WISER: A Semantic Approach for Expert Finding in Academia based on Entity Linking

We present WISER, a new semantic search engine for expert finding in academia. Our system is unsupervised and it jointly combines classical language modeling techniques, based on text evidences, with the Wikipedia Knowledge Graph, via entity linking. WISER indexes each academic author through a novel profiling technique which models her expertise with a small, labeled and weighted graph drawn from Wikipedia. Nodes in this graph are the Wikipedia entities mentioned in the author's publications, whereas the weighted edges express the semantic relatedness among these entities computed via textual and graph-based relatedness functions. Every node is also labeled with a relevance score which models the pertinence of the corresponding entity to author's expertise, and is computed by means of a proper random-walk calculation over that graph; and with a latent vector representation which is learned via entity and other kinds of structural embeddings derived from Wikipedia. At query time, experts are retrieved by combining classic document-centric approaches, which exploit the occurrences of query terms in the author's documents, with a novel set of profile-centric scoring strategies, which compute the semantic relatedness between the author's expertise and the query topic via the above graph-based profiles. The effectiveness of our system is established over a large-scale experimental test on a standard dataset for this task. We show that WISER achieves better performance than all the other competitors, thus proving the effectiveness of modelling author's profile via our "semantic" graph of entities. Finally, we comment on the use of WISER for indexing and profiling the whole research community within the University of Pisa, and its application to technology transfer in our University

Social semantic search : a case study on web 2.0 for science

When researchers formulate search queries to find relevant content on the Web, those queries typically consist of keywords that can only be matched in the content or its metadata. The Web of Data extends this functionality by bringing structure and giving well-defined meaning to the content and it enables humans and machines to work together using controlled vocabularies. Due the high degree of mismatches between the structure of the content and the vocabularies in different sources, searching over multiple heterogeneous repositories of structured data is considered challenging. Therefore, the authors present a semantic search engine for researchers facilitating search in research related Linked Data. To facilitate high-precision interactive search, they annotated and interlinked structured research data with ontologies from various repositories in an effective semantic model. Furthermore, the authors' system is adaptive as researchers can synchronize using new social media accounts and efficiently explore new datasets

Interoperability and FAIRness through a novel combination of Web technologies

Data in the life sciences are extremely diverse and are stored in a broad spectrum of repositories ranging from those designed for particular data types (such as KEGG for pathway data or UniProt for protein data) to those that are general-purpose (such as FigShare, Zenodo, Dataverse or EUDAT). These data have widely different levels of sensitivity and security considerations. For example, clinical observations about genetic mutations in patients are highly sensitive, while observations of species diversity are generally not. The lack of uniformity in data models from one repository to another, and in the richness and availability of metadata descriptions, makes integration and analysis of these data a manual, time-consuming task with no scalability. Here we explore a set of resource-oriented Web design patterns for data discovery, accessibility, transformation, and integration that can be implemented by any general- or special-purpose repository as a means to assist users in finding and reusing their data holdings. We show that by using off-the-shelf technologies, interoperability can be achieved atthe level of an individual spreadsheet cell. We note that the behaviours of this architecture compare favourably to the desiderata defined by the FAIR Data Principles, and can therefore represent an exemplar implementation of those principles. The proposed interoperability design patterns may be used to improve discovery and integration of both new and legacy data, maximizing the utility of all scholarly outputs

Content Enrichment of Digital Libraries: Methods, Technologies and Implementations

Parallel to the establishment of the concept of a "digital library", there have been rapid developments in the fields of semantic technologies, information retrieval and artificial intelligence. The idea is to use make use of these three fields to crosslink bibliographic data, i.e., library content, and to enrich it "intelligently" with additional, especially non-library, information. By linking the contents of a library, it is possible to offer users access to semantically similar contents of different digital libraries. For instance, a list of semantically similar publications from completely different subject areas and from different digital libraries can be made accessible. In addition, the user is able to see a wider profile about authors, enriched with information such as biographical details, name alternatives, images, job titles, institute affiliations, etc. This information comes from a wide variety of sources, most of which are not library sources. In order to make such scenarios a reality, this dissertation follows two approaches. The first approach is about crosslinking digital library content in order to offer semantically similar publications based on additional information for a publication. Hence, this approach uses publication-related metadata as a basis. The aligned terms between linked open data repositories/thesauri are considered as an important starting point by considering narrower, broader and related concepts through semantic data models such as SKOS. Information retrieval methods are applied to identify publications with high semantic similarity. For this purpose, approaches of vector space models and "word embedding" are applied and analyzed comparatively. The analyses are performed in digital libraries with different thematic focuses (e.g. economy and agriculture). Using machine learning techniques, metadata is enriched, e.g. with synonyms for content keywords, in order to further improve similarity calculations. To ensure quality, the proposed approaches will be analyzed comparatively with different metadata sets, which will be assessed by experts. Through the combination of different information retrieval methods, the quality of the results can be further improved. This is especially true when user interactions offer possibilities for adjusting the search properties. In the second approach, which this dissertation pursues, author-related data are harvested in order to generate a comprehensive author profile for a digital library. For this purpose, non-library sources, such as linked data repositories (e.g. WIKIDATA) and library sources, such as authority data, are used. If such different sources are used, the disambiguation of author names via the use of already existing persistent identifiers becomes necessary. To this end, we offer an algorithmic approach to disambiguate authors, which makes use of authority data such as the Virtual International Authority File (VIAF). Referring to computer sciences, the methodological value of this dissertation lies in the combination of semantic technologies with methods of information retrieval and artificial intelligence to increase the interoperability between digital libraries and between libraries with non-library sources. By positioning this dissertation as an application-oriented contribution to improve the interoperability, two major contributions are made in the context of digital libraries: (1) The retrieval of information from different Digital Libraries can be made possible via a single access. (2) Existing information about authors is collected from different sources and aggregated into one author profile.Parallel zur Etablierung des Konzepts einer „Digitalen Bibliothek“ gab es rasante Weiterentwicklungen in den Bereichen semantischer Technologien, Information Retrieval und künstliche Intelligenz. Die Idee ist es, mit ihrer Hilfe bibliographische Daten, also Inhalte von Bibliotheken, miteinander zu vernetzen und „intelligent“ mit zusätzlichen, insbesondere nicht-bibliothekarischen Informationen anzureichern. Durch die Verknüpfung von Inhalten einer Bibliothek wird es möglich, einen Zugang für Benutzer*innen anzubieten, über den semantisch ähnliche Inhalte unterschiedlicher Digitaler Bibliotheken zugänglich werden. Beispielsweise können hierüber ausgehend von einer bestimmten Publikation eine Liste semantisch ähnlicher Publikationen ggf. aus völlig unterschiedlichen Themenfeldern und aus verschiedenen digitalen Bibliotheken zugänglich gemacht werden. Darüber hinaus können sich Nutzer*innen ein breiteres Autoren-Profil anzeigen lassen, das mit Informationen wie biographischen Angaben, Namensalternativen, Bildern, Berufsbezeichnung, Instituts-Zugehörigkeiten usw. angereichert ist. Diese Informationen kommen aus unterschiedlichsten und in der Regel nicht-bibliothekarischen Quellen. Um derartige Szenarien Realität werden zu lassen, verfolgt diese Dissertation zwei Ansätze. Der erste Ansatz befasst sich mit der Vernetzung von Inhalten Digitaler Bibliotheken, um auf Basis zusätzlicher Informationen für eine Publikation semantisch ähnliche Publikationen anzubieten. Dieser Ansatz verwendet publikationsbezogene Metadaten als Grundlage. Die verknüpften Begriffe zwischen verlinkten offenen Datenrepositorien/Thesauri werden als wichtiger Angelpunkt betrachtet, indem Unterbegriffe, Oberbegriffe und verwandten Konzepte über semantische Datenmodelle, wie SKOS, berücksichtigt werden. Methoden des Information Retrieval werden angewandt, um v.a. Publikationen mit hoher semantischer Verwandtschaft zu identifizieren. Zu diesem Zweck werden Ansätze des Vektorraummodells und des „Word Embedding“ eingesetzt und vergleichend analysiert. Die Analysen werden in Digitalen Bibliotheken mit unterschiedlichen thematischen Schwerpunkten (z.B. Wirtschaft und Landwirtschaft) durchgeführt. Durch Techniken des maschinellen Lernens werden hierfür Metadaten angereichert, z.B. mit Synonymen für inhaltliche Schlagwörter, um so Ähnlichkeitsberechnungen weiter zu verbessern. Zur Sicherstellung der Qualität werden die beiden Ansätze mit verschiedenen Metadatensätzen vergleichend analysiert wobei die Beurteilung durch Expert*innen erfolgt. Durch die Verknüpfung verschiedener Methoden des Information Retrieval kann die Qualität der Ergebnisse weiter verbessert werden. Dies trifft insbesondere auch dann zu wenn Benutzerinteraktion Möglichkeiten zur Anpassung der Sucheigenschaften bieten. Im zweiten Ansatz, den diese Dissertation verfolgt, werden autorenbezogene Daten gesammelt, verbunden mit dem Ziel, ein umfassendes Autorenprofil für eine Digitale Bibliothek zu generieren. Für diesen Zweck kommen sowohl nicht-bibliothekarische Quellen, wie Linked Data-Repositorien (z.B. WIKIDATA) und als auch bibliothekarische Quellen, wie Normdatensysteme, zum Einsatz. Wenn solch unterschiedliche Quellen genutzt werden, wird die Disambiguierung von Autorennamen über die Nutzung bereits vorhandener persistenter Identifikatoren erforderlich. Hierfür bietet sich ein algorithmischer Ansatz für die Disambiguierung von Autoren an, der Normdaten, wie die des Virtual International Authority File (VIAF) nachnutzt. Mit Bezug zur Informatik liegt der methodische Wert dieser Dissertation in der Kombination von semantischen Technologien mit Verfahren des Information Retrievals und der künstlichen Intelligenz zur Erhöhung von Interoperabilität zwischen Digitalen Bibliotheken und zwischen Bibliotheken und nicht-bibliothekarischen Quellen. Mit der Positionierung dieser Dissertation als anwendungsorientierter Beitrag zur Verbesserung von Interoperabilität werden zwei wesentliche Beiträge im Kontext Digitaler Bibliotheken geleistet: (1) Die Recherche nach Informationen aus unterschiedlichen Digitalen Bibliotheken kann über einen Zugang ermöglicht werden. (2) Vorhandene Informationen über Autor*innen werden aus unterschiedlichsten Quellen eingesammelt und zu einem Autorenprofil aggregiert

Mesurer la cohésion sémantique dans les corpus de documents

Exploring document collections remains a focus of research. This task can be tackled using various techniques, typically ranking documents according to a relevance index or grouping documents based on various clustering algorithms. The task complexity produces results of varying quality that inevitably carry noise. Users must be careful when interpreting document relevance or groupings. We address this problem by computing cohesion measures for a group of documents con rming/in rming whether it can be trusted to form a semantically cohesive unit. The index is inspired from past work in social network analysis (SNA) and illustrates how document exploration can bene t from SNA techniques.L'exploration de corpus documentaire reste encore aujourd'hui un domaine actif de recherche. Cette tâche peut être abordé à l'aide de nombreuses techniques, s'appuyant typiquement sur le calcul d'indices de pertinence ou de regroupement thématique (clustering). Ces solutions sont souvent empreintes de bruit, du fait même de la complexit é de la tâche à mener. Les utilisateurs se doivent par conséquent d'être précautionneux lorsqu'il s'agit d'interpréter les résultat d'un ordonnancement ou de regroupement thématique des documents. Nous nous penchons sur cette dernière question et calculons des indices de coh ésion s émantique associ és à un groupe de documents permettant de questionner la coh ésion d'un groupe de documents. Ces indices s'inspirent de travaux pass és en analyse des réseaux sociaux (SNA) et montre combien il semble possible d'exploiter les r ésultats de ce domaine à des fi ns d'exploration de bases documentaires

Application of Semantics to Solve Problems in Life Sciences

Fecha de lectura de Tesis: 10 de diciembre de 2018La cantidad de información que se genera en la Web se ha incrementado en los últimos años. La mayor parte de esta información se encuentra accesible en texto, siendo el ser humano el principal usuario de la Web. Sin embargo, a pesar de todos los avances producidos en el área del procesamiento del lenguaje natural, los ordenadores tienen problemas para procesar esta información textual. En este cotexto, existen dominios de aplicación en los que se están publicando grandes cantidades de información disponible como datos estructurados como en el área de las Ciencias de la Vida. El análisis de estos datos es de vital importancia no sólo para el avance de la ciencia, sino para producir avances en el ámbito de la salud. Sin embargo, estos datos están localizados en diferentes repositorios y almacenados en diferentes formatos que hacen difícil su integración. En este contexto, el paradigma de los Datos Vinculados como una tecnología que incluye la aplicación de algunos estándares propuestos por la comunidad W3C tales como HTTP URIs, los estándares RDF y OWL. Haciendo uso de esta tecnología, se ha desarrollado esta tesis doctoral basada en cubrir los siguientes objetivos principales: 1) promover el uso de los datos vinculados por parte de la comunidad de usuarios del ámbito de las Ciencias de la Vida 2) facilitar el diseño de consultas SPARQL mediante el descubrimiento del modelo subyacente en los repositorios RDF 3) crear un entorno colaborativo que facilite el consumo de Datos Vinculados por usuarios finales, 4) desarrollar un algoritmo que, de forma automática, permita descubrir el modelo semántico en OWL de un repositorio RDF, 5) desarrollar una representación en OWL de ICD-10-CM llamada Dione que ofrezca una metodología automática para la clasificación de enfermedades de pacientes y su posterior validación haciendo uso de un razonador OWL

Multi modal multi-semantic image retrieval

PhDThe rapid growth in the volume of visual information, e.g. image, and video can overwhelm users’ ability to find and access the specific visual information of interest to them. In recent years, ontology knowledge-based (KB) image information retrieval techniques have been adopted into in order to attempt to extract knowledge from these images, enhancing the retrieval performance. A KB framework is presented to promote semi-automatic annotation and semantic image retrieval using multimodal cues (visual features and text captions). In addition, a hierarchical structure for the KB allows metadata to be shared that supports multi-semantics (polysemy) for concepts. The framework builds up an effective knowledge base pertaining to a domain specific image collection, e.g. sports, and is able to disambiguate and assign high level semantics to ‘unannotated’ images. Local feature analysis of visual content, namely using Scale Invariant Feature Transform (SIFT) descriptors, have been deployed in the ‘Bag of Visual Words’ model (BVW) as an effective method to represent visual content information and to enhance its classification and retrieval. Local features are more useful than global features, e.g. colour, shape or texture, as they are invariant to image scale, orientation and camera angle. An innovative approach is proposed for the representation, annotation and retrieval of visual content using a hybrid technique based upon the use of an unstructured visual word and upon a (structured) hierarchical ontology KB model. The structural model facilitates the disambiguation of unstructured visual words and a more effective classification of visual content, compared to a vector space model, through exploiting local conceptual structures and their relationships. The key contributions of this framework in using local features for image representation include: first, a method to generate visual words using the semantic local adaptive clustering (SLAC) algorithm which takes term weight and spatial locations of keypoints into account. Consequently, the semantic information is preserved. Second a technique is used to detect the domain specific ‘non-informative visual words’ which are ineffective at representing the content of visual data and degrade its categorisation ability. Third, a method to combine an ontology model with xi a visual word model to resolve synonym (visual heterogeneity) and polysemy problems, is proposed. The experimental results show that this approach can discover semantically meaningful visual content descriptions and recognise specific events, e.g., sports events, depicted in images efficiently. Since discovering the semantics of an image is an extremely challenging problem, one promising approach to enhance visual content interpretation is to use any associated textual information that accompanies an image, as a cue to predict the meaning of an image, by transforming this textual information into a structured annotation for an image e.g. using XML, RDF, OWL or MPEG-7. Although, text and image are distinct types of information representation and modality, there are some strong, invariant, implicit, connections between images and any accompanying text information. Semantic analysis of image captions can be used by image retrieval systems to retrieve selected images more precisely. To do this, a Natural Language Processing (NLP) is exploited firstly in order to extract concepts from image captions. Next, an ontology-based knowledge model is deployed in order to resolve natural language ambiguities. To deal with the accompanying text information, two methods to extract knowledge from textual information have been proposed. First, metadata can be extracted automatically from text captions and restructured with respect to a semantic model. Second, the use of LSI in relation to a domain-specific ontology-based knowledge model enables the combined framework to tolerate ambiguities and variations (incompleteness) of metadata. The use of the ontology-based knowledge model allows the system to find indirectly relevant concepts in image captions and thus leverage these to represent the semantics of images at a higher level. Experimental results show that the proposed framework significantly enhances image retrieval and leads to narrowing of the semantic gap between lower level machinederived and higher level human-understandable conceptualisation