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E-GEOD-26525 - Expression data analyzed with LPIA in A549 lung carcinoma cells treated with geldanamycin

Status
Released on 11 January 2011, last updated on 11 August 2015
Organism
Homo sapiens
Samples (15)
Array (1)
Protocols (8)
Description
The statsitcal model, latent pathway identification analysis (LPIA), was implemented for the analysis of A549 lung carcinoma cells treated with geldanamycin. Control and treated samples were assayed with Affymetrix HG_U133_plus_2 arrays and analyzed using LPIA. LPIA looks for statistically signficant evidence of dysregulation in a network of pathways constructed in a manner that explicitly links pathways through their common function in the cell. Geldanamycin (geld) is known to inhibit the molecular chaperone protein, Hsp90, and plays a role in preventing the malignant transformation and proliferation of healthy cells during oncogenesis. LPIA successfully identified pathways specific to geldanamycin effects at the gene transcription level. A549 lung carcinoma cells were allowed to adhere for 24h and further incubated in the presence of geldanamycin at a concentration equivalent to the determined IC50 of 40 nM or IC20 of 10 nM, or with vehicle DMSO (final concentration 0.4%). After 24h and 48 h, cells were harvested and total RNA was purified and processed for Affymetrix HG_U133_Plus_2.0 microarray analysis. Raw probe intensities were RMA-normalized and avereaged for three replicates for each condition. Probe sets for 54,120-annotated open reading frames were included in LPIA analysis.
Experiment type
transcription profiling by array 
Contacts
Eric Kolaczyk, Lisa Christadore, Lisa Pham, Scott E Schaus
Citation
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-26525.idf.txt
Sample and data relationshipE-GEOD-26525.sdrf.txt
Raw data (1)E-GEOD-26525.raw.1.zip
Processed data (1)E-GEOD-26525.processed.1.zip
Array designA-AFFY-44.adf.txt
Links