• Register
Forgot Password

If you have forgotten your password you can enter your email here and get a temporary password sent to your email.


Leaving Community

Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.


A gene-centered C. elegans protein-DNA interaction network.

Transcription regulatory networks consist of physical and functional interactions between transcription factors (TFs) and their target genes. The systematic mapping of TF-target gene interactions has been pioneered in unicellular systems, using "TF-centered" methods (e.g., chromatin immunoprecipitation). However, metazoan systems are less amenable to such methods. Here, we used "gene-centered" high-throughput yeast one-hybrid (Y1H) assays to identify 283 interactions between 72 C. elegans digestive tract gene promoters and 117 proteins. The resulting protein-DNA interaction (PDI) network is highly connected and enriched for TFs that are expressed in the digestive tract. We provide functional annotations for approximately 10% of all worm TFs, many of which were previously uncharacterized, and find ten novel putative TFs, illustrating the power of a gene-centered approach. We provide additional in vivo evidence for multiple PDIs and illustrate how the PDI network provides insights into metazoan differential gene expression at a systems level.

Pubmed ID: 16777607


  • Deplancke B
  • Mukhopadhyay A
  • Ao W
  • Elewa AM
  • Grove CA
  • Martinez NJ
  • Sequerra R
  • Doucette-Stamm L
  • Reece-Hoyes JS
  • Hope IA
  • Tissenbaum HA
  • Mango SE
  • Walhout AJ



Publication Data

June 16, 2006

Associated Grants

  • Agency: NIA NIH HHS, Id: AG025891
  • Agency: NIDDK NIH HHS, Id: DK068429
  • Agency: NIGMS NIH HHS, Id: GM056246
  • Agency: NIGMS NIH HHS, Id: R01 GM056264
  • Agency: NIGMS NIH HHS, Id: R01 GM056264-08
  • Agency: NIGMS NIH HHS, Id: R01 GM056264-08S1
  • Agency: NIGMS NIH HHS, Id: R01 GM056264-09
  • Agency: NIGMS NIH HHS, Id: R01 GM056264-10

Mesh Terms

  • Animals
  • Caenorhabditis elegans
  • Caenorhabditis elegans Proteins
  • Computational Biology
  • DNA, Helminth
  • DNA-Binding Proteins
  • Digestive System
  • Promoter Regions, Genetic
  • Regulatory Elements, Transcriptional
  • Saccharomyces cerevisiae
  • Transcription Factors
  • Transcription, Genetic
  • Two-Hybrid System Techniques