Open Access Highly Accessed Research article

Global profiling of histone and DNA methylation reveals epigenetic-based regulation of gene expression during epithelial to mesenchymal transition in prostate cells

Xi-Song Ke15*, Yi Qu1, Yang Cheng2, Wen-Cheng Li13, Varda Rotter4, Anne Margrete Øyan15 and Karl-Henning Kalland15*

Author Affiliations

1 The Gade Institute, University of Bergen, Laboratory Building, 5. etg. Vest, Helse Bergen, NO-5021 Bergen, Norway

2 Fritz-Frey-Str. 6,69121, Heidelberg, Germany

3 Urological Department, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430022, PR China

4 Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel

5 Department of Microbiology, Haukeland University Hospital, Bergen, Norway

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BMC Genomics 2010, 11:669  doi:10.1186/1471-2164-11-669

Published: 25 November 2010

Additional files

Additional file 1:

Validation of ChIP-chip and MeDIP-chip data. This file contains 1 figure of Chip-qPCR and 2 tables.

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Additional file 2:

Gene expression of EP156T, EPT1 and EPT2 cells. The expression levels are indicated by the normalized signal intensities with cutoff 5 for the lowest and 16 for the highest in log2 values.

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Additional file 3:

Epigenetic modifications of EP156T, EPT1 and EPT2 cells. The intensities of epigenetic modification (H3K4me3, H3K27me3 and DNAMe) are shown as the log2 ratio between IP samples and reference samples.

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Additional file 4:

Epigenetic changed genes during EMT and gene ontology analysis. The file contains the list of genes with epigenetic changes including both increased and decreased H3K4me3, H3K27me3 and DNAMe from EP156T to EPT1 cells.

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Additional file 5:

Expression changed genes during EMT and geneontology analysis. This file contains the list of genes that have changed expression from EP156T to EPT1 cells and the GO analysis of these genes.

Format: XLS Size: 54KB Download file

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Additional file 6:

Gene list of the top epigenetic changed genes with consistent changes in gene expression level during EMT. This list shows genes that are most likely regulated by epigenetic modification from EP156T cells to EPT1 cells.

Format: XLS Size: 40KB Download file

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