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Topology and prediction of RNA pseudoknots.
Reidys CM, Huang FW, Andersen JE, Penner RC, Stadler PF, Nebel ME. Reidys CM, et al. Among authors: huang fw. Bioinformatics. 2011 Apr 15;27(8):1076-85. doi: 10.1093/bioinformatics/btr090. Epub 2011 Feb 17. Bioinformatics. 2011. PMID: 21335320
Sequence-structure relations of biopolymers.
Barrett C, Huang FW, Reidys CM. Barrett C, et al. Among authors: huang fw. Bioinformatics. 2017 Feb 1;33(3):382-389. doi: 10.1093/bioinformatics/btw621. Bioinformatics. 2017. PMID: 28171628
Folding 3-noncrossing RNA pseudoknot structures.
Huang FW, Peng WW, Reidys CM. Huang FW, et al. J Comput Biol. 2009 Nov;16(11):1549-75. doi: 10.1089/cmb.2008.0194. J Comput Biol. 2009. PMID: 19958083
Target prediction and a statistical sampling algorithm for RNA-RNA interaction.
Huang FW, Qin J, Reidys CM, Stadler PF. Huang FW, et al. Bioinformatics. 2010 Jan 15;26(2):175-81. doi: 10.1093/bioinformatics/btp635. Epub 2009 Nov 12. Bioinformatics. 2010. PMID: 19910305 Free PMC article.
Partition function and base pairing probabilities for RNA-RNA interaction prediction.
Huang FW, Qin J, Reidys CM, Stadler PF. Huang FW, et al. Bioinformatics. 2009 Oct 15;25(20):2646-54. doi: 10.1093/bioinformatics/btp481. Epub 2009 Aug 11. Bioinformatics. 2009. PMID: 19671692
Statistics of canonical RNA pseudoknot structures.
Huang FW, Reidys CM. Huang FW, et al. J Theor Biol. 2008 Aug 7;253(3):570-8. doi: 10.1016/j.jtbi.2008.04.002. Epub 2008 Apr 11. J Theor Biol. 2008. PMID: 18511081
Sequence-structure relations of pseudoknot RNA.
Huang FW, Li LY, Reidys CM. Huang FW, et al. BMC Bioinformatics. 2009 Jan 30;10 Suppl 1(Suppl 1):S39. doi: 10.1186/1471-2105-10-S1-S39. BMC Bioinformatics. 2009. PMID: 19208140 Free PMC article.
Addendum: topology and prediction of RNA pseudoknots.
Reidys CM, Huang FW, Andersen JE, Penner RC, Stadler PF, Nebel ME. Reidys CM, et al. Among authors: huang fw. Bioinformatics. 2012 Jan 15;28(2):300. doi: 10.1093/bioinformatics/btr643. Epub 2011 Nov 20. Bioinformatics. 2012. PMID: 22106334 No abstract available.
Topology of RNA-RNA interaction structures.
Andersen JE, Huang FW, Penner RC, Reidys CM. Andersen JE, et al. Among authors: huang fw. J Comput Biol. 2012 Jul;19(7):928-43. doi: 10.1089/cmb.2011.0308. Epub 2012 Jun 25. J Comput Biol. 2012. PMID: 22731621
Topological language for RNA.
Huang FW, Reidys CM. Huang FW, et al. Math Biosci. 2016 Dec;282:109-120. doi: 10.1016/j.mbs.2016.10.006. Epub 2016 Oct 20. Math Biosci. 2016. PMID: 27773681
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