Microarray Analysis

From Genome Technology Core (GTC) wiki - Sequencing and Microarray
Jump to: navigation, search
Microarray
Microarray

Genome Technology Core (GTC) offers a full spectrum of services for parallel analyses of genomes and their expression using microarrays. Applications of this technology include:

Contents

TECHNOLOGY

We support two major commercial platforms for microarray analysis, Affymetrix and Agilent.

Both platforms provide excellent data though there can be some cost and experimental design differences. Feel free to contact us to discuss which option is right for you.

PRICING

For pricing information - Click Here

MICROARRAY SUBMISSION GUIDE

You can download a word document of the guidelines here.

STEP 1: PAPERWORK/PREPARATION FOR MICROARRAY SUBMISSIONS (EXTERNAL CUSTOMERS ONLY)

  • Please contact us in advance of submitting any microarray projects, for approval. Wibr-genome@wi.mit.edu
  • New external customers, please fill out a new customer form (Available Here) with billing information. Email the completed form to wibr-genome@wi.mit.edu.

All external customers, please contact your Accounts Payable department in advance of submission, to obtain a purchase order number. If you need a quote, please email us at wibr-genome@wi.mit.edu or call us at 617-258-8803. Blanket purchase orders are preferred, if you plan to submit multiple projects over time.


STEP 2: PREPARATION OF SAMPLES FOR MICROARRAY SUBMISSION

We typically use 100 ng – 1 ug of total RNA in 3 ul as input for microarray sample preparation, so your RNA should be at least 33 ng/ul. We can work with less if necessary, but it is best if you elute your RNA in as little volume as is practical to avoid having to dry down. Any buffer that does not contain trace amounts of phenol or EDTA is acceptable. We will save and return any unused input material and microarray-ready samples to you after the arrays have been done.


STEP 3: FILL OUT AND EMAIL THE SUBMISSION FORM

Microarray submission form is available here. Please fill out and email the microarray submission form to wibr-genome@wi.mit.edu. Please note that due to contractual obligations, we are not able to purchase Affymetrix arrays for customers outside of the WI/MIT community. External customers should order arrays and ship them along with samples. Affymetrix may also be able to ship your order to us directly.


STEP 4: DROP-OFF OR SHIPPING

You may drop off samples to us in person in room 325, or ship them on dry ice (see below). Please do not ship to us without first contacting someone in the lab, to make sure that we are here to receive your package. Please email wibr-genome@wi.mit.edu or call 617-258-8803 prior to shipping. Do not rely on voicemail. Please wait until you hear back from someone.

When you are ready, hand deliver or ship your samples to:
Whitehead Institute Genome Technology Core
9 Cambridge Center, Room 325
Cambridge, MA 02142

DATA

  • Each platform has its own data output. In general data is extracted from the array images, normalized and processed through each platforms standard protocols. All images along with raw and processed data files are bundled and delivered to the customer on a CD.

Additional data analysis help may be available on a case by case basis.

TURNAROUND TIME

Typically two weeks from sample submission. Please note we do not carry array inventory so arrays must be ordered ahead of time and in some cases can take several weeks. Please plan ahead.

APPLICATIONS

Both Affymetrix and Agilent offer many applications in their commercial array portfolio including expression analysis, CGH, ChIP-on-chip and more. Visit their web sites or contact us to discuss your research goals.

Personal tools
Equipment Resources