AIMC Topic: Biological Ontologies
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Feeding the human brain model.
Current opinion in neurobiology
Feb 26, 2015
The goal of the Human Brain Project is to develop, during the next decade, an infrastructure capable of simulating a draft human brain model based on available experimental data. One of the key issues is therefore to integrate and make accessible the...
Pharmacogenomic knowledge representation, reasoning and genome-based clinical decision support based on OWL 2 DL ontologies.
BMC medical informatics and decision making
Feb 22, 2015
BACKGROUND: Every year, hundreds of thousands of patients experience treatment failure or adverse drug reactions (ADRs), many of which could be prevented by pharmacogenomic testing. However, the primary knowledge needed for clinical pharmacogenomics ...
BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.
BMC bioinformatics
Feb 21, 2015
BACKGROUND: Ontology-based enrichment analysis aids in the interpretation and understanding of large-scale biological data. Ontologies are hierarchies of biologically relevant groupings. Using ontology annotations, which link ontology classes to biol...
Bioinformatics approaches for the functional interpretation of protein lists: from ontology term enrichment to network analysis.
Proteomics
Feb 20, 2015
The main result of a great deal of the published proteomics studies is a list of identified proteins, which then needs to be interpreted in relation to the research question and existing knowledge. In the early days of proteomics this interpretation ...
Inappropriate use of the term "cytotoxicity" in scientific literature.
Daru : journal of Faculty of Pharmacy, Tehran University of Medical Sciences
Feb 20, 2015
Transformation of standardized clinical models based on OWL technologies: from CEM to OpenEHR archetypes.
Journal of the American Medical Informatics Association : JAMIA
Feb 10, 2015
INTRODUCTION: The semantic interoperability of electronic healthcare records (EHRs) systems is a major challenge in the medical informatics area. International initiatives pursue the use of semantically interoperable clinical models, and ontologies h...
Knowledge retrieval from PubMed abstracts and electronic medical records with the Multiple Sclerosis Ontology.
PloS one
Feb 9, 2015
BACKGROUND: In order to retrieve useful information from scientific literature and electronic medical records (EMR) we developed an ontology specific for Multiple Sclerosis (MS).
Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study.
Database : the journal of biological databases and curation
Feb 4, 2015
The evidence that two molecules interact in a living cell is often inferred from multiple different experiments. Experimental data is captured in multiple repositories, but there is no simple way to assess the evidence of an interaction occurring in ...
Describing the breakbone fever: IDODEN, an ontology for dengue fever.
PLoS neglected tropical diseases
Feb 3, 2015
BACKGROUND: Ontologies represent powerful tools in information technology because they enhance interoperability and facilitate, among other things, the construction of optimized search engines. To address the need to expand the toolbox available for ...
Aber-OWL: a framework for ontology-based data access in biology.
BMC bioinformatics
Jan 28, 2015
BACKGROUND: Many ontologies have been developed in biology and these ontologies increasingly contain large volumes of formalized knowledge commonly expressed in the Web Ontology Language (OWL). Computational access to the knowledge contained within t...
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