Open Access Research

The B cell transcription program mediates hypomethylation and overexpression of key genes in Epstein-Barr virus-associated proliferative conversion

Henar Hernando1, Claire Shannon-Lowe2, Abul B Islam3, Fatima Al-Shahrour4, Javier Rodríguez-Ubreva1, Virginia C Rodríguez-Cortez1, Biola M Javierre1, Cristina Mangas5, Agustín F Fernández5, Maribel Parra6, Henri-Jacques Delecluse7, Manel Esteller8, Eduardo López-Granados9, Mario F Fraga105, Nuria López-Bigas3 and Esteban Ballestar1*

Author Affiliations

1 Chromatin and Disease Group, Cancer Epigenetics and Biology Programme (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), Avda. Gran Via 199-203, 08908 L'Hospitalet de Llobregat, Barcelona, Spain

2 CR-UK Institute for Cancer Studies, University of Birmingham, Vincent Drive, Birmingham B15 2TT, UK

3 Department of Experimental and Health Sciences, Barcelona Biomedical Research Park, Universitat Pompeu Fabra (UPF), c/Dr. Aiguader, 88, 08003 Barcelona, Spain

4 Broad Institute, 7 Cambridge Center, Cambridge, MA 02142, USA and Hematology Division, Brigham and Women's Hospital, Harvard Medical School, One Blackfan Circle, Brookline, MA 02115, USA

5 Cancer Epigenetics Laboratory, Instituto Universitario de Oncología del Principado de Asturias (IUOPA), HUCA, Universidad de Oviedo, C/Dr. Emilio Rodríguez Vigil, s/n, 33006 Oviedo, Spain

6 Cellular Differentiation Group, Cancer Epigenetics and Biology Programme (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), Avda. Gran Via 199-203, 08908 L'Hospitalet de Llobregat, Barcelona, Spain

7 Department of Virus Associated Tumours, German Cancer Research Center, Im Neuenheimer Feld 280, 69120 Heidelberg, Germany

8 Cancer Epigenetics Group, Cancer Epigenetics and Biology Programme (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), Avda. Gran Via 199-203, 08908 L'Hospitalet de Llobregat, Barcelona, Spain

9 Clinical Immunology Department, University Hospital La Paz, P° de la Castellana, 261, 28046 Madrid, Spain

10 Department of Immunology and Oncology, Centro Nacional de Biotecnología/CNB-CSIC, Cantoblanco, Darwin 3, 28049 Madrid, Spain

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Genome Biology 2013, 14:R3  doi:10.1186/gb-2013-14-1-r3

Published: 15 January 2013

Additional files

Additional file 1:

Hypomethylated genes in RBL to LCL transformation for a FDR adjusted P-value < 0.05 and fold change (FC) ≥ 2 from bead array analysis.

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Additional file 2:

Comparison of the methylation levels (in percentage) for selected genes from the bead arrays and calculated after bisulfite pyrosequencing.

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Additional file 3:

A comparison of the DNA methylation levels of selected genes in different B cell types. Bisulfite pyrosequencing was performed for the genes selected from experiments with methylation arrays. The analysis includes bone marrow (BM) CD19+ cells, naïve B cells, unswitched (US) memory B cells and switched (S) memory cells. Also peripheral blood resting B cells (RBLs) and corresponding lymphoblastoid B cells (LCLs) are included.

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Additional file 4:

Expression changes between those undergoing hypomethylation during the conversion between resting B cells and lymphoblastoid cells.

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Additional file 5:

Primer sequences.

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Additional file 6:

Individual raw data corresponding to bisulfite pyrosequencing presented in Figure 2.

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