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Mapping and modeling the genomic basis of differential RNA isoform expression at single-cell resolution with LR-Split-seq

ABSTRACT: The rise in throughput and quality of long-read sequencing should allow unambiguous identification of full-length transcript isoforms. However, its application to single-cell RNA-seq has been limited by throughput and expense. Here we develop and characterize long-read Split-seq (LR-Split-seq), which uses combinatorial barcoding to sequence single cells with long reads. Applied to the C2C12 myogenic system, LR-split-seq associates isoforms to cell types with relative economy and design flexibility. We find widespread evidence of changing isoform expression during differentiation including alternative transcription start sites (TSS) and/or alternative internal exon usage. LR-Split-seq provides an affordable method for identifying cluster-specific isoforms in single cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE168776 | GEO | 2021/03/12

REPOSITORIES: GEO

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