|
| Status |
Public on Feb 01, 2012 |
| Title |
Normal Breast Sample [ATM_3] |
| Sample type |
RNA |
| |
|
| Source name |
Normal Breast Sample
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: breast
gender: female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from all samples using Qiazol (Invitrogen, Carlsbad, CA, USA) following manufacturer's instructions. The RNA was subsequently treated with DNaseI and repurified using acidic phenol-chlorophorm, and ethanol precipitation. DNA and RNA integrity were checked using the Agilent Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Data processing |
The bead-level data were preprocessed using BASH (Cairns et al. (2008) Bioinformatics 24(24):2921-2), a function from the beadarray package (Dunning et al (2007) Bioinformatics 23(16):2183-4) in Bioconductor, and also log base 2 transformed and quantile normalised using the beadarray package.
|
| |
|
| Submission date |
Sep 14, 2011 |
| Last update date |
Jan 26, 2015 |
| Contact name |
Ana Teresa Maia |
| Organization name |
University of Cambridge
|
| Department |
Department of Oncology
|
| Lab |
Cambridge Research Institute
|
| Street address |
Robinson Way
|
| City |
Cambridge |
| State/province |
Cambridgeshire |
| ZIP/Postal code |
CB2 0RE |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6947 |
| Series (2) |
| GSE32124 |
Effects of BRCA2 cis-regulation in normal breast and cancer risk amongst BRCA2 mutation carriers [expression data] |
| GSE32259 |
Effects of BRCA2 cis-regulation in normal breast and cancer risk amongst BRCA2 mutation carriers |
|
| Relations |
| Reanalyzed by |
GSE62502 |
| Reanalyzed by |
GSE65314 |
