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Applied Bioinformatics and Public Health Microbiology 2011

By Nick Loman on February 21, 2011

I wanted to draw attention to this meeting in June which I am helping to organise. The idea is to look at how genomics data from high-throughput sequencing can be used for public health microbiology. As a major impediment to routine adoption of this technology is the bioinformatic analysis we want to look in detail [...]

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Wow, I have won an Ion Torrent Personal Genome Machine!

By Mark Pallen on February 18, 2011

I am pleased to announce that I have won an Ion Torrent PGM in Life Technologies’ European competition. I am currently in Lausanne, Switzerland for the formal announcement of the award. A press release and further details should be appearing any moment now on the press release section of Life Technologies’ web site and on [...]

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Steady Eddy! HMMER gets RESTful …

By Nick Loman on February 18, 2011
The legendary Sean Eddy (hey, that scans!) gave us data-nerds a Valentine's day present and posted the details of the new HMMER RESTful API. I am a big fan of RESTful APIs (SOAP APIs are another story - I loathe them with a passion). In my opinion REST is the best way of doing loose [...]
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Human DNA in bacterial genomes? Yes? No? Maybe?

By Mark Pallen on February 16, 2011
Astronomer Carl Sagan once said that “extraordinary claims require extraordinary evidence” and that basis I was primed for scepticism when I first glanced at this paper in mBio, which reports apparently human DNA sequences (specifically from the Line 1 retrotransposon) within a bacterial genome (that of the obligate human pathogen, Neisseria gonorrhoeae). But the most [...]
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Short Read Archive Canned

By Nick Loman on February 14, 2011

This email apparently from NCBI head-honcho David Lipman was posted in the comments section at Tree of Life: Dear Staff Members of NCBI, As you are aware, the federal government as well as NIH is facing a period of budgetary uncertainty that is resulting in ongoing program reviews throughout the government.   At NCBI our senior [...]

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