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Methylation profiling of normal and cancerous breast cells from human patients and cell lines in a 125 kB region of the HOXA cluster

ABSTRACT: To evaluate DNA methylation profile associated with breast cancer in 125 kB region of HOXA cluster we analyzed DNA from normal cancerous breast specimens and cell lines. Analysis was performed on the tiling array covering entire HOXA region with 500bp resolution. Immunoprecipitation with anti-methylcytosine antibody was for target preparation. Cy3 labeling was used for inmmunoprecipitated DNA, Cy5 labeling was used for reference input DNA.

INSTRUMENT(S): GenePix 4000B [Axon Instruments]

ORGANISM(S): Homo sapiens

DISEASE(S): infiltrating ductal carcinoma

SUBMITTER: Taylor Jensen

PROVIDER: E-MEXP-880 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Epigenetic inactivation of the HOXA gene cluster in breast cancer.

Novak Petr P Jensen Taylor T Oshiro Marc M MM Wozniak Ryan J RJ Nouzova Marcella M Watts George S GS Klimecki Walter T WT Kim Christina C Futscher Bernard W BW

Cancer research 20061106 22

Using an integrated approach of epigenomic scanning and gene expression profiling, we found aberrant methylation and epigenetic silencing of a small neighborhood of contiguous genes-the HOXA gene cluster in human breast cancer. The observed transcriptional repression was localized to approximately 100 kb of the HOXA gene cluster and did not extend to genes located upstream or downstream of the cluster. Bisulfite sequencing, chromatin immunoprecipitation, and quantitative reverse transcription-PC ...[more]

PMID: 17090521

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