RNA Structural Motif Classification Grammars:
Context-Free and Context-Sensitive (Pseudoknot) Parsing of
RNA Secondary Structure.

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Shape or structure, rather than nucleotide sequence is often more important in
determining RNA molecular function. Sequence-homology comparisons, the tools most
widely used today such as MSA methods and BLAST can not match the actual structures RNA’s of a specific
family may form. The theoretical and practical methods presented here search and match structure rather than looking for sequence to sequence homology.

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Updated: June 1, 2009