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| Status |
Public on Jun 01, 2016 |
| Title |
Gene expression architecture of mouse dorsal and tail skin reveals functional differences in inflammation and cancer: TPA time course |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
|
| Summary |
Gene expression levels in normal tissues can differ substantially between individuals, due to inherited polymorphisms acting in cis or trans. Analysis of this variation across a population of genetically distinct individuals allows us to visualize a network of co-expressed genes under normal homeostatic conditions, and the consequences of perturbation by tissue damage or disease development. Here, we explore gene expression networks in normal adult skin from 470 genetically unique mice, and demonstrate the dependence of the architecture of signaling pathways on skin tissue location (dorsal or tail skin) and perturbation by induction of inflammation or tumorigenesis. Gene networks related to specific cell types, as well as signaling pathways including Sonic Hedgehog (Shh), Wnt, Lgr family stem cell markers, and keratins differed at these tissue sites, suggesting mechanisms for the differential susceptibility of dorsal and tail skin to development of skin diseases and tumorigenesis. The Pten tumor suppressor gene network is extensively rewired in premalignant tumors compared to normal tissue, but this response to perturbation is lost during malignant progression. We present a software package for eQTL network analysis and demonstrate how network analysis of whole tissues provides insights into interactions between cell compartments and signaling molecules.
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| |
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| Overall design |
Time course analysis of replicate exposure to epidermal application of TPA
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| |
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| Contributor(s) |
Quigley DA, Balmain A |
| Citation(s) |
27425619 |
| |
| Submission date |
May 31, 2016 |
| Last update date |
Apr 18, 2017 |
| Contact name |
David Quigley |
| Organization name |
UCSF
|
| Department |
Helen Diller Comprehensive Cancer Center
|
| Lab |
Ashworth Lab
|
| Street address |
1450 Third St. Room 207
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11533 |
[MoGene-1_1-st] Affymetrix Mouse Gene 1.1 ST Array [transcript (gene) version] |
|
| Samples (69)
|
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| This SubSeries is part of SuperSeries: |
| GSE52650 |
Gene expression architecture of mouse dorsal and tail skin reveals functional differences in inflammation and cancer |
|
| Relations |
| BioProject |
PRJNA323926 |
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