The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration

B Smith, M Ashburner, C Rosse, J Bard, W Bug… - Nature …, 2007 - nature.com
The value of any kind of data is greatly enhanced when it exists in a form that allows it to be
integrated with other data. One approach to integration is through the annotation of multiple …

An overview of graph databases and their applications in the biomedical domain

S Timón-Reina, M Rincón, R Martínez-Tomás - Database, 2021 - academic.oup.com
Over the past couple of decades, the explosion of densely interconnected data has
stimulated the research, development and adoption of graph database technologies. From …

An introduction to ontology engineering

CM Keet - 2018 - open.uct.ac.za
Abstract An Introduction to Ontology Engineering is a free online textbook that provides an
overview of ontology engineering, including logics and automated reasoning, methods and …

Empowering software maintainers with semantic web technologies

R Witte, Y Zhang, J Rilling - … Semantic Web: Research and Applications: 4th …, 2007 - Springer
Software maintainers routinely have to deal with a multitude of artifacts, like source code or
documents, which often end up disconnected, due to their different representations and the …

Generation of natural language processing model for an information domain

D Beaurpere, D Kearns, D McCloskey - US Patent 9,740,685, 2017 - Google Patents
Embodiments relate to a method, apparatus and program product and for generating a
natural language processing model for an information domain. The method derives a …

OrganismTagger: detection, normalization and grounding of organism entities in biomedical documents

N Naderi, T Kappler, CJO Baker, R Witte - Bioinformatics, 2011 - academic.oup.com
Motivation: Semantic tagging of organism mentions in full-text articles is an important part of
literature mining and semantic enrichment solutions. Tagged organism mentions also play a …

Ontological approach for the semantic recovery of traceability links between software artefacts

Y Zhang, R Witte, J Rilling, V Haarslev - IET software, 2008 - IET
Traceability links provide support for software engineers in understanding relations and
dependencies among software artefacts created during the software development process …

Text mining and software engineering: an integrated source code and document analysis approach

R Witte, Q Li, Y Zhang, J Rilling - IET software, 2008 - IET
Documents written in natural languages constitute a major part of the artefacts produced
during the software engineering life cycle. Especially during software maintenance or …

Automated extraction and semantic analysis of mutation impacts from the biomedical literature

N Naderi, R Witte - BMC genomics, 2012 - Springer
Background Mutations as sources of evolution have long been the focus of attention in the
biomedical literature. Accessing the mutational information and their impacts on protein …

Towards ontology-driven navigation of the lipid bibliosphere

CJO Baker, R Kanagasabai, WT Ang, A Veeramani… - BMC …, 2008 - Springer
Background The indexing of scientific literature and content is a relevant and contemporary
requirement within life science information systems. Navigating information available in …