NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM754376 Query DataSets for GSM754376
Status Public on Dec 27, 2012
Title MCF7-ELF5-rep1
Sample type RNA
 
Source name MCF7, ELF5 induced
Organism Homo sapiens
Characteristics cell line: MCF7
inducible vector: doxycycline inducible pHUSH ProEx vector containing ELF5
phenotype: luminal
treatment: doxycycline
batch: 2
Treatment protocol T47D and MCF7 cells were treated with doxycycline (Clontech) at 0.1 μg/ml, R5020 (Du Pont) at 10 nM or 17β-estradiol (Sigma) at 10 mM. Dox-containing medium was changed every 24 hours to ensure optimum Dox activity.
Growth protocol Human breast carcinoma MCF7-EcoR and T47D-EcoR (Brummelkamp et al, 2002, Science 296) cell lines were grown in RPMI 1640 medium (Invitrogen) supplemented with 10 % Tet System Approved fetal bovine serum (FBS) (Clontech). Cells were infected with pHUSH-ProEX-based produced by the Platinum E cell line (Morita et al., 2000). Transient transfection with Elf5-containing plasmid constructs used FuGENE reagent (Roche) or Lipofectamine LTX (Invitrogen) according to manufacturer’s instructions. Cells were maintained in the presence of puromycin (Sigma) at a concentration of 1μg/ml for MCF7-EcoR and 2μg/ml for T47D-EcoR.
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 MK_MV+1_(HuGene-1_0-st-v1).CEL
RNA from MCF7 cell line, dox treated, replicate 1
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.

Data table header descriptions
ID_REF
VALUE log2-RMA signal

Data table
ID_REF VALUE
7896736 4.9326
7896738 3.08
7896740 3.7934
7896742 6.2464
7896744 4.6669
7896746 8.113
7896748 8.7634
7896750 4.0984
7896752 8.7197
7896754 5.6245
7896756 5.4238
7896759 6.8557
7896761 7.2232
7896779 7.1743
7896798 7.3563
7896817 7.095
7896822 8.1612
7896859 5.9405
7896861 4.2988
7896863 6.1243

Total number of rows: 28829

Table truncated, full table size 421 Kbytes.




Supplementary file Size Download File type/resource
GSM754376.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap