One of the most widely-publicized error modes with Ion Torrent and 454 sequencing has been the challenge of correctly counting the number of bases in homopolymer runs. Because these chemistries use non-terminating nucleotides, polymerase is free to add as many as possible. Unfortunately, the signal linearity breaks down, making it difficult to correctly count. Ion Torrent today released a note on homopolymers, but rather than plowing this well-trod ground it goes for a less publicized problem: Illumina having a more specific challenge in this department. The note is available on the Ion Community, free registration required.
Monday, January 30, 2012
Wednesday, January 25, 2012
Tuesday, January 10, 2012
I actually awoke today expecting an exciting press release, but I sure wasn't prepared for the big announcements from Ion and Illumina. Not that they were totally unexpected, but there's a huge difference between speculation and announced products (which, of course, are hugely different from ones you can actually buy!)
Saturday, January 07, 2012
Ion Torrent quietly released a set of paired end datasets over the holiday break. This is a bit embarassing for me, as in my last post on Ion I stated the platform "will probably never have paired ends" and in fact Ion had already announced the protocol. Oy! I also missed their mate pair protocol being released, though the document itself is another victim of Ion's incredibly counterproductive security policy. If you don't own a PGM, you can't access the document -- never mind if you are trying to plan for a potential buy or are preparing a library for a friend/collaborator to run.