Patients often have difficulty in understanding medical concepts and vocabulary in their Discharge Summaries. We explore automatic hyper-linking to online resources for difficult terms as a means of making the content more comprehensible for patients. We use the Consumer Health Vocabulary (CHV) as a resource for scoring the difficulty of terms and to provide the most consumerfriendly synonyms. ...

When using the Gene Ontology (GO), nucleotide and amino acid sequences are annotated by terms in a structured and controlled vocabulary organized into a relational graph. The usage of the vocabulary (GO terms) in the annotation of these sequences may diverge from the relations defined in the ontology. We measure the consistency of the use of GO terms by comparing GO’s defined structure to the t...

Imagery collected by still and video cameras is an increasingly important tool for minimal impact, repeatable observations in the marine environment. Data generated from imagery includes identification, annotation and quantification of biological subjects and environmental features within an image. To be long-lived and useful beyond their project-specific initial purpose, and to maximize their ...

The establishment of TEI as a standard for textual data generated outside of the narrow domain of corpus linguistics in history, literature, philosophy and more, has led to a fruitful integration of encoding vocabulary from different fields of interest, but at a necessary cost of a large stock of elements, heterogeneous interpretations of those elements, and limitations on the kinds of annotati...

CharProtDB (http://www.jcvi.org/charprotdb/) is a curated database of biochemically characterized proteins. It provides a source of direct rather than transitive assignments of function, designed to support automated annotation pipelines. The initial data set in CharProtDB was collected through manual literature curation over the years by analysts at the J. Craig Venter Institute (JCVI) [former...

Annotation graph datasets are a natural representation of scientific knowledge. They are common in the life sciences where concepts such as genes and proteins are annotated with controlled vocabulary terms from ontologies. Scientists are interested in analyzing or mining these annotations, in synergy with the literature, to discover patterns. Further, annotated datasets provide an avenue for sc...

The Gene Ontology (GO), a structured controlled vocabulary of over 15,000 terms, is becoming the de facto standard for describing gene products in terms of their molecular functions, biological processes in which they participate, and the cellular locations in which they are active. However, current annotation editors do not constrain the choice of GO terms users may enter, potentially resultin...

The application of semantic technologies to content on the web is, in many regards, important and urgent. Search engines, chatbots, intelligent personal assistants and other technologies increasingly rely on content published as semantic structured data. Yet, the process of creating this kind of data is still complicated and widely unknown. The semantify.it platform implements an approach to so...

This paper presents the Slovenian Broadcast News Database project that was started in year 2002 as cooperation between University of Maribor and Slovenian national broadcaster RTV Slovenia. The resulting database will be used for large vocabulary continuous speech recognition and multimedia database retrieval or archive indexation. First some organizational aspects that were needed in initial p...