Frontiers in Bioinformatics (Feb 2022)

CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin

  • Annelien Morlion,
  • Annelien Morlion,
  • Eva Hulstaert,
  • Eva Hulstaert,
  • Marieke Vromman,
  • Marieke Vromman,
  • Jasper Anckaert,
  • Jasper Anckaert,
  • Celine Everaert,
  • Celine Everaert,
  • Jo Vandesompele,
  • Jo Vandesompele,
  • Pieter Mestdagh,
  • Pieter Mestdagh

DOI
https://doi.org/10.3389/fbinf.2022.834034
Journal volume & issue
Vol. 2

Abstract

Read online

Distinguishing circular RNA reads from reads derived from the linear host transcript is a challenging task because of sequence overlap. We developed a computational approach, CiLiQuant, that determines the relative circular and linear abundance of transcripts and gene loci using back-splice and unambiguous forward-splice junction reads generated by existing mapping and circular RNA discovery tools.

Keywords