Accelerated discovery via a whole-cell model

Sanghvi, Jayodita C.; Regot, Sergi; Carrasco, Silvia; Karr, Jonathan R.; Gutschow, Miriam V.; Bolival, Benjamin; Covert, Markus W.

doi:10.1038/nmeth.2724

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Accelerated discovery via a whole-cell model

Nov 03 2013
By Sanghvi, Jayodita C. ; Regot, Sergi ; Carrasco, Silvia ; ...
http://dx.doi.org/10.1038/nmeth.2724
Source: Nat Methods. 10(12):1192-1195.

[PDF-1014.87 KB]

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Details:

Alternative Title:

Nat Methods
Personal Author:

Sanghvi, Jayodita C. ; Regot, Sergi ; Carrasco, Silvia ; Karr, Jonathan R. ; Gutschow, Miriam V. ; ... More +

Sanghvi, Jayodita C. ; Regot, Sergi ; Carrasco, Silvia ; Karr, Jonathan R. ; Gutschow, Miriam V. ; Bolival, Benjamin ; Covert, Markus W. Less -
Description:

To test the promise of whole-cell modeling to facilitate scientific inquiry, we compared growth rates simulated in a whole-cell model with experimental measurements for all viable single-gene disruption Mycoplasma genitalium strains. Discrepancies between simulations and experiments led to predictions about kinetic parameters of specific enzymes that we subsequently validated. These findings represent, to our knowledge, the first application of whole-cell modeling to accelerate biological discovery.
Subjects:

[+]

Article Bacterial Proteins Catalysis Computational Biology Computer Simulation Gene Expression Profiling Gene Expression Regulation, Bacterial Gene Regulatory Networks Genes, Bacterial Models, Biological Mycoplasma Genitalium Phenotype Regression Analysis Reproducibility Of Results Systems Biology
Source:

Nat Methods. 10(12):1192-1195.
Pubmed ID:

24185838
Pubmed Central ID:

PMC3856890
Document Type:

Journal Article
Funding:

5DP1LM01150-05/DP/NCCDPHP CDC HHS/United States ; DP1 LM011510/LM/NLM NIH HHS/United States ; DP1 OD006413/OD/NIH HHS/United States

5DP1LM01150-05/DP/NCCDPHP CDC HHS/United States ; DP1 LM011510/LM/NLM NIH HHS/United States ; DP1 OD006413/OD/NIH HHS/United States Less -
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CDC Public Access
Main Document Checksum:

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urn:sha256:38820c73a7b373110b74b9fa1411a288d5c8868e85cedc9507259d2cbcc7872d
Download URL:

https://stacks.cdc.gov/view/cdc/29799/cdc_29799_DS1.pdf
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