Bacteria use their genetic material with great effectiveness to make the right products in the
correct amounts at the appropriate time. Studying bacterial transcription initiation in …

The machinery for cells to take decisions, when environmental conditions change, includes
protein–DNA interactions defined by transcriptional factors and their targets around …

Networks and network analysis are arguably one of the largest growth areas of the early
twenty-first century in the quantitative sciences. Despite roots in social network analysis …

Little is known about the design principles 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 of transcriptional
regulation networks that control gene expression in cells. Recent advances in data …

We have developed a set of tools to construct positional weight matrices from known
transcription factor binding sites in a species or taxon-specific manner, and to search for …

Recent analysis of the structure of transcription regulation networks revealed several
“network motifs”: regulatory circuit patterns that occur much more frequently than in …

Genome-scale metabolic networks can now be reconstructed based on annotated genomic
data augmented with biochemical and physiological information about the organism …

Abstract The Crp-Fnr regulators, named after the first two identified members, are DNA-
binding proteins which predominantly function as positive transcription factors, though roles …

We are beginning to elucidate transcriptional regulatory networks on a large scale and to
understand some of the structural principles of these networks,, but the evolutionary …

Subgenic-resolution oligonucleotide microarrays were used to study global RNA
degradation in wild-type Escherichia coli MG1655. RNA chemical half-lives were measured …