The use of the pre-print servers like the original arXiv and bioRxiv appears to be growing among some of the groups I follow. You’ve only got to read Jeff Leeks post about this and their Ballgown paper (published at NatBiotech) or Nick Loman’s or Casey […]
What do 48 replicates tell you about RNA-seq DGE analysis methods: that two the most widelyâ€used of the tools DESeq and edgeR are probably the best tools for the job*. These two tools also top the rankings of RNA-seq methods as assessed by citations with […]
Back in 2010 a HiSeq 2000 cost $690,000 – you’ll be lucky to get anything today. A V4 2500 might get you $100+k, but your V4 capable V3 just $20k. Depreciation sucks!In accountancy, depreciation refers to the decrease in value of an asset over time. […]
A paper on the BioArxiv describes a new metric to measure scientific journals by based on their efficiency of information distribution (citations) within the network of journals. It provides a providing together a complex picture of the intricate relations between scientific journals; but basically Science, […]
I realised I’d not covered the recent droplet sequencing papers (the post was sitting in my draft blogs pile) and wanted to make sure I did after posting on single-cell RNA-seq last week. The use of droplets has some benefits over microfluidics where the current […]
A team from Columbia University present a microfluidic device that can capture single-cell lysates in picotire plates and produce single-cell 3′ tag RNA-Seq library prep at $0.10 cents per cell: Scalable microfluidics for single cell RNA printing and sequencing. They discuss two methods – RNA […]
When George Church talks about something it often turns out to be a good idea to listen. He’s been talking about in situ sequencing for many years and the technology looks to be ready for take off. It could be a niche method used by […]
A year ago I surveyed the costs of Illumina library prep and found over 15 providers; they offer generally the standard Illumina library prep method but with prices ranging from £15-£60 per sample. There was some real innovation amongst some of these kits too, enabling […]
I’m often trying to find an image for a post and it can be tough trying to find something that can be used freely. The U.S. DOE has an image gallery from the Genomic Science program, which includes archived images from the Human Genome Project. […]
Michael Snyder has a great paper published in AJRCCM: Exome Sequencing of Neonatal Blood Spots Identifies Genes Implicated in Bronchopulmonary Dysplasia (BPD). BPD is a lung disease of premature babies which appears to have a strong genetic component and was investigated using exome sequencing. The […]
