The RKB in a Nutshell
The RNA Knowledge Base (RKB) captures structure-based knowledge about ribonucleic acids (RNA) using RDF/OWL Semantic Web technologies. The RKB consists of an RNA Ontology with basic terminology for nucleic acid composition along with a context/model specific representation of detailed structural features of RNA. The RKB is populated with RNA structures from the PDB and MC-Annotate structural annotation.
Currently RKB-v0.2 contains rich terminology that allows for increasingly granular descriptions of features of RNAs such as:
- - Nucleic Acids
- - Nucleotides
- - Nucleotide residue Edges
- - Nucleotide residue Faces (Sub-Edges)
- - Base Pairing
- - Base Pair Families
- - Base Stacking
- - Ribose Puckering
- - Nucleobase Orientation
The RKB also makes use of the MIREOT method to incorporate into the ontology relevant terms along with a minimal hierarchy and set of annotations from external sources such as RNAO, ChEBI, IAO, RO, and BFO so as to promote interoperability between related resources.
For more details regarding the RKB click here