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| Status |
Public on Oct 23, 2014 |
| Title |
RNA-seq from primary skin fibroblasts, derived of matched pairs of middle and late donor age |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Aging signatures developed from a longitudinal study design are dominated by reduced transcription of genes involved in protein synthesis
Aging is a multifactorial process where the impact of singular components still remains unclear. Furthermore, previous studies were focused on measuring specific traits such as DNA -methylation and used categorical group-wise designs, unable to capture intra-individual signature changes. Here we have developed a new method for a longitudinal, age-related analysis combining the merits of a pair-wise design with the statistical power of gene set enrichment analysis. We present an integrated analysis, including transcriptional changes and genome-wide epigenetic changes in DNA- methylation, H3K4- and H3K27- histone methylation in promoter regions. We tested our method on a rare collection of paired skin fibroblast samples from male middle age to old age transitions and obtained functional, age-related clusters. By using a set of only ten individuals, we could demonstrate a high overlap of functional terms to previously established tissue-independent age signatures including extracellular matrix, apoptosis and oxidative stress. Importantly, we identify protein translation-related processes as the main cluster of age-driven, specific down regulation.
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| |
|
| Overall design |
Evaluation of transcriptional changes in matched sample pairs of primary skin fibroblasts from middle and old age.
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| |
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| Contributor(s) |
Jung M, Zhang X, Jun S, Gogoshin G, Rodin A, Pfeifer G |
| Citation(s) |
25977295 |
| |
| Submission date |
Oct 21, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Marc Jung |
| E-mail(s) |
[email protected]
|
| Organization name |
City Of Hope
|
| Department |
Biology
|
| Lab |
Gerd Pfeifer
|
| Street address |
1500 East Duarte Street
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (20)
|
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| This SubSeries is part of SuperSeries: |
| GSE51519 |
Aging signatures developed from a longitudinal study design are dominated by reduced transcription of genes involved in protein synthesis. |
|
| Relations |
| BioProject |
PRJNA223350 |
| SRA |
SRP031776 |
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