Significant innovations in next-generation sequencing techniques and bioinformatics tools
have impacted our appreciation and understanding of RNA. Practical RNA sequencing …

Paramutation describes a process that results in heritable epigenetic changes of gene
regulation and trans-homologue interactions. Recent discoveries in model organisms have …

Genetic changes affecting gene expression contribute to phenotypic divergence; thus,
understanding how regulatory networks controlling gene expression change over time is …

Background RNA-seq can be used to measure allele-specific expression (ASE) by
assigning sequence reads to individual alleles; however, relative ASE is systematically …

Meiotic recombination ensures proper chromosome segregation in many sexually
reproducing organisms. Despite this crucial function, rates of recombination are highly …

Motivation Allele-specific expression (ASE) refers to the differential abundance of the allelic
copies of a transcript. RNA sequencing (RNA-seq) can provide quantitative estimates of ASE …

The regulatory architecture of gene expression remains an area of active research. Here, we
studied how the interplay of genetic and environmental variation affects gene expression by …

Evolutionary changes in gene expression underlie many aspects of phenotypic diversity
within and among species. Understanding the genetic basis for evolved changes in gene …

Males and females share most of their genomes, and differences between the sexes can
therefore not evolve through sequence divergence in protein coding genes. Sexual …

Gene expression divergence between closely related species could be attributed to both cis-
and trans-DNA sequence changes during evolution, but it is unclear how the evolutionary …