A Caenorhabditis motif compendium for studying transcriptional gene regulation
2008
A Compendium of Regulatory Motifs in Caenorhabditis
Sample size: 9500
publication
Evidence: high
Author Information
Author(s): Dieterich Christoph, Sommer Ralf J
Primary Institution: Max Planck Institute for Developmental Biology
Hypothesis
A comprehensive parts list of putative regulatory motifs was yet missing for the model organism Caenorhabditis elegans.
Conclusion
The study provides a motif compendium that is significantly conserved and correlated with many gene expression conditions in nematodes.
Supporting Evidence
- The nematode genomes align surprisingly well despite high neutral substitution rates.
- Our pipeline delivers motif sets by three alternative strategies.
- Each set contains less than 400 motifs, which are significantly conserved and correlated with 214 out of 270 tested gene expression conditions.
Takeaway
The researchers created a list of important DNA sequences that help control how genes are turned on and off in a tiny worm called Caenorhabditis elegans.
Methodology
The study involved assembling a new nematode genome, performing whole genome alignments, and assessing conserved k-mers counts to compile regulatory motifs.
Statistical Information
P-Value
<0.05
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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