A substantial proportion of the genome of many species is derived from transposable
elements (TEs). Moreover, through various self-copying mechanisms, TEs continue to …

Next-generation sequencing (NGS) technologies have been used in diverse ways to
investigate various aspects of chromatin biology by identifying genomic loci that are bound …

Mobile elements and repetitive genomic regions are sources of lineage-specific genomic
innovation and uniquely fingerprint individual genomes. Comprehensive analyses of such …

We introduce APEX-seq, a method for RNA sequencing based on direct proximity labeling of
RNA using the peroxidase enzyme APEX2. APEX-seq in nine distinct subcellular locales …

Repetitive DNA, especially that due to transposable elements (TEs), makes up a large
fraction of many genomes. Dfam is an open access database of families of repetitive DNA …

Long non-coding RNAs (lncRNAs) are largely heterogeneous and functionally
uncharacterized. Here, using FANTOM5 cap analysis of gene expression (CAGE) data, we …

Repetitive elements (REs) are integral to the composition, structure, and function of
eukaryotic genomes, yet remain understudied in most taxonomic groups. We investigated …

INTRODUCTION The rhesus macaque (Macaca mulatta) is one of the most widely used
nonhuman primate (NHP) models for studying human biology and disease. As a …

Dfam is an open access database of repetitive DNA families, sequence models, and
genome annotations. The 3.0–3.3 releases of Dfam (https://dfam. org) represent an evolution …

Sequence database searches are an essential part of molecular biology, providing
information about the function and evolutionary history of proteins, RNA molecules and DNA …