Changing the game: absolute protein quantification by relating histone mass spec signals to DNA amounts and cell numbers

One thing system biologists want is to have by and large absolute protein concentrations or copy numbers per cells available cheaply for their models leveraging all sorts of omics data. Looks like such results can now be easily delivered based on a study published on the 15th of September by the Mann lab in Molecular & Cellular… Continue reading Changing the game: absolute protein quantification by relating histone mass spec signals to DNA amounts and cell numbers

Three links in Aging, Regenerative Medicine & Healthy Lifespan Extension: 17 December 2013

1. DNA methylation age of human tissues and cell types by Steve Horvath: This is the type of relevant data mining study most bioinformaticians are dreaming of: you pull together a large body of publicly available datasets (CpG methylation) that are not too heterogeneous (Infinium type II assay on Illumina 27K or Illumina 450K array platform), derive robust… Continue reading Three links in Aging, Regenerative Medicine & Healthy Lifespan Extension: 17 December 2013

Three links in Aging, Regenerative Medicine & Healthy Lifespan Extension: 8 December 2013

1. Is aging linear or does it follow a step function? A good & simple question on Quora that surprised even Aubrey de Grey. If you are a bioinformatician out there – looking for a new pet project – go pull together some data & try to plot it! Let me know if you have something.… Continue reading Three links in Aging, Regenerative Medicine & Healthy Lifespan Extension: 8 December 2013

LavaAmp: cheapest pocket PCR thermocycler dreamed for DIY biologists

The LavaAmp is a portable PCR thermocycler that has the potential to become the default garage biology (home biology, bioDIY, DIYbio) tool once it hits the market. Think of Apple II for personal computing or MakerBot for 3D printing. The 1st LavaAmp prototype was shipped this week from Biodesic to Gahaga Biosciences and the process… Continue reading LavaAmp: cheapest pocket PCR thermocycler dreamed for DIY biologists

Sage Bionetworks Update: building an OA standard for human disease biology

Sage Bionetworks is a not-for-profit organization developing an open-access “pre-competitive” platform for networked and annotated models of human disease. It’s a huge and unparalleled bioinformatics enterprise: starting with an anonymous $5 million donation and soon making high throughput, large-scale human and mouse biological data (largely from Merck) available in the range that’s already in the… Continue reading Sage Bionetworks Update: building an OA standard for human disease biology

Mapping neurons without glial cells ~ SNP genotyping w/o whole sequencing?

Nature’s Journal Club column is usually a good & always a short read providing exciting angles on scientific topics/papers from good researchers. Recently ‘neuroscientist’ Dave Featherstone argued for a broader approach to brain mapping by not restricting it only to the connectome between neurons. Neurons are making up less than 10% of the human brain… Continue reading Mapping neurons without glial cells ~ SNP genotyping w/o whole sequencing?

Bright cells, big city: Cellular images hit Broadway

Surprise email from Conor McKechnie, GE Healthcare proving the aesthetics of science and the value of blogging: A while (!) back you posted an inspiring piece linking to Harvard’s BioVisions inner life of the cell – it was 2006…It got me thinking that we could do something similarly inspiring with actual cellular images entered into… Continue reading Bright cells, big city: Cellular images hit Broadway