Genomics

Dataset Information

40

Expression data from E11.5 mouse embryonic forelimbs - various mutant conditions or dissected limb domains


ABSTRACT: 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 Overall design: 28 Total samples were analyzed. We generated the following pairwise comparisons using PowerExpress: ShhWT; Gli3WT; AntPost. 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.) AntSmoGli3, 3.) AntSmoGli3

INSTRUMENT(S): [MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [transcript (gene) version]

ORGANISM(S): Mus musculus  

SUBMITTER: Steven A. Vokes 

PROVIDER: GSE11063 | GEO | 2008-09-15

SECONDARY ACCESSION(S): PRJNA108817

REPOSITORIES: GEO

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