|
Status |
Public on Aug 01, 2009 |
Title |
71-18-C9, Normal breast tissue |
Sample type |
RNA |
|
|
Source name |
Mammary tissue
|
Organism |
Homo sapiens |
Characteristics |
tissue: Preneoplastic breast tissue gender: female mutation: Normal hybridization date: 10-31-08 beadchip barcode: 4380071008 beadchip section: F
|
Treatment protocol |
Not applicable
|
Growth protocol |
Not applicable
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA from sorted cell populations were prepared with the RNeasy Micro kit (Qiagen). RNA quality was ascertained using the Agilent Bioanalyser 2100 with the NanoChip protocol.
|
Label |
Cy3
|
Label protocol |
We labeled up to 500 ng with the Total Prep RNA amplification kit (Ambion).
|
|
|
Hybridization protocol |
Labeled cRNA (1.5 μg) was prepared for hybridization to Illumina HumanWG-6 V3 (R1) BeadChips.
|
Scan protocol |
After washing, we coupled the chips with Cy3 and scanned them in an Illumina BeadArray Reader.
|
Description |
none
|
Data processing |
Un-normalized summary probe profiles were output from BeadStudio and analysed used the lumi and limma packages of the Bioconductor open-source software project (http://www.bioconductor.org). The raw intensities were normexp background corrected with offset 16, quantile normalized, then log2-transformed.
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|
|
Submission date |
Jul 13, 2009 |
Last update date |
Jul 23, 2009 |
Contact name |
Jane E Visvader |
E-mail(s) |
visvader@wehi.edu.au
|
Phone |
(+61 3) 93452494
|
Fax |
(+61 3) 93470852
|
Organization name |
The Walter and Eliza Hall Institute of Medical Research
|
Department |
Victorian Breast Cancer Research Consortium
|
Lab |
Lindeman/Visvader Lab
|
Street address |
1G Royal Parade
|
City |
Parkville |
State/province |
Victoria |
ZIP/Postal code |
3052 |
Country |
Australia |
|
|
Platform ID |
GPL6884 |
Series (1) |
GSE17072 |
Normal human mammary tissues from BRCA1 mutation carriers, non-BRCA1/2 mutation carriers and normal women |
|