chipD: a web tool to design oligonucleotide probes for high-density tiling arrays. - Yann S. Dufour; Gary E. Wesenberg; Andrew J. Tritt; Jeremy D. Glasner; Nicole T. Perna; Julie C. Mitchell; Timothy J. Donohue (Nucleic Acids Res., 2010)

iRsp1095: A genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network. - Saheed Imam; Safak Yilmaz; Ugur Sohmen; Alexander S. Gorzalski; Jennifer L. Reed; Daniel R. Noguera; Timothy J. Donohue (BMC Syst. Biol., 2011)

Optimizing ethanol production selectivity. - Raman Lall; Timothy J. Donohue; Simeone Marino; Julie C. Mitchell (Math. Comput. Model., 2011)

Global insights into energetic and metabolic networks in Rhodobacter sphaeroides. - Saheed Imam; Daniel R. Noguera; Timothy J. Donohue (BMC Syst. Biol., 2013)

An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks. - Saheed Imam; Daniel R. Noguera; Timothy J. Donohue (PLoS Comput. Biol., 2015)