Gene expression occurs in two essential steps: transcription and translation. In bacteria, the
two processes are tightly coupled in time and space, and highly regulated. Tight regulation …

Over the last decade, a rich variety of massively parallel assays have revolutionized our
understanding of how biological sequences encode quantitative molecular phenotypes …

Sequence logos are visually compelling ways of illustrating the biological properties of DNA,
RNA and protein sequences, yet it is currently difficult to generate and customize such logos …

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

The rapid diversification of synthetic biology tools holds promise in making some classically
hard-to-solve environmental problems tractable. Here we review longstanding problems in …

Abstract Changes in gene regulation underlie much of phenotypic evolution. However, our
understanding of the potential for regulatory evolution is biased, because most evidence …

Cell‐free expression systems enable rapid prototyping of genetic programs in vitro.
However, current throughput of cell‐free measurements is limited by the use of channel …

Metabolic engineering has emerged as an important tool for reconstructing heterologous
isoprenoid metabolic pathways in microbial hosts. Here, we provide an overview of …

Multiplex assays of variant effect (MAVEs) are a family of methods that includes deep
mutational scanning experiments on proteins and massively parallel reporter assays on …

Predicting function from sequence is a central problem of biology. Currently, this is possible
only locally in a narrow mutational neighborhood around a wildtype sequence rather than …