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Series GSE56719 Query DataSets for GSE56719
Status Public on Jul 26, 2015
Title The Senescent Methylome and its relationship with cancer, ageing, and germline genetic variation in humans (methylation experiment 1)
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Cellular senescence is a stable arrest of proliferation and is considered a key component of processes associated with carcinogenesis and other ageing-related phenotypes. However, till now, biological markers that define senescence on a genome-wide scale have been limited. Here, we report a DNA methylomic analysis of actively dividing and deeply senescent normal human epithelial cells, identifying 3,852 senescence-associated differentially methylated positions (senDMPs). We find that this human senDMP signature is positively and significantly correlated with both cancer and ageing-associated methylomic dynamics. We also identify germline genetic variants, including those associated with the p16INK4A locus, that are associated with the presence of in vivo senDMP signatures. Importantly, we also demonstrate that the senDMP signature can be effectively reversed in a newly-developed protocol of transient cellular rejuvenation. The senDMP signature has significant potential for understanding some of the key (epi)genetic etiological factors that lead to cancer and age-related diseases in humans.
Overall design Bisulphite converted DNA from the HMECs at early passage (EP), deep senescence (DS), deep senescence + p16 siRNA (DS+p16siRNA) at two different time points and FACS for cell cycle at EP were hybridised to the Illumina Infinium 450k Human Methylation Beadchip
Contributor(s) Lowe R
Citation(s) 26381124
Submission date Apr 10, 2014
Last update date Mar 22, 2019
Contact name Robert Lowe
Organization name QMUL
Department Blizard Institute
Street address 4 Newark Street
City London
ZIP/Postal code E1 2AT
Country United Kingdom
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (24)
GSM1367280 EP 1
GSM1367281 EP 2
GSM1367282 EP 3
This SubSeries is part of SuperSeries:
GSE58035 The Senescent Methylome and its relationship with cancer, ageing, and germline genetic variation in humans
BioProject PRJNA248739

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
GSE56719_RAW.tar 183.1 Mb (http)(custom) TAR
GSE56719_unmethylated_methylated_signals.txt.gz 68.4 Mb (ftp)(http) TXT
Processed data included within Sample table

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