Nanopore Digest: 15th November 2019
Fri 22nd November 2019
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High throughput, error corrected nanopore single cell transcriptome sequencing
Short-read single-cell transcriptome sequencing is limited in its ability to understand cell-to-cell variability in splicing, fusion transcripts, and sequence diversity. In this pre-print, Lebrigand et al. demonstrate the application of long-read nanopore sequencing on the PromethION platform to analyse the transcriptome of >1,000 single cells isolated from murine brain. Cell barcodes were assigned with 99.8% accuracy to 67% of nanopore reads with identified poly-A sequences, and UMI assignment was 97.4% accurate for 76.4% of reads with an identified cell barcode. In total, they identified 18,439 GENCODE-annotated transcripts and 15,317 novel transcripts. The authors conclude that: “Single cell Nanopore sequencing with UMIs (ScNaUmi-seq) will facilitate high throughput single cell studies on RNA splicing, editing and imprinting and should also become a valuable tool for in depth studies of tumor heterogeneity”.
London Calling 2020
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