RSEARCH: Finding homologs of single structured RNA sequences

@article{Klein2003RSEARCHFH,
  title={RSEARCH: Finding homologs of single structured RNA sequences},
  author={Robert J. Klein and Sean R. Eddy},
  journal={BMC Bioinformatics},
  year={2003},
  volume={4},
  pages={44 - 44}
}
For many RNA molecules, secondary structure rather than primary sequence is the evolutionarily conserved feature. No programs have yet been published that allow searching a sequence database for homologs of a single RNA molecule on the basis of secondary structure. We have developed a program, RSEARCH, that takes a single RNA sequence with its secondary structure and utilizes a local alignment algorithm to search a database for homologous RNAs. For this purpose, we have developed a series of… CONTINUE READING
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