TY - JOUR
T1 - A meta-analysis on age-associated changes in blood DNA methylation
T2 - Results from an original analysis pipeline for Infinium 450k data
AU - Bacalini, Maria Giulia
AU - Boattini, Alessio
AU - Gentilini, Davide
AU - Giampieri, Enrico
AU - Pirazzini, Chiara
AU - Giuliani, Cristina
AU - Fontanesi, Elisa
AU - Remondini, Daniel
AU - Capri, Miriam
AU - Rio, Alberto Del
AU - Luiselli, Donata
AU - Vitale, Giovanni
AU - Mari, Daniela
AU - Castellani, Gastone
AU - Di Blasio, Anna Maria
AU - Salvioli, Stefano
AU - Franceschi, Claudio
AU - Garagnani, Paolo
PY - 2015
Y1 - 2015
N2 - Aging is characterized by a profound remodeling of the epigenetic architecture in terms of DNA methylation patterns. To date the most effective tool to study genome wide DNA methylation changes is Infinium HumanMethylation450 BeadChip (Infinium 450k). Despite the wealth of tools for Infinium 450k analysis, the identification of the most biologically relevant DNA methylation changes is still challenging. Here we propose an analytical pipeline to select differentially methylated regions (DMRs), tailored on microarray architecture, which is highly effective in highlighting biologically relevant results. The pipeline groups microarray probes on the basis of their localization respect to CpG islands and genic sequences and, depending on probes density, identifies DMRs through a single-probe or a regioncentric approach that considers the concomitant variation of multiple adjacent CpG probes. We successfully applied this analytical pipeline on 3 independent Infinium 450k datasets that investigated age-associated changes in blood DNA methylation. We provide a consensus list of genes that systematically vary in DNA methylation levels from 0 to 100 years and that have a potentially relevant role in the aging process.
AB - Aging is characterized by a profound remodeling of the epigenetic architecture in terms of DNA methylation patterns. To date the most effective tool to study genome wide DNA methylation changes is Infinium HumanMethylation450 BeadChip (Infinium 450k). Despite the wealth of tools for Infinium 450k analysis, the identification of the most biologically relevant DNA methylation changes is still challenging. Here we propose an analytical pipeline to select differentially methylated regions (DMRs), tailored on microarray architecture, which is highly effective in highlighting biologically relevant results. The pipeline groups microarray probes on the basis of their localization respect to CpG islands and genic sequences and, depending on probes density, identifies DMRs through a single-probe or a regioncentric approach that considers the concomitant variation of multiple adjacent CpG probes. We successfully applied this analytical pipeline on 3 independent Infinium 450k datasets that investigated age-associated changes in blood DNA methylation. We provide a consensus list of genes that systematically vary in DNA methylation levels from 0 to 100 years and that have a potentially relevant role in the aging process.
KW - Aging
KW - DNA methylation
KW - Epigenetics
KW - Infinium human methylation 450 beadchip
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M3 - Article
C2 - 25701668
AN - SCOPUS:84924990048
SN - 1945-4589
VL - 7
SP - 97
EP - 109
JO - Aging
JF - Aging
IS - 2
ER -