Title |
Mapping the landscape of metabolic goals of a cell
|
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Published in |
Genome Biology, May 2016
|
DOI | 10.1186/s13059-016-0968-2 |
Pubmed ID | |
Authors |
Qi Zhao, Arion I. Stettner, Ed Reznik, Ioannis Ch. Paschalidis, Daniel Segrè |
Abstract |
Genome-scale flux balance models of metabolism provide testable predictions of all metabolic rates in an organism, by assuming that the cell is optimizing a metabolic goal known as the objective function. We introduce an efficient inverse flux balance analysis (invFBA) approach, based on linear programming duality, to characterize the space of possible objective functions compatible with measured fluxes. After testing our algorithm on simulated E. coli data and time-dependent S. oneidensis fluxes inferred from gene expression, we apply our inverse approach to flux measurements in long-term evolved E. coli strains, revealing objective functions that provide insight into metabolic adaptation trajectories. |
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Geographical breakdown
Country | Count | As % |
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United States | 4 | 17% |
United Kingdom | 3 | 13% |
Japan | 2 | 8% |
Brazil | 1 | 4% |
Netherlands | 1 | 4% |
Belgium | 1 | 4% |
Unknown | 12 | 50% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 12 | 50% |
Scientists | 10 | 42% |
Science communicators (journalists, bloggers, editors) | 2 | 8% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 4 | 3% |
Sweden | 1 | <1% |
Chile | 1 | <1% |
Japan | 1 | <1% |
United Kingdom | 1 | <1% |
Unknown | 125 | 94% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 37 | 28% |
Researcher | 27 | 20% |
Student > Master | 11 | 8% |
Student > Bachelor | 9 | 7% |
Student > Doctoral Student | 8 | 6% |
Other | 20 | 15% |
Unknown | 21 | 16% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 37 | 28% |
Biochemistry, Genetics and Molecular Biology | 26 | 20% |
Computer Science | 13 | 10% |
Engineering | 9 | 7% |
Chemical Engineering | 6 | 5% |
Other | 9 | 7% |
Unknown | 33 | 25% |