Are the eyes homologous? -- Automation of protein sequence characterization and its application in whole proteome analysis -- Information fusion and metabolic network control -- Specificity of protein-DNA interactions -- Genomics of gene regulation: the view from Escherichia coli -- Discovery of DNA regulatory motifs -- Gene networks description and modeling in the GeneNet system -- Regulation of cellular states in mammalian cells from a genomewide view -- Predicting protein function and networks on a genomewide scale -- Metabolic pathways -- Toward computer simulation of the whole cell.

An overview of current computational approaches to metabolism and gene regulation, focusing on current computational approaches to understanding the complex networks of metabolic and gene regulatory capabilities of the cell. The contributors look well beyond the state of the art in computational biology to anticipate what biological research will be like in a post-genomic world.