Journal
ANNUAL REVIEW OF GENETICS, VOL 44
Volume 44, Issue -, Pages 419-444Publisher
ANNUAL REVIEWS
DOI: 10.1146/annurev-genet-102209-163432
Keywords
transcriptome; network analysis; transcriptional regulation; microarray analysis; systems biology
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Funding
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R01GM056006, R01GM074868] Funding Source: NIH RePORTER
- NIGMS NIH HHS [R01 GM074868, R01 GM056006] Funding Source: Medline
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An internal time-keeping mechanism has been observed in almost every organism studied from archaea to humans. This circadian clock provides a competitive advantage in fitness and survival (18, 30, 95, 129, 137). Researchers have uncovered the molecular composition of this internal clock by combining enzymology, molecular biology, genetics, and modeling approaches. However, understanding the mechanistic link between the clock and output responses has been elusive. In three model organisms, Arabidopsis thaliana, Drosophila melanogaster, and Mus musculus, whole-genome expression arrays have enabled researchers to investigate how maintaining a time-keeping mechanism connects to an adaptive advantage. Here, we review the impacts transcriptomics have had on our understanding of the clock and how this molecular clock connects with system-level circadian responses. We explore the discoveries made possible by high-throughput RNA assays, the network approaches used to investigate these large transcript datasets, and potential future directions.
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