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Series GSE50498 Query DataSets for GSE50498
Status Public on Dec 03, 2013
Title Genome wide DNA methylation changes with age in disease free human skeletal muscle
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary 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.
Overall design 48 experimental samples (24 young and 24 older individuals) were used overall. There were 4 replicates per group.
Contributor(s) Zykovich A, Hubbard A, Flynn JM, Tarnopolsky M, Fraga MF, Kerksick C, Ogborn D, MacNeil L, Mooney SD, Melov S
Citation(s) 24304487
Submission date Aug 30, 2013
Last update date Mar 22, 2019
Contact name Serban Ciotlos
Phone 4085068553
Organization name Buck Institute for Research on Aging
Lab Melov Lab
Street address 8001 Redwood Blvd
City Novato
State/province CA
ZIP/Postal code 94945
Country USA
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (48)
GSM1220214 Y01
GSM1220215 Y02
GSM1220216 Y03
BioProject PRJNA217793

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE50498_Methyl_raw.txt.gz 51.5 Mb (ftp)(http) TXT
GSE50498_Non_Methyl_raw.txt.gz 53.1 Mb (ftp)(http) TXT
GSE50498_RAW.tar 183.1 Mb (http)(custom) TAR
Processed data included within Sample table

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