Prof Yutaka Suzuki’s lab at the University of Tokyo published a paper last week in DNA research: Sequencing and phasing cancer mutations in lung cancers using a long-read portable sequencer. In the paper they described their work detecting SNVs in EGFR, KRAS, NRAS and NF1, and EML4-ALK, […]
I recently had a days training at Oxford Nanopore’s labs on their new cDNA-Seq kit and ran the resulting libraries on the GridION (one of the first customers to do so). A lot of people are watching RNA-Seq developments at ONT very closely. The London […]
Iain Macaulay organised a #singlecell meeting at Norwich’s Earlham Institute earlier this month. The meeting was fun and there were some great presentations during a day of talks and discussion on the development and application of single cell technologies. 100+ #singlecell analysis methods at www.tinyurl.com/mqabyur One that […]
The Genomics England project (a.k.a. UK100k genomes) is known as a whole genome sequencing project. It aims to sequence 100,000 genomes from UK NHS patients with Rare Disease or Cancer. But Genomics England have a very nice tool for people interested in targeted sequencing via […]
Index-swapping appears to be driven by excess adapter/primer (Illumina whitepaper). The take-home messages are 1) to use UDIs (unique dual-indexes), and 2) clean-up your libraries to remove left-over adapter/primer. Later in this post I’m going to work through one solution for getting rid of any remaining adapter/primer in an NGS library; but […]
This is a first for me as I’ve not finished this post at all! Instead I’m going to use this as a space to document my ideas, and experiences, in bringing Oxford Nanopore’s RNA-seq into my core lab at the CRUK Cambridge Institute. I’m hoping […]
Day 2 of London Calling. Keep an eye on Twitter. Watch for more coverage from @Gringer, ONT, NextGenSeek…let me know about other sources and I’ll add them here! ONTs London Calling 2017: Day 1 updates ONTs London Calling 2017: Day 2 updates Keiths OmicsOmics roundup. Gordon’s good morning wake-up […]
When will nanopore sequencing push short-reads (i.e. Illumina) off their pedestal? According to Clive PromethION is the Illumina killer…but this same conversation was going on many times at London Calling. I wanted to highlight two areas that might be about to flip to ONTs advantage […]
I’m excited to be at ONTs London Calling event today and tomorrow. Expect to see lots of coverage on Twitter. Missed the workshop yesterday or want a late preview of what’s coming then head over to Keith’s OmicsOmics blog. Update: coverage from @Gringer, ONT, NextGenSeek (storified […]
Last week I followed up on the index-swapping issue after Illumina released their white paper and also covered what Ethan Linck at The Molecular Ecologist had posted about the Sinha et al BioRxiv paper. In that post I said I’d write a follow-up post about index design over the weekend – here it is! […]
