Emergence of Regulatory Networks in Simulated Evolutionary Processes. - Dirk Drasdo; Matthias Kruspe (Adv. Complex Syst., 2005)

Progressive multiple sequence alignments from triplets. - Matthias Kruspe; Peter F. Stadler (BMC Bioinform., 2007)

Noisy: Identification of problematic columns in multiple sequence alignments. - Andreas W. M. Dress; Christoph Flamm; Guido Fritzsch; Stefan Grünewald; Matthias Kruspe; Sonja J. Prohaska; Peter F. Stadler (Algorithms Mol. Biol., 2008)