|
| Status |
Public on May 20, 2016 |
| Title |
HCC1428.20wk.3 |
| Sample type |
RNA |
| |
|
| Source name |
HCC1428.20wk
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCC1428
cell type: estrogen receptor positive (ER+) breast cancer (BC) cell lines
cultured in: 2D on plastic
treated with: 10% dextran charcoal-stripped bovine serum (DCC) for 20 wks
sample group: long-term estrogen deprivation (LTED)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA from cultured cells was extracted with RNeasy Mini Kit (Qiagen), as per the manufacturer's instructions, and quantification performed using the Agilent 2100 Bioanalyzer (Expert Software version B.02.03) with RNA Nano LabChip Kits (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol of iScan
|
| Description |
HC9
|
| Data processing |
The data were transformed and normalized using variance-stabilizing transformation and robust spline normalization (RSN) method in the lumi package in R. The RSN combines the features of quantile and loess normalization
|
| |
|
| Submission date |
Dec 14, 2015 |
| Last update date |
May 20, 2016 |
| Contact name |
Alice Gao |
| E-mail(s) |
alice.gao@icr.ac.uk
|
| Organization name |
The Institute of Cancer Research
|
| Department |
Breast Cancer Now
|
| Lab |
Molecular Cell Biology
|
| Street address |
237 Fulham Road
|
| City |
London |
| State/province |
London |
| ZIP/Postal code |
SW3 6JB |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE75971 |
Cholesterol biosynthesis pathway as a novel mechanism of resistance to estrogen deprivation in estrogen receptor positive breast cancer |
|
