Nanopore Digest: 31st October 2019
Thu 31st October 2019
Welcome to the Oxford Nanopore digest - a regular newsletter of updates from the nanopore community. You'll be able to find links to recent publications, presentations and other news. If you'd like to get the digest in your inbox please let us know.
Partner-independent fusion gene detection by multiplexed CRISPR/Cas9 enrichment and long-read Nanopore sequencing
Fusion genes are important features of cancer and other diseases, impacting diagnosis, prognosis and treatment. However, due to high variability in their location and configuration, they can be challenging to identify. In this pre-print, Stangl et al. describe FUDGE (FUsion gene Detection assay from Gene Enrichment), involving single-cut CRISPR/Cas9 targeting and long-read nanopore sequencing to enrich for fusion genes of interest, and accurately identify the unknown fusion partner and the precise fusion breakpoint. FUDGE was 100% successful in cancer cell lines and tumour samples, and on whole-genome-amplified DNA, regardless of fusion configuration. Due to the real-time sequencing and analysis capabilities of nanopore technology, the team determined that as little as 3 hours of sequencing were required to detect fusion-spanning reads.
Nanopore Community Meeting 2019, 5-6th December
Ongoing discussions and questions in the Nanopore Community
Join the conversation and share your experiences.