Efficient sorting of genomic permutations by translocation, inversion and block interchange. - Sophia Yancopoulos; Oliver Attie; Richard Friedberg (Bioinform., 2005)

Sorting Genomes with Insertions, Deletions and Duplications by DCJ. - Sophia Yancopoulos; Richard Friedberg (RECOMB-CG, 2008)

DCJ Path Formulation for Genome Transformations which Include Insertions, Deletions, and Duplications. - Sophia Yancopoulos; Richard Friedberg (J. Comput. Biol., 2009)

The rise and fall of breakpoint reuse depending on genome resolution. - Oliver Attie; Aaron E. Darling; Sophia Yancopoulos (BMC Bioinform., 2011)

The Emperor Has No Caps! A Comparison of DCJ and Algebraic Distances. - Joao Meidanis; Sophia Yancopoulos (Models and Algorithms for Genome Evolution, 2013)