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Old 05-24-2011, 02:01 AM   #2
james hadfield
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These were also presented at AGBT.

The kits will be based on Illumina's GoldenGate technology so hopefully up to 1536 loci targeted by multiplex PCR producing barcoded libraries. The GG protocol required a 16 hour hyb then clean-up and extension & ligation. Assuming this is a 96well plate based kit a single person could probably process 4-8 plates a day allowing a whole flowcell to be prepped pretty quickly.

Illumina were going to release these kits at the same time as MiSeq. However a kit would need different numbers of barcodes to be run on MiSeq vs HiSeq. Perhaps running only 1 column on MiSeq and the hole plate on a lane of HiSeq might be possible? I guess we have to wait and see.

Illumina have been very successful with some Cancer projects so I'd expect to see Cancer gene panels on launch.

96well multiplex on miSeq at $400 a run could allow DNA fingerprinting using SNPs for only $5-10 per sample. A whole lot faster, cheaper and easier to analyse than STR profiles.

I am sure loads of applications will come out of this once the kits are released and we can access custom panels.

Comparison to other technologies suggests the GoldenGate kit wil be pretty competetive on many criteria. Whilst GG was used for genotyping I believe quite large regions could be targeted. Design is pretty easy, although I am not so sure about tiliing with multiplexed PCR primers. This wil use small amounts of DNA (perhaps les than 250ng), be in a standard 96well format and not require anything other than a bead cleanup. Assuming the PCR reaction is set to run to completion of primers then all samples should achieve the same yield and pooling will be straightforward.
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