Proteinortho: Detection of (Co-)Orthologs in Large-Scale Analysis. - Marcus Lechner; Sven Findeiß; Lydia Steiner; Manja Marz; Peter F. Stadler; Sonja J. Prohaska (BMC Bioinform., 2011)

POMAGO: Multiple Genome-Wide Alignment Tool for Bacteria. - Nicolas Wieseke; Marcus Lechner; Marcus Ludwig; Manja Marz (ISBRA, 2013)

The correlation of genome size and DNA methylation rate in metazoans. - Marcus Lechner; Manja Marz; Christian Ihling; Andrea Sinz; Peter F. Stadler; Veiko Krauss (Theory Biosci., 2013)

Phylogenomics with Paralogs. - Marc Hellmuth; Nicolas Wieseke; Marcus Lechner; Hans-Peter Lenhof; Martin Middendorf; Peter F. Stadler (CoRR, 2017)

Proteinortho6: pseudo-reciprocal best alignment heuristic for graph-based detection of (co-)orthologs. - Paul Klemm; Peter F. Stadler; Marcus Lechner (Frontiers Bioinform., 2023)