RNAsoft: a suite of RNA secondary structure prediction and design software tools. - Mirela Andronescu; Rosalía Aguirre-Hernández; Anne Condon; Holger H. Hoos (Nucleic Acids Res., 2003)

Algorithms for testing that sets of DNA words concatenate without secondary structure. - Mirela Andronescu; Danielle Dees; Laura Slaybaugh; Yinglei Zhao; Anne Condon; Barry Cohen; Steven Skiena (Nat. Comput., 2003)

Finding MFE Structures Formed by Nucleic Acid Strands in a Combinatorial Set. - Mirela Andronescu; Anne Condon (Nanotechnology: Science and Computation, 2006)

Efficient parameter estimation for RNA secondary structure prediction. - Mirela Andronescu; Anne Condon; Holger H. Hoos; David H. Mathews; Kevin P. Murphy (ISMB/ECCB (Supplement of Bioinformatics), 2007)

RNA STRAND: The RNA Secondary Structure and Statistical Analysis Database. - Mirela Andronescu; Vera Bereg; Holger H. Hoos; Anne Condon (BMC Bioinform., 2008)

Decision Tree Learning Using a Bayesian Approach at Each Node. - Mirela Andronescu; Mark Brodie (Canadian AI, 2009)

Free energy estimation of short DNA duplex hybridizations. - Dan C. Tulpan; Mirela Andronescu; Serge Léger (BMC Bioinform., 2010)

A Three-Dimensional Model of the Yeast Genome. - William Stafford Noble; Zhi-jun Duan; Mirela Andronescu; Kevin Schutz; Sean McIlwain; Yoo Jung Kim; Choli Lee; Jay Shendure; Stanley Fields; C. Anthony Blau (RECOMB, 2011)

Epiclomal: Probabilistic clustering of sparse single-cell DNA methylation data. - Camila P. E. de Souza; Mirela Andronescu; Tehmina Masud; Farhia Kabeer; Justina Biele; Emma Laks; Daniel Lai; Patricia Ye; Jazmine Brimhall; Beixi Wang; Edmund Su; Tony Hui; et al. (PLoS Comput. Biol., 2020)