Long-read RNA sequencing enables full-length chimeric transcript annotation of transposable elements in lung adenocarcinoma.

ABSTRACT:

Background

Transposable elements (TEs), which constitute nearly half of the human genome, have long been regarded as genomic "dark matter". However, their reactivation in tumor cells, resulting in the production of TE-chimeric transcripts (TCTs), has emerged as a potential driver of cancer progression. The complexity and full extent of these transcripts remain elusive, largely due to the limitations of short-read next-generation sequencing technologies. These methods have struggled to comprehensively capture the diversity and structure of TCTs, particularly those involving short interspersed nuclear elements (SINEs) or closely co-transcribed TEs.

Methods

Leveraging full-length cDNA sequencing technology based on nanopore sequencing platform, we developed a customized pipelin

SUBMITTER: Li Y 

PROVIDER: S-EPMC11909889 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature