Tracking repeats using significance and transitivity. - Radek Szklarczyk; Jaap Heringa (ISMB/ECCB (Supplement of Bioinformatics), 2004)

AuberGene - a sensitive genome alignment tool. - Radek Szklarczyk; Jaap Heringa (Bioinform., 2006)

A First Look at ARFome: Dual-Coding Genes in Mammalian Genomes. - Wen-Yu Chung; Samir Wadhawan; Radek Szklarczyk; Sergei L. Kosakovsky Pond; Anton Nekrutenko (PLoS Comput. Biol., 2007)

FACIL: Fast and Accurate Genetic Code Inference and Logo. - Bas E. Dutilh; Rasa Jurgelenaite; Radek Szklarczyk; Sacha A. F. T. van Hijum; Harry R. Harhangi; Markus Schmid 002; Bart de Wild; Kees-Jan Françoijs; Henk Stunnenberg; Marc Strous; Mike S. M. Jetten; Huub J. M. Op den Camp; et al. (Bioinform., 2011)

Integrative Genomics-Based Discovery of Novel Regulators of the Innate Antiviral Response. - Robin van der Lee; Qian Feng; Martijn A. Langereis; Rob ter Horst; Radek Szklarczyk; Mihai G. Netea; Arno C. Andeweg; Frank J. M. van Kuppeveld; Martijn A. Huynen (PLoS Comput. Biol., 2015)

WeGET: predicting new genes for molecular systems by weighted co-expression. - Radek Szklarczyk; Wout Megchelenbrink; Pavel Cizek; Marie Ledent; Gonny Velemans; Damian Szklarczyk; Martijn A. Huynen (Nucleic Acids Res., 2016)

Network topology of NaV1.7 mutations in sodium channel-related painful disorders. - Dimos Kapetis; Jenny Sassone; Yang Yang 049; Barbara Galbardi; Markos N. Xenakis; Ronald L. Westra; Radek Szklarczyk; Patrick Lindsey; Catharina G. Faber; Monique Gerrits; Ingemar S. J. Merkies; Sulayman D. Dib-Hajj; et al. (BMC Syst. Biol., 2017)