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

Any idea if the HS4000/5000 are using 4-color or 2-color chemistry?

I think that's Nextseq only?
Looks to me like they've just stuck HiseqX-style flowcells in the 2500 system.

Except that I'm pretty sure the X-series do use 2-dye chemistry, the same as NextSeq...

Possible upgrade path for current 2500 owners?

I am not going to hold my breath though.

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...

LOL, just like I was able to upgrade my v2-camera 2500's for the v4 chemistry....

New toys for one person is a funding/migration headache for another. Especially if there is no upgrade path. :-(

Made the title more explicit and promoted to the front page...

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).

There are data from PCR-free, RNA-Seq and NRC libraries sequenced on HiSeq 4000 in BaseSpace.

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.

#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...

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.

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...

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...)

More like Intel model. e.g. socket LGA2011 --> LGA2011-v3 (not backwards compatible).

Pretty sure they will initially only support 2x125 in 3.5 days

"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

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.