Politics, Information Technology, and Genomics

TCGA project finds link between methylation and patient outcome

Researcher from The University of Texas M. D. Anderson Cancer Center recently presented some of their findings from The Cancer Genome Atlas at the American Association for Cancer Research Molecular Diagnostics in Cancer Therapeutic Development. They found that methylation patterns in CpG islands correlate with patient outcomes in glioblastoma. If you are so inclined, you can learn more about CpG islands and methylation. Full Post

Pristionchus pacificus

Have you ever wanted to learn more about parasitic roundworms that feast on the bacteria, fungi and other small roundworms that grow on beetle carcasses after they have died? Well, today is your lucky day. We have just published a paper in Nature Genetics about the genome sequence of Pristionchus pacificus entitled The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism. At this point you may be asking yourself, "What does... Full Post

Policies vs. personalities

In a recent post, I wrote the following We are left with a conventional Democratic campaign talking about policy and a conventional Republican campaign talking about character. I think we all know how this story ends (and recent polls confirm it). Since it was at the end of a paragraph, it could have been viewed as a throwaway line. Also, given the recent events on Wall Street, the narrative of the campaign has changed, at... Full Post


If you are interested in a good summary of the current financial crisis and how it is likely to play out over the coming days and months, I would recommend you watch Bill Moyers' interview of Kevin Phillips. If you are interested in how the current crisis is playing out in the presidential campaign, I would recommend the round table discussion from This Week. Update: You can find a marked-up version of the original Treasury... Full Post

lsgmake-gap-0.9 released

About a year ago Tim Cutts from Sanger suggested I modify (he was being nice, improve is more accurate) lsgmake-gap to use LSF's job arrays rather than spawning a separate job for each per-lane step in the GAPipeline. A year is too long to for a good suggestion like that not to be implemented, nonetheless it has taken me about that long to get around to doing it. But, hey, it's done now and you... Full Post