Forum: Academic/Non-Profit Jobs
01-13-2016, 03:41 AM
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Replies: 0
Views: 848
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Forum: Illumina/Solexa
06-16-2013, 01:21 PM
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Replies: 75
Views: 34,148
I echo GW_OK & DNA_DAN with regard to the...
I echo GW_OK & DNA_DAN with regard to the nanodrop - should not be relied on for any library quantification at any stage. My advice if you want to quantify outside of your KAPA protocol use a QUBIT...
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Forum: Sample Prep / Library Generation
03-06-2013, 01:14 AM
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Replies: 10
Views: 3,860
We have had our BioRupter for almost 5yrs and...
We have had our BioRupter for almost 5yrs and have had no issues with it. We are very careful to ensure that the unit is thoroughly cleaned and dried after each use and carry out regular tests with...
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Forum: Illumina/Solexa
02-18-2013, 03:06 PM
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Replies: 145
Views: 322,356
The original adapters (what I called legacy)...
The original adapters (what I called legacy) released by Illumina are not exactly the same sequence as the currently in use TruSeq adapters - e.g. old adapters did not have indexes TruSeq ones do....
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Forum: Illumina/Solexa
02-18-2013, 04:04 AM
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Replies: 145
Views: 322,356
The library schematic you are looking at is for...
The library schematic you are looking at is for legacy Illumina adapters not the the TruSeq versions. The original adapters required a PCR step to add the portion of the library that attaches to the...
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Forum: The Pipeline
11-06-2012, 09:23 AM
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Replies: 104
Views: 148,152
Two interesting nuggets..
Oxford Nanopore to...
Two interesting nuggets..
Oxford Nanopore to Unveil New DNA Sequencers This Week
http://www.businessweek.com/news/2012-11-06/oxford-nanopore-to-unveil-new-dna-sequencers-this-week
Oxford...
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Forum: Sample Prep / Library Generation
10-24-2012, 10:42 AM
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Replies: 12
Views: 12,386
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Forum: Sample Prep / Library Generation
10-24-2012, 08:24 AM
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Replies: 12
Views: 12,386
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Forum: Sample Prep / Library Generation
10-24-2012, 08:01 AM
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Replies: 12
Views: 12,386
Completely agree with pbluescript and in fact I...
Completely agree with pbluescript and in fact I personally would change that limit to 15-20 ng/uL. Nanodrop is good for 260/280 and 260/230 ratios but for accurate quantification at the lower 10 ng...
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Forum: Events / Conferences
10-24-2012, 07:23 AM
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Replies: 2
Views: 1,425
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Forum: Bioinformatics
10-24-2012, 06:34 AM
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Replies: 4
Views: 1,872
Here is info for PC - is pre 7 but try and see...
Here is info for PC - is pre 7 but try and see if you can use it...
To increase the memory allocation, create a shortcut for the Artemis program and right click on the shortcut icon. In the box...
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Forum: Bioinformatics
10-24-2012, 04:14 AM
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Replies: 4
Views: 1,872
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Forum: Sample Prep / Library Generation
10-18-2012, 10:52 AM
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Replies: 7
Views: 2,868
We too have used a Biorupter for many gDNA...
We too have used a Biorupter for many gDNA libraries including DNAs from organisms with high GC content and have not seen any positional bias. I agree that the enrichment step may be the problem area
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Forum: Sample Prep / Library Generation
09-27-2012, 02:58 AM
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Replies: 12
Views: 17,342
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Forum: Illumina/Solexa
09-26-2012, 02:48 AM
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Replies: 5
Views: 2,720
Hi, we've done many fragmentations with our...
Hi, we've done many fragmentations with our Biorupter and have found the best parameters are 30sec ON/30sec OFF on high power. Make sure the bath is filled with water-ice mix. I usually do 15 min...
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Forum: Literature Watch
09-25-2012, 10:13 AM
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Replies: 3
Views: 3,249
Brief Bioinform. 2012 Sep 17. [Epub ahead of...
Brief Bioinform. 2012 Sep 17. [Epub ahead of print]
A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis.
Dillies MA, Rau A, Aubert J,...
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Forum: Sample Prep / Library Generation
09-19-2012, 03:32 AM
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Replies: 18
Views: 15,268
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Forum: Illumina/Solexa
09-10-2012, 03:03 AM
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Replies: 8
Views: 2,137
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Forum: Illumina/Solexa
08-27-2012, 06:07 AM
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Replies: 9
Views: 6,208
I would recommend Qubit HS DNA, nano drop is...
I would recommend Qubit HS DNA, nano drop is unreliable for library quantification. We routinely make our 10 nM dilutions from Qubit ng/uL values and library peak sizing (from Agilent HS DNA chips or...
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Forum: Sample Prep / Library Generation
08-20-2012, 04:04 AM
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Replies: 3
Views: 6,067
Hi Sean,
In a previous lab I frequently used...
Hi Sean,
In a previous lab I frequently used LPA for low conc RNA precipitations of tRNA substrates and it worked very well - see old paper attached for comparison of carriers for precipitation....
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Forum: Sample Prep / Library Generation
08-02-2012, 08:01 AM
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Replies: 18
Views: 4,250
We had a set of samples that were not properly...
We had a set of samples that were not properly DNased and the DNA carried through the library prep and was identified when we mapped the reads and found both genome and transcription coverage. My...
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Forum: Sample Prep / Library Generation
08-02-2012, 02:42 AM
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Replies: 10
Views: 3,860
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Forum: Sample Prep / Library Generation
08-02-2012, 02:34 AM
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Replies: 18
Views: 4,250
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Forum: Bioinformatics
07-31-2012, 01:30 PM
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Replies: 4
Views: 2,010
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Forum: Illumina/Solexa
07-31-2012, 09:55 AM
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Replies: 2
Views: 1,283
Are you sure they are not mitochondrial...
Are you sure they are not mitochondrial transcripts. It depends on the organism that you are working with but various euks polyadenylate both nuclear and mitochondrially derived transcripts - with...
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