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ARTICLE: The anatomy of microbial cell state transitions in response to oxygen
- Amy K. Schmid,
- David J. Reiss,
- Amardeep Kaur,
- Min Pan,
- Nichole King,
- Phu T. Van,
- Laura Hohmann,
- Daniel B. Martin,
- and Nitin S. Baliga
Genome Res. October 2007 17: 1399-1413; Published in Advance September 4, 2007, doi:10.1101/gr.6728007
...result in an appropriate cellular response is not well understood at a systems level. Therefore, transcriptome, proteome, ATP, and growth changes were analyzed in a halophilic archaeon to generate a temporal model that describes the cellular events that drive the transition between the organism’s two...
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Method: Detecting differential growth of microbial populations with Gaussian process regression
- Peter D. Tonner,
- Cynthia L. Darnell,
- Barbara E. Engelhardt,
- and Amy K. Schmid
Genome Res. February 2017 27: 320-333; Published in Advance November 18, 2016, doi:10.1101/gr.210286.116
...-GREAT framework detected significantly reduced growth relative to the parent strain for ΔsirR during the later stages of the time series under oxidative stress (ODΔ 95% CI; BF FDR≤ 20%) (Fig. 4C–E). ΔsirRwas previously implicated in regulating genes involved in metal ion uptake (Kaur et al. 2006...
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