Single-cell RNA counting at allele- and isoform-resolution using Smart-seq3

ABSTRACT: Large-scale sequencing of RNAs from individual cells can reveal patterns of gene, isoform and allelic expression across cell types and states. However, current single-cell RNA-sequencing (scRNA-seq) methods have limited ability to count RNAs at allele- and isoform resolution, and long-read sequencing techniques lack the depth required for large-scale applications across cells. Here, we introduce Smart-seq3 that combines full-length transcriptome coverage with a 5’ unique molecular identifier (UMI) RNA counting strategy that enabled in silico reconstruction of thousands of RNA molecules per cell. Importantly, a large portion of counted and reconstructed RNA molecules could be directly assigned to specific isoforms and allelic origin, and we identified significant transcript isoform regulati

INSTRUMENT(S): BD FACSMelody, Illumina NovaSeq 6000, NextSeq 500, Sequel

ORGANISM(S): mixed sample

SUBMITTER: Christoph Ziegenhain 

PROVIDER: E-MTAB-8735 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress