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| Status |
Public on Aug 05, 2020 |
| Title |
Transcriptional analysis of resting T cells from human blood and skin |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
After activation, CD4+ T helper (Th) cells differentiate into functionally specialized populations that coordinate distinct immune responses and protect against different types of pathogens. In humans, these effector and memory Th cell subsets can be readily identified in peripheral blood based on their differential expression of chemokine receptors that govern their homeostatic and inflammatory trafficking. Foxp3+ regulatory T (Treg) cells can also be divided into subsets that phenotypically mirror each of these effector populations, and share expression of key transcription factors and effector cytokines. In this study, we performed comprehensive transcriptional profiling of 11 phenotypically distinct Th and Treg cell subsets sorted from peripheral blood of healthy individuals. Despite their shared phenotypes, we found that mirror Th and Treg subsets were transcriptionally dissimilar, and that Treg cell populations showed limited transcriptional diversity compared to Th cells.
We identified core transcriptional signatures shared across all Th and Treg cell populations, and unique signatures that define each of the Th or Treg populations. Finally, we applied these signatures to bulk Th and Treg RNA-seq data and found enrichment of specific Th and Treg cell populations in different human tissues. These results further define the molecular basis for the functional specialization and differentiation of Th and Treg cell populations, and provide a new resource for examining Th and Treg specialization in RNA-seq data.
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| Overall design |
RNA-seq was performed on CLA+ central and effector memory CD4+ T cells sorted from human blood and skin
CLA+CD4+ T cells were sorted from blood and skin of 6 different donors as central memory (Tcm, CD45RA-CCR7+) and effector memory (CD45-CCR7-) populations for RNA-seq. 14 samples passed quality control metrics and were used in the subsequent analyses.
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| Contributor(s) |
Campbell DJ, Gratz IK, Höllbacher B, Klicznik MM, Morawski PA, Motley S |
| Citation(s) |
33037096 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 AI127726 |
Regulation of cutaneous immunity and tissue-repair by a specialized population of CD4+ T cells |
BENAROYA RESEARCH INSTITUTE |
Daniel J Campbell |
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| |
| Submission date |
Apr 20, 2020 |
| Last update date |
Nov 05, 2020 |
| Contact name |
Daniel J Campbell |
| Organization name |
Benaroya Research Institute
|
| Street address |
1201 Ninth Avenue
|
| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98101 |
| Country |
USA |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (14)
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| This SubSeries is part of SuperSeries: |
| GSE149090 |
Transcriptomic profiling of human effector and regulatory T cell subsets identifies predictive population signatures |
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| Relations |
| BioProject |
PRJNA626641 |
| SRA |
SRP257552 |
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