MicroRNAs (miRNAs) are∼ 22 nt RNAs that direct posttranscriptional repression of mRNA
targets in diverse eukaryotic lineages. In humans and other mammals, these small RNAs …

With the completion of the human genome sequence, attention turned to identifying and
annotating its functional DNA elements. As a complement to genetic and comparative …

With the goal of charting plant transcriptional regulatory maps (ie transcription factors (TFs),
cis-elements and interactions between them), we have upgraded the TF-centred database …

Over 100 years of studies in Drosophila melanogaster and related species in the genus
Drosophila have facilitated key discoveries in genetics, genomics, and evolution. While high …

Identifying master regulators of biological processes and mapping their downstream gene
networks are key challenges in systems biology. We developed a computational method …

Fruit flies of the genus Drosophila have been an attractive and effective genetic model
organism since Thomas Hunt Morgan and colleagues made seminal discoveries with them …

Genomic enhancers are important regulators of gene expression, but their identification is a
challenge, and methods depend on indirect measures of activity. We developed a method …

Current sequencing methods produce large amounts of data, but genome assemblies
constructed from these data are often fragmented and incomplete. Incomplete and error …

Transcription regulation occurs frequently through promoter-associated pausing of RNA
polymerase II (Pol II). We developed a precision nuclear run-on and sequencing (PRO-seq) …

The comparison of related genomes has emerged as a powerful lens for genome
interpretation. Here we report the sequencing and comparative analysis of 29 eutherian …