title: Full-genome RNAi profiling of early embryogenesis in Caenorhabditis elegans.
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.
authors.affiliation: Cenix BioScience GmbH, Tatzberg 47-51, D-01307 Dresden, Germany. soennichsen@cenix-bioscience.com
authors.forename: B
authors.initials: B
authors.lastname: Sönnichsen
authors.forename: L B
authors.initials: LB
authors.lastname: Koski
authors.forename: A
authors.initials: A
authors.lastname: Walsh
authors.forename: P
authors.initials: P
authors.lastname: Marschall
authors.forename: B
authors.initials: B
authors.lastname: Neumann
authors.forename: M
authors.initials: M
authors.lastname: Brehm
authors.forename: A-M
authors.initials: AM
authors.lastname: Alleaume
authors.forename: J
authors.initials: J
authors.lastname: Artelt
authors.forename: P
authors.initials: P
authors.lastname: Bettencourt
authors.forename: E
authors.initials: E
authors.lastname: Cassin
authors.forename: M
authors.initials: M
authors.lastname: Hewitson
authors.forename: C
authors.initials: C
authors.lastname: Holz
authors.forename: M
authors.initials: M
authors.lastname: Khan
authors.forename: S
authors.initials: S
authors.lastname: Lazik
authors.forename: C
authors.initials: C
authors.lastname: Martin
authors.forename: B
authors.initials: B
authors.lastname: Nitzsche
authors.forename: M
authors.initials: M
authors.lastname: Ruer
authors.forename: J
authors.initials: J
authors.lastname: Stamford
authors.forename: M
authors.initials: M
authors.lastname: Winzi
authors.forename: R
authors.initials: R
authors.lastname: Heinkel
authors.forename: M
authors.initials: M
authors.lastname: Röder
authors.forename: J
authors.initials: J
authors.lastname: Finell
authors.forename: H
authors.initials: H
authors.lastname: Häntsch
authors.forename: S J M
authors.initials: SJ
authors.lastname: Jones
authors.forename: M
authors.initials: M
authors.lastname: Jones
authors.forename: F
authors.initials: F
authors.lastname: Piano
authors.forename: K C
authors.initials: KC
authors.lastname: Gunsalus
authors.forename: K
authors.initials: K
authors.lastname: Oegema
authors.forename: P
authors.initials: P
authors.lastname: Gönczy
authors.forename: A
authors.initials: A
authors.lastname: Coulson
authors.forename: A A
authors.initials: AA
authors.lastname: Hyman
authors.forename: C J
authors.initials: CJ
authors.lastname: Echeverri
mesh_terms: D000818:Animals; D017173:Caenorhabditis elegans / Q000196:embryology* / Q000235:genetics* / Q000502:physiology; D029742:Caenorhabditis elegans Proteins / Q000235:genetics* / Q000378:metabolism*; D019295:Computational Biology; D047108:Embryonic Development / Q000235:genetics*; D017238:Genes, Helminth / Q000235:genetics; D016678:Genome; D023281:Genomics; D010641:Phenotype; D034622:RNA Interference; D018510:RNA, Helminth / Q000235:genetics / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism
chemical_list: D029742:Caenorhabditis elegans Proteins; D018510:RNA, Helminth; D012333:RNA, Messenger