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CHI Next Generation Sequencing, San Diego March 17-19, 2009
CHI's latest Next-Generation Sequencing meeting takes place in San Diego, March 17-19, 2009. Highlights include a keynote from Richard Gibbs, updates from all the major commercial platforms, and one of the first presentations from Complete Genomics (Rade Drmanac).
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Kevin Davies
Author, The $1,000 Genome -
For those who have been to CHI meetings... what is your experience? From their millions of advertising emails, I have become a little suspicious of the commercial nature of the conference. -
I'm biased (being affiliated with CHI) but the Next-Gen Sequencing meetings are among the best attended, fastest growing events. Yes, there's a strong presence of commercial technology suppliers, but most of the audience likes that -- at least for this topic. With the exception of AGBT, this is one of the best places to get information and network.Kevin Davies
Author, The $1,000 GenomeComment
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thanks for the info.
I agree that AGBT is probably the best venue and that commercial involvement is now critical in this field.
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"commercial" nature of the conference is a great feature. For example, in this conference we discovered a new startup which invented technology to perform next gen sequence alignment 100 times faster than any other solution. We don't have the budget for big cluster like some of you big time genome centers. With these guys' tool, we do alignment on one computer, and it cuts our total sample sequencing time by a day. Its nice to hear academics talking about their wonderful science (fiction), but we go to this conference to also pick up the latest technology "real solutions", and for that we need "commercial" vendors. Unfortunately Next Gen sequencing is not main stream enough that we can get the best tools automatically from Microsoft and Intel... no , we rely on small innovative start ups (often formed by professors !!) and the only way we find out about them is these "commercial" shows.Comment
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BioWizard, again, please see your PM box before posting further about aligners. Thanks!Originally posted by BioWizard View PostComment
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BioWizard:Originally posted by BioWizard View Post
I agree that great collaboration must exist between commercial and academic initiatives. It just sometimes, highly commercial talks just end up being advertisement without much discussion of method/development. I think there are a proliferation of open source efforts within the next generation markets which allows for all players to be involved.
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Yes, doxologist, there is "something for everyone".Comment
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Slightly off topic, but CHI is going a bit extra with their marketing.. I feel so especially after I got the pre-recorded Kevin Davies call close to mid-night asking to consider attending BioIT world Expo and networking with 1500 people .. blah..blah..Originally posted by doxologist View Post--
bioinfosmComment
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Small Group Gathering regarding aligners
Hello,
I will be attending the CHI conf in San Diego and for the ones that are interested in aligners I would like to propose a small group discussion in between talks.
Date and time will be determined soon. Will anyone be interested on getting together to share ideas re the storm of aligners and the short read headache we all tend to deal with?
VictorComment
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I'll be there and am interested in hearing of short read aligning headaches, but I'll only be around intermittently since this is a very busy month for me. I'll follow this thread to find out where to meet.Comment
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Would there be some kind of Video Archive for us to peek into after the conference is over? like AACR for e.g.?Comment
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My guess is no, but I'll post my slides online (still trying to cram one or two in though now).Comment
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If there is enough interest... How about getting together tomorrow Wed. There is a question-answer session at 5:40. Maybe after this session?
If this doesn't work perhaps Thursday during lunch?
VictorComment
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Conference update.
Interesting Panel discussion today.
A representative from Illumina, Roche, Solid and Helicos were all side by side answering questions from the audience.
The common problem was scalability. All four are working on trying to use a little sample as possible (well as Helicos) and make easier to run more samples. Gel/PCR free protocols are on the way.
Have not heard of a GAIII yet from Illumina. I did hear from the 1.4 pipeline.
It supposed to do a better job extracting intensities from images. So, do we save the images after all?
victorComment
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM
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