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E-GEOD-53656 - Microarray analysis of beta-catenin regulated target genes in SW480 colon cancer cells

Status
Released on 27 December 2013, last updated on 3 June 2014
Organism
Homo sapiens
Samples (4)
Array (1)
Protocols (5)
Description
Deregulation of the canonical Wnt/beta-catenin pathway is one of the earliest events in the pathogenesis of colon cancer. Mutations in APC or CTNNB1 are frequent in colon cancer and cause aberrant stabilization of beta-catenin, which activates Wnt target genes by binding to chromatin via TCF/LEF transcription factors. In a comprehensive study, we conducted an integrative analysis of genome-wide chromatin occupancy of beta-catenin by chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) along with gene expression profiling changes resulting from RNAi-mediated knockdown of beta-catenin in colon cancer cells. This experiment series represents the gene expression changes detected by microarray as a result of CTNNB1 perturbation. SW480 cells were transfected with control and beta-catenin siRNAs. Twenty-four hours after transfection, RNA was extracted from the cells using the RNeasy kit (Qiagen, Valencia, CA) and genome-wide cDNA microarray expression analysis was performed. The data reported here are the microarray data as processed by the standard Rosetta Resolver(R) ratio method for Agilent microarrays.
Experiment type
transcription profiling by array 
Contacts
Michele Cleary <michele_cleary@merck.com>, Brian S Roberts, Julja Burchard, Michele A Cleary, William T Arthur, Xing Dai
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-53656.idf.txt
Sample and data relationshipE-GEOD-53656.sdrf.txt
Processed data (1)E-GEOD-53656.processed.1.zip
Array designA-GEOD-4372.adf.txt
Links