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| Status |
Public on Sep 15, 2008 |
| Title |
Expression data from E11.5 mouse embryonic forelimbs - various mutant conditions or dissected limb domains |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
Sonic hedgehog (Shh) signals via Gli transcription factors to direct digit number and identity in the vertebrate limb. We have characterized the Gli-dependent cis-regulatory network through a combination of whole genome ChIP-on-chip and transcriptional profiling of the developing mouse limb.
In this dataset, we include the expression data obtained from dissected mouse forelimbs using a variety of gain- and loss-of-function hedgehog pathway mutants, as well as limbs dissected into responsive (posterior 2/3ds) and non-responsive (anterior 1/3d) Hh tissues. These data are used to obtain 753 genes that are differentially expressed in response to Shh signaling.
Keywords: Comparison of genetic samples
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| Overall design |
28 Total samples were analyzed. We generated the following pairwise comparisons using PowerExpress: Shh<WT; SmoM2>WT; Gli3<WT; Gli3>WT; Ant<Post; Ant>Post. Genes with an FDR≤10% and a fold-change ≥2 were selected. We did not generate pairwise comparisons for a certain combinations with SmoGli3 and Gli3 mutants because data from these arrays contained significant variability. To identify additional genes that were Shh-responsive, we performed the following multiple sample comparisons using an FDR≤10% and a posterior probability cutoff of ≤25%: 1.) Ant<Post and Shh<WT<SmoM2, 2.) Ant<Post and Shh<WT<SmoM2 and Gli3>SmoGli3, 3.) Ant<Post and Shh<WT<SmoM2 and WT>SmoGli3
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| Contributor(s) |
Ji H, Vokes SA |
| Citation(s) |
18832070 |
| |
| Submission date |
Apr 04, 2008 |
| Last update date |
Jan 29, 2022 |
| Contact name |
Steven A. Vokes |
| E-mail(s) |
svokes@austin.utexas.edu
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| Organization name |
University of Texas at Austin
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| Department |
Molecular Biosciences
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| Street address |
2500 Speedway, STOP A5000
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| City |
Austin |
| State/province |
Texas |
| ZIP/Postal code |
78757 |
| Country |
USA |
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| Platforms (1) |
| GPL6096 |
[MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [transcript (gene) version] |
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| Samples (28)
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| This SubSeries is part of SuperSeries: |
| GSE11077 |
A Genome-Scale Analysis of the Cis-Regulatory Circuitry Underlying Hedgehog Mediated Patterning of the Mammalian Limb |
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| Relations |
| BioProject |
PRJNA108817 |
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