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| Status |
Public on Dec 27, 2013 |
| Title |
Microarray analysis of beta-catenin regulated target genes in SW480 colon cancer cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
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.
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| Overall design |
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.
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| Contributor(s) |
Cleary MA, Roberts BS, Arthur WT, Burchard J, Dai X |
| Citation(s) |
24651522 |
| Submission date |
Dec 26, 2013 |
| Last update date |
Mar 28, 2014 |
| Contact name |
Michele Cleary |
| E-mail(s) |
michele_cleary@merck.com
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| Phone |
215 652-6104
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| Organization name |
Merck and Co., Inc.
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| Department |
Genetics and Pharmacogenomics
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| Lab |
Target & Pathway Biology
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| Street address |
770 Sumneytown Pike
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| City |
West Point |
| State/province |
PA |
| ZIP/Postal code |
19486 |
| Country |
USA |
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| Platforms (1) |
| GPL4372 |
Rosetta/Merck Human 44k 1.1 microarray |
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| Samples (2) |
| GSM1296850 |
SW480, Luc vs. SW480, siRNA_beta-catenin-1 |
| GSM1296851 |
SW480, Luc vs. SW480, siRNA_beta-catenin-2 |
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| Relations |
| BioProject |
PRJNA232592 |
| Supplementary data files not provided |
| Processed data included within Sample table |
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