Author: Seemann, Stefan E.; Gorodkin, Jan; Backofen, Rolf
Title: Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments Document date: 2008_10_4
ID: wtvfow2f_57
Snippet: Nevertheless, there are cases where the evolutionary conservation is more important. Especially for RNA families with an active site like H/ACA snoRNAs, the usage of reliably conserved substructures improves the predictions. A first guess, namely that the impact of the evolutionary substructure might be negatively correlated with the SCI, could not be confirmed. However, we observed a correlation to the number of structural clusters in an alignme.....
Document: Nevertheless, there are cases where the evolutionary conservation is more important. Especially for RNA families with an active site like H/ACA snoRNAs, the usage of reliably conserved substructures improves the predictions. A first guess, namely that the impact of the evolutionary substructure might be negatively correlated with the SCI, could not be confirmed. However, we observed a correlation to the number of structural clusters in an alignment as measured by Pcluster. This should be investigated in greater detail since it provides a new possibility to classify multiple RNA alignments. Currently, the measurements as used, e.g. in BRAliBase (26) are MPI and SCI.
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