|
| Status |
Public on Dec 27, 2012 |
| Title |
HCC1937-mock-rep2 |
| Sample type |
RNA |
| |
|
| Source name |
HCC1937, mock transfected
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCC1937
inducible vector: none
phenotype: basal
treatment: mock
batch: 1
|
| Treatment protocol |
HCC1937 cells were transiently knocked down with siRNA-vs-Elf5, or mock transfected with the transfection reagent of LF2000 and Optimem.
|
| Growth protocol |
Human breast, basal A carcinoma HCC1937 cell lines were also grown in 10% FBS RPMI medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with the RNeasy Minikit (Qiagen) and DNase-treated with the DNase kit (Qiagen) according to manufacturer’s instructions. RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100 (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
RNA was fragmented, biotin labeled at the Ramaciotti Centre for Gene Function Analysis at the University of New South Wales (UNSW, Sydney, NSW, Australia), following manufacturers instructions.
|
| |
|
| Hybridization protocol |
Labeled, fragmented RNA hybridized to Affymetrix Human Gene 1.0 ST Gene Arrays at the Ramaciotti Centre for Gene Function Analysis at the University of New South Wales (UNSW, Sydney, NSW, Australia), following manufacturers instructions.
|
| Scan protocol |
Arrays were scanned at the Ramaciotti Centre for Gene Function Analysis at the University of New South Wales (UNSW, Sydney, NSW, Australia), following manufacturers instructions.
|
| Description |
HL_1937M2_(HuGene-1_0-st-v1).CEL
RNA from HCC1937 cell line, mock treated, replicate 2
|
| Data processing |
Within each batch, data was RMA normalised using NormalizeAffymetrixST (version 1) GenePattern module from the Peter Wills Bioinformatics Centre's GenePattern Server: http://pwbc.garvan.unsw.edu.au/gp. T47D and MCF7 arrays were normalised within the context of a larger set of microarrays, so if you re-normalise these data using the 8 arrays here, the value will differ slightly.
|
| |
|
| Submission date |
Jul 05, 2011 |
| Last update date |
Dec 27, 2012 |
| Contact name |
Mark Cowley |
| E-mail(s) |
m.cowley@garvan.org.au
|
| Organization name |
Garvan Institute of Medical Research
|
| Department |
Genome Informatics & Clinical Genomics
|
| Lab |
Dinger lab
|
| Street address |
384 Victoria St.
|
| City |
Darlinghurst |
| State/province |
NSW |
| ZIP/Postal code |
2010 |
| Country |
Australia |
| |
|
| Platform ID |
GPL6244 |
| Series (2) |
| GSE30405 |
The ets transcription factor ELF5 suppresses the estrogen sensitive phenotype and contributes to antiestrogen resistance in luminal breast cancer. [human] |
| GSE30407 |
The ets transcription factor ELF5 suppresses the estrogen sensitive phenotype and contributes to antiestrogen resistance in luminal breast cancer. |
|
