Stochastic pairwise alignments. - Ulrike Mückstein; Ivo L. Hofacker; Peter F. Stadler (ECCB, 2002)

Partition function and base pairing probabilities of RNA heterodimers. - Stephan H. Bernhart; Hakim Tafer; Ulrike Mückstein; Christoph Flamm; Peter F. Stadler; Ivo L. Hofacker (Algorithms Mol. Biol., 2006)

Thermodynamics of RNA-RNA binding. - Ulrike Mückstein; Hakim Tafer; Jörg Hackermüller; Stephan H. Bernhart; Peter F. Stadler; Ivo L. Hofacker (Bioinform., 2006)

Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics. - Ulrike Mückstein; Hakim Tafer; Stephan H. Bernhart; Maribel Hernandez-Rosales; Jörg Vogel 002; Peter F. Stadler; Ivo L. Hofacker (BIRD, 2008)

Hybridization thermodynamics of NimbleGen Microarrays. - Ulrike Mückstein; Germán G. Leparc; Alexandra Posekany; Ivo L. Hofacker; David P. Kreil (BMC Bioinform., 2010)

RNA Accessibility in cubic time. - Stephan H. Bernhart; Ulrike Mückstein; Ivo L. Hofacker (Algorithms Mol. Biol., 2011)