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Developmental features of DNA methylation during activation of the embryonic zebrafish genome

Ingrid S Andersen1, Andrew H Reiner1, Håvard Aanes2, Peter Aleström2 and Philippe Collas1*

Author Affiliations

1 Stem Cell Epigenetics Laboratory, Institute of Basic Medical Sciences, Faculty of Medicine, and Norwegian Center for Stem Cell Research, University of Oslo, PO Box 1112 Blindern, 0317 Oslo, Norway

2 BasAM, Norwegian School of Veterinary Science, PO Box 8146 Dep., 0033 Oslo, Norway

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Genome Biology 2012, 13:R65  doi:10.1186/gb-2012-13-7-r65

Published: 25 July 2012

Additional files

Additional file 1:

Promoter DNA methylation in zebrafish embryos and sperm. A figure showing aspects of promoter methylation in zebrafish embryos and sperm.

Format: PDF Size: 657KB Download file

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Additional file 2:

Enriched GO terms for methylated and hypomethylated genes. An Excel sheet of enriched GO terms for methylated and hypomethylated genes.

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Additional file 3:

CG content analysis of zebrafish promoters. A figure showing the CG content analysis of zebrafish promoters.

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Additional file 4:

Partitioning of tiled regions reveals developmentally linked dynamic methylation upstream of TSS. A figure showing methylation profiles in -1 to -1 kb regions around the TSS.

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Additional file 5:

Enriched GO terms of hypomethylated genes found in CGI clusters and methylated in ZF4 fibroblasts. A table of enriched GO terms for hypomethylated genes in CGI clusters and that are methylated in ZF4 cells.

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Additional file 6:

Differential methylation of multiple versus single CGI promoters in embryos and ZF4 cells. A figure showing methylation profiles of the hoxa and bact1 loci in post-MBT embryos and in ZF4 cells.

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Additional file 7:

Bisulfite sequencing primers used in this study. A table of bisulfite sequencing primers used in this study.

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Additional file 8:

Primers used for MeDIP-qPCR validation. A table of primers used for MeDIP-qPCR validation in this study.

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Open Data