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Title: Transcription profiling of C. elegans slr-2, C2H2 Zn-finger protein mutant to normal controls at L1 stage      
dateReleased:
06-16-2008
description:
Our slr-2 dataset showed strong overrepresentation of genes previously identified in a serial analysis of gene expression (SAGE) intestinal library (McGhee et al., 2006) (p << 0.01); 812 genes were common to both data sets. Consistent with the deregulation of intestinal genes, we observed repression of several important metabolic pathways, including the TOR and insulin signaling networks, suggesting that slr-2(ku297) mutants experience metabolic stress. We also compared differentially regulated genes in slr-2 and lin-35 single mutants. Again, we saw a statistically significant overlap (p-value < 0.01); 261 genes were present in both data sets. Strikingly, > 75% of genes common both datasets showed expression changes in the same direction, although the common dataset contained an approximately equal mixture of up and downregulated genes. Furthermore, more than fifty genes common to the lin-35 and slr-2 datasets are known to have intestinal-associated functions. That some of these common intestinal genes were absent from the gut SAGE library could be due to differences in the developmental stage of the animals assayed (adults versus L1s) as well as experimental approaches (SAGE versus microarrays) Experiment Overall Design: We compared transcriptome profiles of slr-2 mutants and control N2 worms at L1 stage stage. Experiment Overall Design: Each comparison was done in triplicate with independently grown and isolated animals. Experiment Overall Design: Data for N2 L1 stage were from our previous experiments (Series GSE6547) Experiment Overall Design: To achieve higher accuracy, RMA values were calculated on the basis of 21 microarray experiments (including data from Series GSE6547)
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-9246
refinement:
raw
alternateIdentifiers:
9246
dateSubmitted:
10-05-2007
keywords:
functional genomics
dateModified:
06-10-2011
creators:
David Fay
availability:
available
types:
gene expression
name:
Caenorhabditis elegans
name:
unknown experiment type
ID:
A-AFFY-60
name:
Affymetrix GeneChip C. elegans Genome Array [Celegans]
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-9246/E-GEOD-9246.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-9246/E-GEOD-9246.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9246
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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