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- Title
An Integrated Framework to Model Cellular Phenotype as a Component of Biochemical Networks.
- Authors
Gormley, Michael; Akella, Viswanadha U.; Quong, Judy N.; Quong, Andrew A.
- Abstract
Identification of regulatory molecules in signaling pathways is critical for understanding cellular behavior. Given the complexity of the transcriptional gene network, the relationship between molecular expression and phenotype is difficult to determine using reductionist experimental methods. Computational models provide the means to characterize regulatory mechanisms and predict phenotype in the context of gene networks. Integrating gene expression data with phenotypic data in transcriptional network models enables systematic identification of criticalmolecules in a biological network. We developed an approach based on fuzzy logic to model cell budding in Saccharomyces cerevisiae using time series expression microarray data of the cell cycle. Cell budding is a phenotype of viable cells undergoing division. Predicted interactions between gene expression and phenotype reflected known biological relationships. Dynamic simulation analysis reproduced the behavior of the yeast cell cycle and accurately identified genes and interactions which are essential for cell viability.
- Subjects
BIOCHEMISTRY; MOLECULAR biology; PHENOTYPES; GENETIC transcription; GENE expression; GENETIC regulation; SIMULATION methods &; models
- Publication
Advances in Bioinformatics, 2011, p1
- ISSN
1687-8027
- Publication type
Article
- DOI
10.1155/2011/608295