Liquid–liquid phase separation is a key organizational principle in eukaryotic cells, on par
with intracellular membranes. It allows cells to concentrate specific proteins into …

Eukaryotic transcription generally occurs in bursts of activity lasting minutes to hours;
however, state-of-the-art measurements have revealed that many of the molecular …

Cells are the basic units of all living matter which harness the flow of energy to drive the
processes of life. While the biochemical networks involved in energy transduction are well …

Deep neural networks (DNNs) have greatly advanced the ability to predict genome function
from sequence. However, elucidating underlying biological mechanisms from genomic …

Living things benefit from exquisite molecular sensitivity in many of their key processes,
including DNA replication, transcription and translation, chemical sensing, and …

Cell-cell communication systems typically comprise families of ligand and receptor variants
that function together in combinations. Pathway activation depends on the complex way in …

Predicting how interactions between transcription factors and regulatory DNA sequence
dictate rates of transcription and, ultimately, drive developmental outcomes remains an open …

Determining whether and how a gene is transcribed are two of the central processes of life.
The conceptual basis for understanding such gene regulation arose from pioneering …

The linear framework uses finite, directed graphs with labelled edges to model biomolecular
systems. Graph vertices represent biochemical species or molecular states, edges represent …

Key discoveries in Drosophila have shaped our understanding of cellular “enhancers.” With
a special focus on the fly, this chapter surveys properties of these adaptable cis-regulatory …