PolITiGenomics


Politics, Information Technology, and Genomics

Letting kids be kids

There is a good article in the St. Louis Post-Dispatch about the St. Louis Crisis Nursery entitled St. Louis Crisis Nursery helps kids, parents. This holiday season, the Crisis Nursery has lots of opportunities to help those who are less fortunate. Check out their web site and volunteer your time or make a contribution. Full Post


Using the next-generation sequencing statistics table

Since posting the next-generation sequencing informatics statistics table I have received several requests asking if they could reproduce the table in one format or another. The answer is yes, as long as you adhere to the license it is published under: the Creative Commons Attribution-Share Alike 3.0 License. Basically, if you allow other people to do to the table you present what you are asking me to do for you (reproduce the table with proper... Full Post


AML at ASH

It seems the publication of the first whole cancer genome sequence is getting a good reception in hematology circles. This past Saturday at the 50th Annual Meeting of the American Society of Hematology, Dr. Tim Ley presented our AML sequencing work to a packed room of over 2000 people. In fact, there was such demand to see the talk that they scheduled a second time for Dr. Ley to give the talk so that all... Full Post


Ensembl on Amazon

The Amazon Web Services (AWS) blog has an entry on using Amazon's Elastic Compute Cloud (EC2) to host and access public data sets, including Ensembl release 51. The data are stored as Amazon Elastic Block Store (Amazon EBS) snapshots. Anyone using EC2 can then create their own EBS using the public data EBS as a starting point. The data are then available to the user to modify, update, and perform calculations using the cloud. You... Full Post


Next-Generation Sequencing Informatics

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 of the page). It includes number of reads, read length, data sizes, computational time, etc. I will try to keep it as up to date as I can and add new platforms and revisions as they become available. Consider it an early Christmas present. Full Post