THESEUS: maximum likelihood superpositioning and analysis of macromolecular structures. - Douglas L. Theobald; Deborah S. Wuttke (Bioinform., 2006)

Accurate Structural Correlations from Maximum Likelihood Superpositions. - Douglas L. Theobald; Deborah S. Wuttke (PLoS Comput. Biol., 2008)

Fast determination of the optimal rotational matrix for macromolecular superpositions. - Pu Liu; Dimitris K. Agrafiotis; Douglas L. Theobald (J. Comput. Chem., 2010)

Rapid communication reply to comment on: "Fast determination of the optimal rotational matrix for macromolecular superpositions". - Pu Liu; Dimitris K. Agrafiotis; Douglas L. Theobald (J. Comput. Chem., 2011)

Optimal simultaneous superpositioning of multiple structures with missing data. - Douglas L. Theobald; Phillip A. Steindel (Bioinform., 2012)

A Probabilistic Programming Approach to Protein Structure Superposition. - Lys Sanz Moreta; Ahmad Salim Al-Sibahi; Douglas L. Theobald; William Bullock; Basile Nicolas Rommes; Andreas Manoukian; Thomas Hamelryck (CIBCB, 2019)

Ancestral protein sequence reconstruction using a tree-structured Ornstein-Uhlenbeck variational autoencoder. - Lys Sanz Moreta; Ola Rønning; Ahmad Salim Al-Sibahi; Jotun Hein; Douglas L. Theobald; Thomas Hamelryck (ICLR, 2022)