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. Author manuscript; available in PMC: 2009 May 30.
Published in final edited form as: J Mol Biol. 2008 Mar 28;379(2):299–316. doi: 10.1016/j.jmb.2008.03.043

Figure 2. The algorithmic framework.

Figure 2

The framework consists of two main stages. First, we classify all known nucleotide and dinucleotide binding sites and recognize the common types of the physico-chemical binding patterns (left flowchart). Then, we use these patterns for the prediction of dinucleotide binding sites and for the reconstruction of RNA fragments and protein-RNA complexes (right flowchart).