Forum: Illumina/Solexa
05-07-2019, 11:38 AM
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Replies: 14
Views: 4,202
The NaOH concentrations are about what they...
The NaOH concentrations are about what they should be for each individual step of the process. The only thing I haven't seen before is starting with a 10nM library-- the standard protocols I've seen...
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Forum: Illumina/Solexa
05-01-2019, 01:40 PM
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Replies: 14
Views: 4,202
Following up on microgirl123's post, do you...
Following up on microgirl123's post, do you periodically check the pH of the NaOH? The stock should be high of course, but even the 0.2N should be 13 or so.
The only other immediate thing I can...
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Forum: Illumina/Solexa
08-10-2017, 07:26 AM
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Replies: 9
Views: 2,670
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Forum: Illumina/Solexa
08-07-2017, 01:32 PM
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Replies: 1
Views: 1,692
Hi Maria,
I'm not familiar with this exact...
Hi Maria,
I'm not familiar with this exact error message but it sounds like the machine may have had difficulty finding a plane of focus for the flow cell.
The very first thing you should do...
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Forum: Illumina/Solexa
07-21-2017, 07:30 AM
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Replies: 22
Views: 7,640
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Forum: Illumina/Solexa
07-20-2017, 12:21 PM
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Replies: 22
Views: 7,640
It looks to me like you might be having two...
It looks to me like you might be having two problems, though the degree to which each contributes to a failed run may be hard to isolate
The 16s libraries seem to be causing an issue since they're...
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Forum: Illumina/Solexa
07-20-2017, 09:50 AM
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Replies: 22
Views: 7,640
I'm not sure. The change in PhiX might be the...
I'm not sure. The change in PhiX might be the issue-- this does seem to be pretty low diversity sequence, but I can't imagine that 15% instead of 20% could make that much of a difference.
I'm a...
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Forum: Illumina/Solexa
07-20-2017, 07:47 AM
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Replies: 22
Views: 7,640
I noticed the phasing/prephasing numbers, too,...
I noticed the phasing/prephasing numbers, too, Joe, but when compared to test 16s data from Illumina on basespace, the data here really don't seem all that extreme.
Joanna-- you said you quantify...
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Forum: Illumina/Solexa
07-19-2017, 08:33 AM
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Replies: 22
Views: 7,640
Also, can you post some screenshots of the run...
Also, can you post some screenshots of the run metrics: the run and lane metrics table, an intensity vs cycle plot (the charts dashboard page from basespace is perfect), and maybe a screenshot of one...
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Forum: Illumina/Solexa
07-19-2017, 08:28 AM
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Replies: 22
Views: 7,640
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Forum: Illumina/Solexa
05-31-2017, 09:08 AM
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Replies: 1
Views: 1,331
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Forum: Illumina/Solexa
01-19-2017, 08:40 AM
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Replies: 68
Views: 26,740
My lab is looking at bringing in the TruSight...
My lab is looking at bringing in the TruSight Tumor 15 assay. It seems like most of the v3 issues are related to low complexity libraries (16s RNA-seq reads, etc.) so I'm assuming that we'll be okay...
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Forum: Illumina/Solexa
01-11-2017, 08:36 AM
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Replies: 113
Views: 37,144
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Forum: Illumina/Solexa
01-10-2017, 09:44 AM
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Replies: 113
Views: 37,144
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Forum: Illumina/Solexa
01-10-2017, 09:39 AM
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Replies: 113
Views: 37,144
That was going to be my next question.
For...
That was going to be my next question.
For the question regarding flow cell lanes, here's a screencap from the Illumina website. The flow cells definitely have lanes, albeit fewer than the 8...
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Forum: Illumina/Solexa
01-10-2017, 09:23 AM
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Replies: 113
Views: 37,144
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Forum: Illumina/Solexa
10-17-2016, 09:30 AM
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Replies: 18
Views: 7,248
Hi dorix,
The issue you're having is, I...
Hi dorix,
The issue you're having is, I think, rather common. It helps to look at the overall shape of the electropherogram in the bioanalyzer data and make sure that it looks like appropriate for...
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Forum: Illumina/Solexa
09-27-2016, 01:41 PM
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Replies: 28
Views: 5,693
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Forum: Illumina/Solexa
09-27-2016, 10:40 AM
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Replies: 28
Views: 5,693
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Forum: Illumina/Solexa
09-27-2016, 09:01 AM
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Replies: 28
Views: 5,693
Wait, so we can't even do FastQC with a free...
Wait, so we can't even do FastQC with a free account? I was able to run it, but like I said yesterday, my account is still in trial mode. Are you just trying to use the Illumina/BaseSpace Labs 16s...
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Forum: Illumina/Solexa
09-26-2016, 11:16 AM
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Replies: 28
Views: 5,693
Does that apply to all apps or just the third...
Does that apply to all apps or just the third party ones that we would normally be paying for? Right now, it looks like the usual basic analyses I'm used to running are still accessible from a basic...
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Forum: Illumina/Solexa
08-31-2016, 07:06 AM
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Replies: 6
Views: 3,244
Your best bet on that score is probably your...
Your best bet on that score is probably your field support from Illumina, for a MiSeq probably your FAS. The error codes aren't closely guarded secrets, but I'm not aware of a collection of codes...
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Forum: Illumina/Solexa
08-25-2016, 10:12 AM
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Replies: 6
Views: 3,244
What Genomax said.
I'd add that if you...
What Genomax said.
I'd add that if you don't have your MiSeq under a maintenance agreement, you may want to consider getting one first, as the service visit and repair can easily exceed the cost...
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Forum: Illumina/Solexa
08-10-2016, 05:49 AM
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Replies: 2
Views: 2,772
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Forum: Illumina/Solexa
08-01-2016, 10:26 AM
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Replies: 6
Views: 1,849
In theory, I think you might be okay to use the...
In theory, I think you might be okay to use the 20pM denatured libraries? 20pM PhiX is good for something like three weeks, but I'd add a caveat about not assuming they'll just behave the same. Like...
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