YETI: Yeast Exploration Tool Integrator. - Richard J. Orton; William I. Sellers; Dietlind L. Gerloff (Bioinform., 2004)

Computational methodologies for modelling, analysis and simulation of signalling networks. - David R. Gilbert; Hendrik Fuß; Xu Gu; Richard J. Orton; Steve Robinson; Vladislav Vyshemirsky; Mary Jo Kurth; C. Stephen Downes; Werner Dubitzky (Briefings Bioinform., 2006)

Analysis of Signalling Pathways Using Continuous Time Markov Chains. - Muffy Calder; Vladislav Vyshemirsky; David R. Gilbert; Richard J. Orton (Trans. Comp. Sys. Biology, 2006)

A structured approach for the engineering of biochemical network models, illustrated for signalling pathways. - Rainer Breitling; David R. Gilbert; Monika Heiner; Richard J. Orton (Briefings Bioinform., 2008)

Computational modelling of cancerous mutations in the EGFR/ERK signalling pathway. - Richard J. Orton; Michiel E. Adriaens; Amelie Gormand; Oliver E. Sturm; Walter Kolch; David R. Gilbert (BMC Syst. Biol., 2009)

Quantifying the roles of host movement and vector dispersal in the transmission of vector-borne diseases of livestock. - Tom Sumner; Richard J. Orton; Darren M. Green; Rowland R. Kao; Simon Gubbins (PLoS Comput. Biol., 2017)

Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV). - Elliot J. Lefkowitz; Donald M. Dempsey; R. Curtis Hendrickson; Richard J. Orton; Stuart G. Siddell; Donald B. Smith (Nucleic Acids Res., 2018)

Mutational signature dynamics indicate SARS-CoV-2's evolutionary capacity is driven by host antiviral molecules. - Kieran D. Lamb; Martha M. Luka; Megan Saathoff; Richard J. Orton; My V. T. Phan; Matthew Cotten; Ke Yuan; David L. Robertson (PLoS Comput. Biol., 2024)