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Sequencing Technologies Update

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by

William Chow

on 8 March 2013

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Transcript of Sequencing Technologies Update

Finally Outline Seq Technology Briefs 2013 Update on Existing Players (NGS and a few N-NGS guys)
Upcoming Tech (not commercially established)
BionNano Genomics Existing Players New Players AGBT 2012 Future? Summary
Feat Generation: Bridge PCR
Seq Rxn: Synthesis
Detection: Fluorophore, rev terminator nt Summary
Feat Generation: Emulsion PCR
Seq Rxn: Synthesis
Detection: Pyrosequncing Summary
Feat Generation: Emulsion PCR
Seq Rxn: Ligation
Detection: Fluorophore oligo probe Summary
Feat Generation: Single Molecule
Seq Rxn: Synthesis, RT
Detection: Phospholinked
Flurophore nt Mode A
~2x in output
600Gb (2x100bp)
rtime: ~2wks
Mode B
~120Gb
rtime:~30hrs ~20Gb
2x300bp up to 1kb reads
700Mb
Rtime: ~day Wildfire Technology
PPL sequencing
no more EmulsionPCR
8hr->2hr prep Summary
Feat Gen: Emul PCR
Seq Rxn: Synthesis
Detection: H+ ion PI-110m sensors
PII-650m sensors
PIII-1.2bn sensors (~200gb) Ion Chef
2 chips/run
more automation eXtreme Length reads (XL)
New Chemistry
pushing for avg read 7-9kb
1 Gigabases per SMRT Cell: Photo protected nucleotides expected at the end 2013 Lots of Hype, Promising a lot, delivering less IRYS Technology: long range genomic maps
nanochannels + single molecule imaging Sequence motif map of the MHC region (96 BACs 2 Haploid lib: PGF,COX) Potential Disadvantages:
Getting DNA to cooperate in channel (2000 channels 5% used.)
Sample prep (long pieces). PFGE?
current system can only work with mid-size genomes

Early Reports:
sea urchin genome
$300/chip (3samples/chip)
$900 run cost
50x for 160Mb genome
~90% genome coverage
Full transcript