Filling gaps in a metabolic network using expression information. - Peter V. Kharchenko; Dennis Vitkup; George M. Church (ISMB/ECCB (Supplement of Bioinformatics), 2004)

Comparative Systems Biology of the Sporulation Initiation Network in Prokaryotes. - Michiel J. L. de Hoon; Dennis Vitkup (Systems Biology and Regulatory Genomics, 2005)

Identifying metabolic enzymes with multiple types of association evidence. - Peter V. Kharchenko; Lifeng Chen; Yoav Freund; Dennis Vitkup; George M. Church (BMC Bioinform., 2006)

COMBREX: a project to accelerate the functional annotation of prokaryotic genomes. - Richard J. Roberts; Yi-Chien Chang; Zhenjun Hu; John Rachlin; Brian P. Anton; Revonda M. Pokrzywa; Han-Pil Choi; Lina L. Faller; Jyotsna Guleria; Genevieve Housman; Niels Klitgord; Varun Mazumdar; et al. (Nucleic Acids Res., 2011)