title: DNA methylation profiling of primary neuroblastoma tumors using methyl-CpG-binding domain sequencing.
abstract: Comprehensive genome-wide DNA methylation studies in neuroblastoma (NB), a childhood tumor that originates from precursor cells of the sympathetic nervous system, are scarce. Recently, we profiled the DNA methylome of 102 well-annotated primary NB tumors by methyl-CpG-binding domain (MBD) sequencing, in order to identify prognostic biomarker candidates. In this data descriptor, we give details on how this data set was generated and which bioinformatics analyses were applied during data processing. Through a series of technical validations, we illustrate that the data are of high quality and that the sequenced fragments represent methylated genomic regions. Furthermore, genes previously described to be methylated in NB are confirmed. As such, these MBD sequencing data are a valuable resource to further study the association of NB risk factors with the NB methylome, and offer the opportunity to integrate methylome data with other -omic data sets on the same tumor samples such as gene copy number and gene expression, also publically available.
authors.affiliation: Center for Medical Genetics, Ghent University Hospital, De Pintelaan 185, Ghent 9000, Belgium.|Cancer Research Institute Ghent (CRIG), De Pintelaan 185, Ghent 9000, Belgium.
authors.forename: Anneleen
authors.initials: A
authors.lastname: Decock
authors.affiliation: Center for Medical Genetics, Ghent University Hospital, De Pintelaan 185, Ghent 9000, Belgium.
authors.forename: Maté
authors.initials: M
authors.lastname: Ongenaert
authors.affiliation: Department of Mathematical Modelling, Statistics and Bioinformatics, Ghent University, Coupure Links 653, Ghent 9000, Belgium.|MDxHealth, 15279 Alton Parkway, Suite 100, Irvine, California 92618, USA.|NXTGNT, Ghent University, Ottergemsesteenweg 460, Ghent 9000, Belgium.
authors.forename: Wim
authors.initials: W
authors.lastname: Van Criekinge
authors.affiliation: Center for Medical Genetics, Ghent University Hospital, De Pintelaan 185, Ghent 9000, Belgium.|Cancer Research Institute Ghent (CRIG), De Pintelaan 185, Ghent 9000, Belgium.
authors.forename: Frank
authors.initials: F
authors.lastname: Speleman
authors.affiliation: Center for Medical Genetics, Ghent University Hospital, De Pintelaan 185, Ghent 9000, Belgium.|Cancer Research Institute Ghent (CRIG), De Pintelaan 185, Ghent 9000, Belgium.|Bioinformatics Institute Ghent From Nucleotides to Networks (BIG N2N), De Pintelaan 185, Ghent 9000, Belgium.
authors.forename: Jo
authors.initials: J
authors.lastname: Vandesompele
mesh_terms: D014408:Biomarkers, Tumor; D018899:CpG Islands; D016172:DNA Fingerprinting; D019175:DNA Methylation; D004273:DNA, Neoplasm; D006801:Humans; D009447:Neuroblastoma / Q000235:genetics*
chemical_list: D014408:Biomarkers, Tumor; D004273:DNA, Neoplasm
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