Living Knowledge

Diversity, especially manifested in language and knowledge, is a function of local goals, needs, competences, beliefs, culture, opinions and personal experience. The Living Knowledge project considers diversity as an asset rather than a problem. With the project, foundational ideas emerged from the synergic contribution of different disciplines, methodologies (with which many partners were previously unfamiliar) and technologies flowed in concrete diversity-aware applications such as the Future Predictor and the Media Content Analyser providing users with better structured information while coping with Web scale complexities. The key notions of diversity, fact, opinion and bias have been defined in relation to three methodologies: Media Content Analysis (MCA) which operates from a social sciences perspective; Multimodal Genre Analysis (MGA) which operates from a semiotic perspective and Facet Analysis (FA) which operates from a knowledge representation and organization perspective. A conceptual architecture that pulls all of them together has become the core of the tools for automatic extraction and the way they interact. In particular, the conceptual architecture has been implemented with the Media Content Analyser application. The scientific and technological results obtained are described in the following

Controlled vocabularies and semantics in systems biology

The use of computational modeling to describe and analyze biological systems is at the heart of systems biology. Model structures, simulation descriptions and numerical results can be encoded in structured formats, but there is an increasing need to provide an additional semantic layer. Semantic information adds meaning to components of structured descriptions to help identify and interpret them unambiguously. Ontologies are one of the tools frequently used for this purpose. We describe here three ontologies created specifically to address the needs of the systems biology community. The Systems Biology Ontology (SBO) provides semantic information about the model components. The Kinetic Simulation Algorithm Ontology (KiSAO) supplies information about existing algorithms available for the simulation of systems biology models, their characterization and interrelationships. The Terminology for the Description of Dynamics (TEDDY) categorizes dynamical features of the simulation results and general systems behavior. The provision of semantic information extends a model's longevity and facilitates its reuse. It provides useful insight into the biology of modeled processes, and may be used to make informed decisions on subsequent simulation experiments

Report on the Information Retrieval Festival (IRFest2017)

The Information Retrieval Festival took place in April 2017 in Glasgow. The focus of the workshop was to bring together IR researchers from the various Scottish universities and beyond in order to facilitate more awareness, increased interaction and reflection on the status of the field and its future. The program included an industry session, research talks, demos and posters as well as two keynotes. The first keynote was delivered by Prof. Jaana Kekalenien, who provided a historical, critical reflection of realism in Interactive Information Retrieval Experimentation, while the second keynote was delivered by Prof. Maarten de Rijke, who argued for more Artificial Intelligence usage in IR solutions and deployments. The workshop was followed by a "Tour de Scotland" where delegates were taken from Glasgow to Aberdeen for the European Conference in Information Retrieval (ECIR 2017

Ranking Archived Documents for Structured Queries on Semantic Layers

Archived collections of documents (like newspaper and web archives) serve as important information sources in a variety of disciplines, including Digital Humanities, Historical Science, and Journalism. However, the absence of efficient and meaningful exploration methods still remains a major hurdle in the way of turning them into usable sources of information. A semantic layer is an RDF graph that describes metadata and semantic information about a collection of archived documents, which in turn can be queried through a semantic query language (SPARQL). This allows running advanced queries by combining metadata of the documents (like publication date) and content-based semantic information (like entities mentioned in the documents). However, the results returned by such structured queries can be numerous and moreover they all equally match the query. In this paper, we deal with this problem and formalize the task of "ranking archived documents for structured queries on semantic layers". Then, we propose two ranking models for the problem at hand which jointly consider: i) the relativeness of documents to entities, ii) the timeliness of documents, and iii) the temporal relations among the entities. The experimental results on a new evaluation dataset show the effectiveness of the proposed models and allow us to understand their limitation

Biodiversity informatics: the challenge of linking data and the role of shared identifiers

A major challenge facing biodiversity informatics is integrating data stored in widely distributed databases. Initial efforts have relied on taxonomic names as the shared identifier linking records in different databases. However, taxonomic names have limitations as identifiers, being neither stable nor globally unique, and the pace of molecular taxonomic and phylogenetic research means that a lot of information in public sequence databases is not linked to formal taxonomic names. This review explores the use of other identifiers, such as specimen codes and GenBank accession numbers, to link otherwise disconnected facts in different databases. The structure of these links can also be exploited using the PageRank algorithm to rank the results of searches on biodiversity databases. The key to rich integration is a commitment to deploy and reuse globally unique, shared identifiers (such as DOIs and LSIDs), and the implementation of services that link those identifiers

TiFi: Taxonomy Induction for Fictional Domains [Extended version]

Taxonomies are important building blocks of structured knowledge bases, and their construction from text sources and Wikipedia has received much attention. In this paper we focus on the construction of taxonomies for fictional domains, using noisy category systems from fan wikis or text extraction as input. Such fictional domains are archetypes of entity universes that are poorly covered by Wikipedia, such as also enterprise-specific knowledge bases or highly specialized verticals. Our fiction-targeted approach, called TiFi, consists of three phases: (i) category cleaning, by identifying candidate categories that truly represent classes in the domain of interest, (ii) edge cleaning, by selecting subcategory relationships that correspond to class subsumption, and (iii) top-level construction, by mapping classes onto a subset of high-level WordNet categories. A comprehensive evaluation shows that TiFi is able to construct taxonomies for a diverse range of fictional domains such as Lord of the Rings, The Simpsons or Greek Mythology with very high precision and that it outperforms state-of-the-art baselines for taxonomy induction by a substantial margin