A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences

@article{Ji2004AGT,
  title={A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences},
  author={Yongmei Ji and Xing Xu and Gary D. Stormo},
  journal={Bioinformatics},
  year={2004},
  volume={20 10},
  pages={1603-11}
}
MOTIVATION Is protein secondary structure primarily determined by local interactions between residues closely spaced along the amino acid backbone or by non-local tertiary interactions? To answer this question, we measure the entropy densities of primary and secondary structure sequences, and the local inter-sequence mutual information density. RESULTS We find that the important inter-sequence interactions are short ranged, that correlations between neighboring amino acids are essentially… CONTINUE READING

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