EDGAR: A software framework for the comparative analysis of prokaryotic genomes. - Jochen Blom; Stefan P. Albaum; Daniel Doppmeier; Alfred Pühler; Frank-Jörg Vorhölter; Martha Zakrzewski; Alexander Goesmann (BMC Bioinform., 2009)

Development of computational methods for the analysis of metagenome and metatranscriptome data. - Martha Zakrzewski (2012)

Calypso: a user-friendly web-server for mining and visualizing microbiome-environment interactions. - Martha Zakrzewski; Carla Proietti; Jonathan J. Ellis; Shihab Hasan; Marie-Jo Brion; Bernard Berger; Lutz Krause (Bioinform., 2017)