Next Generation Sequencing Core

Resources

Salk Institute for Biological Studies - Next Generation Sequencing Core - Resources

Resources


Sequencing-Based Methods

Sequencing-Based Methods Click here to view sequencing-based methods»


What do I need to submit?
Please refer to Sample Submission.


How should I label my tubes?
Please label your tubes with your initials and sequential numbers, as well as the date. Example: NGS1, NGS2, NGS3, etc. If you submit 8-well tube strips, initial/number each tube and put the date on the other side of the strip.


Why do you prefer Qubit/Fluorometry over Nanodrop for quantification?
Qubit is much more sensitive and selective. Nanodrop/spectrophotometry is only accurate at high concentrations, and will give random values at low (< 30 ng/μl) concentrations. It cannot distinguish between RNA and DNA, and if there is phenol carryover in the sample, it will contribute to the concentration reading.


What’s the turn around time?
After receiving your samples, we perform QC and sequencing libraries, QC the libraries and pool them for one or more lanes on the sequencer (depending on the numbers of reads desired per sample). Next, we coordinate samples from multiple researchers to fill up the remaining lanes. Depending on the type of sequencing, it can take a few weeks until we have enough libraries together to start the run.


What’s the difference between stranded/non-stranded mRNA-Seq and total RNA-Seq?

Non-stranded mRNA-Seq
Non-stranded mRNA-Seq libraries are prepared from polyadenylated RNA after oligo-dT selection, and the strand information (top/bottom) is lost.

Stranded mRNA-Seq
Stranded mRNA-Seq libraries are prepared from polyadenylated RNA after oligo-dT selection, and the strand information (top/bottom) is preserved.

Total RNA-Seq
Total RNA-Seq libraries are generated from rRNA-depleted “total” RNA, the strand information (top/bottom) and large non-coding transcript information is preserved.


How much does my experiment cost?
Please check our price list at http://www.salk.edu/science/core-facilities/next-generation-sequencing/scheduling-and-rates/ or contact Nasun Hah.


How do I contact you?
Contact us via e-mail at Nasun Hah.


Where are you located?
We’re on the 3rd floor (ground floor) of the South building, South side (facing south lawn).