The origin story and emergence of molecular biology is muddled. The early triumphs in
bacterial genetics and the complexity of animal and plant genomes complicate an intricate …

Enhancers are genomic DNA elements controlling spatiotemporal gene expression. Their
flexible organization and functional redundancies make deciphering their sequence-function …

Zoonomia is the largest comparative genomics resource for mammals produced to date. By
aligning genomes for 240 species, we identify bases that, when mutated, are likely to affect …

Divergence of gene function is a hallmark of evolution, but assessing functional divergence
over deep time is not trivial. The few alleles available for cross-species studies often fail to …

Recent advances in single-cell technologies have led to the discovery of thousands of brain
cell types; however, our understanding of the gene regulatory programs in these cell types is …

Life on Earth has evolved from initial simplicity to the astounding complexity we experience
today. Bacteria and archaea have largely excelled in metabolic diversification, but …

Super-enhancers (SEs) are exceptionally large enhancers and are recognized to play
prominent roles in cell identity in mammalian species. We surveyed the genomic regions …

For successful regeneration, the identity of the missing tissue must be specified according to
the pre-existing tissue. Planarians are ideal for the study of the mechanisms underlying this …

The inability to scalably and precisely measure the activity of developmental cis-regulatory
elements (CREs) in multicellular systems is a bottleneck in genomics. Here we develop a …

Gene expression is regulated by transcription factors that work together to read cis-
regulatory DNA sequences. The 'cis-regulatory code'—how cells interpret DNA sequences …