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Forum: Illumina/Solexa 11-09-2013, 04:19 AM
Replies: 16
Views: 13,076
Posted By victorsor
I agree with Mcchan in that the best method for...

I agree with Mcchan in that the best method for size selection is the gel cut. We have obtained very good results both with Truseq and NEBnext. However the size that you can be obtained depend of...
Forum: Illumina/Solexa 04-27-2013, 06:06 AM
Replies: 28
Views: 13,722
Posted By victorsor
We have performed an experiment in which have...

We have performed an experiment in which have obtained about 5KK reads PF of 16S.
Strategy:
Caporaso primers with CS1-CS2 tails for a second PCR for indexing
Loaded at 10 pM with 50% Phix...
Forum: Ion Torrent 04-19-2013, 04:18 AM
Replies: 70
Views: 21,672
Posted By victorsor
That is the key point. If comparing Miseq with...

That is the key point. If comparing Miseq with Proton (the bigger brother of PGM) both of them are similar, then implicitly it recognizes that between "personal sequencers" Miseq is much better than...
Forum: Ion Torrent 04-18-2013, 07:06 AM
Replies: 70
Views: 21,672
Posted By victorsor
If the machine "star" of Life (not yet on the...

If the machine "star" of Life (not yet on the market) is only able to produce less than double output that Miseq (17 M. of reads x 500 bases= 8.5 GB this data at specifications 850 K/mm2 but...
Forum: Illumina/Solexa 08-29-2012, 04:33 AM
Replies: 17
Views: 6,837
Posted By victorsor
Thank you all. We will try to do your suggestions...

Thank you all. We will try to do your suggestions when run finish. I hope that not all data go to waste...
Forum: Illumina/Solexa 08-28-2012, 12:35 PM
Replies: 17
Views: 6,837
Posted By victorsor
Yes is a GAIIx run Thanks for your...

Yes is a GAIIx run


Thanks for your comments. All that can help us to not waste all data is appreciated.
However, if in the current run already the option of use a control lane is used, in what...
Forum: Illumina/Solexa 08-28-2012, 05:29 AM
Replies: 17
Views: 6,837
Posted By victorsor
Probably i do not explained well. A control lane...

Probably i do not explained well. A control lane is already defined in the current run.
Forum: Illumina/Solexa 08-28-2012, 02:49 AM
Replies: 17
Views: 6,837
Posted By victorsor
thanks to Simon

Thanks alot for your rapid and extended answer.
We have a control lane unaffected by the bias, therefore i think that "redefine" the matrix is not an option. Is it correct?
Techsupport suggested us...
Forum: Illumina/Solexa 08-27-2012, 10:57 AM
Replies: 17
Views: 6,837
Posted By victorsor
In our current run we have a problem related that...

In our current run we have a problem related that you mentioned. Cluster are identified (about 500.000 per tile) but 0% pass-filter. We see that en 4 of the 5 first cycles P90 A, C, G, T is 0 but...
Forum: Sample Prep / Library Generation 08-26-2012, 02:24 AM
Replies: 5
Views: 4,678
Posted By victorsor
We saw the same peaks but a very lower extent in...

We saw the same peaks but a very lower extent in some Truseq DNA libraries. Sequencing of this libraries confirmed that those peaks are truseq controls. After that, we never use again controls.
Forum: Sample Prep / Library Generation 03-18-2012, 01:36 AM
Replies: 14
Views: 55,784
Posted By victorsor
I'm not sure that the peak sizes are well...

I'm not sure that the peak sizes are well assigned. Fluorescence intensity of high marker is aproximately the same that Low marker, so i think that is more probably that the "587 pb peak" is the High...
Forum: Sample Prep / Library Generation 03-18-2012, 01:17 AM
Replies: 14
Views: 55,784
Posted By victorsor
This is not true, concentration of NANO ladder is...

This is not true, concentration of NANO ladder is 150 ng/ul, about 30 ng for each peak. 1 ng/ul is the concentration of PICO ladder.
Forum: Sample Prep / Library Generation 03-11-2012, 03:07 AM
Replies: 14
Views: 55,784
Posted By victorsor
More over, if you run a 7500 chip with HS...

More over, if you run a 7500 chip with HS protocol and reagents, works as a HS chip.
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