Publication: Genome Research. 26: 119-129.
Published Date: November 2015
Describes RNA-seq methodology that visualizes mechanistic effects of transposon insertion.
Tumor suppressors and oncogenes important in the formation of human and mouse tumors can be successfully identified via restriction enzyme digest of ligation-mediated PCR products followed by in-depth sequencing. However, this methodology has several limitations, like improperly positioned restriction sites and “local hopping” during Sleeping Beauty (SB) transposition. The authors explored the use of RNA-seq data from SB-mutagenized tumors to identify how transposon insertion was impacting RNA transcripts in nearby loci. They found that this method allowed for direct observation of transcriptional changes in tumors in response to transposon insertion.