PolITiGenomics


Politics, Information Technology, and Genomics

When stars align

If you are at all familiar with the massively parallel sequencing platforms, you know that the raw data, the images, look a lot like star field pictures. Once you process all these images, you get DNA sequences, called "reads". For these technologies, the reads are typically short, 30 to 50 bases, which presents difficulties when trying to align these reads back to a reference genome. For one, the shorter the sequence, the less unique it... Full Post


Bridging the gap

It is not everyday that you get to hear a Nobel laureate or the former director of the NIH speak. It is even less frequent that you get to hear someone who was both. For me, yesterday was such a day. Harold Varmus, MD, Nobel laureate, former director of NIH, and current president of Memorial Sloan-Kettering Cancer Center, gave The Julia Hudson Freund Memorial Lecture here at Washington University School of Medicine. His talk was... Full Post


454 XLR-HD

The next upgrade of the 454 FLX platform is called Titanium. The previous name gave a better indication of what the upgrade entails: XLR-HD which is short for eXtra Long Reads-High Density. The XLR is due to the run having twice the number of cycles so the average read length will increase from 250 to 400 bases (the average read length is not exactly double due to nucleotide flow order, mononucleotide runs, degraded signal as... Full Post


More candidate stances on technology issues

Similar to Ars Technica's list a couple weeks ago, PC Magazine is running a story about each presidential candidate's position on net neutrality, broadband availability, H-1B visas, intellectual property protection, and privacy. Full Post


Estimating data center power

On a mailing list I am on, someone posted this question. Here's a slightly off topic question. My company is looking at doing some engineering for a computer data center. We are talking power to the data center, electrical engineering. The Engineer just came to me and was wondering if there are any guidelines out there that give suggestions from an IT standpoint. He has suggestions from the building engineer. They have supplied a max... Full Post