|
| Status |
Public on Nov 21, 2014 |
| Title |
LUMB-05 |
| Sample type |
RNA |
| |
|
| Source name |
Breast tumor
|
| Organism |
Homo sapiens |
| Characteristics |
er: 1
pgr: 0
her2: 0
ki67: 70
grade: 3
tissue: breast cancer tumor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated by the Trizol method (Invitrogen) according to manufacturers’ instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual, Rev. 5, Affymerrix)
|
| |
|
| Hybridization protocol |
Hybridization was done according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual, Rev. 5, Affymetrix)
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner
|
| Data processing |
The probe level intensities were background adjusted using the Robust multi-array analysis (RMA) method followed by quantile normalization as impletemented in the R/Bioconductor package frma. Probe level annotations were obtained from Affymetrix’s website. In particular, we used release 31 of the NetAffx annotation files.
|
| |
|
| Submission date |
Jan 08, 2013 |
| Last update date |
Nov 22, 2014 |
| Contact name |
David Brown |
| E-mail(s) |
david.brown@bordet.be
|
| Phone |
+3225413743
|
| Organization name |
Institut Jules Bordet
|
| Lab |
J.-C. Heuson Breast Cancer Translational Research Laboratory
|
| Street address |
Boulevard de Waterloo 127
|
| City |
Brussels |
| ZIP/Postal code |
1000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE43358 |
Transfer of clinically relevant gene expression signatures in breast cancer: from Affymetrix microarray to Illumina RNA-Sequencing technology |
|
