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Browse WheatPLEX Experiment Data

Choose an experiment:
Wheat GeneChip Test
Timothy Close, University of California (timothy.close@ucr.edu)
Experiment design (6 hybridizations)
dose
•LowSpike •HighSpike

One RNA sample was used. The RNA source material was Chinese Spring wheat whole seedling minus starchy endosperm. Equal portions of RNA from un...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Wheat GeneChip Test
Accession No: TA2
Microarray: Wheat
Visibility: public
Experiment Type:
Experiment Factor(s):
dose
•LowSpike  •HighSpike
Quality Control: biological replicates
technical replicates
Treatment summary:
 dose  # replicates
 LowSpike  3
 HighSpike  3
Total hybridizations: 6
Description: One RNA sample was used. The RNA source material was Chinese Spring wheat
whole seedling minus starchy endosperm. Equal portions of RNA from
unstressed and 48 hr drought-stressed seedling were combined to make one RNA
sample. The person who produced the RNA was Rehana Asghar in the TJ Close
lab at University of California, Riverside. Everything downstream of RNA
production was done at the UC Irvine DNA and Protein Microarray Facility
(Denis Heck, manager) by Sriti Misra. One batch of labeled cRNA was
produced. It was divided in half, each half receiving a different amount of
spike, provided by Gene Tanimoto of Affymetrix. Each half was then
distributed to three chips to test chip-chip variation.

Step 1. Prepare master mix of hyb cocktail with enough room to add spikes, and water to adjust final volume:

60 ug cRNA sample 1
In hyb cocktail w/o spikes
Enough for 6 arrays

Step 2. For LowSpike, Make final cocktail at 1.5pM final concentration of spikes.
This is enough for 3 arrays, can put 190ul of hyb cocktail per array.

For HighSpike, Make final cocktail at 3.0 pM final concentration of spikes
This is enough for 3 arrays, can put 190ul of hyb cocktail per array

Step 3. Hybridization.
Publication: none
Created: 2005-02-25 16:35:18
Last Update: 2008-08-05 12:18:39
Submitter: Timothy J Close
Name: Timothy Close
Institution: University of California
Head of Laboratory: Timothy J. Close
email(s):
Homepage:

 
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