|
Status |
Public on Jul 22, 2011 |
Title |
Benign Breast Core_057_Post-treatment_Tamoxifen |
Sample type |
RNA |
|
|
Source name |
Benign Breast Core,Post-treatment,Tamoxifen
|
Organism |
Homo sapiens |
Characteristics |
subjectid: 057 tissue: Benign Breast Core time: Post-treatment treatment: Tamoxifen menopausal_status: POST
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted from snap frozen breast tissue core samples (Qiazol and the RNeasy Micro Kit, Qiagen) and amplified once, (TargetAmp Biotin-aRNA Amplification Kit, Epicentre Biotechnologies).
|
Label |
biotin
|
Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
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|
|
Hybridization protocol |
Standard Illumina hybridization protocol
|
Scan protocol |
Standard Illumina scanning protocol
|
Description |
4032149059_F
|
Data processing |
Analysis was performed using GeneSpring 11.0.1 as follows. Flags were set to present for entities with detection P-values < 0.2 and absent for entities with detection P-values > 0.4. Raw signal values < 1 were reset to 1. Quantile normalization was used and baseline transformation performed based on the median expression level for all entities. Matrix non-normalized is average raw intensity; Matrix normalized is thresholded, median transformed, and quantile normalized mean intensity. The microdissected lobule data was normalized and processed independent of the whole breast tissue core data.
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|
|
Submission date |
May 17, 2011 |
Last update date |
Jul 22, 2011 |
Contact name |
David Euhus |
E-mail(s) |
david.euhus@utsouthwestern.edu
|
Phone |
214-648-6467
|
Fax |
214-648-7965
|
Organization name |
UT Southwestern Medical Center
|
Department |
Surgery
|
Street address |
5323 Harrry Hines Blvd
|
City |
Dallas |
State/province |
TX |
ZIP/Postal code |
75390-9155 |
Country |
USA |
|
|
Platform ID |
GPL13376 |
Series (1) |
GSE29338 |
Benign Breast Cores from Healthy Women Treated with Tamoxifen or Placebo |
|