I am not a Bioinformatician but I often want to do things Bioinformaticians say are easy. This is the first in a possible series of blogs about my experiences with Bioinformatics, text mining, etc. I’d be very happy to receive comments on the approaches I […]
This is the big question for many labs today, especially core facilities investing in technology for the longer term. Everyone wants to know when we might replace microarrays with NGS for applications like, differential gene expression, splicing analysis, allele specific expression, copy number variation, loss […]
The list at the bottom is occasionally edited to include new methods.There is an ever increasing number of next generation sequencing acronyms (see the link to a table at the bottom of this post), other than the commonly used ChIP-Seq and RNA-Seq most have been […]
There has been a lot in the news recently about Steve Jobs fight with Pancreatic cancer. The impact on Apple has been discussed at length (BBC apple coverage, Reuters, BBC, CNN, Apple, GenomeWeb), as has the possible impact on Steve Jobs himself. I guess this […]
What should a core offer? The authors of the Science TranslationalMedicine paper list four things a core needs: (i) sophisticated instruments, (ii)staff expertise in their operation, (iii) expertise in analysing the data and (iv) an ability to provide advice through consultation with users. In […]
A recent commentary article in Science TranslationalMedicine on core facilities is probably of interest to those other core lab directors reading my blog. I wanted to look at some of the points they raise and give my thoughts as a core facility director.Gregory Faber from […]
Bang went the starter gun in August 2010 when LifeTechnologies announced the purchase of Ion Torrent for $375M (plus another $350M if certain milestones are reached).Yesterday in Nature Life Technologies and Ion Torrent published the genome of Gordon Moore of “Moore’s law†fame, plus 3 […]
The ENCODE consortium released its first set of data-standards guidelines and interestingly they are for RNA-Seq. ChIP-Seq guidelines will follow later which is a little surprising considering almost all the ENCODE data so far is ChIP-Seq (see below). In some ways I’d have preferred to […]
I have recently been analysing some next-gen sequencing data for mutation detection. I realised pretty early on how long ago it was I had the opportunity to analyse some data of my own, as my day job is the generation of someone else’s. I have […]
Back in April Tales of the Genomic Repairman discussed five core facility stereotypes; Core of ill-repute, High $ Hooka core, the Waiting by the phone for the core to call core, the High maintenance core and the Easy core next door. I hope my users see […]
