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Series GSE52112 Query DataSets for GSE52112
Status Public on Sep 25, 2014
Title H3K4me1 marks DNA regions hypomethylated during aging in human stem and differentiated cells [MSCs]
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary In differentiated cells, aging is associated with hypermethylation of DNA regions enriched in repressive histone posttranslational modifications. However, the chromatin marks associated with changes in DNA methylation in adult stem cells during lifetime are still largely unknown. Here, DNA methylation profiling of mesenchymal stem cells obtained from individuals aged 2 to 92 identified 18735 hypermethylated and 45407 hypomethylated CpG sites associated with aging. As in differentiated cells, hypermethylated sequences were enriched in chromatin repressive marks. Most importantly, hypomethylated CpG sites were strongly enriched in the active chromatin mark H3K4me1 in stem and differentiated cells, suggesting this is a cell type-independent chromatin signature of DNA hypomethylation during aging. Analysis of scedasticity showed that interindividual variability of DNA methylation increased during aging in MSCs and differentiated cells, providing a new avenue for the identification of DNA methylation changes over time. DNA methylation profiling of genetically identical individuals showed that both the tendency of DNA methylation changes and scedasticity depended on non-genetic as well as genetic factors. Our results indicate that the dynamics of DNA methylation during aging depend on a complex mixture of factors that include the DNA sequence, cell type and chromatin context involved, and that, depending on the locus, the changes can be modulated by genetic and/or external factors.
Overall design Total DNA isolated by standard procedures from human adult mesenchymal stem cells (MSCs) obtained from 34 individuals aged 2 to 92
Contributor(s) Fernandez AF, Bayón GF, Urdinguio RG, Toraño EG, Garcia MG, Carella A, Petrus-Reurer S, Ferrero C, Martinez-Camblor P, Cubillo I, García-Castro J, Delgado-Calle J, Perez-Campo FM, Riancho JA, Bueno C, Menendez P, Mentink A, Mareschi K, Claire F, Fagnani C, Medda E, Toccaceli V, Brescianini S, Moran S, Esteller M, Stolzing A, de Boer J, Nisticò L, Stazi MA, Fraga MF
Citation(s) 25271306
Submission date Nov 05, 2013
Last update date Apr 04, 2019
Contact name Agustin F Fernandez
Phone 985652411
Organization name Oviedo University-HUCA
Department IUOPA
Lab Epigenetics
Street address Avenida de Roma s/n
City Oviedo
State/province Asturias
ZIP/Postal code 33011
Country Spain
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (34)
GSM1259848 MSC cultured in human MSC media, MSC-1
GSM1259849 MSC cultured in human MSC media, MSC-2
GSM1259850 MSC cultured in human MSC media, MSC-3
This SubSeries is part of SuperSeries:
GSE52114 H3K4me1 marks DNA regions hypomethylated during aging in human stem and differentiated cells
BioProject PRJNA226711

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Supplementary file Size Download File type/resource
GSE52112_RAW.tar 183.1 Mb (http)(custom) TAR
GSE52112_methylated_unmethylated_signals.txt.gz 115.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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