Ontology-based Knowledge Representation for Bioinformatics

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Text mining and ontologies in biomedicine: Making sense of raw text (2005, background): “ceptual models that aim to support consistent and unambiguous knowledge sharing and that provide a framework for knowledge integration.(2) An ontolo gy links concept labels to their interpreta-”
An Upper-Level Ontology for the Biomedical Domain (2003, background): “These relationships may be taxonomic links, resulting in hierarchically organized concepts, or they may include additional non-hierarchical relationships, together with some constraints on how these relationships are to be interpreted [2,8,9].”
Investigating Semantic Similarity Measures Across the Gene Ontology: The Relationship Between Sequence and Annotation (2003, background): “Ontologies provide a mechanism for capturing a community’s view of a domain in a shareable form, that is both accessible by humans and computationally amenable.”
Technical (1960, positive): “Furthermore, the absence of counts for KIR3DL3 aligns with the known rarity of KIR3DL3 + cells in PBMCs [7], suggesting that these are correctly assigned.”
Bio-ontologies: current trends and future directions (2006, background): “Since an earlier Briefing in 2000 [1], the role of ontologies within bioinformatics has changed markedly.”