Integrating Interactome, Phenome, and Transcriptome Mapping Data for the C. elegans Germline
| Autor: | Diane G. Morton, Hui Ge, Philippe Vaglio, Stuart K. Kim, Albertha J.M. Walhout, Aaron J. Schetter, Marc Vidal, Jérôme Reboul, Nicolas Bertin, Fabio Piano, Hongmei Lee, Kristin C. Gunsalus, Kenneth J. Kemphues, Lynn Doucette-Stamm, Olena Shtanko, Valerie Reinke |
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| Rok vydání: | 2002 |
| Předmět: |
Proteome
Transcription Genetic Phenome Interactome General Biochemistry Genetics and Molecular Biology Germline Transcriptome 03 medical and health sciences Open Reading Frames 0302 clinical medicine RNA interference Animals Caenorhabditis elegans Caenorhabditis elegans Proteins Gene 030304 developmental biology Genetics 0303 health sciences Genome biology Agricultural and Biological Sciences(all) Biochemistry Genetics and Molecular Biology(all) Chromosome Mapping biology.organism_classification Gene expression profiling Genetic Techniques General Agricultural and Biological Sciences 030217 neurology & neurosurgery |
| Zdroj: | Current Biology. 12(22):1952-1958 |
| ISSN: | 0960-9822 |
| DOI: | 10.1016/s0960-9822(02)01279-4 |
| Popis: | By integrating functional genomic and proteomic mapping approaches, biological hypotheses should be formulated with increasing levels of confidence [1–5]. For example, yeast interactome and transcriptome data can be correlated in biologically meaningful ways [6–9]. Here, we combine interactome mapping data generated for a multicellular organism with data from both large-scale phenotypic analysis ("phenome mapping") and transcriptome profiling. First, we generated a two-hybrid interactome map of the Caenorhabditis elegans germline by using 600 transcripts enriched in this tissue [10]. We compared this map to a phenome map of the germline obtained by RNA interference (RNAi) [34] and to a transcriptome map obtained by clustering worm genes across 553 expression profiling experiments [11]. In this dataset, we find that essential proteins have a tendency to interact with each other, that pairs of genes encoding interacting proteins tend to exhibit similar expression profiles, and that, for ∼24% of germline interactions, both partners show overlapping embryonic lethal or high incidence of males RNAi phenotypes and similar expression profiles. We propose that these interactions are most likely to be relevant to germline biology. Similar integration of interactome, phenome, and transcriptome data should be possible for other biological processes in the nematode and for other organisms, including humans. |
| Databáze: | OpenAIRE |
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