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Old 09-13-2012, 07:58 PM   #1
rzero
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Default Avalanche and Ion Chef

http://www.bizjournals.com/sacrament.../09/13/LA74205

Anyone know how these work?
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Old 09-13-2012, 08:25 PM   #2
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Wow, if the PIII chip really can deliver 256Gb of sequence data with 'just minutes of hands on time' it will be serious competition for the HiSeq. But since we haven't even seen the PII chip yet I wonder how much of that is just speculative hype to ramp up early sales...

I think my lab is getting a proton so I hope they can deliver.
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Old 09-13-2012, 11:29 PM   #3
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P3 chip has been in the cards for eternity. Just look at the seminal article talking about die sizes and feature counts. 1.2B features was named year(s) ago.

As for Avalanche, I wouldn't be surprised if it is Wildfire on Ion. I'd be interested to know if it is still bead-based, however.

Ion Chef - if you have been on the community, you've seen some cool videos of people automating chip loading. It's just an expansion of what's already out there.
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Old 09-14-2012, 12:16 AM   #4
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I am pretty sure I was told the Proton would launch with 400 bp reads. Can anyone confirm? I'm disappointed they don't go beyond 100 and 200 bp...
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Old 09-14-2012, 12:43 AM   #5
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I've written up some notes and thoughts on the announcement here:

http://pathogenomics.bham.ac.uk/blog...announcements/

Lex: When it was announced at AGBT we did the maths on sensors vs throughput and speculated they were targeting 200-250 bases. Most of the marketing literature has since said 200. Not sure I ever heard 400 bases mentioned as a target for Proton.
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Old 09-14-2012, 12:58 AM   #6
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Quote:
Originally Posted by flxlex View Post
I am pretty sure I was told the Proton would launch with 400 bp reads. Can anyone confirm? I'm disappointed they don't go beyond 100 and 200 bp...
You are probably linking two separate things which have similar launch dates. Proton is "second half" and 400 bp is "before year end". Personally, I'd rather have a machine with a 10, 100, 1000 G spec on 100 or 200 bp so it'll pump out more data with better/longer chemistries.

If you are specifically looking for 100% 454 replacement, then I understand where you are coming from.
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Old 09-14-2012, 03:26 AM   #7
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Quote:
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As for Avalanche, I wouldn't be surprised if it is Wildfire on Ion. I'd be interested to know if it is still bead-based, however.
The press release said it will work for all Ion platforms. Guess that implies beads.
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Old 09-14-2012, 03:34 AM   #8
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Quote:
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I am pretty sure I was told the Proton would launch with 400 bp reads. Can anyone confirm? I'm disappointed they don't go beyond 100 and 200 bp...
400 bp have been announced for 2012 and they already realease one dataset that looks pretty impressive. No word of when the kit is going to be available exactly.
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Old 09-14-2012, 03:53 AM   #9
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Avalanche seems exciting. Plus, it is out now. Hope to see some user reports soon.
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Old 09-14-2012, 08:28 AM   #10
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Quote:
Originally Posted by steinmann View Post
The press release said it will work for all Ion platforms. Guess that implies beads.
They said the Ion Chef would work for all Ion platforms, not Avalanche. Different things.
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Old 09-14-2012, 08:28 AM   #11
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Quote:
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400 bp have been announced for 2012 and they already realease one dataset that looks pretty impressive. No word of when the kit is going to be available exactly.
They announced 400 bp for PGM, not Proton and it's supposed to be by the end of the year. 300 bp for PGM is available.
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Old 09-14-2012, 08:29 AM   #12
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Quote:
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Avalanche seems exciting. Plus, it is out now. Hope to see some user reports soon.
Avalanche isn't out now, it's only mentioned as an enabling technology for the PIII chip which is supposed to be 18 months away.
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Old 09-25-2012, 09:06 AM   #13
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Quote:
Originally Posted by nickloman View Post
Avalanche isn't out now, it's only mentioned as an enabling technology for the PIII chip which is supposed to be 18 months away.
Well they are going to let the cat out of the bag ....9th October 2012
"Mutation Detection and Exome Sequencing Using Wildfire and Ion PGM® Technology" Gijs van Haaften PhD, Netherlands Cancer Institute
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Old 09-27-2012, 11:55 AM   #14
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Quote:
Originally Posted by DICER View Post
Well they are going to let the cat out of the bag ....9th October 2012
"Mutation Detection and Exome Sequencing Using Wildfire and Ion PGM® Technology" Gijs van Haaften PhD, Netherlands Cancer Institute
Where did you find this, and is there a description of this presentation? They could be using both Wildfire and Ion Torrent PGM Technology, or Wildfire with Ion PGM technology, based on the wording of the title.
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Old 09-27-2012, 12:33 PM   #15
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This appears to be from an Ion Torrent workshop in Russia and my guess is the former (describing both Wildfire and PGM, but not the two working together).
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Old 09-27-2012, 12:34 PM   #16
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As I suspected.
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Old 09-27-2012, 01:00 PM   #17
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Avalanche is not Wildfire.
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Old 11-14-2012, 07:27 AM   #18
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Quote:
Originally Posted by IonTorrent View Post
Avalanche is not Wildfire.
That's what I heard from the guy who worked on the development of wildfire (he had a poster at ASHG).

I've heard the following:
1. no ISPs
2. isothermal
3. amplicons directly attached to surface

FWIW. Interesting to say the least...
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