Development of an open case-based decision-support system for diagnosis in oral pathology

Making diagnoses in oral pathology are often difficult and confusing in dental practice, especially for the lessexperienced dental student. One of the most promising areas in bioinformatics is computer-aided diagnosis, where a computer system is capable of imitating human reasoning ability and provides diagnoses with an accuracy approaching that of expert professionals. This type of system could be an alternative tool for assisting dental students to overcome the difficulties of the oral pathology learning process. This could allow students to define variables and information, important to improving the decision-making performance. However, no current open data management system has been integrated with an artificial intelligence system in a user-friendly environment. Such a system could also be used as an education tool to help students perform diagnoses. The aim of the present study was to develop and test an open case-based decisionsupport system.Methods: An open decision-support system based on Bayes' theorem connected to a relational database was developed using the C++ programming language. The software was tested in the computerisation of a surgical pathology service and in simulating the diagnosis of 43 known cases of oral bone disease. The simulation was performed after the system was initially filled with data from 401 cases of oral bone disease.Results: the system allowed the authors to construct and to manage a pathology database, and to simulate diagnoses using the variables from the database.Conclusion: Combining a relational database and an open decision-support system in the same user-friendly environment proved effective in simulating diagnoses based on information from an updated database.

Analisi di tecniche per l'estrazione di informazioni da documenti testuali e non strutturati

Obiettivo di questa tesi dal titolo “Analisi di tecniche per l’estrazione di informazioni da documenti testuali e non strutturati” è quello di mostrare tecniche e metodologie informatiche che permettano di ricavare informazioni e conoscenza da dati in formato testuale. Gli argomenti trattati includono l'analisi di software per l'estrazione di informazioni, il web semantico, l'importanza dei dati e in particolare i Big Data, Open Data e Linked Data. Si parlerà inoltre di data mining e text mining.

Accessing and managing open medical resources in Africa over the Internet

Recent commentaries have proposed the advantages of using open exchange of data and informatics resources for improving health-related policies and patient care in Africa. Yet, in many African regions, both private medical and public health information systems are still unaffordable. Open exchange over the social Web 2.0 could encourage more altruistic support of medical initiatives. We have carried out some experiments to demonstrate the feasibility of using this approach to disseminate open data and informatics resources in Africa. After the experiments we developed the AFRICA BUILD Portal, the first Social Network for African biomedical researchers. Through the AFRICA BUILD Portal users can access in a transparent way to several resources. Currently, over 600 researchers are using distributed and open resources through this platform committed to low connections.

Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database: an expanded data model integrating natural language text and sequence analysis programs

The HIV Reverse Transcriptase and Protease Sequence Database is an on-line relational database that catalogs evolutionary and drug-related sequence variation in the human immunodeficiency virus (HIV) reverse transcriptase (RT) and protease enzymes, the molecular targets of anti-HIV therapy (http://hivdb.stanford.edu). The database contains a compilation of nearly all published HIV RT and protease sequences, including submissions from International Collaboration databases and sequences published in journal articles. Sequences are linked to data about the source of the sequence sample and the antiretroviral drug treatment history of the individual from whom the isolate was obtained. During the past year 3500 sequences have been added and the data model has been expanded to include drug susceptibility data on sequenced isolates. Database content has also been integrated with didactic text and the output of two sequence analysis programs.

Genetic heterogeneity in cystinuria: the SLC3A1 gene is linked to type I but not to type III cystinuria.

Cystinuria is an autosomal recessive amino-aciduria where three urinary phenotypes have been described (I, II, and III). An amino acid transporter gene, SLC3A1 (formerly rBAT), was found to be responsible for this disorder. To assess whether mutations in SLC3A1 are involved in different cystinuria phenotypes, linkage with this gene and its nearest marker (D2S119) was analyzed in 22 families with type I and/or type III cystinuria. Linkage with heterogeneity was proved (alpha = 0.45; P < 0.008). Type I/I families showed homogeneous linkage to SLC3A1 (Zmax > 3.0 at theta = 0.00; alpha = 1), whereas types I/III and III/III were not linked. Our data suggest that type I cystinuria is due to mutations in the SLC3A1 gene, whereas another locus is responsible for type III. This result establishes genetic heterogeneity for cystinuria, classically considered as a multiallelic monogenic disease.

Privacy in the Smart City: Implications of Sensor Network Design, Law, and Policy for Locational Privacy

Thesis (Master's)--University of Washington, 2016-06

XBRL:an (open) source of enlightenment or disillusion?

Extensible Business Reporting Language (XBRL) is being adopted by European regulators as a data standard for the exchange of business information. This paper examines the approach of XBRL International (XII) to the meta-data standard's development and diffusion. We theorise the development of XBRL using concepts drawn from a model of successful open source projects. Comparison of the open source model to XBRL enables us to identify a number of interesting similarities and differences. In common with open source projects, the benefits and progress of XBRL have been overstated and 'hyped' by enthusiastic participants. While XBRL is an open data standard in terms of access to the equivalent of its 'source code' we find that the governance structure of the XBRL consortium is significantly different to a model open source approach. The barrier to participation that is created by requiring paid membership and a focus on transacting business at physical conferences and meetings is identified as particularly critical. Decisions about the technical structure of XBRL, the regulator-led pattern of adoption and the organisation of XII are discussed. Finally areas for future research are identified.

Almost Separable Data Aggregation by Layers of Formal Neurons

Information extraction or knowledge discovery from large data sets should be linked to data aggregation process. Data aggregation process can result in a new data representation with decreased number of objects of a given set. A deterministic approach to separable data aggregation means a lesser number of objects without mixing of objects from different categories. A statistical approach is less restrictive and allows for almost separable data aggregation with a low level of mixing of objects from different categories. Layers of formal neurons can be designed for the purpose of data aggregation both in the case of deterministic and statistical approach. The proposed designing method is based on minimization of the of the convex and piecewise linear (CPL) criterion functions.

Importance and Benefits of OPEN SCIENCE for Ubiquitous Sharing, Dissemination and Impact

While openness is well applied to software development and exploitation (open sources), and successfully applied to new business models (open innovation), fundamental and applied research seems to lag behind. Even after decades of advocacy, in 2011 only 50% of the public-funded research was freely available and accessible (Archambault et al., 2013). The current research workflows, stemming from a pre-internet age, result in loss of opportunity not only for the researchers themselves (cf. extensive literature on topic at Open Access citation project, http://opcit.eprints.org/), but also slows down innovation and application of research results (Houghton & Swan, 2011). Recent studies continue to suggest that lack of awareness among researchers, rather than lack of e-infrastructure and methodology, is a key reason for this loss of opportunity (Graziotin 2014). The session will focus on why Open Science is ideally suited to achieving tenure-relevant researcher impact in a “Publish or Perish” reality. Open Science encapsulates tools and approaches for each step along the research cycle: from Open Notebook Science to Open Data, Open Access, all setting up researchers for capitalising on social media in order to promote and discuss, and establish unexpected collaborations. Incorporating these new approaches into a updated personal research workflow is of strategic beneficial for young researchers, and will prepare them for expected long term funder trends towards greater openness and demand for greater return on investment (ROI) for public funds.

L'HBIM semantico per la catalogazione e la fruizione dei Beni Culturali. Il caso studio della Chiesa di Santa Maria delle Vergini (MC) e la piattaforma Inception.

Questa tesi di laurea si pone l’obiettivo di investigare alcune delle nuove frontiere offerte dalla crescita sincretica e multidisciplinare dei linguaggi digitali applicati all’architettura e ai beni culturali. Si approfondiranno i concetti teorici fondamentali dell’informazione digitale: il web semantico come ambiente di scambio, i metadata come informazioni sui dati, i LOD (Link Open Data) come standard e fine. Per l’ambito dei beni culturali verranno presentati i temi di ricerca e sviluppo nel campo della catalogazione e fruizione digitali: ontologie, dizionari normalizzati aperti, database (Catalogo Digitale), etc. Per l’ambito edilizio-architettonico verrà introdotto l’Heritage Building Information Modeling (HBIM) semantico come metodologia multidisciplinare focalizzata su rilievo geometrico, modellazione, archiviazione e scambio di tutte le informazioni utili alla conoscenza e conservazione dei beni storici. Il punto d’incontro tra i due mondi è individuato nella possibilità di arricchire le geometrie attraverso la definizione di una semantica (parametri-metadati) relazionata alle informazioni (valori-dati) presenti nei cataloghi digitali, creando di fatto un modello 3D per architetture storiche con funzione di database multidisciplinare. Sarà presentata la piattaforma web-based Inception, sviluppata dall’omonima startup incubata come spinoff dall’Università di Ferrara, che, tra le diverse applicazioni e potenzialità, verrà utilizzata come strumento per la condivisione e fruizione, garantendo la possibilità di interrogare geometrie e metadati in continuità con i principi LOD. Verrà definito un workflow generale (procedure Scan2BIM, modellazione geometrica, definizione script per l’estrazione automatica dei dati dal Catalogo Digitale, associazione dati-geometrie e caricamento in piattaforma) successivamente applicato e adattato alle precise necessità del caso studio: la Chiesa di S. Maria delle Vergini (MC), su commissione dell’ICCD referente al MiBACT.

Projeto FOSTER: facilitar a formação e a disseminação das práticas de ciência aberta na Europa

O projeto FOSTER – Facilitate Open Science Training for European Research é uma iniciativa que pretende apoiar diferentes intervenientes envolvidos no processo de comunicação científica, principalmente jovens investigadores. Este apoio visa a adoção do Acesso Aberto no contexto do Espaço Europeu da Investigação (EEI) e a conformidade com as políticas de Acesso Aberto e com as regras de participação do Horizonte 2020 (H2020). Para atingir este objetivo, o FOSTER, pretende focar-se na integração dos princípios e práticas de Acesso Aberto no atual sistema de investigação e contribuir para o desenvolvimento de sessões de formação nas instituições que realizam investigação científica de forma a manter níveis de conformidade satisfatórios com as políticas de Acesso Aberto no EEI e H2020. Para tal, tem desenvolvido um programa de formação sobre Acesso Aberto e dados abertos para consolidar as atividades de formação dirigidas a diversas comunidades e países do EEI. Este programa propõe incluir pacotes de formação que incluam aconselhamento, apoio técnico na utilização de sistemas e-learning, b-learning e de autoformação, disponibilização de materiais/conteúdos, sessões presenciais, principalmente formação de formadores, escolas de verão, seminários, etc.

VIKI : a semiotic-based system for multilingual knowledge retrieval

Abstract Since its creation, the Internet has permeated our daily life. The web is omnipresent for communication, research and organization. This exploitation has resulted in the rapid development of the Internet. Nowadays, the Internet is the biggest container of resources. Information databases such as Wikipedia, Dmoz and the open data available on the net are a great informational potentiality for mankind. The easy and free web access is one of the major feature characterizing the Internet culture. Ten years earlier, the web was completely dominated by English. Today, the web community is no longer only English speaking but it is becoming a genuinely multilingual community. The availability of content is intertwined with the availability of logical organizations (ontologies) for which multilinguality plays a fundamental role. In this work we introduce a very high-level logical organization fully based on semiotic assumptions. We thus present the theoretical foundations as well as the ontology itself, named Linguistic Meta-Model. The most important feature of Linguistic Meta-Model is its ability to support the representation of different knowledge sources developed according to different underlying semiotic theories. This is possible because mast knowledge representation schemata, either formal or informal, can be put into the context of the so-called semiotic triangle. In order to show the main characteristics of Linguistic Meta-Model from a practical paint of view, we developed VIKI (Virtual Intelligence for Knowledge Induction). VIKI is a work-in-progress system aiming at exploiting the Linguistic Meta-Model structure for knowledge expansion. It is a modular system in which each module accomplishes a natural language processing task, from terminology extraction to knowledge retrieval. VIKI is a supporting system to Linguistic Meta-Model and its main task is to give some empirical evidence regarding the use of Linguistic Meta-Model without claiming to be thorough.

Workshop on repositories and journals

Third LERU Doctoral Summer School Beyond Open Access: Open Education, Open Data and Open Knowledge Barcelona, 9th July, 2012

Consideraciones legales y éticas de los datos

Peer-reviewed