Papousek, Tomas (2020) Elementary Interaction Modes provide a molecular description for communities of microorganisms. Bachelor's Thesis, Mathematics.
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Abstract
This research was done in cooperation with the Systems Biology Lab of the VU Amsterdam. In this paper a generalization of Elementary Flux Modes (EFMs) is made towards communities of micro-organisms. To do so a community of micro-organisms is assumed to grow at a steady-state with a fixed growth rate across all species in the community. The resulting "Elementary Interaction Modes" (EIMs) provide a mathematical basis for analyzing such communities of micro-organisms that grow in a chemostat (a type of bioreactor). The model used to compute the EIMs was constructed after analyzing different earlier efforts made to generalize "Flux Balance Analysis" towards communities of micro-organisms. With this knowledge the model was tested on a toy model of 2 organisms and altered until it functioned properly, biologically speaking. Afterwards, the resulting model was generalized towards any community of 2 species and subsequently towards any community of n species. Based on this developed notion of EIMs for communities of n species, several theorems were proven which together put an upper bound on the complexity (in the number of EFMs used) in a community of n species that grows at its maximal growth rate.
| Item Type: | Thesis (Bachelor's Thesis) |
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| Supervisor name: | Schaft, A.J. van der and Besselink, B. |
| Degree programme: | Mathematics |
| Thesis type: | Bachelor's Thesis |
| Language: | English |
| Date Deposited: | 18 Dec 2020 12:41 |
| Last Modified: | 18 Dec 2020 12:41 |
| URI: | https://fse.studenttheses.ub.rug.nl/id/eprint/23714 |
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