STRING: a database of predicted functional associations between proteins. - Christian von Mering; Martijn A. Huynen; Daniel Jaeggi; Steffen Schmidt; Peer Bork; Berend Snel (Nucleic Acids Res., 2003)

STRING: known and predicted protein-protein associations, integrated and transferred across organisms. - Christian von Mering; Lars Juhl Jensen; Berend Snel; Sean D. Hooper; Markus Krupp; Mathilde Foglierini; Nelly Jouffre; Martijn A. Huynen; Peer Bork (Nucleic Acids Res., 2005)

Assessment of phylogenomic and orthology approaches for phylogenetic inference. - Bas E. Dutilh; Vera van Noort; René T. J. M. van der Heijden; T. Boekhout; Berend Snel; Martijn A. Huynen (Bioinform., 2007)

Identification of homologs in insignificant blast hits by exploiting extrinsic gene properties. - Jos Boekhorst; Berend Snel (BMC Bioinform., 2007)

Orthology prediction at scalable resolution by phylogenetic tree analysis. - René T. J. M. van der Heijden; Berend Snel; Vera van Noort; Martijn A. Huynen (BMC Bioinform., 2007)

STRING 7 - recent developments in the integration and prediction of protein interactions. - Christian von Mering; Lars Juhl Jensen; Michael Kuhn 004; Samuel Chaffron; Tobias Doerks; Beate Krüger; Berend Snel; Peer Bork (Nucleic Acids Res., 2007)

Protein Complex Evolution Does Not Involve Extensive Network Rewiring. - Teunis J. P. van Dam; Berend Snel (PLoS Comput. Biol., 2008)

Cohesive versus Flexible Evolution of Functional Modules in Eukaryotes. - Like Fokkens; Berend Snel (PLoS Comput. Biol., 2009)

Enrichment of homologs in insignificant BLAST hits by co-complex network alignment. - Like Fokkens; Sandra M. C. Botelho; Jos Boekhorst; Berend Snel (BMC Bioinform., 2010)

Shared Protein Complex Subunits Contribute to Explaining Disrupted Co-occurrence. - Adrian Schneider; Michael F. Seidl; Berend Snel (PLoS Comput. Biol., 2013)

Measuring the impact of gene prediction on gene loss estimates in Eukaryotes by quantifying falsely inferred absences. - Eva S. Deutekom; Julian Vosseberg; Teunis J. P. van Dam; Berend Snel (PLoS Comput. Biol., 2019)

Benchmarking orthology methods using phylogenetic patterns defined at the base of Eukaryotes. - Eva S. Deutekom; Berend Snel; Teunis J. P. van Dam (Briefings Bioinform., 2021)

Intracellular signaling in proto-eukaryotes evolves to alleviate regulatory conflicts of endosymbiosis. - Samuel H. A. von der Dunk; Paulien Hogeweg; Berend Snel (PLoS Comput. Biol., 2024)