TreeMos: a high-throughput phylogenomic approach to find and visualize phylogenetic mosaicism. - Jonathan D. Moore; Robin G. Allaby (Bioinform., 2008)

CWRML: representing crop wild relative conservation and use data in XML. - Jonathan D. Moore; Shelagh P. Kell; Jose M. Iriondo; Brian V. Ford-Lloyd; Nigel Maxted (BMC Bioinform., 2008)

Enhancing Data Integration with Text Analysis to Find Proteins Implicated in Plant Stress Response. - Keywan Hassani-Pak; Roxane Legaie; Catherine Canevet; Hugo Antonius van den Berg; Jonathan D. Moore; Christopher J. Rawlings (J. Integr. Bioinform., 2010)

MCMC-ODPR: Primer design optimization using Markov Chain Monte Carlo sampling. - James L. Kitchen; Jonathan D. Moore; Sarah A. Palmer; Robin G. Allaby (BMC Bioinform., 2012)

MEME-LaB: motif analysis in clusters. - Paul Brown; Laura Baxter; Richard Hickman; Jim Beynon; Jonathan D. Moore; Sascha Ott (Bioinform., 2013)