E-MEXP-880 - Methylation profiling of normal and cancerous breast cells from human patients and cell lines in a 125 kB region of the HOXA cluster

Status
Submitted on 4 October 2006, released on 3 November 2006, last updated on 2 May 2014
Organism
Homo sapiens
Samples (20)
Array (1)
Protocols (9)
Description
To evaluate DNA methylation profile associated with breast cancer in 125 kB region of HOXA cluster we analyzed DNA from normal cancerous breast specimens and cell lines. Analysis was performed on the tiling array covering entire HOXA region with 500bp resolution. Immunoprecipitation with anti-methylcytosine antibody was for target preparation. Cy3 labeling was used for inmmunoprecipitated DNA, Cy5 labeling was used for reference input DNA.
Experiment types
methylation profiling by array, disease state, methylation profiling
Contacts
Petr Novak <pnovak@azcc.arizona.edu>, Bernard W Futscher, Christina Kim, George S Watts, Marc M Oshiro, Marcela Nouzova, Ryan J Wozniak, Taylor Jensen, Walter T Klimecki
Citation
Epigenetic Inactivation of the HOXA Gene Cluster in Breast Cancer. Petr Novak; Taylor Jensen; Marc Oshiro; Ryan Wozniak; Marcel Nouzova; George Watts; Walter Klimecki; Christina Kim; Bernard Futscher. Cancer Res 66(22):10664-70 (2006), Europe PMC 17090521
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-MEXP-880.idf.txt
Sample and data relationshipE-MEXP-880.sdrf.txt
Raw data (1)E-MEXP-880.raw.1.zip
Processed data (1)E-MEXP-880.processed.1.zip
Array designA-MEXP-568.adf.txt
R ExpressionSetE-MEXP-880.eSet.r
Links