Faq
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General
How do I sign up to use your RT-PCR machine?
To sign up for time, please see the calendar - http://genomecore.wi.mit.edu/index.php/Calendar.
Do you have bench/work space for visiting users in the WIGTC laboratory? What about tips, etc?
WICMT has available bench space for visitors to use. We supply tips and gloves. Please be aware that this bench space, as well as WICMT refrigerators and freezers, is a “glove zone” – please wear gloves when handling WICMT tips, reagents, etc.
How is my RNA checked for quality control before processing?
We use Agilent’s Bioanalyzer 2100 for RNA QC. Please see Agilent’s website for more information.
Will I get my samples back after my experiment is complete?
Yes. We will ship your samples and leftover arrays back to you. Please provide a FedEx number on your sample submission form.
Pricing
How much will my experiment cost?
Please see the Pricing page for our full price list. Every project is different and it is often difficult to predict the total costs until the work is complete. Customers interested in quotes - please email wibr-genome@wi.mit.edu
Library Prep
I just want standard RNA-seq data for expression analysis, which kit should I use?
KAPA Hyperprep mRNA if you have more than 100ng of input RNA
I have less than 100ng of input RNA, can I still use KAPA Hyperprep?
If the RNA is high quality, KAPA HyperPrep may work with less than 100ng but it is risky. A safer approach is to use 10ng in the Clonetech SMART-seq v4 Ultra-low kit.
What’s the difference in the data between KAPA HyperPrep and Clonetech Ultralow?
KAPA data is stranded and probably higher fidelity. The Clonetech Ultralow kit involves more amplification and that can lead to bias but for low input it is the best kit available.
Can I compare data from different kits?
Kits with similar approaches from different companies will generally be comparable (e.g. KAPA HyperPrep, TruSeq mRNA and NEB Next Ultra II) HOWEVER additional processing/correction may be required. Care should be taken if trying to compare one of the “standard” kits to a low input kit like Clonetech UltraLow due to possible bias in the low input kit.
Sample Submission
How much RNA do I need to do a microarray experiment?
For the standard one-cycle labeling protocol we request 10ug total RNA, and an extra 1ug for QC. For the small sample (two-cycle) labeling protocol, 25-50ng total RNA is requested. It is always beneficial to supply enough RNA for two sample preps, if possible. This is just for security. One and two cycle labeling is available for all supported array platforms.
Where can I find the forms I need to submit samples?
See our Forms page for all our submission forms - http://genomecore.wi.mit.edu/index.php/Forms
Shipping
How do I ship my RNA to WIGTC?
If you are shipping within the U.S., please send your samples by overnight priority shipping on dry ice. If you are shipping internationally, please send your samples at room temperature, precipitated in EtOH and NaOAc according to your lab protocol.
What’s your shipping address?
Please ship your materials to: Whitehead Institute Genome Technology Core, 455 Main Street, Room 325, Cambridge MA, 02145.
