The DOI matches its Crossref record; 18 of the 18 references it cites were found in a registry or an index.
Promoters maintain their relative activity levels under different growth conditions
Open accessAbstract
Most genes change expression levels across conditions, but it is unclear which of these changes represents specific regulation and what determines their quantitative degree. Here, we accurately measured activities of ∼900 S. cerevisiae and ∼1800 E. coli promoters using fluorescent reporters. We show that in both organisms 60–90% of promoters change their expression between conditions by a constant global scaling factor that depends only on the conditions and not on the promoter's identity. Quantifying such global effects allows precise characterization of specific regulation—promoters deviating from the global scale line. These are organized into few functionally related groups that also adhere to scale lines and preserve their relative activities across conditions. Thus, only several scaling factors suffice to accurately describe genome‐wide expression profiles across conditions. We present a parameter‐free passive resource allocation model that quantitatively accounts for the global scaling factors. It suggests that many changes in expression across conditions result from global effects and not specific regulation, and provides means for quantitative interpretation of expression profiles.
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Cites
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A Highly Characterized Yeast Toolkit for Modular, Multipart Assembly
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Reprogramming Yeast Metabolism from Alcoholic Fermentation to Lipogenesis
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Zrimec, J., Börlin, C. S., Buric, F., Muhammad, A. S., Chen, R., Siewers, V., Verendel, V., Nielsen, J., Töpel, M., & Zelezniak, A. (2020) · Nature Communications · doi:10.1038/s41467-020-19921-4 · Cited by 174
Gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure
Zrimec, J., Buric, F., Muhammad, A. S., Chen, R., Verendel, V., Töpel, M., & Zelezniak, A. (2019) · doi:10.1101/792531 · Cited by 173
Kafri, M., Metzl-Raz, E., Jonas, F., & Barkai, N. (2016) · FEMS Yeast Research · doi:10.1093/femsyr/fow081 · Cited by 48
Metadata
- Authors
- Keren, L., Zackay, O., Lotan‐Pompan, M., Barenholz, U., Dekel, E., Sasson, V., Aidelberg, G., Bren, A., Zeevi, D., Weinberger, A., Alon, U., Milo, R., & Segal, E.
- Venue
- Molecular Systems Biology
- Published
- 2013-01
- Volume
- 9
- Issue
- 1
- Pages
- 701-701
- ISSN
- 1744-4292 (ISSN-L)
- OpenAlex
- W2101762601
- Cited by
- 204
- References
- 18
- FWCI
- 7.93
- Type
- journal article
- Language
- en
- Open access
- gold
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- Keren, L., Zackay, O., Lotan‐Pompan, M., Barenholz, U., Dekel, E., Sasson, V., Aidelberg, G., Bren, A., Zeevi, D., Weinberger, A., Alon, U., Milo, R., & Segal, E. (2013). Promoters maintain their relative activity levels under different growth conditions. Molecular Systems Biology. https://doi.org/10.1038/msb.2013.59
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