Detectors could spot plagiarism in research proposals

Having all been involved in proposal evaluation, we believe the studies indicate that a text matching analysis of research proposals could reduce plagiarism in subsequent publications. For instance, when European Commission evaluators have met in the past to evaluate research proposals, they received printed copies which had to be returned before the panel members left, and had no computer access during deliberations. A plagiarism detector using text-mining methods could be used instead of the current security measures. Such a system could, in principle, detect similarities to previous submissions and uncited sources using advanced document segmentation. Only official agencies have access to confidential proposals and the funds to experiment with automated plagiarism-detectors. It is important that they should investigate these approaches to reducing the possibility of scientific misconduct

The performance of biological indicators in assessing the ecological state of streams with varying catchment urbanisation levels in Coimbra, Portugal

The growth of human populations has resulted in the expansion of metropolitan areas and changes in land use, both of which affect watersheds and streams. The ecological integrity of streams is likely to be negatively affected by urbanisation, compromising freshwater ecosystem services. The aim of this study was to assess how efficient structural and functional indicators are in evaluating the ecological conditions of water in urban stream ecosystems. Two urban streams crossing the city and one stream crossing a suburban area of Coimbra, Portugal were selected. Total impervious area (TIA) was used as an indicator of urbanisation. Physical and chemical parameters of water were measured and analysed within the Water Framework Directive (WFD/2000/60/EC). Benthic macroinvertebrates were used as structural indicators, and the IBMWP biotic index (modified) and the Portuguese IPtIS index were calculated. The decomposition rates of oak (Quercus robur) and alder (Alnus glutinosa) leaves were used as indicators of functional quality. Biotic indices and litter decomposition rates indicated poor ecological conditions in the urban streams compared to the suburban stream, consistent with the degree of urbanisation. The decrease in ecological quality in urban streams most likely reflected decreases in dissolved oxygen and increases in water temperature and conductivity. We emphasise (a) the need to combine physical and chemical data with biological data and (b) the high performance of a novel functional indicator based on litter breakdown rate as an accurate, efficient and integrative measure of ecological integrity in urban streams.El crecimiento de la población humana en las últimas décadas ha provocado el aumento de las áreas urbanas y cambios en los usos del suelo que afectan a las cuencas hidrográficas y a sus ríos. Es probable que la integridad ecológica de los ríos urbanos se vea afectada negativamente, comprometiendo los servicios ecosistémicos proporcionados por las aguas dulces. El objetivo de este estudio fue comparar el rendimiento entre diferentes metodologías en la evaluación química y ecológica del agua en ríos urbanos. Se han seleccionado dos ríos urbanos que cruzan la ciudad de Coimbra, Portugal, y un río que cruza un área suburbana. Como indicador de urbanización se us'o el área total impermeable (TIA). Se han utilizado parámetros físico-químicos que se han analizado siguiendo la Directiva Marco del Agua (2000/60/EC). Como indicadores estructurales se han utilizado los macroinvertebrados bentónicos, calculándose el índice biológico IBMWP (modificado) y el índice IPtIS portugués. Como indicadores funcionales de la calidad ecológica se han usado las tasas de descomposición de hojarasca de roble (Quercus robur L.) y aliso (Alnus glutinosa (L.) Gaertner). Los parámetros físicos y químicos de todos los ríos indicaron "buena calidad" según los parámetros de calidad nacionales y la Directiva Marco del Agua. Sin embargo, los indicadores biológicos y las tasas de descomposición de hojarasca indicaron malas condiciones ecol'ogicas en los ríos urbanos comparados con el río en el área suburbana coincidiendo también con el grado de urbanización. Esto sugiere que los indicadores biológicos (estructurales y funcionales) proporcionan información más temprana, precisa e integrada del sistema que las medidas de la química del agua que no reflejan el valor ecológico de las aguas, su calidad o los impactos ecológicos potenciales. En el estudio se hace especial énfasis en (a) la necesidad de combinar datos físico-químicos con medidas biológicas y (b) la elevada eficiencia de la descomposición como indicador preciso de la integridad ecológica y calidad ambiental en un número creciente de ríos urbanos

A Knowledge Engineering Approach to Recognizing and Extracting Sequences of Nucleic Acids from Scientific Literature

In this paper we present a knowledge engineering approach to automatically recognize and extract genetic sequences from scientific articles. To carry out this task, we use a preliminary recognizer based on a finite state machine to extract all candidate DNA/RNA sequences. The latter are then fed into a knowledge-based system that automatically discards false positives and refines noisy and incorrectly merged sequences. We created the knowledge base by manually analyzing different manuscripts containing genetic sequences. Our approach was evaluated using a test set of 211 full-text articles in PDF format containing 3134 genetic sequences. For such set, we achieved 87.76% precision and 97.70% recall respectively. This method can facilitate different research tasks. These include text mining, information extraction, and information retrieval research dealing with large collections of documents containing genetic sequences

Automatic Generation of Integration and Preprocessing Ontologies for Biomedical Sources in a Distributed Scenario

Access to a large number of remote data sources has boosted research in biomedicine, where different biological and clinical research projects are based on collaborative efforts among international organizations. In this scenario, the authors have developed various methods and tools in the area of database integration, using an ontological approach. This paper describes a method to automatically generate preprocessing structures (ontologies) within an ontology-based KDD model. These ontologies are obtained from the analysis of data sources, searching for: (i) valid numerical ranges (using clustering techniques), (ii) different scales, (iii) synonym transformations based on known dictionaries and (iv)typographical errors. To test the method, experiments were carried out with four biomedical databases―containing rheumatoid arthritis, gene expression patterns, biological processes and breast cancer patients― proving the performance of the approach. This method supports experts in data analysis processes, facilitating the detection of inconsistencies

Shearwater Eggs in Lobos 3, a Holocene Site of Fuerteventura (Canary Islands)

Two eggs (L29 and N28) were recovered in the Holocene site of Lobos 3, (Islote de Lobos, north Fuerteventura, Canary Islands), the site has been interpreted as a purple dye workshop from the Early Roman Empire Epoch. For the first time, eggs from a Holocene deposit of the Canary Islands have been analyzed in terms of size, shape, and biomineral structure, and studied on the basis of several thin sections and SEM analysis. The analysis of the remains allowed the assignation of both eggs to Procellariidae birds, thanks to the relative proportion of the eggshell layers and the vesiculation patterns. The size of the eggs allowed the assignation of L29 to cf. Calonectris/Puffinus, and to cf. Puffinus for N28. The absence of more structural analysis on Procellariiformes eggshells prevent a more specific assignation. The accumulation pattern of the eggs is compatible with a seasonal occupation pattern of the Roman site

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

Over the last few decades, the ever-increasing output of scientific publications has led to new challenges to keep up to date with the literature. In the biomedical area, this growth has introduced new requirements for professionals, e.g., physicians, who have to locate the exact papers that they need for their clinical and research work amongst a huge number of publications. Against this backdrop, novel information retrieval methods are even more necessary. While web search engines are widespread in many areas, facilitating access to all kinds of information, additional tools are required to automatically link information retrieved from these engines to specific biomedical applications. In the case of clinical environments, this also means considering aspects such as patient data security and confidentiality or structured contents, e.g., electronic health records (EHRs). In this scenario, we have developed a new tool to facilitate query building to retrieve scientific literature related to EHRs. Results: We have developed CDAPubMed, an open-source web browser extension to integrate EHR features in biomedical literature retrieval approaches. Clinical users can use CDAPubMed to: (i) load patient clinical documents, i.e., EHRs based on the Health Level 7-Clinical Document Architecture Standard (HL7-CDA), (ii) identify relevant terms for scientific literature search in these documents, i.e., Medical Subject Headings (MeSH), automatically driven by the CDAPubMed configuration, which advanced users can optimize to adapt to each specific situation, and (iii) generate and launch literature search queries to a major search engine, i.e., PubMed, to retrieve citations related to the EHR under examination. Conclusions: CDAPubMed is a platform-independent tool designed to facilitate literature searching using keywords contained in specific EHRs. CDAPubMed is visually integrated, as an extension of a widespread web browser, within the standard PubMed interface. It has been tested on a public dataset of HL7-CDA documents, returning significantly fewer citations since queries are focused on characteristics identified within the EHR. For instance, compared with more than 200,000 citations retrieved by breast neoplasm, fewer than ten citations were retrieved when ten patient features were added using CDAPubMed. This is an open source tool that can be freely used for non-profit purposes and integrated with other existing systems

Knowledge Management as a Tool for Improving Business Processes: An Action Research Approach

Purpose: The aim of this study is to investigate the importance of Knowledge Management as a tool for improving business processes in a different context from the industrial organizations, as an archaeological museum. Design/methodology/approach: Using data collected from the National Museum of the Sultanate of Oman in Muscat, a CMP methodology (business process improvement cycle) for analysis and improvement of processes business is designed and validated. This application is described as an eight phases process based on Six Sigma DMAIC. Findings: As the results obtained by the process improvement initiative show, we highlight the relevance of the improvement in all aspects regarding the security in showcases in that context. Research limitations/implications: The complexity of implementing indicators and the partial vision of the project as data were only obtained from a part of one of the companies involved in the construction of the museum. An important implication of this paper is in order to present a methodology to improve the museum processes focusing on the reduction of errors and also adding value for the visitors. Practical implications: The relevance to intervene on certain relevant variables at different levels of management performance is verified. Social implications: Improving the quality of leisure services in order to the identification of certain challenges regarding the nature and competitiveness of cultural services. Originality/value: The current work has served as a repository of knowledge applicable to new similar projects, in which to take into account the peculiarities of each case and in particular the level of quality demanded by the client in a cultural context. It is important to take into account the degree of avoidable dissatisfaction (number of solvable problems that would lead to dissatisfaction), the opportunity for improvement, the reduction of operational waste and the need for coordination.Peer Reviewe

Cloud Computing Service for Managing Large Medical Image Data-Sets Using Balanced Collaborative Agents

Managing large medical image collections is an increasingly demanding important issue in many hospitals and other medical settings. A huge amount of this information is daily generated, which requires robust and agile systems. In this paper we present a distributed multi-agent system capable of managing very large medical image datasets. In this approach, agents extract low-level information from images and store them in a data structure implemented in a relational database. The data structure can also store semantic information related to images and particular regions. A distinctive aspect of our work is that a single image can be divided so that the resultant sub-images can be stored and managed separately by different agents to improve performance in data accessing and processing. The system also offers the possibility of applying some region-based operations and filters on images, facilitating image classification. These operations can be performed directly on data structures in the database

An Automatic Method for Retrieving and Indexing Catalogues of Biomedical Courses

Although there is wide information about Biomedical Informatics education and courses in different Websites, information is usually not exhaustive and difficult to update. We propose a new methodology based on information retrieval techniques for extracting, indexing and retrieving automatically information about educational offers. A web application has been developed to make available such information in an inventory of courses and educational offers

Doped-iron oxide nanocrystals synthesized by one-step aqueous route for multi-imaging purposes

New doped inorganic nanocrystals (NC) consisting on iron oxide and other metal integrated into the structure have been synthesized in one-step by adapting the oxidant precipitation synthesis route for magnetite. Different metals have been chosen to confer extra and unique properties to the resulting magnetic hetero-nanostructure: Co and Gd for enhancing transversal and longitudinal relaxivities for magnetic resonance imaging and Bi and Au for achieving X-ray absorption for computed tomography imaging. Apart of that, gold optical properties are interesting for photothermal therapy and iron oxides for magnetic hyperthermia. All metals have been incorporated into the magnetite structure in different ways during the synthesis: by forming a solid solution, by modifying the surface of the NCs, or by co-crystallization with the magnetite. The nanostructure formed in each case depends on the ionic radius of the secondary metal ion and the solubility of its hydroxide that control the co-precipitation in the initial steps of the reaction. Magnetic properties and imaging capabilities of the hetero-nanostructures have been analyzed as a function of the element distribution. Due to the synergistic combination of the different element properties, these magnetic hetero-nanostructures have great potential for biomedical applications