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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 28, 2013 |
| Title |
Lymph node CD4+ T cell miRNA expression data from naïve C57BL/6J and C57BL/6J-ChrY^SJL |
| Platform organism |
synthetic construct |
| Sample organism |
Mus musculus |
| Experiment type |
Non-coding RNA profiling by array
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| Summary |
Understanding the DNA elements that constitute and control the regulatory genome is critical for the appropriate therapeutic management of complex diseases. Here, using chromosome Y (ChrY) consomic mouse strains on the C57BL/6J background, we show that susceptibility to two diverse animal models of autoimmune disease, including experimental allergic encephalomyelitis (EAE) and experimental myocarditis, correlates with the natural variation in copy number of Sly and Rbmy multicopy ChrY genes. In the B6 background, ChrY possesses gene regulatory properties that impact both genome-wide gene expression and the presence of alternative splice variants, but not miRNA expression in pathogenic CD4+ T cells. An inverse correlation exists between the number of Sly and Rbmy ChrY gene copies and the number of significantly upregulated genes in immune cells, thereby supporting a link between copy number variation of Sly and Rbmy and the ChrY genetic element exerting regulatory properties. Thus, these data establish ChrY as a member of the regulatory genome in mammals due to its ability to regulate gene expression and alternative splicing in immune cells linked to disease.
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| Overall design |
Three biological replicates for each strain were pooled from the axillary, brachial, and inguinal lymph nodes from 5 mice for each replicate. RNA was isolated from CD4+TCRB+ FAC sorted cells.
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| Contributor(s) |
Case LK, Wall EH, Dragon JA, Saligrama N, Krementsov DN, Moussawi M, Zachary JF, Huber SA, Blankenhorn EP, Teuscher C |
| Citation(s) |
23800453 |
| Submission date |
May 28, 2013 |
| Last update date |
May 02, 2017 |
| Contact name |
Laure Case |
| E-mail(s) |
lcase@uvm.edu
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| Organization name |
University of Vermont
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| Street address |
89 Beaumont Ave
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| City |
Burlington |
| ZIP/Postal code |
05405 |
| Country |
USA |
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| Platforms (1) |
| GPL14613 |
[miRNA-2] Affymetrix Multispecies miRNA-2 Array |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE47440 |
The Y chromosome as a regulatory element shaping immune cell transcriptomes and susceptibility to autoimmune disease |
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| Relations |
| BioProject |
PRJNA205564 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE47439_RAW.tar |
3.7 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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