SEQanswers

Go Back   SEQanswers > Search Forums

Showing results 1 to 25 of 468
Search took 0.03 seconds.
Search: Posts Made By: luc
Forum: Oxford Nanopore Yesterday, 04:58 PM
Replies: 0
Views: 57
Posted By luc
Sequencing and demultiplexing Illumina-style libraries on Nanopore?

Would you have any tips on potentially sequencing and demultiplexing Illumina-style libraries (e.g. dual indices 2x 10bp) on the MinION or the PromethION?
Barcoding of amplicons via PCR and highly...
Forum: Sample Prep / Library Generation 11-30-2021, 08:47 PM
Replies: 1
Views: 1,424
Posted By luc
You only had three samples on the run? Thus, the...

You only had three samples on the run? Thus, the complexity of the index reads will be low and the quality of the index reads will be impacted due to extremely high fluorescence intensities in the...
Forum: Bioinformatics 10-13-2021, 06:01 PM
Replies: 4
Views: 2,878
Posted By luc
I very much agree. Thanks HESmith!

I very much agree. Thanks HESmith!
Forum: Introductions 09-29-2021, 10:50 AM
Replies: 1
Views: 2,146
Posted By luc
To my knowledge, your idea is supported by only...

To my knowledge, your idea is supported by only two kits, Perkin Elmer Combo-Seq and Bio-Rad SEQuoia. We have no experience with these, though.
I am not sure if the combined sequencing makes sense,...
Forum: Bioinformatics 09-29-2021, 10:22 AM
Replies: 4
Views: 2,878
Posted By luc
Sorry, I have no idea what could be happening...

Sorry, I have no idea what could be happening here. Have you checked the quality of both forward and the reverse reads with FASTQC, FASTP or similar?
Forum: Illumina/Solexa 09-24-2021, 04:19 PM
Replies: 12
Views: 14,246
Posted By luc
Me neither. The thread is very old, though....

Me neither. The thread is very old, though. Likely the attachments did get lost when the website setup was moved to a new server?
Forum: Illumina/Solexa 09-24-2021, 04:14 PM
Replies: 1
Views: 2,142
Posted By luc
You will not need a library prep kit. You can add...

You will not need a library prep kit. You can add all the required Illumina sequences by PCR (in one round or two rounds). This might give you an idea:...
Forum: Sample Prep / Library Generation 06-28-2021, 03:32 PM
Replies: 3
Views: 2,499
Posted By luc
It is described in detail in the Hackflex paper. ...

It is described in detail in the Hackflex paper.
The latest version of the manuscript is here: https://www.biorxiv.org/content/10.1101/779215v2
Forum: Sample Prep / Library Generation 06-28-2021, 03:26 PM
Replies: 2
Views: 2,309
Posted By luc
This seems to be 1:1 substitute for SequalPrep? ...

This seems to be 1:1 substitute for SequalPrep?
https://norgenbiotek.com/product/ngs-normalization-96-well-kit
We have no experience with it, though.
Forum: Sample Prep / Library Generation 06-24-2021, 12:13 PM
Replies: 0
Views: 2,271
Posted By luc
How does the "Illumina DNA PCR-Free Prep (Tagmentation)" work?

Has somebody here figured out how the new "Illumina DNA PCR-Free Prep (Tagmentation)" library preps work?...
Forum: Introductions 05-27-2021, 08:31 PM
Replies: 1
Views: 2,186
Posted By luc
Welcome! Don't be shy.

Welcome! Don't be shy.
Forum: RNA Sequencing 05-19-2021, 08:35 AM
Replies: 1
Views: 4,159
Posted By luc
I assume chemical fragmentation will affect the...

I assume chemical fragmentation will affect the small fragments to the same degree as the big ones.
If you have an opportunity to sonicate samples? Small fragments are pretty safe from shearing.
...
Forum: Sample Prep / Library Generation 05-04-2021, 08:17 AM
Replies: 1
Views: 2,024
Posted By luc
Demultiplexing always happens after the run. Thus...

Demultiplexing always happens after the run. Thus you can have several attempts if you have the software installed locally. Otherwise, you are relying on the aid of your core lab.

There are two...
Forum: General 04-29-2021, 03:24 PM
Replies: 2
Views: 3,649
Posted By luc
Single-cell sequencing & multi-omics forum?

Hello All,

I believe single-cell sequencing & multi-omics deserve their own forum here.
Forum: Bioinformatics 04-26-2021, 09:48 PM
Replies: 1
Views: 1,206
Posted By luc
You could compare your data to genetic maps and...

You could compare your data to genetic maps and find the markers in your contigs.
Forum: General 02-23-2021, 01:21 PM
Replies: 3
Views: 3,715
Posted By luc
Hi, multiple companies offer spin columns and...

Hi, multiple companies offer spin columns and spin plates.

E.g.
http://www.epochlifescience.com/Product/SpinColumn/minispin.aspx
https://bpi-tech.com/96-well-plates/

I have not used these...
Forum: Oxford Nanopore 11-30-2020, 08:45 AM
Replies: 1
Views: 4,317
Posted By luc
No remodeling needed. All Nextera libraries...

No remodeling needed.
All Nextera libraries are PCR amplified to be sequenceable. After the PCR amplification they are wonderfully double-stranded throughout and should be blunt-ended (if a...
Forum: Sample Prep / Library Generation 10-01-2020, 10:09 AM
Replies: 3
Views: 2,667
Posted By luc
You might want to have a look at this FAQ: ...

You might want to have a look at this FAQ:
https://dnatech.genomecenter.ucdavis.edu/faqs/my-pcr-free-libraries-do-not-look-as-expected-on-the-bioanalyzer-how-should-i-qc-pcr-free-libraries/
Forum: Sample Prep / Library Generation 10-01-2020, 09:57 AM
Replies: 5
Views: 2,862
Posted By luc
Depends on the dye used and the amount of...

Depends on the dye used and the amount of primers. Ethidiumbrmide is ten times less sensitive for ssDNA compared to dsDNA. The sampe seems to be true for the Bioanalyzer, but such an instrument is...
Forum: Sample Prep / Library Generation 09-26-2020, 06:39 AM
Replies: 5
Views: 2,862
Posted By luc
You could run aliquots of the reaction (before...

You could run aliquots of the reaction (before and after bead cleanups) on an agarose gel to see what is going on.
If the ligation does not work porperly, perhaps your samples have some chemical...
Forum: Sample Prep / Library Generation 09-17-2020, 11:26 PM
Replies: 5
Views: 2,748
Posted By luc
Add Qiagen UPX to the list.

Add Qiagen UPX to the list.
Forum: Sample Prep / Library Generation 09-14-2020, 10:23 PM
Replies: 5
Views: 2,748
Posted By luc
What is your goal? Gene-level studies or...

What is your goal? Gene-level studies or transcript level?
Forum: General 08-05-2020, 01:30 PM
Replies: 1
Views: 3,367
Posted By luc
One more important alternative is the Perkin...

One more important alternative is the Perkin Elmer Labchip GX Touch.
They all work and differ in the resolution, throughput, reagent costs and setup effort.
Forum: Illumina/Solexa 08-02-2020, 05:18 PM
Replies: 3
Views: 1,830
Posted By luc
I beleive there is no reason to expect the run to...

I beleive there is no reason to expect the run to fail now. The data should be usable as indicated by the qualityscores.
Forum: Illumina/Solexa 08-01-2020, 04:59 PM
Replies: 3
Views: 1,830
Posted By luc
The run is still ongoing? More information...

The run is still ongoing?
More information would be rquired.
Showing results 1 to 25 of 468

 

All times are GMT -8. The time now is 06:14 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2022, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO