Using reasoning to guide annotation with gene ontology terms in GOAT
ACM SIGMOD Record
Obol: integrating language and meaning in bio-ontologies: Conference Papers
Comparative and Functional Genomics
Granularity, scale and collectivity: when size does and does not matter
Journal of Biomedical Informatics - Special issue: Biomedical ontologies
NCI Thesaurus: A semantic model integrating cancer-related clinical and molecular information
Journal of Biomedical Informatics
Journal of Biomedical Informatics
The GENIA corpus: an annotated research abstract corpus in molecular biology domain
HLT '02 Proceedings of the second international conference on Human Language Technology Research
From GENIA to BIOTOPTowards a Top-Level Ontology for Biology
Proceedings of the 2006 conference on Formal Ontology in Information Systems: Proceedings of the Fourth International Conference (FOIS 2006)
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In the life sciences, there is an ample need for semantic interoperability of data. Thus shared vocabularies are needed for consistently expressing metadata in terms of semantic annotations as well as for querying bibliographic information systems. In the past years, lots of highly specialized, yet also fragmented terminologies have evolved. However, they lack principled forms of conceptual interlinkage. In order to provide an ontological basis for a seamless integration of such isolated parts of biological knowledge, we here introduce BioTop, an upper domain ontology for molecular biology. We describe its structure and contents, as well as its current interfaces to a selected set of OBO ontologies, which contain more detailed terminological knowledge about specific areas of molecular biology, e.g., cell types, molecular functions, biological processes and chemical compounds.