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Ion AmpliSeq Fixed Panels on HCT-15 Colon Carcinoma Cell Line

One of the more powerful and exciting applications for benchtop sequencing platforms is targeted sequencing panels.  These panels allow sequencing of targeted regions of the genome amplified by multiplexed PCR amplicon pools.  This allows for rapid, sensitive, and specific amplification of targets and rapid sequencing of samples.  These panels allow us to deliver results to customers with our standard ten business day turnaround time for benchtop sequencers.  To check the performance of these panels we tested three of the Ion Torrent AmpliSeq Ready-to-use Panels with DNA isolated from a well characterized colon cancer cell line, CCL-225 (HCT-15).  The Inherited Disease Panel was also run on Craig Venter HuRef (NS12911) DNA.

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While You Were Waiting...The $1,000 Exome.

It’s been quite some time since my last blog post. We’ve been rather busy over the summer, so let me fill you in on what has happened. At Edge, we have been diligently working on our CLIA certification and offering, with our latest test offering a CLIA exome on our Illumina HiSeq2000 platform using either the Agilent SureSelect capture or Roche Nimblegen capture. Over the coming weeks the staff at Edge will be releasing a series of blog posts relating to targeted resequencing methodologies. They will relate specifically to Project Design, Research & Clinical applications, “Tools of the Trade”, Data Delivery and then a summary “Cheat Sheet”. They will be information heavy, with lots of tables and data to digest, so try not to read them right after a large meal.

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Ion Proton Intensifies Competition in Benchtop Sequencing

Word came out last night about the launch of a new sequencing platform from Life Technologies, the Ion Proton Machine. There are articles from Forbes, Financial Times, and Life Technologies discussing the announcement of this technology.

Ion Proton Machine

Ion Proton Machine

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Miseq vs. Ion Torrent - Round Two.

We have another round of application notes that have been released by both Ion Torrent and Illumina.  This has all the making of a late round heavy weight fight.  First came Illumina with the initial blow (a.k.a application note), comparing the MiSeq E. coli MG1665 data to some of Edge's 314 chips of E. coli DH10B and BGI's 314 chips of the EHEC outbreak strain. I reviewed this application note in the latter part of our previous blog post Ion v. MiSeq – Is There a Competition, And If So, Why? The beginning spent time reviewing the new 316 chip data set released via the Ion Community website.  I focused on drawing comparison between platforms using our own in house analysis of the 316 data set because I thought it drew a more realistic comparison to the platforms.

Ion v. MiSeq - Is There a Competition, And If So, Why?

Ion v. MiSeq - Is there a competition, and if so, why?

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