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| Status |
Public on Aug 26, 2014 |
| Title |
Transcription profiling by array of epidermal shave samples taken from lesional and non-lesional skin from German atopic dermatitis patients and from healthy skin from German controls |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Epigenetic alterations are increasingly recognized as mechanisms for disease-associated changes in genome function and important risk factors for complex diseases. The epigenome differs between cell types and so far has been characterized in few human tissues only. In order to identify disease-associated DNA methylation differences for atopic dermatitis (AD), we investigated DNA from whole blood, T cells, B cells, as well as lesional and non-lesional epidermis from AD patients and healthy controls. To elicit functional links, we examined epidermal mRNA expression profiles. No genome-wide significant DNA methylation differences between AD cases and controls were observed in whole blood, T cells, and B cells, and, in general, intra-individual differences in DNA methylation were larger than interindividual differences. However, striking methylation differences were observed between lesional epidermis from patients and healthy control epidermis for various CpG sites, which partly correlated with altered transcript levels of genes predominantly relevant for epidermal differentiation and innate immune response. Significant DNA methylation differences were discordant in skin and blood samples, suggesting that blood is not an ideal surrogate for skin tissue. Our pilot study provides preliminary evidence for functionally relevant DNA methylation differences associated with AD, particularly in the epidermis, and represents a starting point for future investigations of epigenetic mechanisms in AD.
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| Overall design |
Total RNA obtained from 7 patients from non-lesional skin, 12 patients from lesional skin and 14 controls from healthy skin
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| Contributor(s) |
Rodríguez E, Baurecht H, Wahn AF, Kretschmer A, Hotze M, Zeilinger S, Klopp N, Illig T, Schramm K, Prokisch H, Kühnel B, Gieger C, Harder J, Cifuentes L, Novak N, Weidinger S |
| Citation(s) |
24739813 |
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| Submission date |
Aug 25, 2014 |
| Last update date |
Aug 16, 2018 |
| Contact name |
Hansjoerg Baurecht |
| E-mail(s) |
[email protected]
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| Organization name |
University Hospital Schleswig-Holstein, Campus Kiel
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| Department |
Department of Dermatology, Venereology and Allergology
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| Street address |
Schittenhelmstr. 7
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| City |
Kiel |
| ZIP/Postal code |
24103 |
| Country |
Germany |
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| Platforms (1) |
| GPL6947 |
Illumina HumanHT-12 V3.0 expression beadchip |
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| Samples (33)
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| Relations |
| BioProject |
PRJNA259354 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE60709_RAW.tar |
6.2 Mb |
(http)(custom) |
TAR |
| GSE60709_non-normalized.txt.gz |
11.5 Mb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
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