ArcAB, also known as the Arc system, is a member of the two-component system family of
bacterial transcriptional regulators and is composed of sensor kinase ArcB and response …

Massively parallel reporter gene assays are key tools in regulatory genomics but cannot be
used to identify cell-type-specific regulatory elements without performing assays serially …

Annotating protein sequences according to their biological functions is one of the key steps
in understanding microbial diversity, metabolic potentials, and evolutionary histories …

Elucidating genome-scale regulatory networks requires a comprehensive collection of gene
expression profiles, yet measuring gene expression responses for every transcription factor …

mRNA degradation is a central process that affects all gene expression levels, and yet, the
determinants that control mRNA decay rates remain poorly characterized. Here, we applied …

Enhancers are cis-regulatory elements that shape gene expression in response to
numerous developmental and environmental cues. In animals, several models have been …

Bacteria employ diverse gene regulatory networks to survive stress, but deciphering the
underlying logic of these complex networks has proved challenging. Here, we use time …

Bacterial protein synthesis rates have evolved to maintain preferred stoichiometries at
striking precision, from the components of protein complexes to constituents of entire …

Cells adapt to environments and tune gene expression by controlling the concentrations of
proteins and their kinetics in regulatory networks. In both eukaryotes and prokaryotes …

Despite abundant measurements of bacterial growth rate, cell size, and protein content, we
lack a rigorous understanding of what sets the scale of these quantities and when protein …