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Series GSE57107 Query DataSets for GSE57107
Status Public on Jan 23, 2015
Title In vivo investigations of the effect of short- and long-term recombinant growth hormone treatment on DNA-methylation in humans
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Treatment with recombinant human growth hormone (rhGH) has been consistently reported to induce transcriptional changes in various human tissues including peripheral blood. For other hormones it has been shown that the induction of such transcriptional effects is conferred or at least accompanied by DNA-methylation changes. To analyse effects of short term rhGH treatment on the DNA-methylome we investigated a total of 24 patients at baseline and after 4-day rhGH stimulation. We performed array-based DNA-methylation profiling of paired peripheral blood mononuclear cell samples followed by targeted validation using bisulfite pyrosequencing. Unsupervised analysis of DNA-methylation in this short-term treated cohort revealed clustering according to individuals rather than treatment. Supervised analysis identified 239 CpGs as significantly differentially methylated between baseline and rhGH-stimulated samples (p<0.0001, unadjusted paired t-test), which nevertheless did not retain significance after adjustment for multiple testing. An individualised evaluation strategy led to the identification of 2350 CpG and 3 CpH sites showing methylation differences of at least 10% in more than 2 of the 24 analysed sample pairs. To investigate the long term effects of rhGH treatment on the DNA-methylome, we analysed peripheral blood cells from an independent cohort of 36 rhGH treated children born small for gestational age (SGA) as compared to 18 untreated controls. Median treatment interval was 33 months. In line with the groupwise comparison in the short-term treated cohort no differentially methylated targets reached the level of significance in the long-term treated cohort. We identified marked intra-individual responses of DNA-methylation to short-term rhGH treatment. These responses seem to be predominately associated with immunologic functions and show considerable inter-individual heterogeneity. The latter is likely the cause for the lack of a rhGH induced homogeneous DNA-methylation signature after short- and long-term treatment, which nevertheless is well in line with generally assumed safety of rhGH treatment.
Overall design Bisulfite-converted DNA of PBMC from 24 patients before and after 4 days of rhGH treatment were hybridized to the Illumina Infinium HumanMethylation 450k BeadChip.
Contributor(s) Kolarova J, Ammerpohl O, Gutwein J, Welzel M, Baus I, Riepe FG, Eggermann T, Caliebe A, Holterhus PM, Siebert R, Bens S
Citation(s) 25785847
Submission date Apr 25, 2014
Last update date Mar 22, 2019
Contact name Susanne Bens
Organization name Christian-Albrechts-University Kiel & University Hospital Schleswig-Holstein
Department Institute of Human Genetics
Street address Arnold-Heller-Str.3 (Haus 10)
City Kiel
ZIP/Postal code D-24105
Country Germany
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (48)
GSM1375358 DNA from PBMC P1, baseline
GSM1375359 DNA from PBMC P2, baseline
GSM1375360 DNA from PBMC P3, baseline
This SubSeries is part of SuperSeries:
GSE57205 In vivo investigations of the effect of short- and long-term recombinant growth hormone treatment on DNA-methylation in humans
BioProject PRJNA245442

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
GSE57107_RAW.tar 183.1 Mb (http)(custom) TAR
GSE57107_unmethylated_methylated_signals.txt.gz 198.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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