Integrative transcriptome sequencing identifies trans-splicing events with important roles in human embryonic stem cell pluripotency.

ABSTRACT: Trans-splicing is a post-transcriptional event that joins exons from separate pre-mRNAs. Detection of trans-splicing is usually severely hampered by experimental artifacts and genetic rearrangements. Here, we develop a new computational pipeline, TSscan, which integrates different types of high-throughput long-/short-read transcriptome sequencing of different human embryonic stem cell (hESC) lines to effectively minimize false positives while detecting trans-splicing. Combining TSscan screening with multiple experimental validation steps revealed that most chimeric RNA products were platform-dependent experimental artifacts of RNA sequencing. We successfully identified and confirmed four trans-spliced RNAs, including the first reported trans-spliced large intergenic noncoding RNA ("tsRMST"

SUBMITTER: Wu CS 

PROVIDER: S-EPMC3875859 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature