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. […]
Methylation analysis is hampered by the simple fact that PCR amplification removes methylation marks from native DNA. We came up with a simple idea to produce a thermo-stable DNA methyltransferase to preserve methylation status through PCR cycles, allowing amplification of DNA and simplified analysis. The […]
Stats: not everyone’s favourite subject but something we can’t avoid so understanding the basics is a very good idea. We’re lucky in my Institute having biostatistical support in our Bioinformatics core facility and try to have a statistician with us every time we design a […]
The BBC ran an article a few weeks ago on the possibility of performance enhancing genetics: think Team BMC Genomics! The piece has an interview with Dr Philippe Moullier from INSERM in Nantes, he was part of a group that published a paper describing “Neo-organ” […]
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 […]
I’m going to start this post by saying something that may be controversial “splicing analysis is a niche, strandedness is useful in a minority of cases and that most RNA-seq users are only interested in getting Affy-like 3′ biased differential gene expression data”.I’m constantly looking […]
An awesome demonstration of what’s possible when people think outside the box: Highly Multiplexed Subcellular RNA Sequencing in Situ in Science this week demonstrates in situ RNA-seq of single cells. FISSEQ (fluorescent in situ RNA sequencing) was developed in the lab of George Church who’s […]
The most recent ctDNA paper verifies its utility as a “broadly applicable, sensitive, and specific biomarker†across “multiple different types of cancer†and useful in cancer research and medicine: Detection of Circulating Tumor DNA in Early- and Late-Stage Human Malignancies
 by Bettegowda et al Sci […]
This years AGBT has again been a full program from dawn to dusk (or later). This year my favourite session has been Fridays Genomic Technologies Development session. It was the most technologically focused session with five great talks and one that I thought was outstanding.Patrick […]
Jacques Retief (Sr. Manager Scientific Affairs at Illumina) has produced a phenomenal poster with graphics for over NGS 50 methods. If you’ve ever wanted to know how MAINE-seq, smMIP, ATAC-seq or just about anything else worked then Jaques helpfully provides a graphic of each method […]
