Long non-coding RNAs (lncRNAs) have emerged in recent years as major players in a
multitude of pathways across species, but it remains challenging to understand which of …

Next-generation sequencing (NGS) technologies using DNA, RNA, or methylation
sequencing have impacted enormously on the life sciences. NGS is the choice for large …

Mash extends the MinHash dimensionality-reduction technique to include a pairwise
mutation distance and P value significance test, enabling the efficient clustering and search …

The hundreds of cichlid fish species in Lake Malawi constitute the most extensive recent
vertebrate adaptive radiation. Here we characterize its genomic diversity by sequencing 134 …

Background Multiple genome alignment remains a challenging problem. Effects of
recombination including rearrangement, segmental duplication, gain, and loss can create a …

Methods for detecting nucleotide substitution rates that are faster or slower than expected
under neutral drift are widely used to identify candidate functional elements in genomic …

MicroRNAs (miRNAs) are small endogenous RNAs that pair to sites in mRNAs to direct post-
transcriptional repression. Many sites that match the miRNA seed (nucleotides 2–7) …

A plethora of epigenetic modifications have been described in the human genome and
shown to play diverse roles in gene regulation, cellular differentiation and the onset of …

Understanding the genetic mechanisms underlying natural variation in gene expression is a
central goal of both medical and evolutionary genetics, and studies of expression …

Advances in DNA sequencing technology have fueled a rapid increase in the number of
sequenced vertebrate genomes, and we anticipate an explosion in the number of genomes …