Detecting Pathway Cross-Talks by Analyzing Conserved Functional Modules across Multiple Phenotype-Expressing Organisms. - Kevin A. Wilson; Andrea M. Rocha; Kanchana Padmanabhan; Kuangyu Wang; Zhengzhang Chen; Ye Jin; James R. Mihelcic; Nagiza F. Samatova (BIBM, 2011)

Efficient alpha, beta-motif Finder for Identification of Phenotype-related Functional Modules. - Matthew C. Schmidt; Andrea M. Rocha; Kanchana Padmanabhan; Zhengzhang Chen; Kathleen Scott; James R. Mihelcic; Nagiza F. Samatova (BMC Bioinform., 2011)

DENSE: efficient and prior knowledge-driven discovery of phenotype-associated protein functional modules. - William Hendrix; Andrea M. Rocha; Kanchana Padmanabhan; Alok N. Choudhary; Kathleen Scott; James R. Mihelcic; Nagiza F. Samatova (BMC Syst. Biol., 2011)

Spice: discovery of phenotype-determining component interplays. - Zhengzhang Chen; Kanchana Padmanabhan; Andrea M. Rocha; Yekaterina Shpanskaya; James R. Mihelcic; Kathleen Scott; Nagiza F. Samatova (BMC Syst. Biol., 2012)

NIBBS-Search for Fast and Accurate Prediction of Phenotype-Biased Metabolic Systems. - Matthew C. Schmidt; Andrea M. Rocha; Kanchana Padmanabhan; Yekaterina Shpanskaya; Jillian F. Banfield; Kathleen Scott; James R. Mihelcic; Nagiza F. Samatova (PLoS Comput. Biol., 2012)