|
| Status |
Public on Jan 20, 2015 |
| Title |
Defining CD4 T Cell Memory by the Epigenetic Landscape of CpG DNA Methylation [Bisulfite-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
Memory T cells are primed for rapid responses to antigen; however, the molecular mechanisms responsible for priming remain incompletely defined. CpG methylation in promoters is an epigenetic modification, which regulates gene transcription. Using targeted bisulfite sequencing, we examined methylation of 2100 genes (56,000 CpG) mapped by deep sequencing to T cell activation in human naïve and memory CD4 T cells. 466 CpGs (132 genes) displayed differential methylation between naïve and memory cells. 21 genes exhibited both differential methylation and gene expression before activation, linking promoter DNA methylation states to gene regulation; 6 genes encode proteins closely studied in T cells while 15 genes represent novel targets for further study. 39 genes exhibited reduced methylation in memory cells coupled with increased gene expression with activation compared to naïve cells, revealing specific genes more rapidly expressed in memory compared to naïve cells and potentially regulated by DNA methylation. These findings define a DNA methylation signature unique to memory CD4 T cells and correlated with activation-induced gene expression.
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| |
|
| Overall design |
Targeted bisulfite sequencing of primary human naïve and memory CD4 T cells at rest and 48 hours post-activation.
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| |
|
| Contributor(s) |
Komori HK, Hart GT, LaMere SA, Chew PV, Salomon DR |
| Citation(s) |
25576597 |
| |
| Submission date |
Jul 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniel Salomon |
| E-mail(s) |
[email protected]
|
| Organization name |
The Scripps Research Institute
|
| Department |
Molecular & Experimental Medicine
|
| Lab |
Salomon
|
| Street address |
10550 N Torrey Pines Rd, MEM-241
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (24)
|
|
| This SubSeries is part of SuperSeries: |
| GSE59860 |
Defining CD4 T Cell Memory by the Epigenetic Landscape of CpG DNA Methylation |
|
| Relations |
| BioProject |
PRJNA256916 |
| SRA |
SRP045051 |
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