PolITiGenomics

Life finds a way

Friday, January 29th, 2010 Posted in genomics | 7 Comments »

Earlier this week Life Technologies announced the next revision of their SOLiD platform, SOLiD 4. I don't have all the details that I had for the Illumina HiSeq 2000, but ... Read more..

Next-Generation Sequencing Informatics table update

Monday, October 5th, 2009 Posted in genomics, IT | 2 Comments »

I have made some updates to the Next-Generation Sequencing Informatics table. Specifically, I have updated the numbers for 454 Ti, including paired-end information, and added information on the Illumina GA ... Read more..

My secret past

Wednesday, September 16th, 2009 Posted in genomics, IT | No Comments »

Now everyone will know about my secret past before I joined The Genome Center: David Dooling: Gangbusters at the Genome Center. Bio-IT World also has a nice interview with Clive ... Read more..

Sour grapes

Monday, August 10th, 2009 Posted in genomics, politics | 7 Comments »

Well, the US is not the only place with interesting politics. I recently came across this letter from Kevin McKernan, Senior Director of Scientific Operations at Applied Biosystems/Life Technologies, to ... Read more..

Sequencing — the past, present, and future

Tuesday, April 21st, 2009 Posted in genomics | No Comments »

Science Magazine has a nice article, Sanger Who? Sequencing the Next Generation, describing past sequencing technology, the current "next-generation" sequencing instruments and their capabilities, and several of the companies working ... Read more..

Next-Generation Sequencing Informatics

Thursday, December 4th, 2008 Posted in genomics, IT | 4 Comments »

I have put together a table with a bunch of important metrics for the major next-generation sequencing platforms: Next-Generation Sequencing Informatics (there is also a link on the left-hand side ... 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..

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 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..

N Genomes

Friday, May 9th, 2008 Posted in genomics | 6 Comments »

Earlier this week there were several meetings about the 1000 Genomes Project at Cold Spring Harbor Labs. The first meeting Monday morning was about data flow and data repositories. ... Read more..