Full-genome RNAi profiling of early embryogenesis in Caenorhabditis elegans

B. Sönnichsen (), L. B. Koski, A. Walsh, P. Marschall, B. Neumann, M. Brehm, A.-M. Alleaume, J. Artelt, P. Bettencourt, E. Cassin, M. Hewitson, C. Holz, M. Khan, S. Lazik, C. Martin, B. Nitzsche, M. Ruer, J. Stamford, M. Winzi, R. Heinkel, M. Röder, J. Finell, H. Häntsch, S. J. M. Jones, M. Jones, F. Piano, K. C. Gunsalus, K. Oegema, P. Gönczy, A. Coulson, A. A. Hyman and C. J. Echeverri
Additional contact information
B. Sönnichsen: Cenix BioScience GmbH
L. B. Koski: Cenix BioScience GmbH
A. Walsh: Cenix BioScience GmbH
P. Marschall: Cenix BioScience GmbH
B. Neumann: Cenix BioScience GmbH
M. Brehm: Cenix BioScience GmbH
A.-M. Alleaume: Cenix BioScience GmbH
J. Artelt: Cenix BioScience GmbH
P. Bettencourt: Cenix BioScience GmbH
E. Cassin: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
M. Hewitson: Cenix BioScience GmbH
C. Holz: Cenix BioScience GmbH
M. Khan: Cenix BioScience GmbH
S. Lazik: Cenix BioScience GmbH
C. Martin: Cenix BioScience GmbH
B. Nitzsche: Cenix BioScience GmbH
M. Ruer: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
J. Stamford: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
M. Winzi: Cenix BioScience GmbH
R. Heinkel: Cenix BioScience GmbH
M. Röder: Cenix BioScience GmbH
J. Finell: Cenix BioScience GmbH
H. Häntsch: Cenix BioScience GmbH
S. J. M. Jones: British Columbia Cancer Research Centre
M. Jones: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus
F. Piano: New York University, 1009 Silver Centre
K. C. Gunsalus: New York University, 1009 Silver Centre
K. Oegema: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
P. Gönczy: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
A. Coulson: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus
A. A. Hyman: Max-Planck-Institute for Cell Biology and Genetics (MPI-CBG)
C. J. Echeverri: Cenix BioScience GmbH

Nature, 2005, vol. 434, issue 7032, 462-469

Abstract: Abstract A key challenge of functional genomics today is to generate well-annotated data sets that can be interpreted across different platforms and technologies. Large-scale functional genomics data often fail to connect to standard experimental approaches of gene characterization in individual laboratories. Furthermore, a lack of universal annotation standards for phenotypic data sets makes it difficult to compare different screening approaches. Here we address this problem in a screen designed to identify all genes required for the first two rounds of cell division in the Caenorhabditis elegans embryo. We used RNA-mediated interference to target 98% of all genes predicted in the C. elegans genome in combination with differential interference contrast time-lapse microscopy. Through systematic annotation of the resulting movies, we developed a phenotypic profiling system, which shows high correlation with cellular processes and biochemical pathways, thus enabling us to predict new functions for previously uncharacterized genes.

Date: 2005
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DOI: 10.1038/nature03353

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