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Links from GEO DataSets

Accession: PRJNA111131 ID: 111131

Danio rerio (zebrafish)

Zebrafish 24hpf mutant sk8 gene expression

See Genome Information for Danio rerio
The production of functional mRNA involves multiple steps including transcription initiation, elongation, and termination. spt5 encodes a conserved essential transcription elongation factor that controls RNAPII processivity in vitro and co-localizes with RNAPII in vivo. We used microarrays to detail the global expression of gene expression at 24 hours post fertilization in wild-type and Spt5 mutant (fog-sk8) to identify Spt5 transcriptionally dependent genes and affected pathways. Here we report that a mutation in zebrafish spt5, sk8, deregulates <5% of ~10,000 genes examined. These findings reveal a small but diverse set of developmentally regulated genes, whose expression is critically dependent on Spt5-regulated RNAPII stalling in vertebrate development. Keywords: comparison Overall design: RNA from zebrafish embryos were harvested at 24 hours post fertilization for hybridization to Affymetrix gene arrays.
AccessionPRJNA111131; GEO: GSE12826
Data TypeTranscriptome or Gene expression
ScopeMultiisolate
OrganismDanio rerio[Taxonomy ID: 7955]
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio; Danio rerio
PublicationsKrishnan K et al., "Identification of Spt5 target genes in zebrafish development reveals its dual activity in vivo.", PLoS One, 2008;3(11):e3621
SubmissionRegistration date: 18-Sep-2008
Nathan Salomonis, Biomedical Informatics, Cincinnati Children's Hospital
RelevanceModel Organism
Project Data:
Resource NameNumber
of Links
Publications
PubMed1
PMC1
Other datasets
GEO DataSets2
GEO Data Details
ParameterValue
Data volume, Spots93702
Data volume, Processed Mbytes3
Data volume, Supplementary Mbytes12

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