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The molecule role ontology: an ontology for annotation of signal transduction pathway molecules in the scientific literature.

ABSTRACT: In general, it is not easy to specify a single sequence identity for each molecule name that appears in a pathway in the scientific literature. A molecule name may stand for concepts of various granularities, from concrete objects such as H-Ras and ERK1 to abstract concepts or categories such as Ras and MAPK. Typically, the relations among molecule names derive a hierarchical structure; without a proper way to handle this knowledge, it becomes ever more difficult to develop a reliable pathway database. This paper describes an ontology that is designed to annotate molecules in the scientific literature on signal transduction pathways.

SUBMITTER: Yamamoto S

PROVIDER: S-EPMC2447435 | biostudies-other | 2004

REPOSITORIES: biostudies-other

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The molecule role ontology: an ontology for annotation of signal transduction pathway molecules in the scientific literature.

Yamamoto Satoko S Asanuma Takao T Takagi Toshihisa T Fukuda Ken Ichiro KI

Comparative and functional genomics 20040101 6-7

In general, it is not easy to specify a single sequence identity for each molecule name that appears in a pathway in the scientific literature. A molecule name may stand for concepts of various granularities, from concrete objects such as H-Ras and ERK1 to abstract concepts or categories such as Ras and MAPK. Typically, the relations among molecule names derive a hierarchical structure; without a proper way to handle this knowledge, it becomes ever more difficult to develop a reliable pathway da ...[more]

PMID: 18629146

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