Forum: Bioinformatics
08-18-2017, 06:08 PM
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Replies: 2
Views: 1,482
Local realignements are helpful not because of...
Local realignements are helpful not because of sequencing quality concerns, but because of the general difficulty to get alignments right around indels, especially towards the end of reads .
Btw,...
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Forum: Illumina/Solexa
04-18-2017, 08:56 PM
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Replies: 19
Views: 7,805
It shows that PCR-free libraries can hide a...
It shows that PCR-free libraries can hide a larger amount of adapters and adapter dimers somehow entangled in the y-adapters. We have several times seen surprises with (on the BA) clean looking...
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Forum: Illumina/Solexa
04-13-2017, 09:21 AM
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Replies: 19
Views: 7,805
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Forum: Illumina/Solexa
04-12-2017, 10:33 AM
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Replies: 19
Views: 7,805
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Forum: Pacific Biosciences
11-11-2016, 12:15 PM
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Replies: 2
Views: 3,174
Please see: ...
Please see:
http://dnatech.genomecenter.ucdavis.edu/2016/11/10/new-service-long-read-sequencing-on-the-pacbio-sequel/
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Forum: Pacific Biosciences
11-11-2016, 11:51 AM
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Replies: 21
Views: 7,348
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Forum: Vendor Forum
10-14-2016, 03:27 PM
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Replies: 11
Views: 6,585
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Forum: Epigenetics
10-13-2016, 06:02 PM
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Replies: 9
Views: 4,547
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Forum: Events / Conferences
09-26-2016, 07:55 PM
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Replies: 0
Views: 1,414
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Forum: Epigenetics
05-30-2016, 01:30 PM
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Replies: 9
Views: 4,547
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Forum: RNA Sequencing
04-11-2016, 04:54 PM
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Replies: 3
Views: 1,862
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Forum: Events / Conferences
04-11-2016, 04:39 PM
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Replies: 0
Views: 1,669
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Forum: Academic/Non-Profit Jobs
01-25-2016, 10:56 AM
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Replies: 0
Views: 644
Sequencing and Genotyping Project Leader -SRA IV
Hi All,
the DNA Technologies Core (http://dnatech.genomecenter.ucdavis.edu/) at UC Davis is looking for a new staff member to manage and run Illumina HiSeq sequencers, establish protocols on...
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Forum: Illumina/Solexa
07-26-2015, 05:14 PM
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Replies: 2
Views: 5,324
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Forum: Illumina/Solexa
05-21-2015, 12:30 AM
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Replies: 53
Views: 88,549
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Forum: Illumina/Solexa
05-21-2015, 12:24 AM
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Replies: 22
Views: 23,754
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Forum: Illumina/Solexa
05-11-2015, 04:15 PM
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Replies: 22
Views: 23,754
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Forum: Illumina/Solexa
05-08-2015, 04:20 PM
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Replies: 22
Views: 23,754
Hi Brian,
Thanks for looking at the data. ...
Hi Brian,
Thanks for looking at the data. The files that I uploaded have 482,680,800 reads. The sequencer generates "reads" for each single nanowell - no matter if it is loaded or not. Thus,...
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Forum: Illumina/Solexa
05-08-2015, 01:11 PM
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Replies: 22
Views: 23,754
Hi Pmiguel,
the basic procedure looks like: ...
Hi Pmiguel,
the basic procedure looks like:
- 5 ul of library (2 nM to 3 nM including PhiX)
- add 5 ul 0,1 N NaOH
- add 5 ul Tris (200mM)
- add 35 ul Enzyme Master Mix
- load all 50 ul onto...
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Forum: Illumina/Solexa
05-08-2015, 11:37 AM
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Replies: 22
Views: 23,754
Hi GenoMax,
perhaps we are just being...
Hi GenoMax,
perhaps we are just being careful at the moment - since Illumina seems to be very careful and there is very little information so far. The customer samples (n=11) have been looking...
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Forum: Illumina/Solexa
05-08-2015, 10:44 AM
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Replies: 22
Views: 23,754
Hi Miguel,
the input was 5ul of PhiX at 2...
Hi Miguel,
the input was 5ul of PhiX at 2 nM. So far we have used 2 nM concentrations for all our libraries/lanes. Illumina recommends up to 3 nM.
From what our FAS told us, I got the...
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Forum: Illumina/Solexa
05-08-2015, 09:52 AM
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Replies: 22
Views: 23,754
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Forum: Bioinformatics
05-08-2015, 09:47 AM
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Replies: 6
Views: 2,648
Hi GenoMax,
Thanks! Currently there are no...
Hi GenoMax,
Thanks! Currently there are no local duplicate metrics in the SAV viewer and no options in bcl2fastq for flagging or filtering for these cases.
People working with X Ten data get...
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Forum: Illumina/Solexa
05-07-2015, 06:59 PM
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Replies: 22
Views: 23,754
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Forum: Bioinformatics
05-07-2015, 06:04 PM
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Replies: 6
Views: 2,648
HiSeq3000/4000 duplicate removal
Hi All,
Our Illumina FAS mentioned that in underloaded lanes on the patterned flow-cells even PCR-free libraries can generate significant numbers of duplicates (clusters swapping over the "walls"...
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