Long-read RNA sequencing of transposable elements from single cells using CELLO-seq.

ABSTRACT: Transposable elements (TEs) form 50% of the mammalian genome sequence, and their expression contributes to processes from development to disease. Owing to the abundance and high sequence similarity of TEs, short-read single-cell sequencing methods promote ambiguous mapping to many almost-identical TE loci across the genome. Here we present a protocol for single-cell long-read RNA sequencing (CELLO-seq) to enable the mapping of TE-derived reads to unique genomic loci. CELLO-seq enables the error correction of long reads through the incorporation of long 50-nucleotide unique molecular identifiers and high polymerase chain reaction duplicate numbers. Taken together, these features of CELLO-seq enable the high-fidelity mapping of expression data to highly sequence-similar young TEs, as well as

SUBMITTER: Marlow SA 

PROVIDER: S-EPMC7617990 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature