PolITiGenomics

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..

VarScan published

Tuesday, June 23rd, 2009 Posted in genomics | No Comments »

VarScan, a tool developed at The Genome Center to detect variants in massively parallel sequence data has been published in Bioinformatics. VarScan can process both 454 and Solexa data of ... 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..

My talk at AGBT

Wednesday, February 18th, 2009 Posted in genomics | 4 Comments »

Several people have asked me to post my slides from AGBT. Given the type of slides I prepare, I thought that might be less than useful, so I recorded my ... 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..

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 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..

454 XLR-HD

Thursday, June 12th, 2008 Posted in genomics, IT | 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..

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..