Forum: Ion Torrent
06-08-2016, 05:32 AM
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Replies: 37
Views: 52,831
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Forum: Illumina/Solexa
01-11-2016, 10:26 AM
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Replies: 17
Views: 4,852
Deep sequence known regions known for targeted...
Deep sequence known regions known for targeted therapy for that cancer type. A handful of regions is all that is needed for lung. If they just want a signal of cancer before they do a larger panel,...
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Forum: The Pipeline
01-11-2016, 10:18 AM
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Replies: 16
Views: 23,888
MiniSeq name now taken by Illumina. Original...
MiniSeq name now taken by Illumina. Original MiniSeq now the Qiagen GeneReader?
Introducing the MiniSeq™ System: Our simplest, most affordable sequencing solution yet.
Speakers:
Stephen...
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Forum: Bioinformatics
09-02-2015, 05:32 AM
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Replies: 5
Views: 3,288
There were a few bugs in the software causing...
There were a few bugs in the software causing high counts and also duplication of columns during output concatenation that seem resolved when I contacted the developers. I only used the program a few...
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Forum: Bioinformatics
12-09-2013, 02:26 PM
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Replies: 1
Views: 1,245
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Forum: Sample Prep / Library Generation
09-30-2013, 04:47 PM
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Replies: 1
Views: 2,781
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Forum: Illumina/Solexa
09-23-2013, 08:33 AM
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Replies: 14
Views: 13,356
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Forum: Ion Torrent
09-20-2013, 07:59 AM
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Replies: 5
Views: 4,927
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Forum: Illumina/Solexa
08-20-2013, 03:48 PM
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Replies: 26
Views: 16,968
"According to the company, the new kit will...
"According to the company, the new kit will enable new applications on the MiSeq such as exome sequencing and transcriptome sequencing."
With 80% of exons being <200 bp (ave 170 bp), does Illumina...
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Forum: Illumina/Solexa
08-05-2013, 12:25 PM
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Replies: 15
Views: 22,237
no, see the description above regarding exon...
no, see the description above regarding exon size. Our exome libraries are usually 150-200 bp insert, run PE-76. Take the yield you get from MiSeq at the shorter PE, not PE-150 or PE-250. These...
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Forum: Illumina/Solexa
08-05-2013, 12:20 PM
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Replies: 55
Views: 32,796
Did you run human genomic DNA as input? If so,...
Did you run human genomic DNA as input? If so, how much do you recommend as input? I took a look at Bioo's kit and they used 50 ng of bacterial DNA as input. Understand this for straight bacterial...
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Forum: Bioinformatics
05-03-2013, 01:34 PM
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Replies: 5
Views: 3,288
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Forum: Bioinformatics
05-03-2013, 01:17 PM
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Replies: 5
Views: 3,288
Thank you very much for your reply and help.
...
Thank you very much for your reply and help.
http://ccb.jhu.edu/software/EDGE-pro/
T. Magoc, D. Wood, and S.L. Salzberg. EDGE-pro: Estimated Degree of Gene Expression in Prokaryotic Genomes....
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Forum: Bioinformatics
05-03-2013, 09:28 AM
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Replies: 5
Views: 3,288
EDGE-pro into DESeq, DESeq run error?
Hi All,
I am doing rRNA reduced, strand specific RNA-seq in bacterial species and decided to try EDGE-pro (Estimated Degree of Gene Expression in Prokaryotic Genomes) and then run the count table...
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Forum: Illumina/Solexa
03-29-2013, 02:28 PM
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Replies: 8
Views: 4,987
Apologies for the unclear terminology. I should...
Apologies for the unclear terminology. I should have said I made the amplicon larger. If I just used the standard amplicon nextera would integrate often only once or if twice it would cut off parts...
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Forum: Illumina/Solexa
03-28-2013, 08:38 PM
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Replies: 8
Views: 4,987
How well did the tagmentation work with FFPE...
How well did the tagmentation work with FFPE samples? You may have many fragments with one integration site, not allowing for the majority of your sample to have both adapters for the PCR step.
...
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Forum: Ion Torrent
03-04-2013, 05:35 AM
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Replies: 37
Views: 52,831
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Forum: Ion Torrent
03-02-2013, 12:07 PM
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Replies: 37
Views: 52,831
Me too, I was hoping to be able to do the...
Me too, I was hoping to be able to do the Ampliseq reaction, treat with USER to remove the dUTP bases and then do the standard blunt end ligation prep putting on Illumina adapters. Ampliseq looks...
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Forum: Illumina/Solexa
03-02-2013, 12:03 PM
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Replies: 3
Views: 3,586
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Forum: Core Facilities
10-31-2012, 12:54 PM
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Replies: 18
Views: 11,934
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Forum: Illumina/Solexa
10-14-2012, 12:30 PM
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Replies: 2
Views: 3,411
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Forum: Illumina/Solexa
10-10-2012, 07:47 AM
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Replies: 2
Views: 3,759
I am glad I was skeptical when I was told our...
I am glad I was skeptical when I was told our HiSeq 2500 upgrade would allow >= 80% Q30 on PE-150 runs in the fast run mode and to expect >= 95% Q30 for PE-100. I was hoping to run TSCAP 250 bp...
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Forum: Illumina/Solexa
10-10-2012, 07:42 AM
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Replies: 2
Views: 1,301
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Forum: Ion Torrent
10-09-2012, 03:07 PM
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Replies: 70
Views: 23,079
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Forum: Illumina/Solexa
10-09-2012, 03:04 PM
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Replies: 2
Views: 3,759
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