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Series GSE26990 Query DataSets for GSE26990
Status Public on Mar 07, 2011
Title Analysis of Promoter Methylation in Breast Cancer
Organism Homo sapiens
Experiment type Methylation profiling by array
Expression profiling by array
Summary Promoter methylation was assayed in a number of breast cancer and control normal samples along with the effects of 5'-aza-2'-deoxycytidine on breast cancer cell line transcriptomes.

Aberrant promoter hypermethylation is frequently observed in cancer.
The potential for this to contribute to tumour development depends on whether the genes affected are repressed because of their methylation.
Many aberrantly methylated genes play important roles in development and are bivalently marked in ES cells suggesting that their aberrant methylation may reflect developmental processes. We investigated this possibility by analysing promoter methylation in 19 breast cancer cell lines, 10 normal tissues and 47 primary breast tumours. In order to determine the role of DNA methylation in silencing genes in breast cancer, we also examined the effects of the demethylating agent 5-aza-2?-deoxycytidine on gene expression in 3 breast cancer cell lines and HCT116 cells. Gene expression changes were also assayed in the DNA methyltransferase deficient HCT116 DKO cell line. Our findings implicate aberrant DNA methylation as a marker of cell lineage rather than tumour progression and suggest that, in most cases, it does not cause the repression with which it is associated.
 
Overall design A number of human breast cancer cell lines, breast tumours and normal tissues were analysed on Illumina Infinium Methylation27 Beadchips to assay promoter methylation. Selected cell lines were analysed on expression arrays before and after treatment with 5-aza-2'-deoxycytidine.
 
Contributor(s) Sproul D
Citation(s) 21368160, 23034185
Submission date Feb 01, 2011
Last update date Feb 13, 2020
Contact name Duncan Sproul
Organization name University of Edinburgh
Department MRC Human Genetics Unit
Street address Crewe Road South
City Edinburgh
State/province Mid Lothian
ZIP/Postal code EH4 2XU
Country United Kingdom
 
Platforms (2)
GPL6947 Illumina HumanHT-12 V3.0 expression beadchip
GPL8490 Illumina HumanMethylation27 BeadChip (HumanMethylation27_270596_v.1.2)
Samples (107)
GSM664885 BT20 (Methylation)
GSM664886 BT474 Biological Replicate 1 (Methylation)
GSM664887 BT474 Biological Replicate 2 (Methylation)
Relations
BioProject PRJNA135941

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE26990_RAW.tar 12.0 Mb (http)(custom) TAR
GSE26990_non-normalized_Expression.txt.gz 6.1 Mb (ftp)(http) TXT
GSE26990_signals_Methylation_150411.txt.gz 12.7 Mb (ftp)(http) TXT
Processed data included within Sample table

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