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Old 01-12-2015, 10:36 AM   #1
GW_OK
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Default Lotsa new toys from Illumina: HiSeq X Five, 3000, 4000, NextSeq 550

Hiseq 4000
Hiseq 3000
Nextseq 550
HiseqX 5

http://www.illumina.com/company/news...newsid=2006979
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Old 01-12-2015, 11:02 AM   #2
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Any idea if the HS4000/5000 are using 4-color or 2-color chemistry?
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Old 01-12-2015, 11:09 AM   #3
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I think that's Nextseq only?
Looks to me like they've just stuck HiseqX-style flowcells in the 2500 system.
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Old 01-12-2015, 11:21 AM   #4
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Except that I'm pretty sure the X-series do use 2-dye chemistry, the same as NextSeq...
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Old 01-12-2015, 11:28 AM   #5
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Quote:
Originally Posted by GW_OK View Post
I think that's Nextseq only?
Looks to me like they've just stuck HiseqX-style flowcells in the 2500 system.
Possible upgrade path for current 2500 owners?

I am not going to hold my breath though.
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Old 01-12-2015, 11:53 AM   #6
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Quote:
Originally Posted by Brian Bushnell View Post
Except that I'm pretty sure the X-series do use 2-dye chemistry, the same as NextSeq...
Can't find any literature that says anything other than the Nextseq uses 2 colors. In fact, isn't this why the Nextseq currently has GC problems? Haven't heard anything about that with the HiseqX...
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Old 01-12-2015, 11:54 AM   #7
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Quote:
Originally Posted by GenoMax View Post
Possible upgrade path for current 2500 owners?

I am not going to hold my breath though.

LOL, just like I was able to upgrade my v2-camera 2500's for the v4 chemistry....
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Old 01-12-2015, 12:00 PM   #8
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New toys for one person is a funding/migration headache for another. Especially if there is no upgrade path. :-(
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Old 01-12-2015, 01:29 PM   #9
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Made the title more explicit and promoted to the front page...
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Old 01-12-2015, 01:52 PM   #10
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This http://blog.illumina.com/blog/illumi...eq-4000-system says the 4000 uses 4-color.

This http://www.illumina.com/content/dam/...0-2014-057.pdf says that 1 flowcell does 50 transcriptomes per run at 50M reads each, so that is >300M reads per lane. Looks faster as well, if the longest run time is 3.5 days (not sure if that would be for 1x150bp or 2x150bp).
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Old 01-12-2015, 02:06 PM   #11
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There are data from PCR-free, RNA-Seq and NRC libraries sequenced on HiSeq 4000 in BaseSpace.
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Old 01-12-2015, 02:35 PM   #12
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Heard from someone that the cluster and reagent kits are similar in price to current Hiseq 2000 reagents, which would mean the price per read is quite a bit lower.
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Old 01-13-2015, 04:56 AM   #13
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#SNPsaurus:
I assume it will be 2x 150 bp in 3.5 days.
2.1 to 2.5 billion clusters per flow cell, in a 2x150 bp run is 630 - 750 Gb.
With a speed >200Gb per day a 2x 150 bp run will take 3.5 days.

I wonder if we can upgrade the 2500 V4 machine to a 4000 version...
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Old 01-13-2015, 05:23 AM   #14
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It looks to me that the 3000/4000 only accept 8 lane flow cells (high-output). If true then the trade off for throughput is flexibility.
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Old 01-13-2015, 07:01 AM   #15
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Quote:
Originally Posted by GenoMax View Post
Possible upgrade path for current 2500 owners?

I am not going to hold my breath though.
Ditto. I think supporting the patterned flow-cells would require too much of a reworking of the guts...

Seems like they are following the Apple product release model...
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Old 01-13-2015, 08:43 AM   #16
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Quote:
Originally Posted by Brian Bushnell View Post
Except that I'm pretty sure the X-series do use 2-dye chemistry, the same as NextSeq...
The X series uses the standard 4-dye chemistry. NextSeq is the only one to use 2-dye. (And the one that people seem to be having the most problems with in terms of quality...)
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Old 01-13-2015, 08:54 AM   #17
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Quote:
Originally Posted by austinso View Post
Seems like they are following the Apple product release model...
More like Intel model. e.g. socket LGA2011 --> LGA2011-v3 (not backwards compatible).
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Old 01-13-2015, 08:57 AM   #18
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Pretty sure they will initially only support 2x125 in 3.5 days
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Old 01-13-2015, 07:35 PM   #19
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"The 3000 is to the 4000 as the 1000 was to the 2000 and the 1500 to the 2500" Nice summary here: https://biomickwatson.wordpress.com/...00-in-context/

- Genohub
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Old 01-13-2015, 09:18 PM   #20
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The one difference with these machines is the throughput. A university facility needed 2 flow cells that could be run independently to help manage a queue, since a paired end run would be almost two weeks (less now). But if most runs are 1-3 days, then that is less of a problem. I suspect the 3000 won't be substantially cheaper so it won't be appealing since you might as well get twice the capacity for a little extra, but some of the other reasons are less important for these machines.
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