Genome-wide analysis of actively translated open reading frames using riboTaper/ORFquant
Authors
- D. Harnett
- E. Meerdink
- L. Calviello
- D. Sydow
- U. Ohler
Journal
- Methods in Molecular Biology
Citation
- Methods Mol Biol 2252: 331-346
Abstract
Ribosome profiling, or Ribo-seq, provides precise information about the position of actively translating ribosomes. It can be used to identify open reading frames (ORFs) that are translated in a given sample. The RiboTaper pipeline, and the ORFquant R package, leverages the periodic distribution of such ribosomes along the ORF to perform a statistically robust test for translation which is insensitive to aperiodic noise and provides a statistically robust measure of translation. In addition to accounting for complex loci with overlapping ORFs, ORFquant is also able to use Ribo-seq as a tool for distinguishing actively translated transcripts from non-translated ones, within a given gene locus.