Tagged: genomics

Saturday snippets - Code for life

Grant Jacobs Dec 04, 2010

You won’t have missed the fuss over NASA’s their non-extra-terrestrial life, where evidence suggests that a bacteria may show signs of tolerance to arsenic received wide coverage in the media. xkcd, of on-line cartoon fame, offers this There’s a great collection of commentary to Richard Thaler’s call for informed examples of ’things … Read More

Friday tabs - Code for life

Grant Jacobs Oct 29, 2010

Not the bar kind. As has become customary for me, on Friday I try clean up browser tabs I’ve left open holding an interesting article. It’s my end-of-the-week clean-up and blog links for readers. The scale of the universe (Those not interested in astronomy or the scale of things may wish … Read More

One thousand genomes deep - Code for life

Grant Jacobs Oct 28, 2010

I’d like to write about today’s paper* from the 1000 genomes project, but I have a tax return to file first. In the meantime a quatrain and a haiku: There's no forsaking what you are No existential leap As witnessed here in DNA and code A thousand genomes deep ... We're all mutants you and I, all broken codes for … Read More

Find transcription factor motifs in genomes better: add histone acetylation data - Code for life

Grant Jacobs Oct 14, 2010

A ‘lite’ review of an attempt to improve motif screening of genomes using additional data. Considering local minima of histone acetylation in a context of high histone acetylation may be one way forward. A number of years ago at a biotechnology sector after-talk drinks I found myself trying to convince a CEO that often … Read More

Finding platypus venom - Code for life

Grant Jacobs Oct 07, 2010

Platypuses[1] are one of Australia’s oddest creatures. They’re furry, mainly nocturnal aquatic creatures that swim with their eyes shut paddling with their webbed front feet and steering (or braking) with their rear feet. Their homes are burrows in the river banks. While not endangered, water pollution is an issue for their survival.[2] … Read More

Thoughts towards a human brain neural connection map - Code for life

Grant Jacobs Oct 03, 2010

I like to follow what computational neurologists are working on. Large-scale studies in neurology using genetics and other approaches use techniques related to my own skills (I’m a computational biologist) and neurology is fascinating. Here Sebastian Seung from MIT presents a TED lecture about work towards what he calls the human ‘connectome’, a map of … Read More

Autism – looking for parent-of-origin effects - Code for life

Grant Jacobs Sep 16, 2010

Autism is probably one of the best known neurological disorders, in part due to promotion in Hollywood movies such as Rain Man. It is described in the On-line Mendelian Inheritance in Man (OMIM) database as being ‘characterized by a triad of limited or absent verbal communication, a lack of reciprocal social interaction or responsiveness, and restricted, … Read More

Coiling bacterial DNA - Code for life

Grant Jacobs Aug 24, 2010

A chain of proteins hold bacterial DNA in a compacted spiral. You and I are eukaryotes. Our cells have nuclei, repositories that contain our DNA and the proteins that read them to produce an RNA copy of them. [caption id="attachment_3694" align="alignleft" width="300"] HeLa cells* stained for DNA (Source: Wikimedia Commons.)[/caption] In earlier … Read More