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Sample GSM754371 Query DataSets for GSM754371
Status Public on Dec 27, 2012
Title HCC1937-ELF5-rep1
Sample type RNA
 
Source name HCC1937, ELF5 knockdown
Organism Homo sapiens
Characteristics cell line: HCC1937
inducible vector: none
phenotype: basal
treatment: siRNA to ELF5
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_1937S1_(HuGene-1_0-st-v1).CEL
RNA from HCC1937 cell line, siRNA-vs-ELF5 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 5.4517
7896738 3.2041
7896740 3.0018
7896742 5.2061
7896744 4.1583
7896746 7.3114
7896748 8.4718
7896750 2.8323
7896752 7.4437
7896754 4.7607
7896756 5.2863
7896759 6.0866
7896761 6.9651
7896779 7.2046
7896798 7.6152
7896817 8.0763
7896822 8.7856
7896859 6.0158
7896861 4.1367
7896863 6.0384

Total number of rows: 28829

Table truncated, full table size 421 Kbytes.




Supplementary file Size Download File type/resource
GSM754371.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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