title: High-coverage methylation data of a gene model before and after DNA damage and homologous repair.
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.
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Antonio
authors.initials: A
authors.lastname: Pezone
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Giusi
authors.initials: G
authors.lastname: Russo
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Alfonso
authors.initials: A
authors.lastname: Tramontano
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Ermanno
authors.initials: E
authors.lastname: Florio
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Giovanni
authors.initials: G
authors.lastname: Scala
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Rosaria
authors.initials: R
authors.lastname: Landi
authors.affiliation: Dipartimento Biologia, Università Federico II, Napoli 80131, Italy.
authors.forename: Candida
authors.initials: C
authors.lastname: Zuchegna
authors.affiliation: Dipartimento Biologia, Università Federico II, Napoli 80131, Italy.
authors.forename: Antonella
authors.initials: A
authors.lastname: Romano
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Lorenzo
authors.initials: L
authors.lastname: Chiariotti
authors.affiliation: Epigenetics Division, TopoGEN, Inc., 27960 CR319, Buena Vista, Colorado 81211, USA.
authors.forename: Mark T
authors.initials: MT
authors.lastname: Muller
authors.affiliation: Institute of Cancer Research, Columbia University Medical Center, New York, New York 10032, USA.
authors.forename: Max E
authors.initials: ME
authors.lastname: Gottesman
authors.affiliation: Dipartimento Biologia, Università Federico II, Napoli 80131, Italy.
authors.forename: Antonio
authors.initials: A
authors.lastname: Porcellini
authors.affiliation: Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Istituto di Endocrinologia ed Oncologia Sperimentale del C.N.R., Università Federico II, Napoli 80131, Italy.
authors.forename: Enrico V
authors.initials: EV
authors.lastname: Avvedimento
mesh_terms: D001483:Base Sequence; D004249:DNA Damage; D019175:DNA Methylation; D004260:DNA Repair; D006801:Humans; D013447:Sulfites
chemical_list: D013447:Sulfites; C042345:hydrogen sulfite