High-coverage methylation data of a gene model before and after DNA damage and homologous repair

Scientific Data
Antonio PezoneEnrico V Avvedimento

Abstract

Genome-wide methylation analysis is limited by its low coverage and the inability to detect single variants below 10%. Quantitative analysis provides accurate information on the extent of methylation of single CpG dinucleotide, but it does not measure the actual polymorphism of the methylation profiles of single molecules. To understand the polymorphism of DNA methylation and to decode the methylation signatures before and after DNA damage and repair, we have deep sequenced in bisulfite-treated DNA a reporter gene undergoing site-specific DNA damage and homologous repair. In this paper, we provide information on the data generation, the rationale for the experiments and the type of assays used, such as cytofluorimetry and immunoblot data derived during a previous work published in Scientific Reports, describing the methylation and expression changes of a model gene (GFP) before and after formation of a double-strand break and repair by homologous-recombination or non-homologous-end-joining. These data provide: 1) a reference for the analysis of methylation polymorphism at selected loci in complex cell populations; 2) a platform and the tools to compare transcription and methylation profiles.

References

Mar 19, 2020·Biomolecules·Alfonso TramontanoAntonio Pezone
Feb 16, 2020·Experimental & Molecular Medicine·Bruno PerilloAntimo Migliaccio

Citations

Jun 1, 1996·Trends in Genetics : TIG·M Jasin
May 15, 2004·Nature Reviews. Genetics·Vivek Mittal
Jul 10, 2007·PLoS Genetics·Concetta CuozzoEnrico V Avvedimento
Dec 17, 2009·BMC Bioinformatics·Christiam CamachoThomas L Madden
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
Oct 22, 2013·Bioinformatics·Jiajie ZhangAlexandros Stamatakis
Oct 25, 2013·Nature·Rahul M Kohli, Yi Zhang

Related Concepts

Gene Polymorphism
Genome-Wide Association Study
Hydrogen sulfite
DNA Methylation [PE]
H2S(D2S)
Protein Methylation
Transcription, Genetic
cytidylyl-3'-5'-guanosine
Base Excision Repair
Infusion of Recombinant Protein

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