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Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|February 25, 2014
Computing the probability of RNA hairpin and multiloop formationYang Ding, William A Lorenz, Ivan Dotu, et al.Journal of Mathematical Biology|February 12, 2014
RNA folding pathways and kinetics using 2D energy landscapesEvan Senter, Ivan Dotu, Peter ClotePlos One|January 4, 2013
Using the fast fourier transform to accelerate the computational search for RNA conformational switchesEvan Senter, Saad Sheikh, Ivan Dotu, et al.Nucleic Acids Research|January 2, 2010
Computing folding pathways between RNA secondary structuresIvan Dotu, William A Lorenz, Pascal Van Hentenryck, et al.Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|February 17, 2015
Fast, approximate kinetics of RNA foldingEvan Senter, Peter ClotePlos One|March 4, 2014
Energy parameters and novel algorithms for an extended nearest neighbor energy model of RNAIvan Dotu, Vinodh Mechery, Peter CloteNucleic Acids Research|May 24, 2013
RNAiFold: a web server for RNA inverse folding and molecular designJuan Antonio Garcia-Martin, Peter Clote, Ivan DotuNucleic Acids Research|May 29, 2015
RNAiFold 2.0: a web server and software to design custom and Rfam-based RNA moleculesJuan Antonio Garcia-Martin, Ivan Dotu, Peter CloteJournal of Bioinformatics and Computational Biology|April 23, 2013
RNAiFOLD: a constraint programming algorithm for RNA inverse folding and molecular designJuan Antonio Garcia-Martin, Peter Clote, Ivan DotuRNA Biology|November 21, 2013
Using RNA inverse folding to identify IRES-like structural subdomainsIvan Dotu, Gloria Lozano, Peter Clote, et al.Pageof 92