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E-GEOD-5586 - Transcription profiling of zebrafish earl grey (egy) wildtype and mutant embryo comparison

Status
Released on 25 April 2009, last updated on 27 March 2012
Organism
Danio rerio
Samples (10)
Array (1)
Protocols (4)
Description
U4/U6 di-snRNPs were disrupted and singular U4 and U6 snRNPs accumulated in egy mutant embryos, establishing the recycling function of p110 in vivo. Based on microarray analyses, a subset of spliceosome components and splicing-related factors was coordinately upregulated in the egy mutant. This revealed an extensive network of coregulated components of the spliceosome cycle, compensating – albeit inefficiently – for the recycling defect. In contrast, another set of genes, many of them eye- and pancreas-specific, was downregulated in the egy mutant embryos. Experiment Overall Design: Zebrafish earl grey (egy) mutant embryos carry an autosomal recessive defect in the p110-orthologous gene which leads to microcephaly, microphthalmia, underdevelopment of the pharyngeal arches, and thymus hypoplasia by day 8 of development. To characterize the defect on the transcriptional level, egy whole embryos (n>100) were collected and morphologically separated into pools of mutant (mut) and wildtype (wt) sibling embryos. Pools of embryos were collected at 2 time points (3 and 4 days post fertilization) with 2 and 3 biological replicates, resp.. After RNA extraction, labelled cRNA was hybridized onto Affymetrix microarrays.
Experiment types
transcription profiling by array, individual genetic characteristics, unknown experiment type
Contact
Citation
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-5586.idf.txt
Sample and data relationshipE-GEOD-5586.sdrf.txt
Processed data (1)E-GEOD-5586.processed.1.zip
Array designA-AFFY-38.adf.txt
Links