E-GEOD-50498 - Genome wide DNA methylation changes with age in disease free human skeletal muscle

Released on 3 December 2013, last updated on 9 December 2013
Homo sapiens
Samples (48)
Array (1)
Protocols (7)
A decline in skeletal muscle mass and function with aging is well recognized, but remains poorly characterized at the molecular level. Here we report for the first time a genome-wide study of DNA methylation dynamics in skeletal muscle of healthy male individuals during normal human aging. We predominantly observed hypermethylation throughout the genome within the aged group as compared to the young subjects. Differentially methylated CpG (dmCpG) nucleotides tend to arise intragenically, and are underrepresented in promoters and are overrepresented in the middle and 3’ end of genes. The intragenic methylation changes are over represented in genes which guide the formation of the junction of the motor neuron and myofibers. We report a low level of correlation between previous gene expression studies of aged muscle with our current analysis of DNA methylation status. For those genes that had both changes in methylation and gene expression with age, we observed a reverse correlation, with the exception of intragenic hypermethylated genes, that were correlated with increased gene expression. We argue that a minimal number of dmCpG sites or select sites are required to be altered in order to correlate with gene expression changes. Finally, we identified 500 dmCpG biomarkers that perform well in a prediction of human biological age within our cohorts. Our findings highlight epigenetic links between aging post-mitotic skeletal muscle and DNA methylation. 48 experimental samples (24 young and 24 older individuals) were used overall. There were 4 replicates per group.
Experiment type
methylation profiling by array 
Simon Melov <smelov@buckinstitute.org>, Alan Hubbard, Artem Zykovich, Chad Kerksick, Dan Ogborn, James M Flynn, Lauren MacNeil, Mario F Fraga, Mark Tarnopolsky, Sean D Mooney
Investigation descriptionE-GEOD-50498.idf.txt
Sample and data relationshipE-GEOD-50498.sdrf.txt
Processed data (2)E-GEOD-50498.processed.1.zip, E-GEOD-50498.processed.2.zip
Additional data (1)E-GEOD-50498.additional.1.zip
Array designA-GEOD-13534.adf.txt