Modeling discrete phenotypic traits for either ancestral character state reconstruction or morphology-based phylogenetic inference suffers from ambiguities of character coding, homology assessment, dependencies, and selection of adequate models. Thes...
Studies in health technology and informatics
Aug 21, 2019
Exposomics is a field of research which is receiving growing attention. In this work, we characterize the exposome research landscape and update our previous study of formal knowledge representation approaches to this field. We applied a deductive an...
Studies in health technology and informatics
Aug 21, 2019
OBJECTIVE: To characterize the scientific reproducibility of biomedical research studies by query and analysis of semantic provenance graphs generated from provenance metadata terms extracted from PubMed articles.
Studies in health technology and informatics
Aug 21, 2019
In sub-Saharan African countries the prevention and control of epidemic diseases requires the improvement of the surveillance system for these diseases. Biomedical ontologies are a growing field that can improve health information systems. Indeed bio...
MOTIVATION: Searching for precise terms and terminological definitions in the biomedical data space is problematic, as researchers find overlapping, closely related and even equivalent concepts in a single or multiple ontologies. Search engines that ...
Studies in health technology and informatics
Jul 4, 2019
The article presents the semantic model of diagnostics and treatment of patients with gastrointestinal bleedings when the reasons of bleeding cannot be establihed by means of a laboratory tests, endoscopy and colonoscopy.
We present Doc2Hpo, an interactive web application that enables interactive and efficient phenotype concept curation from clinical text with automated concept normalization using the Human Phenotype Ontology (HPO). Users can edit the HPO concepts aut...
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Jul 1, 2019
One of the most widely acknowledged standards in health informatics is HL7 (Health Level 7 International). HL7 FHIR® (Fast Healthcare Interoperability Resources) is a new HL7 standard for exchanging electronic health data. It builds upon previous HL7...
MOTIVATION: Ontologies are widely used in biology for data annotation, integration and analysis. In addition to formally structured axioms, ontologies contain meta-data in the form of annotation axioms which provide valuable pieces of information tha...
Journal of the American Medical Informatics Association : JAMIA
May 1, 2019
OBJECTIVE: In biomedicine, there is a wealth of information hidden in unstructured narratives such as research articles and clinical reports. To exploit these data properly, a word sense disambiguation (WSD) algorithm prevents downstream difficulties...