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E-GEOD-6013 - Transcription profiling by array of human lung cell lines A549, Beas-2B and MeT5A after treatment with asbestos over a time course

Status
Released on 8 November 2007, last updated on 5 April 2012
Organism
Homo sapiens
Samples (27)
Array (1)
Protocols (2)
Description
Asbestos has been shown to cause chromosomal damage and DNA aberrations. The fiber is associated with many different lung diseases such as asbestosis, malignant mesothelioma, and lung cancer, but the disease-related processes are still largely unknown. Our aim was to identify specific gene expression profiles by using Affymetrix arrays, in human cell lines A549, Beas-2B, and MeT5A exposed to asbestos in a time-dependent manner. The hybridization data was analyzed using an algorithm specifically designed for clustering short time series expression data, a canonical correlation analysis (CCA) for identifying correlations between the cell lines, and a Gene Ontology (GO) analysis method for the identification of enriched differentially expressed biological processes. Samples from three cell lines were collected from asbestos exposed and non-exposed controls at 1h, 6h, 24h, 48h and 7 (168h) days (not all time-points for each cell lines). Replicates were done for one exposed sample of each cell line.
Experiment types
transcription profiling by array, cell type comparison, co-expression, compound treatment, in vitro, time series
Contact
Citation
Gene expression profiles in asbestos-exposed epithelial and mesothelial lung cell lines. Penny Nymark, Pamela M Lindholm, Mikko V Korpela, Leo Lahti, Salla Ruosaari, Samuel Kaski, Jaakko Hollmén, Sisko Anttila, Vuokko L Kinnula, Sakari Knuutila. , PMID:17331233
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-6013.idf.txt
Sample and data relationshipE-GEOD-6013.sdrf.txt
Raw data (1)E-GEOD-6013.raw.1.zip
Processed data (1)E-GEOD-6013.processed.1.zip
Array designA-AFFY-44.adf.txt
R ExpressionSetE-GEOD-6013.eSet.r
Links