PolITiGenomics
Politics, Information Technology, and Genomics
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About PolITiGenomics
PolITiGenomics is a blog by David Dooling about the confluence (and sometimes incongruence) of several of the most important topics surrounding the future of human health: genomics, information technology, and politics. Entries will cover topics including genomics research, next-generation sequencing technologies, informatics, computer hardware and software, free software, and politics.
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The central dogma of cancer genomics
Friday, October 24th, 2008 Posted in genomics | No Comments »
Today, Chris Sander, head of the Computational Biology Center at Memorial Sloan Kettering Cancer Center (MSKCC), gave a talk at The Genome Center. His group at MSKCC performs a wide ... Read more..lsgmake-gap-0.9 released
Friday, September 19th, 2008 Posted in IT, genomics | No Comments »
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 ... Read more..SOLiD2SRF
Thursday, September 18th, 2008 Posted in genomics | No Comments »
In a previous post, I discussed the sequence read format (SRF), the implementation of the SRF specification for Illumina/Solexa data, and potential implementations for Roche/454 and AB SOLiD data. Well, ... Read more..Personal DNA testing
Wednesday, July 9th, 2008 Posted in genomics | No Comments »
Last night on NOVA scienceNOW there was a segment on the personal DNA tests currently being marketed to consumers (you can watch the segment on the website, unfortunately no ability ... Read more..What’s in an SRF?
Monday, June 30th, 2008 Posted in genomics | No Comments »
I have written a bit about the NCBI Short Read Archive (SRA), its internals, and data transfer rates. Here is some information about the data format people are using to ... Read more..How fast?
Friday, June 20th, 2008 Posted in genomics | No Comments »
In a recent post, I spoke about the data format that will be used by the NCBI Short Read Archive (SRA), but storing the data is only part of the ... Read more..How much?
Friday, June 20th, 2008 Posted in genomics | No Comments »
The Genome Center recently published a paper entitled Aspects of coverage in medical DNA sequencing that develops a model for diploid sequence coverage using data from massively parallel sequencing platforms ... Read more..When stars align
Friday, June 13th, 2008 Posted in genomics | 1 Comment »
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 ... Read more..Bridging the gap
Friday, June 13th, 2008 Posted in genomics | 1 Comment »
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 ... Read more..454 XLR-HD
Thursday, June 12th, 2008 Posted in IT, genomics | 8 Comments »
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 ... Read more..All original content on this blog is licensed under a Creative Commons Attribution-Share Alike 3.0 United States License.
