|
| Status |
Public on Dec 03, 2008 |
| Title |
Breast cancer her2+ 6 |
| Sample type |
RNA |
| |
|
| Source name |
Breast sample
|
| Organism |
Homo sapiens |
| Characteristics |
Gender: female
subtype: her2+
Grade: III
|
| Biomaterial provider |
Institut Curie, Centre de Ressources Biologiques, Paris, France
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was done using RNAeasy minikit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
Double stranded cDNA was amplified and labelled using a biotin-NTP mix in the IVT reaction. The labelled cRNA was then cleaned up and fragmented
|
| |
|
| Hybridization protocol |
15 µg of cRNA were hybridized to Affymetrix Human U133 plus 2.0 array for 16 hours at 45°C. Following hybridization, the arrays were washed and stained with streptavidin-phycoerythrin
|
| Scan protocol |
Fluorescent images recorded on a GenChip Scanner 3000 and processed with the GeneChip Operating software (Affymetrix, CA, USA)
|
| Description |
All RNA preparation were checked with Agilent Bioanalyser (RNA 6000 nano-kit) and only RNA with RNA integrity number (RIN) > 8 were accepted for RNA amplification
|
| Data processing |
Background correction method: GC Robust Mult-array Average (GC-RMA).
Normalization: quantile
Summarization: for each probe set Median polish method was used to summarized PM intensities into on expression value
Signal intensities were log2-transformed
|
| |
|
| Submission date |
Dec 02, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Thierry Dubois |
| E-mail(s) |
thierry.dubois@curie.fr
|
| Phone |
33(0)153197416
|
| Fax |
33(0)153197418
|
| Organization name |
Institut Curie
|
| Department |
Département de Transfert
|
| Lab |
Laboratoire de Signalisation
|
| Street address |
26 rue d'Ulm
|
| City |
Paris |
| ZIP/Postal code |
75005 |
| Country |
France |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE13787 |
Frequent PTEN genomic alterations and activated PI3K pathway in basal-like breast cancer |
|
| Relations |
| Reanalyzed by |
GSE119087 |
