SETTER (SEcondary sTructure-based TERtiary Structure Similarity Algorithm) is a web-based tool to compare RNA secondary structures. The SETTER algorithm uses tertiary structure similarity to produce secondary structure alignments and compute both pair-wise (SETTER) and multiple alignments (MultiSETTER). The MultiSETTER algorithm computes an average structure and superimposes the input structures on to it.
RNA; Nucleic acid structure analysis; Structure analysis
Cech P, Svozil D, Hoksza D "SETTER: web server for RNA structure comparison." Nucleic Acids Res. 2012; 40(Web Server issue):W42-8 https://doi.org/10.1093/nar/gks560
PMID: 22693209
PMCID: PMC3394248
Hoksza D, Svozil D "Efficient RNA pairwise structure comparison by SETTER method." Bioinformatics, 2012 https://doi.org/10.1093/bioinformatics/bts301
PMID: 22611129
PMCID: None
Hoksza D, Svozil D "Multiple 3D RNA Structure Superposition Using Neighbor Joining" IEEE/ACM Trans Comput Biol Bioinform. May-Jun 2015;12(3):520-30. https://doi.org/10.1109/TCBB.2014.2351810
PMID: 26357263
Čech P, Hoksza D, Svozil D "MultiSETTER: web server for multiple RNA structure comparison." BMC Bioinformatics, 2015 https://doi.org/10.1186/s12859-015-0696-8
PMID: 26264783
PMCID: PMC4531852
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