Nanopore sequencing of single-cell transcriptomes with scCOLOR-seq

Here we describe single-cell corrected long-read sequencing (scCOLOR-seq), which enables error correction of barcode and unique molecular identifier oligonucleotide sequences and permits standalone cDNA nanopore sequencing of single cells. Barcodes and unique molecular identifiers are synthesized using dimeric nucleotide building blocks that allow error detection. We illustrate the use of the method for evaluating barcode assignment accuracy, differential isoform usage in myeloma cell lines, and fusion transcript detection in a sarcoma cell line.

Automated summary

scCOLOR-seq is a method for single-cell corrected long-read sequencing, allowing standalone cDNA nanopore sequencing of single cells. It corrects errors in barcode and unique molecular identifier sequences, and is used for evaluating the transcriptomic features of different cell lines.