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E-GEOD-28968 - MRNA expression data from human breast cancer cell lines after demethylation treatment

Status
Released on 24 January 2012, last updated on 26 June 2012
Organism
Homo sapiens
Samples (42)
Array (1)
Protocols (8)
Description
The contribution of aberrant DNA methylation and the downstream effects in tumorogenesis through silencing of tumor suppressor genes (TSGs) and microRNAs has been investigated. Since these epigenetic alterations can be reversed, we investigated the effects of the epigenetic therapy in breast cancer cell lines. We used microarrays to investigate the global gene expression profile after demethylation treatment with 5-aza-2’-deoxycytidine (DAC) in breast cancer cell lines and identified distinct classes of early and late systematic stable or transient effects of the treatment. Three selected breast cell lines including MDA-MB231 (a highly aggressive cell line), SKBR3 (a non-aggressive cell line) and HB2 (a breast epithelial cell line as control) were subject for RNA isolation before treatment, after treatment with DAC and at five point follow-ups (1st, 3rd, 5th, 7th and 10th passages) at “drug holiday” condition and hybridized on Affymetrix microarrays.
Experiment type
transcription profiling by array 
Contacts
Frank Staedtler, Martin M Schumacher, Nicole Hartmann, Ramin Radpour
Citation
Integrated epigenetics of human breast cancer: synoptic investigation of targeted genes, microRNAs and proteins upon demethylation treatment. Radpour R, Barekati Z, Kohler C, Schumacher MM, Grussenmeyer T, Jenoe P, Hartmann N, Moes S, Letzkus M, Bitzer J, Lefkovits I, Staedtler F, Zhong XY. , PMID:22076154
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-28968.idf.txt
Sample and data relationshipE-GEOD-28968.sdrf.txt
Raw data (2)E-GEOD-28968.raw.1.zip, E-GEOD-28968.raw.2.zip
Processed data (1)E-GEOD-28968.processed.1.zip
Array designA-GEOD-8019.adf.txt
Links