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Last edited by aeonsim; 01-15-2014, 02:00 PM.
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There is still one thing I don't quite understand about HiSeqX. That is: do you need to buy it in 10-pack? It appears to me Table 1 in their data sheet shows the stat for one box. It doesn't seem to me you need 10 boxes to run together to archieve that throughput.
Is it because if you buy it in 10-pack, then you get a significant hardware discount such that the lower instrument depreciation cost can push the cost of 30x genome to be under $1,000?
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Originally posted by ymc View PostThere is still one thing I don't quite understand about HiSeqX. That is: do you need to buy it in 10-pack? It appears to me Table 1 in their data sheet shows the stat for one box. It doesn't seem to me you need 10 boxes to run together to archieve that throughput.
Is it because if you buy it in 10-pack, then you get a significant hardware discount such that the lower instrument depreciation cost can push the cost of 30x genome to be under $1,000?
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Originally posted by GW_OK View PostReally, this is a bit of a giant FU to Complete Genomics and, uh, BGI.
But I heard that they have more management issues than technical issues.
Anyway, if Dr Yang can convince the right commies again to buy a bunch of HiSeqX Ten, he can still be in the game. The NYT news today said China printed more money than the US.
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Originally posted by AllSeq View PostThe restriction is that the minimum purchase is 10 machines at a time (but they don't need to be purchased only in 10s - someone had an initial order of 14). There has been nothing to indicate that the instruments operate together - it's just a minimum purchase defined by Illumina (essentially for pure marketing purposes - if you can't afford 10, you aren't in the right customer segment for this machine). Same logic behind restricting it to running human samples - pure marketing choice.
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Originally posted by SNPsaurus View PostThe rep at PAG said they planned on selling 4 "X boxes" in 2014--and had already sold 3 30 minutes after the announcement.
The NextSeq500 is clearly aimed at people considering a Proton. Same price, same emphasis on speed, better stats right now. I don't like that the only single-end mode is 75 bp. Lots of people like the 150 bp read on the 2500 Rapid. And the other downside is that all 4 lanes (100M reads each) get fed the same library, so doesn't improve flexibility in flow of projects at a facility. But a nice mid-machine.
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Originally posted by aeonsim View PostWhat I'd like is some more detailed explanation of the 2-dye system the NextSeq 500 is using. I assume they provide C & A tagged with Red, T & A tagged with green & G untagged, thus C should be pure Red, T pure green and A ~ a 50:50 mix of green & red (orange) and G then undyed...
Would not a bubble in the flowcell result in all those clusters being called "G"? (At least for the bottom surface.)
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Originally posted by pmiguel View PostSo if you have 5 Gs at the beginning of a template, there will be no cluster found?
Would not a bubble in the flowcell result in all those clusters being called "G"? (At least for the bottom surface.)
You'll end up losing less than 0.1% of your clusters assuming total randomness (1 / 4^5) but I guess that's a hit worth taking to effectively half the imaging time.
One thing I'd like to know is whether NextSeq employs the empirical phasing calculations used on the MiSeq, or whether that's too computationally expensive.
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Originally posted by GenoMax View PostAFA I can tell NextSeq 500 does not use ordered flowcells and the two color chemistry is only for that instrument.
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Originally posted by Chipper View PostNot sure where you got that from or why they would not include the new flow system, chemistry and optics in a machine that was designed to reduce cost and increase throughput. This is from http://www.illumina.com/systems/hise...ng-system.ilmn :
Building on the proven performance of Illumina SBS technology, HiSeq X Ten utilizes a number of advanced design features to generate massive throughput. Patterned flow cells, which contain billions of nanowells at fixed locations, combined with a new clustering chemistry deliver a significant increase in data density (6 billion clusters per run). Using state-of-the art optics and faster chemistry, HiSeq X Ten can process sequencing flow cells more quickly than ever before – generating a 10x increase in daily throughput when compared to current HiSeq® 2500 performance.
1) They've only mentioned them for use on the HiSeq X
2) In conversations with people from Illumina (prior to Tuesday's announcement), they said that the patterned flow cells would be restricted to the human whole genomes.
I don't think there is any technical reason to limit these new flow cells to the HiSeq X. I think it's just a marketing decision.
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Our take on the "$1000" genome
On our blog we've given our take on Illumina's "$1000" genome and why it still isn't available for most people.
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