. In addition, companies, and especially technological start-ups, are advised to take into account that users feel better using these tools. Finally, this study urges foundations and non-governmental organizations to fight against the effects of deforestation by supporting these initiatives. The study also urges companies to support technological services, and follow the behavior of Ecosia.org in order to positively influence user satisfaction by using ecological marketing strategies.

BIOMedical Search Engine Framework: Lightweight and customized implementation of domain-specific biomedical search engines.

Science.gov (United States)

Jácome, Alberto G; Fdez-Riverola, Florentino; Lourenço, Anália

2016-07-01

Text mining and semantic analysis approaches can be applied to the construction of biomedical domain-specific search engines and provide an attractive alternative to create personalized and enhanced search experiences. Therefore, this work introduces the new open-source BIOMedical Search Engine Framework for the fast and lightweight development of domain-specific search engines. The rationale behind this framework is to incorporate core features typically available in search engine frameworks with flexible and extensible technologies to retrieve biomedical documents, annotate meaningful domain concepts, and develop highly customized Web search interfaces. The BIOMedical Search Engine Framework integrates taggers for major biomedical concepts, such as diseases, drugs, genes, proteins, compounds and organisms, and enables the use of domain-specific controlled vocabulary. Technologies from the Typesafe Reactive Platform, the AngularJS JavaScript framework and the Bootstrap HTML/CSS framework support the customization of the domain-oriented search application. Moreover, the RESTful API of the BIOMedical Search Engine Framework allows the integration of the search engine into existing systems or a complete web interface personalization. The construction of the Smart Drug Search is described as proof-of-concept of the BIOMedical Search Engine Framework. This public search engine catalogs scientific literature about antimicrobial resistance, microbial virulence and topics alike. The keyword-based queries of the users are transformed into concepts and search results are presented and ranked accordingly. The semantic graph view portraits all the concepts found in the results, and the researcher may look into the relevance of different concepts, the strength of direct relations, and non-trivial, indirect relations. The number of occurrences of the concept shows its importance to the query, and the frequency of concept co-occurrence is indicative of biological relations

Can social tagged images aid concept-based video search?

NARCIS (Netherlands)

Setz, A.T.; Snoek, C.G.M.

2009-01-01

This paper seeks to unravel whether commonly available social tagged images can be exploited as a training resource for concept-based video search. Since social tags are known to be ambiguous, overly personalized, and often error prone, we place special emphasis on the role of disambiguation. We

A World Wide Web Region-Based Image Search Engine

DEFF Research Database (Denmark)

Kompatsiaris, Ioannis; Triantafyllou, Evangelia; Strintzis, Michael G.

2001-01-01

In this paper the development of an intelligent image content-based search engine for the World Wide Web is presented. This system will offer a new form of media representation and access of content available in WWW. Information Web Crawlers continuously traverse the Internet and collect images...

Developing a distributed HTML5-based search engine for geospatial resource discovery

Science.gov (United States)

ZHOU, N.; XIA, J.; Nebert, D.; Yang, C.; Gui, Z.; Liu, K.

2013-12-01

With explosive growth of data, Geospatial Cyberinfrastructure(GCI) components are developed to manage geospatial resources, such as data discovery and data publishing. However, the efficiency of geospatial resources discovery is still challenging in that: (1) existing GCIs are usually developed for users of specific domains. Users may have to visit a number of GCIs to find appropriate resources; (2) The complexity of decentralized network environment usually results in slow response and pool user experience; (3) Users who use different browsers and devices may have very different user experiences because of the diversity of front-end platforms (e.g. Silverlight, Flash or HTML). To address these issues, we developed a distributed and HTML5-based search engine. Specifically, (1)the search engine adopts a brokering approach to retrieve geospatial metadata from various and distributed GCIs; (2) the asynchronous record retrieval mode enhances the search performance and user interactivity; (3) the search engine based on HTML5 is able to provide unified access capabilities for users with different devices (e.g. tablet and smartphone).

SHOP: scaffold hopping by GRID-based similarity searches

DEFF Research Database (Denmark)

Bergmann, Rikke; Linusson, Anna; Zamora, Ismael

2007-01-01

A new GRID-based method for scaffold hopping (SHOP) is presented. In a fully automatic manner, scaffolds were identified in a database based on three types of 3D-descriptors. SHOP's ability to recover scaffolds was assessed and validated by searching a database spiked with fragments of known...... scaffolds were in the 31 top-ranked scaffolds. SHOP also identified new scaffolds with substantially different chemotypes from the queries. Docking analysis indicated that the new scaffolds would have similar binding modes to those of the respective query scaffolds observed in X-ray structures...

A Study on Control System Design Based on ARM Sea Target Search System

Directory of Open Access Journals (Sweden)

Lin Xinwei

2015-01-01

Full Text Available The infrared detector is used for sea target search, which can assist humans in searching suspicious objects at night and under poor visibility conditions, and improving search efficiency. This paper applies for interrupt and stack technology to solve problems of data losses that may be caused by one-to-many multi-byte protocol communication. Meanwhile, this paper implements hardware and software design of the system based on industrial-grade ARM control chip and uC / OS-II embedded operating system. The control system in the sea target search system is an information exchange and control center of the whole system, which solves the problem of controlling over the shooting angle of the infrared detector in the process of target search. After testing, the control system operates stably and reliably, and realizes rotation and control functions of the pan/tilt platform during automatic search, manual search and track.

An Analysis of Literature Searching Anxiety in Evidence-Based Medicine Education

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Hui-Chin Chang

2014-01-01

Full Text Available Introduction. Evidence-Based Medicine (EBM is hurtling towards a cornerstone in lifelong learning for healthcare personnel worldwide. This study aims to evaluate the literature searching anxiety in graduate students in practicing EBM. Method The study participants were 48 graduate students who enrolled the EBM course at aMedical Universityin central Taiwan. Student’s t-test, Pearson correlation and multivariate regression, interviewing are used to evaluate the students’ literature searching anxiety of EBM course. The questionnaire is Literature Searching Anxiety Rating Scale -LSARS. Results The sources of anxiety are uncertainty of database selection, literatures evaluation and selection, technical assistance request, computer programs use, English and EBM education programs were disclosed. The class performance is negatively related to LSARS score, however, the correlation is statistically insignificant with the adjustment of gender, degree program, age category and experience of publication. Conclusion This study helps in understanding the causes and the extent of anxiety in order to work on a better teaching program planning to improve user’s searching skills and the capability of utilization the information; At the same time, provide friendly-user facilities of evidence searching. In short, we need to upgrade the learner’s searching 45 skills and reduce theanxiety. We also need to stress on the auxiliary teaching program for those with the prevalent and profoundanxiety during literature searching.

ART-Ada: An Ada-based expert system tool

Science.gov (United States)

Lee, S. Daniel; Allen, Bradley P.

1991-01-01

The Department of Defense mandate to standardize on Ada as the language for software systems development has resulted in increased interest in making expert systems technology readily available in Ada environments. NASA's Space Station Freedom is an example of the large Ada software development projects that will require expert systems in the 1990's. Another large scale application that can benefit from Ada based expert system tool technology is the Pilot's Associate (PA) expert system project for military combat aircraft. Automated Reasoning Tool (ART) Ada, an Ada Expert system tool is described. ART-Ada allow applications of a C-based expert system tool called ART-IM to be deployed in various Ada environments. ART-Ada is being used to implement several prototype expert systems for NASA's Space Station Freedom Program and the U.S. Air Force.

Electronic biomedical literature search for budding researcher.

Science.gov (United States)

Thakre, Subhash B; Thakre S, Sushama S; Thakre, Amol D

2013-09-01

Search for specific and well defined literature related to subject of interest is the foremost step in research. When we are familiar with topic or subject then we can frame appropriate research question. Appropriate research question is the basis for study objectives and hypothesis. The Internet provides a quick access to an overabundance of the medical literature, in the form of primary, secondary and tertiary literature. It is accessible through journals, databases, dictionaries, textbooks, indexes, and e-journals, thereby allowing access to more varied, individualised, and systematic educational opportunities. Web search engine is a tool designed to search for information on the World Wide Web, which may be in the form of web pages, images, information, and other types of files. Search engines for internet-based search of medical literature include Google, Google scholar, Scirus, Yahoo search engine, etc., and databases include MEDLINE, PubMed, MEDLARS, etc. Several web-libraries (National library Medicine, Cochrane, Web of Science, Medical matrix, Emory libraries) have been developed as meta-sites, providing useful links to health resources globally. A researcher must keep in mind the strengths and limitations of a particular search engine/database while searching for a particular type of data. Knowledge about types of literature, levels of evidence, and detail about features of search engine as available, user interface, ease of access, reputable content, and period of time covered allow their optimal use and maximal utility in the field of medicine. Literature search is a dynamic and interactive process; there is no one way to conduct a search and there are many variables involved. It is suggested that a systematic search of literature that uses available electronic resource effectively, is more likely to produce quality research.

Development of a tool for knowledge base verification of expert system based on Design/CPN

International Nuclear Information System (INIS)

Kim, Jong Hyun

1998-02-01

Verification is a necessary work in developing a reliable expert system. Verification is a process aimed at demonstrating whether a system meets it's specified requirements. As expert systems are used in various applications, the knowledge base verification of systems takes an important position. The conventional Petri net approach that has been studied recently in order to verify the knowledge base is found that it is inadequate to verify the knowledge base of large and complex system, such as alarm processing system of nuclear power plant. Thus, we propose an improved method that models the knowledge base as enhanced colored Petri net. In this study, we analyze the reachability and the error characteristics of the knowledge base. Generally, verification process requires computational support by automated tools. For this reason, this study developed a tool for knowledge base verification based on Design/CPN, which is a tool for editing, modeling, and simulating Colored Petri net. This tool uses Enhanced Colored Petri net as a modeling method. By applying this tool to the knowledge base of nuclear power plant, it is noticed that it can successfully check most of the anomalies that can occur in a knowledge base

The Complex Dynamics of Sponsored Search Markets

Science.gov (United States)

Robu, Valentin; La Poutré, Han; Bohte, Sander

This paper provides a comprehensive study of the structure and dynamics of online advertising markets, mostly based on techniques from the emergent discipline of complex systems analysis. First, we look at how the display rank of a URL link influences its click frequency, for both sponsored search and organic search. Second, we study the market structure that emerges from these queries, especially the market share distribution of different advertisers. We show that the sponsored search market is highly concentrated, with less than 5% of all advertisers receiving over 2/3 of the clicks in the market. Furthermore, we show that both the number of ad impressions and the number of clicks follow power law distributions of approximately the same coefficient. However, we find this result does not hold when studying the same distribution of clicks per rank position, which shows considerable variance, most likely due to the way advertisers divide their budget on different keywords. Finally, we turn our attention to how such sponsored search data could be used to provide decision support tools for bidding for combinations of keywords. We provide a method to visualize keywords of interest in graphical form, as well as a method to partition these graphs to obtain desirable subsets of search terms.

Multispecies Coevolution Particle Swarm Optimization Based on Previous Search History

Directory of Open Access Journals (Sweden)

Danping Wang

2017-01-01

Full Text Available A hybrid coevolution particle swarm optimization algorithm with dynamic multispecies strategy based on K-means clustering and nonrevisit strategy based on Binary Space Partitioning fitness tree (called MCPSO-PSH is proposed. Previous search history memorized into the Binary Space Partitioning fitness tree can effectively restrain the individuals’ revisit phenomenon. The whole population is partitioned into several subspecies and cooperative coevolution is realized by an information communication mechanism between subspecies, which can enhance the global search ability of particles and avoid premature convergence to local optimum. To demonstrate the power of the method, comparisons between the proposed algorithm and state-of-the-art algorithms are grouped into two categories: 10 basic benchmark functions (10-dimensional and 30-dimensional, 10 CEC2005 benchmark functions (30-dimensional, and a real-world problem (multilevel image segmentation problems. Experimental results show that MCPSO-PSH displays a competitive performance compared to the other swarm-based or evolutionary algorithms in terms of solution accuracy and statistical tests.

Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data

Directory of Open Access Journals (Sweden)

Merchant Sabeeha S

2011-07-01

Full Text Available Abstract Background Progress in genome sequencing is proceeding at an exponential pace, and several new algal genomes are becoming available every year. One of the challenges facing the community is the association of protein sequences encoded in the genomes with biological function. While most genome assembly projects generate annotations for predicted protein sequences, they are usually limited and integrate functional terms from a limited number of databases. Another challenge is the use of annotations to interpret large lists of 'interesting' genes generated by genome-scale datasets. Previously, these gene lists had to be analyzed across several independent biological databases, often on a gene-by-gene basis. In contrast, several annotation databases, such as DAVID, integrate data from multiple functional databases and reveal underlying biological themes of large gene lists. While several such databases have been constructed for animals, none is currently available for the study of algae. Due to renewed interest in algae as potential sources of biofuels and the emergence of multiple algal genome sequences, a significant need has arisen for such a database to process the growing compendiums of algal genomic data. Description 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

Enhancing discovery in spatial data infrastructures using a search engine

Directory of Open Access Journals (Sweden)

Paolo Corti

2018-05-01

Full Text Available A spatial data infrastructure (SDI is a framework of geospatial data, metadata, users and tools intended to provide an efficient and flexible way to use spatial information. One of the key software components of an SDI is the catalogue service which is needed to discover, query and manage the metadata. Catalogue services in an SDI are typically based on the Open Geospatial Consortium (OGC Catalogue Service for the Web (CSW standard which defines common interfaces for accessing the metadata information. A search engine is a software system capable of supporting fast and reliable search, which may use ‘any means necessary’ to get users to the resources they need quickly and efficiently. These techniques may include full text search, natural language processing, weighted results, fuzzy tolerance results, faceting, hit highlighting, recommendations and many others. In this paper we present an example of a search engine being added to an SDI to improve search against large collections of geospatial datasets. The Centre for Geographic Analysis (CGA at Harvard University re-engineered the search component of its public domain SDI (Harvard WorldMap which is based on the GeoNode platform. A search engine was added to the SDI stack to enhance the CSW catalogue discovery abilities. It is now possible to discover spatial datasets from metadata by using the standard search operations of the catalogue and to take advantage of the new abilities of the search engine, to return relevant and reliable content to SDI users.

Indigenous youth-developed self-assessment: The Personal Balance Tool.

Science.gov (United States)

Barraza, Rachelle; Bartgis, Jami

2016-01-01

The Fresno American Indian Health Project (FAIHP) Youth Council developed and pilot tested a strength-based, holistic, and youth-friendly self-assessment tool grounded in the Medicine Wheel, a framework and theoretical orientation for teaching wellness in many tribal communities. This paper summarizes the development of the Youth Personal Balance Tool and the methods used for tool revisions through two separate pilot studies and ongoing process evaluations across 3 years. Using a community-based participatory evaluation model, FAIHP leveraged community resources to implement an annual youth Gathering of Native Americans to support youth in healing from historical and intergenerational trauma and restoring communities to balance by making them a part of the solution. This tool is one of many outcomes of their work. The Youth Council is offering the tool as a gift (in line with the cultural value of generosity) to other Indigenous communities that are searching for culturally competent self-assessment tools for youth. The authors believe this tool has the potential to progress the field in strength-based, holistic, youth-friendly assessment as a culturally competent method for Indigenous evaluation and research.

MotionExplorer: exploratory search in human motion capture data based on hierarchical aggregation.

Science.gov (United States)

Bernard, Jürgen; Wilhelm, Nils; Krüger, Björn; May, Thorsten; Schreck, Tobias; Kohlhammer, Jörn

2013-12-01

We present MotionExplorer, an exploratory search and analysis system for sequences of human motion in large motion capture data collections. This special type of multivariate time series data is relevant in many research fields including medicine, sports and animation. Key tasks in working with motion data include analysis of motion states and transitions, and synthesis of motion vectors by interpolation and combination. In the practice of research and application of human motion data, challenges exist in providing visual summaries and drill-down functionality for handling large motion data collections. We find that this domain can benefit from appropriate visual retrieval and analysis support to handle these tasks in presence of large motion data. To address this need, we developed MotionExplorer together with domain experts as an exploratory search system based on interactive aggregation and visualization of motion states as a basis for data navigation, exploration, and search. Based on an overview-first type visualization, users are able to search for interesting sub-sequences of motion based on a query-by-example metaphor, and explore search results by details on demand. We developed MotionExplorer in close collaboration with the targeted users who are researchers working on human motion synthesis and analysis, including a summative field study. Additionally, we conducted a laboratory design study to substantially improve MotionExplorer towards an intuitive, usable and robust design. MotionExplorer enables the search in human motion capture data with only a few mouse clicks. The researchers unanimously confirm that the system can efficiently support their work.

PIE the search: searching PubMed literature for protein interaction information.

Science.gov (United States)

Kim, Sun; Kwon, Dongseop; Shin, Soo-Yong; Wilbur, W John

2012-02-15

Finding protein-protein interaction (PPI) information from literature is challenging but an important issue. However, keyword search in PubMed(®) is often time consuming because it requires a series of actions that refine keywords and browse search results until it reaches a goal. Due to the rapid growth of biomedical literature, it has become more difficult for biologists and curators to locate PPI information quickly. Therefore, a tool for prioritizing PPI informative articles can be a useful assistant for finding this PPI-relevant information. PIE (Protein Interaction information Extraction) the search is a web service implementing a competition-winning approach utilizing word and syntactic analyses by machine learning techniques. For easy user access, PIE the search provides a PubMed-like search environment, but the output is the list of articles prioritized by PPI confidence scores. By obtaining PPI-related articles at high rank, researchers can more easily find the up-to-date PPI information, which cannot be found in manually curated PPI databases. http://www.ncbi.nlm.nih.gov/IRET/PIE/.

Web-based information search and retrieval: effects of strategy use and age on search success.

Science.gov (United States)

Stronge, Aideen J; Rogers, Wendy A; Fisk, Arthur D

2006-01-01

The purpose of this study was to investigate the relationship between strategy use and search success on the World Wide Web (i.e., the Web) for experienced Web users. An additional goal was to extend understanding of how the age of the searcher may influence strategy use. Current investigations of information search and retrieval on the Web have provided an incomplete picture of Web strategy use because participants have not been given the opportunity to demonstrate their knowledge of Web strategies while also searching for information on the Web. Using both behavioral and knowledge-engineering methods, we investigated searching behavior and system knowledge for 16 younger adults (M = 20.88 years of age) and 16 older adults (M = 67.88 years). Older adults were less successful than younger adults in finding correct answers to the search tasks. Knowledge engineering revealed that the age-related effect resulted from ineffective search strategies and amount of Web experience rather than age per se. Our analysis led to the development of a decision-action diagram representing search behavior for both age groups. Older adults had more difficulty than younger adults when searching for information on the Web. However, this difficulty was related to the selection of inefficient search strategies, which may have been attributable to a lack of knowledge about available Web search strategies. Actual or potential applications of this research include training Web users to search more effectively and suggestions to improve the design of search engines.

Are Job Search Programs a Promising Tool? : A Microeconometric Evaluation for Austria

OpenAIRE

Weber, Andrea Maria; Hofer, Helmut

2004-01-01

In Austria job search programs were introduced on a large scale in 1999. These programs aim at activating unemployed at an early stage and bringing them back to work by training job search related skills. We evaluate the impact of active labour market programs in Austria on individual unemployment durations, and allow program effects to vary between job search programs and formal training programs. We use the timing-of-events method which estimates the program effect as a shift in the transit...

An advanced search engine for patent analytics in medicinal chemistry.

Science.gov (United States)

Pasche, Emilie; Gobeill, Julien; Teodoro, Douglas; Gaudinat, Arnaud; Vishnykova, Dina; Lovis, Christian; Ruch, Patrick

2012-01-01

Patent collections contain an important amount of medical-related knowledge, but existing tools were reported to lack of useful functionalities. We present here the development of TWINC, an advanced search engine dedicated to patent retrieval in the domain of health and life sciences. Our tool embeds two search modes: an ad hoc search to retrieve relevant patents given a short query and a related patent search to retrieve similar patents given a patent. Both search modes rely on tuning experiments performed during several patent retrieval competitions. Moreover, TWINC is enhanced with interactive modules, such as chemical query expansion, which is of prior importance to cope with various ways of naming biomedical entities. While the related patent search showed promising performances, the ad-hoc search resulted in fairly contrasted results. Nonetheless, TWINC performed well during the Chemathlon task of the PatOlympics competition and experts appreciated its usability.

Search for bright nearby M dwarfs with virtual observatory tools

Energy Technology Data Exchange (ETDEWEB)

Aberasturi, M.; Caballero, J. A.; Montesinos, B.; Gálvez-Ortiz, M. C.; Solano, E.; Martín, E. L. [Centro de Astrobiología (CSIC-INTA), Departamento de Astrofísica, P.O. Box 78, E-28691 Villanueva de la Cañada, Madrid (Spain)

2014-08-01

Using Virtual Observatory tools, we cross-matched the Carlsberg Meridian 14 and the 2MASS Point Source catalogs to select candidate nearby bright M dwarfs distributed over ∼25,000 deg{sup 2}. Here, we present reconnaissance low-resolution optical spectra for 27 candidates that were observed with the Intermediate Dispersion Spectrograph at the 2.5 m Isaac Newton Telescope (R≈ 1600). We derived spectral types from a new spectral index, R, which measures the ratio of fluxes at 7485-7015 Å and 7120-7150 Å. We also used VOSA, a Virtual Observatory tool for spectral energy distribution fitting, to derive effective temperatures and surface gravities for each candidate. The resulting 27 targets were M dwarfs brighter than J = 10.5 mag, 16 of which were completely new in the Northern hemisphere and 7 of which were located at less than 15 pc. For all of them, we also measured Hα and Na I pseudo-equivalent widths, determined photometric distances, and identified the most active stars. The targets with the weakest sodium absorption, namely, J0422+2439 (with X-ray and strong Hα emissions), J0435+2523, and J0439+2333, are new members in the young Taurus-Auriga star-forming region based on proper motion, spatial distribution, and location in the color-magnitude diagram, which reopens the discussion on the deficit of M2-4 Taurus stars. Finally, based on proper motion diagrams, we report on a new wide M dwarf binary system in the field, LSPM J0326+3929EW.

Reduction of inequalities in health: assessing evidence-based tools

Directory of Open Access Journals (Sweden)

Shea Beverley

2006-09-01

Full Text Available Abstract Background The reduction of health inequalities is a focus of many national and international health organisations. The need for pragmatic evidence-based approaches has led to the development of a number of evidence-based equity initiatives. This paper describes a new program that focuses upon evidence- based tools, which are useful for policy initiatives that reduce inequities. Methods This paper is based on a presentation that was given at the "Regional Consultation on Policy Tools: Equity in Population Health Reports," held in Toronto, Canada in June 2002. Results Five assessment tools were presented. 1. A database of systematic reviews on the effects of educational, legal, social, and health interventions to reduce unfair inequalities is being established through the Cochrane and Campbell Collaborations. 2 Decision aids and shared decision making can be facilitated in disadvantaged groups by 'health coaches' to help people become better decision makers, negotiators, and navigators of the health system; a pilot study in Chile has provided proof of this concept. 3. The CIET Cycle: Combining adapted cluster survey techniques with qualitative methods, CIET's population based applications support evidence-based decision making at local and national levels. The CIET map generates maps directly from survey or routine institutional data, to be used as evidence-based decisions aids. Complex data can be displayed attractively, providing an important tool for studying and comparing health indicators among and between different populations. 4. The Ottawa Equity Gauge is applying the Global Equity Gauge Alliance framework to an industrialised country setting. 5 The Needs-Based Health Assessment Toolkit, established to assemble information on which clinical and health policy decisions can be based, is being expanded to ensure a focus on distribution and average health indicators. Conclusion Evidence-based planning tools have much to offer the

Constraint-based local search for container stowage slot planning

DEFF Research Database (Denmark)

Pacino, Dario; Jensen, Rune Møller; Bebbington, Tom

2012-01-01

-sea vessels. This paper describes the constrained-based local search algorithm used in the second phase of this approach where individual containers are assigned to slots in each bay section. The algorithm can solve this problem in an average of 0.18 seconds per bay, corresponding to a 20 seconds runtime...

A DE-Based Scatter Search for Global Optimization Problems

Directory of Open Access Journals (Sweden)

Kun Li

2015-01-01

Full Text Available This paper proposes a hybrid scatter search (SS algorithm for continuous global optimization problems by incorporating the evolution mechanism of differential evolution (DE into the reference set updated procedure of SS to act as the new solution generation method. This hybrid algorithm is called a DE-based SS (SSDE algorithm. Since different kinds of mutation operators of DE have been proposed in the literature and they have shown different search abilities for different kinds of problems, four traditional mutation operators are adopted in the hybrid SSDE algorithm. To adaptively select the mutation operator that is most appropriate to the current problem, an adaptive mechanism for the candidate mutation operators is developed. In addition, to enhance the exploration ability of SSDE, a reinitialization method is adopted to create a new population and subsequently construct a new reference set whenever the search process of SSDE is trapped in local optimum. Computational experiments on benchmark problems show that the proposed SSDE is competitive or superior to some state-of-the-art algorithms in the literature.

Web-based tools from AHRQ's National Resource Center.

Science.gov (United States)

Cusack, Caitlin M; Shah, Sapna

2008-11-06

The Agency for Healthcare Research and Quality (AHRQ) has made an investment of over $216 million in research around health information technology (health IT). As part of their investment, AHRQ has developed the National Resource Center for Health IT (NRC) which includes a public domain Web site. New content for the web site, such as white papers, toolkits, lessons from the health IT portfolio and web-based tools, is developed as needs are identified. Among the tools developed by the NRC are the Compendium of Surveys and the Clinical Decision Support (CDS) Resources. The Compendium of Surveys is a searchable repository of health IT evaluation surveys made available for public use. The CDS Resources contains content which may be used to develop clinical decision support tools, such as rules, reminders and templates. This live demonstration will show the access, use, and content of both these freely available web-based tools.

G-Bean: an ontology-graph based web tool for biomedical literature retrieval.

Science.gov (United States)

Wang, James Z; Zhang, Yuanyuan; Dong, Liang; Li, Lin; Srimani, Pradip K; Yu, Philip S

2014-01-01

Currently, most people use NCBI's PubMed to search the MEDLINE database, an important bibliographical information source for life science and biomedical information. However, PubMed has some drawbacks that make it difficult to find relevant publications pertaining to users' individual intentions, especially for non-expert users. To ameliorate the disadvantages of PubMed, we developed G-Bean, a graph based biomedical search engine, to search biomedical articles in MEDLINE database more efficiently. G-Bean addresses PubMed's limitations with three innovations: (1) Parallel document index creation: a multithreaded index creation strategy is employed to generate the document index for G-Bean in parallel; (2) Ontology-graph based query expansion: an ontology graph is constructed by merging four major UMLS (Version 2013AA) vocabularies, MeSH, SNOMEDCT, CSP and AOD, to cover all concepts in National Library of Medicine (NLM) database; a Personalized PageRank algorithm is used to compute concept relevance in this ontology graph and the Term Frequency - Inverse Document Frequency (TF-IDF) weighting scheme is used to re-rank the concepts. The top 500 ranked concepts are selected for expanding the initial query to retrieve more accurate and relevant information; (3) Retrieval and re-ranking of documents based on user's search intention: after the user selects any article from the existing search results, G-Bean analyzes user's selections to determine his/her true search intention and then uses more relevant and more specific terms to retrieve additional related articles. The new articles are presented to the user in the order of their relevance to the already selected articles. Performance evaluation with 106 OHSUMED benchmark queries shows that G-Bean returns more relevant results than PubMed does when using these queries to search the MEDLINE database. PubMed could not even return any search result for some OHSUMED queries because it failed to form the appropriate Boolean

Support patient search on pathology reports with interactive online learning based data extraction.

Science.gov (United States)

Zheng, Shuai; Lu, James J; Appin, Christina; Brat, Daniel; Wang, Fusheng

2015-01-01

Structural reporting enables semantic understanding and prompt retrieval of clinical findings about patients. While synoptic pathology reporting provides templates for data entries, information in pathology reports remains primarily in narrative free text form. Extracting data of interest from narrative pathology reports could significantly improve the representation of the information and enable complex structured queries. However, manual extraction is tedious and error-prone, and automated tools are often constructed with a fixed training dataset and not easily adaptable. Our goal is to extract data from pathology reports to support advanced patient search with a highly adaptable semi-automated data extraction system, which can adjust and self-improve by learning from a user's interaction with minimal human effort. We have developed an online machine learning based information extraction system called IDEAL-X. With its graphical user interface, the system's data extraction engine automatically annotates values for users to review upon loading each report text. The system analyzes users' corrections regarding these annotations with online machine learning, and incrementally enhances and refines the learning model as reports are processed. The system also takes advantage of customized controlled vocabularies, which can be adaptively refined during the online learning process to further assist the data extraction. As the accuracy of automatic annotation improves overtime, the effort of human annotation is gradually reduced. After all reports are processed, a built-in query engine can be applied to conveniently define queries based on extracted structured data. We have evaluated the system with a dataset of anatomic pathology reports from 50 patients. Extracted data elements include demographical data, diagnosis, genetic marker, and procedure. The system achieves F-1 scores of around 95% for the majority of tests. Extracting data from pathology reports could enable

Improving Web Search for Difficult Queries

Science.gov (United States)

Wang, Xuanhui

2009-01-01

Search engines have now become essential tools in all aspects of our life. Although a variety of information needs can be served very successfully, there are still a lot of queries that search engines can not answer very effectively and these queries always make users feel frustrated. Since it is quite often that users encounter such "difficult…

Efficient Multi-keyword Ranked Search over Outsourced Cloud Data based on Homomorphic Encryption

Directory of Open Access Journals (Sweden)

Nie Mengxi

2016-01-01

Full Text Available With the development of cloud computing, more and more data owners are motivated to outsource their data to the cloud server for great flexibility and less saving expenditure. Because the security of outsourced data must be guaranteed, some encryption methods should be used which obsoletes traditional data utilization based on plaintext, e.g. keyword search. To solve the search of encrypted data, some schemes were proposed to solve the search of encrypted data, e.g. top-k single or multiple keywords retrieval. However, the efficiency of these proposed schemes is not high enough to be impractical in the cloud computing. In this paper, we propose a new scheme based on homomorphic encryption to solve this challenging problem of privacy-preserving efficient multi-keyword ranked search over outsourced cloud data. In our scheme, the inner product is adopted to measure the relevance scores and the technique of relevance feedback is used to reflect the search preference of the data users. Security analysis shows that the proposed scheme can meet strict privacy requirements for such a secure cloud data utilization system. Performance evaluation demonstrates that the proposed scheme can achieve low overhead on both computation and communication.

Analysis on the Correlation of Traffic Flow in Hainan Province Based on Baidu Search

Science.gov (United States)

Chen, Caixia; Shi, Chun

2018-03-01

Internet search data records user’s search attention and consumer demand, providing necessary database for the Hainan traffic flow model. Based on Baidu Index, with Hainan traffic flow as example, this paper conduct both qualitative and quantitative analysis on the relationship between search keyword from Baidu Index and actual Hainan tourist traffic flow, and build multiple regression model by SPSS.

Model based methods and tools for process systems engineering

DEFF Research Database (Denmark)

Gani, Rafiqul

need to be integrated with work-flows and data-flows for specific product-process synthesis-design problems within a computer-aided framework. The framework therefore should be able to manage knowledge-data, models and the associated methods and tools needed by specific synthesis-design work...... of model based methods and tools within a computer aided framework for product-process synthesis-design will be highlighted.......Process systems engineering (PSE) provides means to solve a wide range of problems in a systematic and efficient manner. This presentation will give a perspective on model based methods and tools needed to solve a wide range of problems in product-process synthesis-design. These methods and tools...

Searches with boosted objects at ATLAS and CMS

CERN Document Server

AUTHOR|(INSPIRE)INSPIRE-00069444; The ATLAS collaboration

2017-01-01

The discovery of the Higgs boson confirms the validity of the Standard Model and suggests new physics should exist close to the Higgs mass scale. Since the Higgs mass fine-tuning is proportional to the square of the energy scale of new physics and driven by couplings to the top quark and W, Z and Higgs bosons, searches at high energy with these particles in the final state are of utmost priority. At the LHC, that means these are boosted, and, for their dominant hadronic decays modes, the decay products will be reconstructed as a single jet. Both ATLAS and CMS now use advanced jet substructure tools in the search for new physics at high mass. These tools and some of the searches using them, in particular searches for vector-like quarks and diboson resonances, are described here.

Neutral Supersymmetric Higgs Boson Searches at D0

International Nuclear Information System (INIS)

Robinson, S.

2009-01-01

In some Supersymmetric extensions of the Standard Model, including the Minimal Supersymmetric Standard Model (MSSM), the coupling of Higgs bosons to b-quarks is enhanced. This enhancement makes the associated production of the Higgs with b-quarks an interesting search channel for the Higgs and Supersymmetry at D0. The identification of b-quarks, both online and offline, is essential to this search effort. This thesis describes the author's involvement in the development of both types of b-tagging and in the application of these techniques to the MSSM Higgs search. Work was carried out on the Level-3 trigger b-tagging algorithms. The impact parameter (IP) b-tagger was retuned and the effects of increased instantaneous luminosity on the tagger were studied. An extension of the IP-tagger to use the z-tracking information was developed. A new b-tagger using secondary vertices was developed and commissioned. A tool was developed to allow the use of large multi-run samples for trigger studies involving b-quarks. Offline, a neural network (NN) b-tagger was trained combining the existing offline lifetime based b-tagging tools. The efficiency and fake rate of the NN b-tagger were measured in data and MC. This b-tagger was internally reviewed and certified by the Collaboration and now provides the official b-tagging for all analyses using the Run IIa dataset at D0. A search was performed for neutral MSSM Higgs bosons decaying to a b(bar b) pair and produced in association with one or more b-quarks. Limits are set on the cross-section times the branching ratio for such a process. The limits were interpreted in various MSSM scenarios. This analysis uses the NN b-tagger and was the first to use this tool. The analysis also relies on triggers using the Level-3 IP b-tagging tool described previously. A likelihood discriminant was used to improve the analysis and a neural network was developed to cross-check this technique. The result of the analysis has been submitted to PRL and

Is Internet search better than structured instruction for web-based health education?

Science.gov (United States)

Finkelstein, Joseph; Bedra, McKenzie

2013-01-01

Internet provides access to vast amounts of comprehensive information regarding any health-related subject. Patients increasingly use this information for health education using a search engine to identify education materials. An alternative approach of health education via Internet is based on utilizing a verified web site which provides structured interactive education guided by adult learning theories. Comparison of these two approaches in older patients was not performed systematically. The aim of this study was to compare the efficacy of a web-based computer-assisted education (CO-ED) system versus searching the Internet for learning about hypertension. Sixty hypertensive older adults (age 45+) were randomized into control or intervention groups. The control patients spent 30 to 40 minutes searching the Internet using a search engine for information about hypertension. The intervention patients spent 30 to 40 minutes using the CO-ED system, which provided computer-assisted instruction about major hypertension topics. Analysis of pre- and post- knowledge scores indicated a significant improvement among CO-ED users (14.6%) as opposed to Internet users (2%). Additionally, patients using the CO-ED program rated their learning experience more positively than those using the Internet.

Search optimization of named entities from twitter streams

Science.gov (United States)

Fazeel, K. Mohammed; Hassan Mottur, Simama; Norman, Jasmine; Mangayarkarasi, R.

2017-11-01

With Enormous number of tweets, People often face difficulty to get exact information about those tweets. One of the approach followed for getting information about those tweets via Google. There is not any accuracy tool developed for search optimization and as well as getting information about those tweets. So, this system contains the search optimization and functionalities for getting information about those tweets. Another problem faced here are the tweets that contains grammatical errors, misspellings, non-standard abbreviations, and meaningless capitalization. So, these problems can be eliminated by the use of this tool. Lot of time can be saved and as well as by the use of efficient search optimization each information about those particular tweets can be obtained.

SIRW: A web server for the Simple Indexing and Retrieval System that combines sequence motif searches with keyword searches.

Science.gov (United States)

Ramu, Chenna

2003-07-01

SIRW (http://sirw.embl.de/) is a World Wide Web interface to the Simple Indexing and Retrieval System (SIR) that is capable of parsing and indexing various flat file databases. In addition it provides a framework for doing sequence analysis (e.g. motif pattern searches) for selected biological sequences through keyword search. SIRW is an ideal tool for the bioinformatics community for searching as well as analyzing biological sequences of interest.

Appraisal tools for clinical practice guidelines: a systematic review.

Directory of Open Access Journals (Sweden)

Ulrich Siering

Full Text Available Clinical practice guidelines can improve healthcare processes and patient outcomes, but are often of low quality. Guideline appraisal tools aim to help potential guideline users in assessing guideline quality. We conducted a systematic review of publications describing guideline appraisal tools in order to identify and compare existing tools.Among others we searched MEDLINE, EMBASE and the Cochrane Database of Systematic Reviews from 1995 to May 2011 for relevant primary and secondary publications. We also handsearched the reference lists of relevant publications. On the basis of the available literature we firstly generated 34 items to be used in the comparison of appraisal tools and grouped them into thirteen quality dimensions. We then extracted formal characteristics as well as questions and statements of the appraisal tools and assigned them to the items.We identified 40 different appraisal tools. They covered between three and thirteen of the thirteen possible quality dimensions and between three and 29 of the possible 34 items. The main focus of the appraisal tools were the quality dimensions "evaluation of evidence" (mentioned in 35 tools; 88%, "presentation of guideline content" (34 tools; 85%, "transferability" (33 tools; 83%, "independence" (32 tools; 80%, "scope" (30 tools; 75%, and "information retrieval" (29 tools; 73%. The quality dimensions "consideration of different perspectives" and "dissemination, implementation and evaluation of the guideline" were covered by only twenty (50% and eighteen tools (45% respectively.Most guideline appraisal tools assess whether the literature search and the evaluation, synthesis and presentation of the evidence in guidelines follow the principles of evidence-based medicine. Although conflicts of interest and norms and values of guideline developers, as well as patient involvement, affect the trustworthiness of guidelines, they are currently insufficiently considered. Greater focus should be

DWFS: A Wrapper Feature Selection Tool Based on a Parallel Genetic Algorithm

KAUST Repository

Soufan, Othman

2015-02-26

Many scientific problems can be formulated as classification tasks. Data that harbor relevant information are usually described by a large number of features. Frequently, many of these features are irrelevant for the class prediction. The efficient implementation of classification models requires identification of suitable combinations of features. The smaller number of features reduces the problem\\'s dimensionality and may result in higher classification performance. We developed DWFS, a web-based tool that allows for efficient selection of features for a variety of problems. DWFS follows the wrapper paradigm and applies a search strategy based on Genetic Algorithms (GAs). A parallel GA implementation examines and evaluates simultaneously large number of candidate collections of features. DWFS also integrates various filteringmethods thatmay be applied as a pre-processing step in the feature selection process. Furthermore, weights and parameters in the fitness function of GA can be adjusted according to the application requirements. Experiments using heterogeneous datasets from different biomedical applications demonstrate that DWFS is fast and leads to a significant reduction of the number of features without sacrificing performance as compared to several widely used existing methods. DWFS can be accessed online at www.cbrc.kaust.edu.sa/dwfs.

DWFS: A Wrapper Feature Selection Tool Based on a Parallel Genetic Algorithm

KAUST Repository

Soufan, Othman; Kleftogiannis, Dimitrios A.; Kalnis, Panos; Bajic, Vladimir B.

2015-01-01

Many scientific problems can be formulated as classification tasks. Data that harbor relevant information are usually described by a large number of features. Frequently, many of these features are irrelevant for the class prediction. The efficient implementation of classification models requires identification of suitable combinations of features. The smaller number of features reduces the problem's dimensionality and may result in higher classification performance. We developed DWFS, a web-based tool that allows for efficient selection of features for a variety of problems. DWFS follows the wrapper paradigm and applies a search strategy based on Genetic Algorithms (GAs). A parallel GA implementation examines and evaluates simultaneously large number of candidate collections of features. DWFS also integrates various filteringmethods thatmay be applied as a pre-processing step in the feature selection process. Furthermore, weights and parameters in the fitness function of GA can be adjusted according to the application requirements. Experiments using heterogeneous datasets from different biomedical applications demonstrate that DWFS is fast and leads to a significant reduction of the number of features without sacrificing performance as compared to several widely used existing methods. DWFS can be accessed online at www.cbrc.kaust.edu.sa/dwfs.

Forensic utilization of familial searches in DNA databases.

Science.gov (United States)

Gershaw, Cassandra J; Schweighardt, Andrew J; Rourke, Linda C; Wallace, Margaret M

2011-01-01

DNA evidence is widely recognized as an invaluable tool in the process of investigation and identification, as well as one of the most sought after types of evidence for presentation to a jury. In the United States, the development of state and federal DNA databases has greatly impacted the forensic community by creating an efficient, searchable system that can be used to eliminate or include suspects in an investigation based on matching DNA profiles - the profile already in the database to the profile of the unknown sample in evidence. Recent changes in legislation have begun to allow for the possibility to expand the parameters of DNA database searches, taking into account the possibility of familial searches. This article discusses prospective positive outcomes of utilizing familial DNA searches and acknowledges potential negative outcomes, thereby presenting both sides of this very complicated, rapidly evolving situation. Copyright © 2010 Elsevier Ireland Ltd. All rights reserved.

Finding Your Voice: Talent Development Centers and the Academic Talent Search

Science.gov (United States)

Rushneck, Amy S.

2012-01-01

Talent Development Centers are just one of many tools every family, teacher, and gifted advocate should have in their tool box. To understand the importance of Talent Development Centers, it is essential to also understand the Academic Talent Search Program. Talent Search participants who obtain scores comparable to college-bound high school…

Using risk based tools in emergency response

International Nuclear Information System (INIS)

Dixon, B.W.; Ferns, K.G.

1987-01-01

Probabilistic Risk Assessment (PRA) techniques are used by the nuclear industry to model the potential response of a reactor subjected to unusual conditions. The knowledge contained in these models can aid in emergency response decision making. This paper presents requirements for a PRA based emergency response support system to date. A brief discussion of published work provides background for a detailed description of recent developments. A rapid deep assessment capability for specific portions of full plant models is presented. The program uses a screening rule base to control search space expansion in a combinational algorithm

OPUS: A Comprehensive Search Tool for Remote Sensing Observations of the Outer Planets. Now with Enhanced Geometric Metadata for Cassini and New Horizons Optical Remote Sensing Instruments.

Science.gov (United States)

Gordon, M. K.; Showalter, M. R.; Ballard, L.; Tiscareno, M.; French, R. S.; Olson, D.

2017-06-01

The PDS RMS Node hosts OPUS - an accurate, comprehensive search tool for spacecraft remote sensing observations. OPUS supports Cassini: CIRS, ISS, UVIS, VIMS; New Horizons: LORRI, MVIC; Galileo SSI; Voyager ISS; and Hubble: ACS, STIS, WFC3, WFPC2.

The Search for Extension: 7 Steps to Help People Find Research-Based Information on the Internet

Science.gov (United States)

Hill, Paul; Rader, Heidi B.; Hino, Jeff

2012-01-01

For Extension's unbiased, research-based content to be found by people searching the Internet, it needs to be organized in a way conducive to the ranking criteria of a search engine. With proper web design and search engine optimization techniques, Extension's content can be found, recognized, and properly indexed by search engines and…

A Novel Quad Harmony Search Algorithm for Grid-Based Path Finding

Directory of Open Access Journals (Sweden)

Saso Koceski

2014-09-01

Full Text Available A novel approach to the problem of grid-based path finding has been introduced. The method is a block-based search algorithm, founded on the bases of two algorithms, namely the quad-tree algorithm, which offered a great opportunity for decreasing the time needed to compute the solution, and the harmony search (HS algorithm, a meta-heuristic algorithm used to obtain the optimal solution. This quad HS algorithm uses the quad-tree decomposition of free space in the grid to mark the free areas and treat them as a single node, which greatly improves the execution. The results of the quad HS algorithm have been compared to other meta-heuristic algorithms, i.e., ant colony, genetic algorithm, particle swarm optimization and simulated annealing, and it was proved to obtain the best results in terms of time and giving the optimal path.

Fast Multi-blind Modification Search through Tandem Mass Spectrometry*

Science.gov (United States)

Na, Seungjin; Bandeira, Nuno; Paek, Eunok

2012-01-01

With great biological interest in post-translational modifications (PTMs), various approaches have been introduced to identify PTMs using MS/MS. Recent developments for PTM identification have focused on an unrestrictive approach that searches MS/MS spectra for all known and possibly even unknown types of PTMs at once. However, the resulting expanded search space requires much longer search time and also increases the number of false positives (incorrect identifications) and false negatives (missed true identifications), thus creating a bottleneck in high throughput analysis. Here we introduce MODa, a novel “multi-blind” spectral alignment algorithm that allows for fast unrestrictive PTM searches with no limitation on the number of modifications per peptide while featuring over an order of magnitude speedup in relation to existing approaches. We demonstrate the sensitivity of MODa on human shotgun proteomics data where it reveals multiple mutations, a wide range of modifications (including glycosylation), and evidence for several putative novel modifications. Based on the reported findings, we argue that the efficiency and sensitivity of MODa make it the first unrestrictive search tool with the potential to fully replace conventional restrictive identification of proteomics mass spectrometry data. PMID:22186716

Using Critical Thinking To Conduct Effective Searches of Online Resources.

Science.gov (United States)

Brem, Sarah K.; Boyes, Andrea J.

2000-01-01

Complements guidelines addressing the mechanics of online searching by considering how treating searching as exercises in critical thinking can improve the use of online resources. Discusses metacognition, hypothesis testing, and argumentation, with illustrative examples and links to tools that facilitate the searching process. (SLD)

A Semidefinite Programming Based Search Strategy for Feature Selection with Mutual Information Measure.

Science.gov (United States)

Naghibi, Tofigh; Hoffmann, Sarah; Pfister, Beat

2015-08-01

Feature subset selection, as a special case of the general subset selection problem, has been the topic of a considerable number of studies due to the growing importance of data-mining applications. In the feature subset selection problem there are two main issues that need to be addressed: (i) Finding an appropriate measure function than can be fairly fast and robustly computed for high-dimensional data. (ii) A search strategy to optimize the measure over the subset space in a reasonable amount of time. In this article mutual information between features and class labels is considered to be the measure function. Two series expansions for mutual information are proposed, and it is shown that most heuristic criteria suggested in the literature are truncated approximations of these expansions. It is well-known that searching the whole subset space is an NP-hard problem. Here, instead of the conventional sequential search algorithms, we suggest a parallel search strategy based on semidefinite programming (SDP) that can search through the subset space in polynomial time. By exploiting the similarities between the proposed algorithm and an instance of the maximum-cut problem in graph theory, the approximation ratio of this algorithm is derived and is compared with the approximation ratio of the backward elimination method. The experiments show that it can be misleading to judge the quality of a measure solely based on the classification accuracy, without taking the effect of the non-optimum search strategy into account.

A quality assessment tool for markup-based clinical guidelines.

Science.gov (United States)

Shalom, Erez; Shahar, Yuval; Taieb-Maimon, Meirav; Lunenfeld, Eitan

2008-11-06

We introduce a tool for quality assessment of procedural and declarative knowledge. We developed this tool for evaluating the specification of mark-up-based clinical GLs. Using this graphical tool, the expert physician and knowledge engineer collaborate to perform scoring, using pre-defined scoring scale, each of the knowledge roles of the mark-ups, comparing it to a gold standard. The tool enables scoring the mark-ups simultaneously at different sites by different users at different locations.

The Gaze of the Perfect Search Engine: Google as an Infrastructure of Dataveillance

Science.gov (United States)

Zimmer, M.

Web search engines have emerged as a ubiquitous and vital tool for the successful navigation of the growing online informational sphere. The goal of the world's largest search engine, Google, is to "organize the world's information and make it universally accessible and useful" and to create the "perfect search engine" that provides only intuitive, personalized, and relevant results. While intended to enhance intellectual mobility in the online sphere, this chapter reveals that the quest for the perfect search engine requires the widespread monitoring and aggregation of a users' online personal and intellectual activities, threatening the values the perfect search engines were designed to sustain. It argues that these search-based infrastructures of dataveillance contribute to a rapidly emerging "soft cage" of everyday digital surveillance, where they, like other dataveillance technologies before them, contribute to the curtailing of individual freedom, affect users' sense of self, and present issues of deep discrimination and social justice.

Model-based setup assistant for progressive tools

Science.gov (United States)

Springer, Robert; Gräler, Manuel; Homberg, Werner; Henke, Christian; Trächtler, Ansgar

2018-05-01

In the field of production systems, globalization and technological progress lead to increasing requirements regarding part quality, delivery time and costs. Hence, today's production is challenged much more than a few years ago: it has to be very flexible and produce economically small batch sizes to satisfy consumer's demands and avoid unnecessary stock. Furthermore, a trend towards increasing functional integration continues to lead to an ongoing miniaturization of sheet metal components. In the industry of electric connectivity for example, the miniaturized connectors are manufactured by progressive tools, which are usually used for very large batches. These tools are installed in mechanical presses and then set up by a technician, who has to manually adjust a wide range of punch-bending operations. Disturbances like material thickness, temperatures, lubrication or tool wear complicate the setup procedure. In prospect of the increasing demand of production flexibility, this time-consuming process has to be handled more and more often. In this paper, a new approach for a model-based setup assistant is proposed as a solution, which is exemplarily applied in combination with a progressive tool. First, progressive tools, more specifically, their setup process is described and based on that, the challenges are pointed out. As a result, a systematic process to set up the machines is introduced. Following, the process is investigated with an FE-Analysis regarding the effects of the disturbances. In the next step, design of experiments is used to systematically develop a regression model of the system's behaviour. This model is integrated within an optimization in order to calculate optimal machine parameters and the following necessary adjustment of the progressive tool due to the disturbances. Finally, the assistant is tested in a production environment and the results are discussed.

An ontology-based search engine for protein-protein interactions.

Science.gov (United States)

Park, Byungkyu; Han, Kyungsook

2010-01-18

Keyword matching or ID matching is the most common searching method in a large database of protein-protein interactions. They are purely syntactic methods, and retrieve the records in the database that contain a keyword or ID specified in a query. Such syntactic search methods often retrieve too few search results or no results despite many potential matches present in the database. We have developed a new method for representing protein-protein interactions and the Gene Ontology (GO) using modified Gödel numbers. This representation is hidden from users but enables a search engine using the representation to efficiently search protein-protein interactions in a biologically meaningful way. Given a query protein with optional search conditions expressed in one or more GO terms, the search engine finds all the interaction partners of the query protein by unique prime factorization of the modified Gödel numbers representing the query protein and the search conditions. Representing the biological relations of proteins and their GO annotations by modified Gödel numbers makes a search engine efficiently find all protein-protein interactions by prime factorization of the numbers. Keyword matching or ID matching search methods often miss the interactions involving a protein that has no explicit annotations matching the search condition, but our search engine retrieves such interactions as well if they satisfy the search condition with a more specific term in the ontology.

Knowledge Management Implementation and the Tools Utilized in Healthcare for Evidence-Based Decision Making: A Systematic Review

OpenAIRE

Shahmoradi, Leila; Safadari, Reza; Jimma, Worku

2017-01-01

Background Healthcare is a knowledge driven process and thus knowledge management and the tools to manage knowledge in healthcare sector are gaining attention. The aim of this systematic review is to investigate knowledge management implementation and knowledge management tools used in healthcare for informed decision making. Methods Three databases, two journals websites and Google Scholar were used as sources for the review. The key terms used to search relevant articles include: “Healthcar...

evaluating search effectiveness of some selected search engines

African Journals Online (AJOL)

Precision, relative recall and response time were considered for this ... a total of 24 search queries were sampled based on information queries, .... searching process and results, although there are other ... Q3.2 Software prototype model.

Millennial Students’ Online Search Strategies are Associated With Their Mental Models of Search. A Review of: Holman, L. (2011. Millennial students’ mental models of search: Implications for academic librarians and database developers. Journal of Academic Librarianship, 37(1, 19-27. doi:10.1016/j.acalib.2010.10.003

Directory of Open Access Journals (Sweden)

Leslie Bussert

2011-09-01

. Students assumed that obtaining few results indicated a problem of keyword choices rather than search query structure. When faced with no results in the databases, they assumed there were no articles on their topics and did not re-evaluate their search queries. Those with unsuccessful Boolean searches did not recognize that their errors were due to logic, and instead changed their keywords or began a new search altogether.Several students understood keywords as concepts versus literal strings of letters, yet thought the search tools determined search results based solely on what was typed into the search box. Of those employing phrase searches, some believed that each word was queried, while others thought only the “primary terms” were queried. Most students (61% offered analogies to print resources to explain how search engines process queries, and all the students’ descriptions included their ideas about what a search tool contained, rather than how the search tools organized information.Attempts to expand or narrow searches were haphazard. While most students (57% employed the strategy of adding keywords to narrow searches, only a few (11% recognized the function of this technique and used it regularly, while others tended to return to their original broad searches in a different tool. Some had a limited understanding that adding terms narrows and reducing terms broadens the search, but their Boolean errors negated the use of synonyms or alternative terms for those purposes. Other strategies included using the search tool’s “advanced search” features or quotes, although all who used the latter did so incorrectly and some mistakenly thought parentheses served the same purpose.All subjects drew representations of their views of the relationship between keywords used and search results retrieved, though few were able to clearly visualize how a search engine processes a query, or address ideas such as expanding or narrowing searches or synonym use. Three

PubstractHelper: A Web-based Text-Mining Tool for Marking Sentences in Abstracts from PubMed Using Multiple User-Defined Keywords.

Science.gov (United States)

Chen, Chou-Cheng; Ho, Chung-Liang

2014-01-01

While a huge amount of information about biological literature can be obtained by searching the PubMed database, reading through all the titles and abstracts resulting from such a search for useful information is inefficient. Text mining makes it possible to increase this efficiency. Some websites use text mining to gather information from the PubMed database; however, they are database-oriented, using pre-defined search keywords while lacking a query interface for user-defined search inputs. We present the PubMed Abstract Reading Helper (PubstractHelper) website which combines text mining and reading assistance for an efficient PubMed search. PubstractHelper can accept a maximum of ten groups of keywords, within each group containing up to ten keywords. The principle behind the text-mining function of PubstractHelper is that keywords contained in the same sentence are likely to be related. PubstractHelper highlights sentences with co-occurring keywords in different colors. The user can download the PMID and the abstracts with color markings to be reviewed later. The PubstractHelper website can help users to identify relevant publications based on the presence of related keywords, which should be a handy tool for their research. http://bio.yungyun.com.tw/ATM/PubstractHelper.aspx and http://holab.med.ncku.edu.tw/ATM/PubstractHelper.aspx.

The Research and Test of Fast Radio Burst Real-time Search Algorithm Based on GPU Acceleration

Science.gov (United States)

Wang, J.; Chen, M. Z.; Pei, X.; Wang, Z. Q.

2017-03-01

In order to satisfy the research needs of Nanshan 25 m radio telescope of Xinjiang Astronomical Observatory (XAO) and study the key technology of the planned QiTai radio Telescope (QTT), the receiver group of XAO studied the GPU (Graphics Processing Unit) based real-time FRB searching algorithm which developed from the original FRB searching algorithm based on CPU (Central Processing Unit), and built the FRB real-time searching system. The comparison of the GPU system and the CPU system shows that: on the basis of ensuring the accuracy of the search, the speed of the GPU accelerated algorithm is improved by 35-45 times compared with the CPU algorithm.

What can management theories offer evidence-based practice? A comparative analysis of measurement tools for organisational context.

Science.gov (United States)

French, Beverley; Thomas, Lois H; Baker, Paula; Burton, Christopher R; Pennington, Lindsay; Roddam, Hazel

2009-05-19

Given the current emphasis on networks as vehicles for innovation and change in health service delivery, the ability to conceptualize and measure organisational enablers for the social construction of knowledge merits attention. This study aimed to develop a composite tool to measure the organisational context for evidence-based practice (EBP) in healthcare. A structured search of the major healthcare and management databases for measurement tools from four domains: research utilisation (RU), research activity (RA), knowledge management (KM), and organisational learning (OL). Included studies were reports of the development or use of measurement tools that included organisational factors. Tools were appraised for face and content validity, plus development and testing methods. Measurement tool items were extracted, merged across the four domains, and categorised within a constructed framework describing the absorptive and receptive capacities of organisations. Thirty measurement tools were identified and appraised. Eighteen tools from the four domains were selected for item extraction and analysis. The constructed framework consists of seven categories relating to three core organisational attributes of vision, leadership, and a learning culture, and four stages of knowledge need, acquisition of new knowledge, knowledge sharing, and knowledge use. Measurement tools from RA or RU domains had more items relating to the categories of leadership, and acquisition of new knowledge; while tools from KM or learning organisation domains had more items relating to vision, learning culture, knowledge need, and knowledge sharing. There was equal emphasis on knowledge use in the different domains. If the translation of evidence into knowledge is viewed as socially mediated, tools to measure the organisational context of EBP in healthcare could be enhanced by consideration of related concepts from the organisational and management sciences. Comparison of measurement tools across

Using the open Web as an information resource and scholarly Web search engines as retrieval tools for academic and research purposes

OpenAIRE

Filistea Naude; Chris Rensleigh; Adeline S.A. du Toit

2010-01-01

This study provided insight into the significance of the open Web as an information resource and Web search engines as research tools amongst academics. The academic staff establishment of the University of South Africa (Unisa) was invited to participate in a questionnaire survey and included 1188 staff members from five colleges. This study culminated in a PhD dissertation in 2008. One hundred and eighty seven respondents participated in the survey which gave a response rate of 15.7%. The re...

An opposition-based harmony search algorithm for engineering optimization problems

Directory of Open Access Journals (Sweden)

Abhik Banerjee

2014-03-01

Full Text Available Harmony search (HS is a derivative-free real parameter optimization algorithm. It draws inspiration from the musical improvisation process of searching for a perfect state of harmony. The proposed opposition-based HS (OHS of the present work employs opposition-based learning for harmony memory initialization and also for generation jumping. The concept of opposite number is utilized in OHS to improve the convergence rate of the HS algorithm. The potential of the proposed algorithm is assessed by means of an extensive comparative study of the numerical results on sixteen benchmark test functions. Additionally, the effectiveness of the proposed algorithm is tested for reactive power compensation of an autonomous power system. For real-time reactive power compensation of the studied model, Takagi Sugeno fuzzy logic (TSFL is employed. Time-domain simulation reveals that the proposed OHS-TSFL yields on-line, off-nominal model parameters, resulting in real-time incremental change in terminal voltage response profile.

FPS-RAM: Fast Prefix Search RAM-Based Hardware for Forwarding Engine

Science.gov (United States)

Zaitsu, Kazuya; Yamamoto, Koji; Kuroda, Yasuto; Inoue, Kazunari; Ata, Shingo; Oka, Ikuo

Ternary content addressable memory (TCAM) is becoming very popular for designing high-throughput forwarding engines on routers. However, TCAM has potential problems in terms of hardware and power costs, which limits its ability to deploy large amounts of capacity in IP routers. In this paper, we propose new hardware architecture for fast forwarding engines, called fast prefix search RAM-based hardware (FPS-RAM). We designed FPS-RAM hardware with the intent of maintaining the same search performance and physical user interface as TCAM because our objective is to replace the TCAM in the market. Our RAM-based hardware architecture is completely different from that of TCAM and has dramatically reduced the costs and power consumption to 62% and 52%, respectively. We implemented FPS-RAM on an FPGA to examine its lookup operation.

Evaluating a Federated Medical Search Engine

Science.gov (United States)

Belden, J.; Williams, J.; Richardson, B.; Schuster, K.

2014-01-01

Summary Background Federated medical search engines are health information systems that provide a single access point to different types of information. Their efficiency as clinical decision support tools has been demonstrated through numerous evaluations. Despite their rigor, very few of these studies report holistic evaluations of medical search engines and even fewer base their evaluations on existing evaluation frameworks. Objectives To evaluate a federated medical search engine, MedSocket, for its potential net benefits in an established clinical setting. Methods This study applied the Human, Organization, and Technology (HOT-fit) evaluation framework in order to evaluate MedSocket. The hierarchical structure of the HOT-factors allowed for identification of a combination of efficiency metrics. Human fit was evaluated through user satisfaction and patterns of system use; technology fit was evaluated through the measurements of time-on-task and the accuracy of the found answers; and organization fit was evaluated from the perspective of system fit to the existing organizational structure. Results Evaluations produced mixed results and suggested several opportunities for system improvement. On average, participants were satisfied with MedSocket searches and confident in the accuracy of retrieved answers. However, MedSocket did not meet participants’ expectations in terms of download speed, access to information, and relevance of the search results. These mixed results made it necessary to conclude that in the case of MedSocket, technology fit had a significant influence on the human and organization fit. Hence, improving technological capabilities of the system is critical before its net benefits can become noticeable. Conclusions The HOT-fit evaluation framework was instrumental in tailoring the methodology for conducting a comprehensive evaluation of the search engine. Such multidimensional evaluation of the search engine resulted in recommendations for

Natural Language Search Interfaces: Health Data Needs Single-Field Variable Search.

Science.gov (United States)

Jay, Caroline; Harper, Simon; Dunlop, Ian; Smith, Sam; Sufi, Shoaib; Goble, Carole; Buchan, Iain

2016-01-14

Data discovery, particularly the discovery of key variables and their inter-relationships, is key to secondary data analysis, and in-turn, the evolving field of data science. Interface designers have presumed that their users are domain experts, and so they have provided complex interfaces to support these "experts." Such interfaces hark back to a time when searches needed to be accurate first time as there was a high computational cost associated with each search. Our work is part of a governmental research initiative between the medical and social research funding bodies to improve the use of social data in medical research. The cross-disciplinary nature of data science can make no assumptions regarding the domain expertise of a particular scientist, whose interests may intersect multiple domains. Here we consider the common requirement for scientists to seek archived data for secondary analysis. This has more in common with search needs of the "Google generation" than with their single-domain, single-tool forebears. Our study compares a Google-like interface with traditional ways of searching for noncomplex health data in a data archive. Two user interfaces are evaluated for the same set of tasks in extracting data from surveys stored in the UK Data Archive (UKDA). One interface, Web search, is "Google-like," enabling users to browse, search for, and view metadata about study variables, whereas the other, traditional search, has standard multioption user interface. Using a comprehensive set of tasks with 20 volunteers, we found that the Web search interface met data discovery needs and expectations better than the traditional search. A task × interface repeated measures analysis showed a main effect indicating that answers found through the Web search interface were more likely to be correct (F1,19=37.3, Pnatural language search interfaces for variable search supporting in particular: query reformulation; data browsing; faceted search; surrogates; relevance

A Search Engine That's Aware of Your Needs

Science.gov (United States)

2005-01-01

Internet research can be compared to trying to drink from a firehose. Such a wealth of information is available that even the simplest inquiry can sometimes generate tens of thousands of leads, more information than most people can handle, and more burdensome than most can endure. Like everyone else, NASA scientists rely on the Internet as a primary search tool. Unlike the average user, though, NASA scientists perform some pretty sophisticated, involved research. To help manage the Internet and to allow researchers at NASA to gain better, more efficient access to the wealth of information, the Agency needed a search tool that was more refined and intelligent than the typical search engine. Partnership NASA funded Stottler Henke, Inc., of San Mateo, California, a cutting-edge software company, with a Small Business Innovation Research (SBIR) contract to develop the Aware software for searching through the vast stores of knowledge quickly and efficiently. The partnership was through NASA s Ames Research Center.

Harnessing scientific literature reports for pharmacovigilance. Prototype software analytical tool development and usability testing.

Science.gov (United States)

Sorbello, Alfred; Ripple, Anna; Tonning, Joseph; Munoz, Monica; Hasan, Rashedul; Ly, Thomas; Francis, Henry; Bodenreider, Olivier

2017-03-22

We seek to develop a prototype software analytical tool to augment FDA regulatory reviewers' capacity to harness scientific literature reports in PubMed/MEDLINE for pharmacovigilance and adverse drug event (ADE) safety signal detection. We also aim to gather feedback through usability testing to assess design, performance, and user satisfaction with the tool. A prototype, open source, web-based, software analytical tool generated statistical disproportionality data mining signal scores and dynamic visual analytics for ADE safety signal detection and management. We leveraged Medical Subject Heading (MeSH) indexing terms assigned to published citations in PubMed/MEDLINE to generate candidate drug-adverse event pairs for quantitative data mining. Six FDA regulatory reviewers participated in usability testing by employing the tool as part of their ongoing real-life pharmacovigilance activities to provide subjective feedback on its practical impact, added value, and fitness for use. All usability test participants cited the tool's ease of learning, ease of use, and generation of quantitative ADE safety signals, some of which corresponded to known established adverse drug reactions. Potential concerns included the comparability of the tool's automated literature search relative to a manual 'all fields' PubMed search, missing drugs and adverse event terms, interpretation of signal scores, and integration with existing computer-based analytical tools. Usability testing demonstrated that this novel tool can automate the detection of ADE safety signals from published literature reports. Various mitigation strategies are described to foster improvements in design, productivity, and end user satisfaction.

Quantitative evaluation of recall and precision of CAT Crawler, a search engine specialized on retrieval of Critically Appraised Topics

Science.gov (United States)

Dong, Peng; Wong, Ling Ling; Ng, Sarah; Loh, Marie; Mondry, Adrian

2004-01-01

Background Critically Appraised Topics (CATs) are a useful tool that helps physicians to make clinical decisions as the healthcare moves towards the practice of Evidence-Based Medicine (EBM). The fast growing World Wide Web has provided a place for physicians to share their appraised topics online, but an increasing amount of time is needed to find a particular topic within such a rich repository. Methods A web-based application, namely the CAT Crawler, was developed by Singapore's Bioinformatics Institute to allow physicians to adequately access available appraised topics on the Internet. A meta-search engine, as the core component of the application, finds relevant topics following keyword input. The primary objective of the work presented here is to evaluate the quantity and quality of search results obtained from the meta-search engine of the CAT Crawler by comparing them with those obtained from two individual CAT search engines. From the CAT libraries at these two sites, all possible keywords were extracted using a keyword extractor. Of those common to both libraries, ten were randomly chosen for evaluation. All ten were submitted to the two search engines individually, and through the meta-search engine of the CAT Crawler. Search results were evaluated for relevance both by medical amateurs and professionals, and the respective recall and precision were calculated. Results While achieving an identical recall, the meta-search engine showed a precision of 77.26% (±14.45) compared to the individual search engines' 52.65% (±12.0) (p search engine approach. The improved precision due to inherent filters underlines the practical usefulness of this tool for clinicians. PMID:15588311

Searching Choices: Quantifying Decision-Making Processes Using Search Engine Data.

Science.gov (United States)

Moat, Helen Susannah; Olivola, Christopher Y; Chater, Nick; Preis, Tobias

2016-07-01

When making a decision, humans consider two types of information: information they have acquired through their prior experience of the world, and further information they gather to support the decision in question. Here, we present evidence that data from search engines such as Google can help us model both sources of information. We show that statistics from search engines on the frequency of content on the Internet can help us estimate the statistical structure of prior experience; and, specifically, we outline how such statistics can inform psychological theories concerning the valuation of human lives, or choices involving delayed outcomes. Turning to information gathering, we show that search query data might help measure human information gathering, and it may predict subsequent decisions. Such data enable us to compare information gathered across nations, where analyses suggest, for example, a greater focus on the future in countries with a higher per capita GDP. We conclude that search engine data constitute a valuable new resource for cognitive scientists, offering a fascinating new tool for understanding the human decision-making process. Copyright © 2016 The Authors. Topics in Cognitive Science published by Wiley Periodicals, Inc. on behalf of Cognitive Science Society.

Evidence-based decision making and asthma in the internet age: the tools of the trade.

Science.gov (United States)

Jadad, A R

2002-01-01

At the dawn of the Information Age, the practice of evidence-based decision making (EBDM) is still hindered by many important barriers related to the decision makers, to the evidence per se or to the health system. Some of these barriers, particularly those related to the distillation, dissemination and packaging of research evidence, could be overcome by recent and ongoing developments in portable/wearable computers, internet appliances, multimedia and wireless broadband internet traffic. This article describes specific EBDM-related tools, with emphasis on internet-enabled "how to" books; and tools to improve the quality of reporting research, to formulate questions; to search for evidence; to access journals, systematic reviews and guidelines; to interact with organizations promoting EBDM; and to tailor evidence to individual cases. However, thinking that all barriers to the practice of EBDM could be solved by fancy information technology is naïve. Barriers related to the generation, interpretation, integration and use of the evidence demand more complex and perhaps unfeasible solutions, as overcoming them will require substantial changes in the structure of the health system, in the politics of science and in the way in which humans think and behave.

Searches for new resonances in dijet and dilepton final states with the ATLAS and CMS detectors

CERN Document Server

Goldouzian, Reza

2018-01-01

Searches for new massive resonances in final states with a pair of leptons or jets have always been a powerful tool for discovery in high energy physics.We review here the latest results from the ATLAS and CMS experiments, based on proton-proton collision data collected at the centre-of-mass energy of 8 and 13 TeV at the LHC.The LHC dijet searches explore both the low-mass range and the high mass end of the spectrum by employing several novel search strategies. The results are interpreted in a range of theories beyond the standard model of particle physics.

Full text and figure display improves bioscience literature search.

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Divoli, Anna; Wooldridge, Michael A; Hearst, Marti A

2010-04-14

When reading bioscience journal articles, many researchers focus attention on the figures and their captions. This observation led to the development of the BioText literature search engine, a freely available Web-based application that allows biologists to search over the contents of Open Access Journals, and see figures from the articles displayed directly in the search results. This article presents a qualitative assessment of this system in the form of a usability study with 20 biologist participants using and commenting on the system. 19 out of 20 participants expressed a desire to use a bioscience literature search engine that displays articles' figures alongside the full text search results. 15 out of 20 participants said they would use a caption search and figure display interface either frequently or sometimes, while 4 said rarely and 1 said undecided. 10 out of 20 participants said they would use a tool for searching the text of tables and their captions either frequently or sometimes, while 7 said they would use it rarely if at all, 2 said they would never use it, and 1 was undecided. This study found evidence, supporting results of an earlier study, that bioscience literature search systems such as PubMed should show figures from articles alongside search results. It also found evidence that full text and captions should be searched along with the article title, metadata, and abstract. Finally, for a subset of users and information needs, allowing for explicit search within captions for figures and tables is a useful function, but it is not entirely clear how to cleanly integrate this within a more general literature search interface. Such a facility supports Open Access publishing efforts, as it requires access to full text of documents and the lifting of restrictions in order to show figures in the search interface.

Full text and figure display improves bioscience literature search.

Directory of Open Access Journals (Sweden)

Anna Divoli

Full Text Available When reading bioscience journal articles, many researchers focus attention on the figures and their captions. This observation led to the development of the BioText literature search engine, a freely available Web-based application that allows biologists to search over the contents of Open Access Journals, and see figures from the articles displayed directly in the search results. This article presents a qualitative assessment of this system in the form of a usability study with 20 biologist participants using and commenting on the system. 19 out of 20 participants expressed a desire to use a bioscience literature search engine that displays articles' figures alongside the full text search results. 15 out of 20 participants said they would use a caption search and figure display interface either frequently or sometimes, while 4 said rarely and 1 said undecided. 10 out of 20 participants said they would use a tool for searching the text of tables and their captions either frequently or sometimes, while 7 said they would use it rarely if at all, 2 said they would never use it, and 1 was undecided. This study found evidence, supporting results of an earlier study, that bioscience literature search systems such as PubMed should show figures from articles alongside search results. It also found evidence that full text and captions should be searched along with the article title, metadata, and abstract. Finally, for a subset of users and information needs, allowing for explicit search within captions for figures and tables is a useful function, but it is not entirely clear how to cleanly integrate this within a more general literature search interface. Such a facility supports Open Access publishing efforts, as it requires access to full text of documents and the lifting of restrictions in order to show figures in the search interface.

Web-based tools for microRNAs involved in human cancer.

Science.gov (United States)

Mar-Aguilar, Fermín; Rodríguez-Padilla, Cristina; Reséndez-Pérez, Diana

2016-06-01

MicroRNAs (miRNAs/miRs) are a family of small, endogenous and evolutionarily-conserved non-coding RNAs that are involved in the regulation of several cellular and functional processes. miRNAs can act as oncogenes or tumor suppressors in all types of cancer, and could be used as prognostic and diagnostic biomarkers. Databases and computational algorithms are behind the majority of the research performed on miRNAs. These tools assemble and curate the relevant information on miRNAs and present it in a user-friendly manner. The current review presents 14 online databases that address every aspect of miRNA cancer research. Certain databases focus on miRNAs and a particular type of cancer, while others analyze the behavior of miRNAs in different malignancies at the same time. Additional databases allow researchers to search for mutations in miRNAs or their targets, and to review the naming history of a particular miRNA. All these databases are open-access, and are a valuable tool for those researchers working with these molecules, particularly those who lack access to an advanced computational infrastructure.

The physics analysis tools project for the ATLAS experiment

International Nuclear Information System (INIS)

Lenzi, Bruno

2012-01-01

The Large Hadron Collider is expected to start colliding proton beams in 2009. The enormous amount of data produced by the ATLAS experiment (≅1 PB per year) will be used in searches for the Higgs boson and Physics beyond the standard model. In order to meet this challenge, a suite of common Physics Analysis Tools has been developed as part of the Physics Analysis software project. These tools run within the ATLAS software framework, ATHENA, covering a wide range of applications. There are tools responsible for event selection based on analysed data and detector quality information, tools responsible for specific physics analysis operations including data quality monitoring and physics validation, and complete analysis tool-kits (frameworks) with the goal to aid the physicist to perform his analysis hiding the details of the ATHENA framework. (authors)

Large Neighborhood Search

DEFF Research Database (Denmark)

Pisinger, David; Røpke, Stefan

2010-01-01

Heuristics based on large neighborhood search have recently shown outstanding results in solving various transportation and scheduling problems. Large neighborhood search methods explore a complex neighborhood by use of heuristics. Using large neighborhoods makes it possible to find better...... candidate solutions in each iteration and hence traverse a more promising search path. Starting from the large neighborhood search method,we give an overview of very large scale neighborhood search methods and discuss recent variants and extensions like variable depth search and adaptive large neighborhood...

Novel citation-based search method for scientific literature: application to meta-analyses.

Science.gov (United States)

Janssens, A Cecile J W; Gwinn, M

2015-10-13

Finding eligible studies for meta-analysis and systematic reviews relies on keyword-based searching as the gold standard, despite its inefficiency. Searching based on direct citations is not sufficiently comprehensive. We propose a novel strategy that ranks articles on their degree of co-citation with one or more "known" articles before reviewing their eligibility. In two independent studies, we aimed to reproduce the results of literature searches for sets of published meta-analyses (n = 10 and n = 42). For each meta-analysis, we extracted co-citations for the randomly selected 'known' articles from the Web of Science database, counted their frequencies and screened all articles with a score above a selection threshold. In the second study, we extended the method by retrieving direct citations for all selected articles. In the first study, we retrieved 82% of the studies included in the meta-analyses while screening only 11% as many articles as were screened for the original publications. Articles that we missed were published in non-English languages, published before 1975, published very recently, or available only as conference abstracts. In the second study, we retrieved 79% of included studies while screening half the original number of articles. Citation searching appears to be an efficient and reasonably accurate method for finding articles similar to one or more articles of interest for meta-analysis and reviews.

Evidence-based medicine - an appropriate tool for evidence-based health policy? A case study from Norway.

Science.gov (United States)

Malterud, Kirsti; Bjelland, Anne Karen; Elvbakken, Kari Tove

2016-03-05

Evidence-based policy (EBP), a concept modelled on the principles of evidence-based medicine (EBM), is widely used in different areas of policymaking. Systematic reviews (SRs) with meta-analyses gradually became the methods of choice for synthesizing research evidence about interventions and judgements about quality of evidence and strength of recommendations. Critics have argued that the relation between research evidence and service policies is weak, and that the notion of EBP rests on a misunderstanding of policy processes. Having explored EBM standards and knowledge requirements for health policy decision-making, we present an empirical point of departure for discussing the relationship between EBM and EBP. In a case study exploring the Norwegian Knowledge Centre for the Health Services (NOKC), an independent government unit, we first searched for information about the background and development of the NOKC to establish a research context. We then identified, selected and organized official NOKC publications as an empirical sample of typical top-of-the-line knowledge delivery adhering to EBM standards. Finally, we explored conclusions in this type of publication, specifically addressing their potential as policy decision tools. From a total sample of 151 SRs published by the NOKC in the period 2004-2013, a purposive subsample from 2012 (14 publications) advised major caution about their conclusions because of the quality or relevance of the underlying documentation. Although the case study did not include a systematic investigation of uptake and policy consequences, SRs were found to be inappropriate as universal tools for health policy decision-making. The case study demonstrates that EBM is not necessarily suited to knowledge provision for every kind of policy decision-making. Our analysis raises the question of whether the evidence-based movement, represented here by an independent government organization, undertakes too broad a range of commissions using

Spatial planning via extremal optimization enhanced by cell-based local search

International Nuclear Information System (INIS)

Sidiropoulos, Epaminondas

2014-01-01

A new treatment is presented for land use planning problems by means of extremal optimization in conjunction to cell-based neighborhood local search. Extremal optimization, inspired by self-organized critical models of evolution has been applied mainly to the solution of classical combinatorial optimization problems. Cell-based local search has been employed by the author elsewhere in problems of spatial resource allocation in combination with genetic algorithms and simulated annealing. In this paper it complements extremal optimization in order to enhance its capacity for a spatial optimization problem. The hybrid method thus formed is compared to methods of the literature on a specific characteristic problem. It yields better results both in terms of objective function values and in terms of compactness. The latter is an important quantity for spatial planning. The present treatment yields significant compactness values as emergent results

Multi Sector Planning Tools for Trajectory-Based Operations

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Prevot, Thomas; Mainini, Matthew; Brasil, Connie

2010-01-01

This paper discusses a suite of multi sector planning tools for trajectory-based operations that were developed and evaluated in the Airspace Operations Laboratory (AOL) at the NASA Ames Research Center. The toolset included tools for traffic load and complexity assessment as well as trajectory planning and coordination. The situation assessment tools included an integrated suite of interactive traffic displays, load tables, load graphs, and dynamic aircraft filters. The planning toolset allowed for single and multi aircraft trajectory planning and data communication-based coordination of trajectories between operators. Also newly introduced was a real-time computation of sector complexity into the toolset that operators could use in lieu of aircraft count to better estimate and manage sector workload, especially in situations with convective weather. The tools were used during a joint NASA/FAA multi sector planner simulation in the AOL in 2009 that had multiple objectives with the assessment of the effectiveness of the tools being one of them. Current air traffic control operators who were experienced as area supervisors and traffic management coordinators used the tools throughout the simulation and provided their usefulness and usability ratings in post simulation questionnaires. This paper presents these subjective assessments as well as the actual usage data that was collected during the simulation. The toolset was rated very useful and usable overall. Many elements received high scores by the operators and were used frequently and successfully. Other functions were not used at all, but various requests for new functions and capabilities were received that could be added to the toolset.

Concordancers and Dictionaries as Problem-Solving Tools for ESL Academic Writing

Science.gov (United States)

Yoon, Choongil

2016-01-01

The present study investigated how 6 Korean ESL graduate students in Canada used a suite of freely available reference resources, consisting of Web-based corpus tools, Google search engines, and dictionaries, for solving linguistic problems while completing an authentic academic writing assignment in English. Using a mixed methods design, the…

Teamwork Assessment Tools in Obstetric Emergencies: A Systematic Review.

Science.gov (United States)

Onwochei, Desire N; Halpern, Stephen; Balki, Mrinalini

2017-06-01

Team-based training and simulation can improve patient safety, by improving communication, decision making, and performance of team members. Currently, there is no general consensus on whether or not a specific assessment tool is better adapted to evaluate teamwork in obstetric emergencies. The purpose of this qualitative systematic review was to find the tools available to assess team effectiveness in obstetric emergencies. We searched Embase, Medline, PubMed, Web of Science, PsycINFO, CINAHL, and Google Scholar for prospective studies that evaluated nontechnical skills in multidisciplinary teams involving obstetric emergencies. The search included studies from 1944 until January 11, 2016. Data on reliability and validity measures were collected and used for interpretation. A descriptive analysis was performed on the data. Thirteen studies were included in the final qualitative synthesis. All the studies assessed teams in the context of obstetric simulation scenarios, but only six included anesthetists in the simulations. One study evaluated their teamwork tool using just validity measures, five using just reliability measures, and one used both. The most reliable tools identified were the Clinical Teamwork Scale, the Global Assessment of Obstetric Team Performance, and the Global Rating Scale of performance. However, they were still lacking in terms of quality and validity. More work needs to be conducted to establish the validity of teamwork tools for nontechnical skills, and the development of an ideal tool is warranted. Further studies are required to assess how outcomes, such as performance and patient safety, are influenced when using these tools.

Allen Brain Atlas-Driven Visualizations: a web-based gene expression energy visualization tool.

Science.gov (United States)

Zaldivar, Andrew; Krichmar, Jeffrey L

2014-01-01

The Allen Brain Atlas-Driven Visualizations (ABADV) is a publicly accessible web-based tool created to retrieve and visualize expression energy data from the Allen Brain Atlas (ABA) across multiple genes and brain structures. Though the ABA offers their own search engine and software for researchers to view their growing collection of online public data sets, including extensive gene expression and neuroanatomical data from human and mouse brain, many of their tools limit the amount of genes and brain structures researchers can view at once. To complement their work, ABADV generates multiple pie charts, bar charts and heat maps of expression energy values for any given set of genes and brain structures. Such a suite of free and easy-to-understand visualizations allows for easy comparison of gene expression across multiple brain areas. In addition, each visualization links back to the ABA so researchers may view a summary of the experimental detail. ABADV is currently supported on modern web browsers and is compatible with expression energy data from the Allen Mouse Brain Atlas in situ hybridization data. By creating this web application, researchers can immediately obtain and survey numerous amounts of expression energy data from the ABA, which they can then use to supplement their work or perform meta-analysis. In the future, we hope to enable ABADV across multiple data resources.

Allen Brain Atlas-Driven Visualizations: A Web-Based Gene Expression Energy Visualization Tool

Directory of Open Access Journals (Sweden)

Andrew eZaldivar

2014-05-01

Full Text Available The Allen Brain Atlas-Driven Visualizations (ABADV is a publicly accessible web-based tool created to retrieve and visualize expression energy data from the Allen Brain Atlas (ABA across multiple genes and brain structures. Though the ABA offers their own search engine and software for researchers to view their growing collection of online public data sets, including extensive gene expression and neuroanatomical data from human and mouse brain, many of their tools limit the amount of genes and brain structures researchers can view at once. To complement their work, ABADV generates multiple pie charts, bar charts and heat maps of expression energy values for any given set of genes and brain structures. Such a suite of free and easy-to-understand visualizations allows for easy comparison of gene expression across multiple brain areas. In addition, each visualization links back to the ABA so researchers may view a summary of the experimental detail. ABADV is currently supported on modern web browsers and is compatible with expression energy data from the Allen Mouse Brain Atlas in situ hybridization data. By creating this web application, researchers can immediately obtain and survey numerous amounts of expression energy data from the ABA, which they can then use to supplement their work or perform meta-analysis. In the future, we hope to enable ABADV across multiple data resources.

PLAST: parallel local alignment search tool for database comparison

Directory of Open Access Journals (Sweden)

Lavenier Dominique

2009-10-01

Full Text Available Abstract Background Sequence similarity searching is an important and challenging task in molecular biology and next-generation sequencing should further strengthen the need for faster algorithms to process such vast amounts of data. At the same time, the internal architecture of current microprocessors is tending towards more parallelism, leading to the use of chips with two, four and more cores integrated on the same die. The main purpose of this work was to design an effective algorithm to fit with the parallel capabilities of modern microprocessors. Results A parallel algorithm for comparing large genomic banks and targeting middle-range computers has been developed and implemented in PLAST software. The algorithm exploits two key parallel features of existing and future microprocessors: the SIMD programming model (SSE instruction set and the multithreading concept (multicore. Compared to multithreaded BLAST software, tests performed on an 8-processor server have shown speedup ranging from 3 to 6 with a similar level of accuracy. Conclusion A parallel algorithmic approach driven by the knowledge of the internal microprocessor architecture allows significant speedup to be obtained while preserving standard sensitivity for similarity search problems.

Prospects for SUSY discovery based on inclusive searches with the ATLAS detector

International Nuclear Information System (INIS)

Ventura, Andrea

2009-01-01

The search for Supersymmetry (SUSY) among the possible scenarios of new physics is one of the most relevant goals of the ATLAS experiment running at CERN's Large Hadron Collider. In the present work the expected prospects for discovering SUSY with the ATLAS detector are reviewed, in particular for the first fb -1 of collected integrated luminosity. All studies and results reported here are based on inclusive search analyses realized with Monte Carlo signal and background data simulated through the ATLAS apparatus.

The EBI Search engine: providing search and retrieval functionality for biological data from EMBL-EBI.

Science.gov (United States)

Squizzato, Silvano; Park, Young Mi; Buso, Nicola; Gur, Tamer; Cowley, Andrew; Li, Weizhong; Uludag, Mahmut; Pundir, Sangya; Cham, Jennifer A; McWilliam, Hamish; Lopez, Rodrigo

2015-07-01

The European Bioinformatics Institute (EMBL-EBI-https://www.ebi.ac.uk) provides free and unrestricted access to data across all major areas of biology and biomedicine. Searching and extracting knowledge across these domains requires a fast and scalable solution that addresses the requirements of domain experts as well as casual users. We present the EBI Search engine, referred to here as 'EBI Search', an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. API integration provides access to analytical tools, allowing users to further investigate the results of their search. The interconnectivity that exists between data resources at EMBL-EBI provides easy, quick and precise navigation and a better understanding of the relationship between different data types including sequences, genes, gene products, proteins, protein domains, protein families, enzymes and macromolecular structures, together with relevant life science literature. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

PASTEC: an automatic transposable element classification tool.

Directory of Open Access Journals (Sweden)

Claire Hoede

Full Text Available SUMMARY: The classification of transposable elements (TEs is key step towards deciphering their potential impact on the genome. However, this process is often based on manual sequence inspection by TE experts. With the wealth of genomic sequences now available, this task requires automation, making it accessible to most scientists. We propose a new tool, PASTEC, which classifies TEs by searching for structural features and similarities. This tool outperforms currently available software for TE classification. The main innovation of PASTEC is the search for HMM profiles, which is useful for inferring the classification of unknown TE on the basis of conserved functional domains of the proteins. In addition, PASTEC is the only tool providing an exhaustive spectrum of possible classifications to the order level of the Wicker hierarchical TE classification system. It can also automatically classify other repeated elements, such as SSR (Simple Sequence Repeats, rDNA or potential repeated host genes. Finally, the output of this new tool is designed to facilitate manual curation by providing to biologists with all the evidence accumulated for each TE consensus. AVAILABILITY: PASTEC is available as a REPET module or standalone software (http://urgi.versailles.inra.fr/download/repet/REPET_linux-x64-2.2.tar.gz. It requires a Unix-like system. There are two standalone versions: one of which is parallelized (requiring Sun grid Engine or Torque, and the other of which is not.

Support patient search on pathology reports with interactive online learning based data extraction

Directory of Open Access Journals (Sweden)

Shuai Zheng

2015-01-01

Full Text Available Background: Structural reporting enables semantic understanding and prompt retrieval of clinical findings about patients. While synoptic pathology reporting provides templates for data entries, information in pathology reports remains primarily in narrative free text form. Extracting data of interest from narrative pathology reports could significantly improve the representation of the information and enable complex structured queries. However, manual extraction is tedious and error-prone, and automated tools are often constructed with a fixed training dataset and not easily adaptable. Our goal is to extract data from pathology reports to support advanced patient search with a highly adaptable semi-automated data extraction system, which can adjust and self-improve by learning from a user′s interaction with minimal human effort. Methods : We have developed an online machine learning based information extraction system called IDEAL-X. With its graphical user interface, the system′s data extraction engine automatically annotates values for users to review upon loading each report text. The system analyzes users′ corrections regarding these annotations with online machine learning, and incrementally enhances and refines the learning model as reports are processed. The system also takes advantage of customized controlled vocabularies, which can be adaptively refined during the online learning process to further assist the data extraction. As the accuracy of automatic annotation improves overtime, the effort of human annotation is gradually reduced. After all reports are processed, a built-in query engine can be applied to conveniently define queries based on extracted structured data. Results: We have evaluated the system with a dataset of anatomic pathology reports from 50 patients. Extracted data elements include demographical data, diagnosis, genetic marker, and procedure. The system achieves F-1 scores of around 95% for the majority of

Searching to Translate and Translating to Search: When Information Retrieval Meets Machine Translation

Science.gov (United States)

Ture, Ferhan

2013-01-01

With the adoption of web services in daily life, people have access to tremendous amounts of information, beyond any human's reading and comprehension capabilities. As a result, search technologies have become a fundamental tool for accessing information. Furthermore, the web contains information in multiple languages, introducing another barrier…

Supporting ontology-based keyword search over medical databases.

Science.gov (United States)

Kementsietsidis, Anastasios; Lim, Lipyeow; Wang, Min

2008-11-06

The proliferation of medical terms poses a number of challenges in the sharing of medical information among different stakeholders. Ontologies are commonly used to establish relationships between different terms, yet their role in querying has not been investigated in detail. In this paper, we study the problem of supporting ontology-based keyword search queries on a database of electronic medical records. We present several approaches to support this type of queries, study the advantages and limitations of each approach, and summarize the lessons learned as best practices.

Image edge detection based tool condition monitoring with morphological component analysis.

Science.gov (United States)

Yu, Xiaolong; Lin, Xin; Dai, Yiquan; Zhu, Kunpeng

2017-07-01

The measurement and monitoring of tool condition are keys to the product precision in the automated manufacturing. To meet the need, this study proposes a novel tool wear monitoring approach based on the monitored image edge detection. Image edge detection has been a fundamental tool to obtain features of images. This approach extracts the tool edge with morphological component analysis. Through the decomposition of original tool wear image, the approach reduces the influence of texture and noise for edge measurement. Based on the target image sparse representation and edge detection, the approach could accurately extract the tool wear edge with continuous and complete contour, and is convenient in charactering tool conditions. Compared to the celebrated algorithms developed in the literature, this approach improves the integrity and connectivity of edges, and the results have shown that it achieves better geometry accuracy and lower error rate in the estimation of tool conditions. Copyright © 2017 ISA. Published by Elsevier Ltd. All rights reserved.