A semantic approach for knowledge capture of microRNA-target gene interactions

In IEEE International Conference on Bioinformatics and Biomedicine (IEEE BIBM 2015),. pp. 975-982 (2015)
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Research has indicated that microRNAs (miRNAs), a special class of non-coding RNAs (ncRNAs), can perform important roles in different biological and pathological processes. miRNAs’ functions are realized by regulating their respective target genes (targets). It is thus critical to identify and analyze miRNA-target interactions for a better understanding and delineation of miRNAs’ functions. However, conventional knowledge discovery and acquisition methods have many limitations. Fortunately, semantic technologies that are based on domain ontologies can render great assistance in this regard. In our previous investigations, we developed a miRNA domain-specific application ontology, Ontology for MIcroRNA Target (OMIT), to provide the community with common data elements and data exchange standards in the miRNA research. This paper describes (1) our continuing efforts in the OMIT ontology development and (2) the application of the OMIT to enable a semantic approach for knowledge capture of miRNA-target interactions.
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The RNA Ontology (RNAO): An Ontology for Integrating RNA Sequence and Structure Data.Hoehndorf, Robert; Batchelor, Colin; Bittner, Thomas; Dumontier, Michel; Eilbeck, Karen; Knight, Rob; Mungall, Chris J.; Richardson, Jane S.; Stombaugh, Jesse & Westhof, Eric

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The Non-Coding RNA Ontology : A Comprehensive Resource for the Unification of Non-Coding RNA Biology.Jingshan, Huang; Karen, Eilbeck; Smith, Barry; Blake Judith, A.; Dejing, Dou; Weili, Huang; Natale Darren, A.; Alan, Ruttenberg; Jun, Huan & Zimmermann Michael, T.

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