• Register
X
Forgot Password

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

X

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.

No
Yes

A high-resolution C. elegans essential gene network based on phenotypic profiling of a complex tissue.

High-content screening for gene profiling has generally been limited to single cells. Here, we explore an alternative approach-profiling gene function by analyzing effects of gene knockdowns on the architecture of a complex tissue in a multicellular organism. We profile 554 essential C. elegans genes by imaging gonad architecture and scoring 94 phenotypic features. To generate a reference for evaluating methods for network construction, genes were manually partitioned into 102 phenotypic classes, predicting functions for uncharacterized genes across diverse cellular processes. Using this classification as a benchmark, we developed a robust computational method for constructing gene networks from high-content profiles based on a network context-dependent measure that ranks the significance of links between genes. Our analysis reveals that multi-parametric profiling in a complex tissue yields functional maps with a resolution similar to genetic interaction-based profiling in unicellular eukaryotes-pinpointing subunits of macromolecular complexes and components functioning in common cellular processes.

Pubmed ID: 21529718

Authors

  • Green RA
  • Kao HL
  • Audhya A
  • Arur S
  • Mayers JR
  • Fridolfsson HN
  • Schulman M
  • Schloissnig S
  • Niessen S
  • Laband K
  • Wang S
  • Starr DA
  • Hyman AA
  • Schedl T
  • Desai A
  • Piano F
  • Gunsalus KC
  • Oegema K

Journal

Cell

Publication Data

April 29, 2011

Associated Grants

  • Agency: NIGMS NIH HHS, Id: R01 GM073874
  • Agency: NIGMS NIH HHS, Id: R01 GM074207
  • Agency: NIGMS NIH HHS, Id: R01 GM074207
  • Agency: NIGMS NIH HHS, Id: R01 GM074207-05
  • Agency: NIGMS NIH HHS, Id: R01 GM085150
  • Agency: NIGMS NIH HHS, Id: R01 GM085150
  • Agency: NIGMS NIH HHS, Id: R01 GM085150-04
  • Agency: NIGMS NIH HHS, Id: R01 GM085503
  • Agency: NIGMS NIH HHS, Id: R01 GM085503
  • Agency: NIGMS NIH HHS, Id: R01 GM085503-04
  • Agency: NIGMS NIH HHS, Id: R01 GM088151
  • Agency: NIGMS NIH HHS, Id: R01 GM088151
  • Agency: NIGMS NIH HHS, Id: R01 GM088151-02
  • Agency: NICHD NIH HHS, Id: R01 HD046236
  • Agency: NICHD NIH HHS, Id: R01 HD046236
  • Agency: NICHD NIH HHS, Id: R01 HD046236-09

Mesh Terms

  • Animals
  • Caenorhabditis elegans
  • Computational Biology
  • Embryo, Nonmammalian
  • Gene Knockdown Techniques
  • Gene Regulatory Networks
  • Genetic Techniques
  • Gonads
  • Phenotype