The Qiagen GeneReader is an NGS platform developed for the clinic and aims to deliver a sample-to-answer solution. I covered the “launch” of the instrument at the end of 2016 and summarised some of the details but there was no public data to take a […]
This post is a follow on from my ABRF2017 presentation this morning. Slides are available on SlideShare. RNA-Seq is the most widely published NGS method, but what do researchers mean by the term “RNA-Seq”? Virtually none of them mean sequencing of RNA. Most are talking […]
Long-reads require long DNA molecules which require high molecular weight (and undamaged) DNA. Extraction with your standard column is unlikely to be optimal. I’m starting to look at the best methods for HMW DNA extraction for long-read applications as my lab is supporting a couple of […]
Anyone interested in single-cell RNA-Seq analysis is likely to be interested in a paper published today by the Sanger in Nature Methods: Kiselev et al. (2017) SC3: consensus clustering of single-cell RNA-seq data. The new single-cell clustering tool performs better than 5 other methods: tSNE + k-means […]
Confession: this post may not actually make your 10X Genomics experiments ten times cheaper…but implement Demuxlet in your workflow and with the right sort of experiment you might just get there! Single-cell RNA-Seq might just have got a whole lot cheaper, thanks to a method […]
In 2013 researchers from Oxford’s Molecular Diagnostics Centre, NIHR BRC, WTCHG and Department of Oncology led by Anna Schuh and Jenny Taylor sequenced 351 lung, melanoma and colorectal tumours from patients using an NGS 46-gene hotspot cancer panel. Results were delivered with a median turnaround of 7 days […]
Two publications presenting really cool technologies recently caught my attention: “Lego for molecular biology” and “CATCH-Seq: CRISPR for target enrichment sequencing”. Both are technologies I’d like to play with, and my son can join in the Lego modelling if we build some here in Cambridge! Lego […]
A paper published one month ago in Nature Genetics: Stessman et al 2017, by Evan Eichler’s group at HHMI, reported finding 91 genes associated with neuro-developmental disorders. 25 of these were enriched in autism probands and the authors reported a “network associated with high-functioning autism (full-scale IQ >100)”. […]
For me one of the top talks at #AGBT17 was in a concurrent session. Theodore Davis from New England Biolabs presented “APOBEC-Seq: An enzymatic method for methylome analysis at single-base resolution without bisulfite treatment.” His talk focused on some of the cons of using sodium bisulfite sequencing for methylation in epigenetic […]
Illumina have finally dropped the NeoPrep from their lineup after a short but pretty rocky road. Launched at AGBT15 the instrument promised hassle free library prep automation for users that did not require full 96well plate production-scale solutions. Early access users I spoke to at […]
