Cross-species comparisons of genomes, transcriptomes and gene regulation are now
feasible at unprecedented resolution and throughput, enabling the comparison of human …

Microarrays first made the analysis of the transcriptome possible, and have produced much
important information. Today, however, researchers are increasingly turning to direct high …

Microglia, the brain-resident immune cells, are critically involved in many physiological and
pathological brain processes, including neurodegeneration. Here we characterize microglia …

The mammalian radiation has corresponded with rapid changes in noncoding regions of the
genome, but we lack a comprehensive understanding of regulatory evolution in mammals …

How species with similar repertoires of protein-coding genes differ so markedly at the
phenotypic level is poorly understood. By comparing organ transcriptomes from vertebrate …

Most mammalian genes produce multiple distinct messenger RNAs through alternative
splicing, but the extent of splicing conservation is not clear. To assess tissue-specific …

Abstract Changes in gene expression are thought to underlie many of the phenotypic
differences between species. However, large-scale analyses of gene expression evolution …

We developed PolyA-seq, a strand-specific and quantitative method for high-throughput
sequencing of 3′ ends of polyadenylated transcripts, and used it to globally map …

Transcription factors (TFs) direct gene expression by binding to DNA regulatory regions. To
explore the evolution of gene regulation, we used chromatin immunoprecipitation with high …

A major challenge in biology is determining how evolutionarily novel characters originate;
however, mechanistic explanations for the origin of new characters are almost completely …