Single-cell characterization of CRISPR-modified transcript isoforms with nanopore sequencing. Genome biology Kim, H. S., Grimes, S. M., Hooker, A. C., Lau, B. T., Ji, H. P. 2021; 22 (1): 331


We developed a single-cell approach to detect CRISPR-modified mRNA transcript structures. This method assesses how genetic variants at splicing sites and splicing factors contribute to alternative mRNA isoforms. We determine how alternative splicing is regulated by editing target exon-intron segments or splicing factors by CRISPR-Cas9 and their consequences on transcriptome profile. Our method combines long-read sequencing to characterize the transcript structure and short-read sequencing to match the single-cell gene expression profiles and gRNA sequence and therefore provides targeted genomic edits and transcript isoform structure detection at single-cell resolution.

View details for DOI 10.1186/s13059-021-02554-1

View details for PubMedID 34872615