Oxford Nanopore should have kits for direct RNA sequencing available later this year, and have several examples of how these might be used on their website. The method presented at London Calling (see OmicsOmics coverage), is primarily for mRNA, but it likely to be adapted for other […]
Everyone loves bead cleanups, and it appears that almost everyone (85%) who read my recent post about SPRI alternatives loves Agencourt AMPureXP. I’d asked readers to take a survey asking if they used AMPure XP, a commercial alternative, or a home-brew version – the results […]
Copy-number analysis is a useful tool for many researchers and we use it a lot for analysis of tumour samples. In the past this was done using SNP arrays e.g. Affymetrix SNP6.0 in METABRIC, but today we’re generally using low-coverage whole genome sequencing and tools […]
NGS is 10…according to the latest Nature Reviews Genetics: Coming of age: ten years of next-generation sequencing technologies. Just by chance I was asked to give a talk to explain how Illumina sequencing works in a technology seminar series being delivered by the Core Heads […]
Researchers in the group of Yolanda Sanz in Spain deposited a preliminary MinION study describing the bioRxiv of 16S rDNA amplicon sequencing from a mock microbial community composed of genomic DNA from 20 different bacterial species (BEI Resources).Experimental workflow: 1.5kb amplicons were generated from 16S […]
Updated after a conversation with Illumina: it turns out pricing for V4 was released early in an email from Christian Henry (Illumina SVP & COO) on Feb 25th. Single end pricing is now compared below and list pricing for all reagents has been used in […]
I had a fun time at Jason Carroll’s group retreat in sunny Cromer a few weeks ago. I was invited to present some work we’d been doing on using Thruplex for ChIP-seq library prep and there was a lot of great science being discussed. One of […]
A recent PLoS One paper is perhaps the latest battle in the Illumina vs LifeTech war. The latest paper in PLOS ONE presents a comparison of MiSeq and Proton PI sequencing to detect chromosome abnormalities in self-aborted foetuses: Chen et al: Performance Comparison between Rapid […]
Joakim Lundeberg at the Science for Life Laboratory, Stockholm, Sweden has published a nice paper in PLoS One on the impact of RNA degradation on the quality of RNA-seq and differential expression results: Sigurgeirsson, Emanuelsson & Lundeberg: Sequencing Degraded RNA Addressed by 3′ Tag Counting. […]
We’ve been running Illumina NGS in my lab for six and a half years and have almost 8000 libraries in our -20 going back almost to the start, to number 300 in fact. Occasionally we have users requesting us to rerun these old libraries and […]
