Modelling tools and methodologies for rapid protocell prototyping
The field of unconventional computing considers the possibility of implementing computational devices using novel paradigms and materials to produce computers which may be more efficient, adaptable and robust than their silicon based counterparts. The integration of computation into the realms of ch...
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| Format: | Thesis (University of Nottingham only) |
| Language: | English |
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2011
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| Online Access: | https://eprints.nottingham.ac.uk/12141/ |
| _version_ | 1848791441704222720 |
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| author | Smaldon, James |
| author_facet | Smaldon, James |
| author_sort | Smaldon, James |
| building | Nottingham Research Data Repository |
| collection | Online Access |
| description | The field of unconventional computing considers the possibility of implementing computational devices using novel paradigms and materials to produce computers which may be more efficient, adaptable and robust than their silicon based counterparts. The integration of computation into the realms of chemistry and biology will allow the embedding of engineered logic into living systems and could produce truly ubiquitous computing devices. Recently, advances in synthetic biology have resulted in the modification of microorganism genomes to create computational behaviour in living cells, so called “cellular computing”. The cellular computing paradigm offers the possibility of intelligent bacterial agents which may respond and communicate with one another according to chemical signals received from the environment. However, the high levels of complexity when altering an organism which has been well adapted to certain environments over millions of years of evolution suggests an alternative approach in which chemical computational devices can be constructed completely from the bottom up, allowing the designer exquisite control and knowledge about the system being created. This thesis presents the development of a simulation and modelling framework to aid the study and design of bottom-up chemical computers, involving the encapsulation of computational re-actions within vesicles. The new “vesicle computing” paradigm is investigated using a sophisticated multi-scale simulation framework, developed from mesoscale, macroscale and executable biology techniques. |
| first_indexed | 2025-11-14T18:28:34Z |
| format | Thesis (University of Nottingham only) |
| id | nottingham-12141 |
| institution | University of Nottingham Malaysia Campus |
| institution_category | Local University |
| language | English |
| last_indexed | 2025-11-14T18:28:34Z |
| publishDate | 2011 |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | nottingham-121412025-02-28T11:17:48Z https://eprints.nottingham.ac.uk/12141/ Modelling tools and methodologies for rapid protocell prototyping Smaldon, James The field of unconventional computing considers the possibility of implementing computational devices using novel paradigms and materials to produce computers which may be more efficient, adaptable and robust than their silicon based counterparts. The integration of computation into the realms of chemistry and biology will allow the embedding of engineered logic into living systems and could produce truly ubiquitous computing devices. Recently, advances in synthetic biology have resulted in the modification of microorganism genomes to create computational behaviour in living cells, so called “cellular computing”. The cellular computing paradigm offers the possibility of intelligent bacterial agents which may respond and communicate with one another according to chemical signals received from the environment. However, the high levels of complexity when altering an organism which has been well adapted to certain environments over millions of years of evolution suggests an alternative approach in which chemical computational devices can be constructed completely from the bottom up, allowing the designer exquisite control and knowledge about the system being created. This thesis presents the development of a simulation and modelling framework to aid the study and design of bottom-up chemical computers, involving the encapsulation of computational re-actions within vesicles. The new “vesicle computing” paradigm is investigated using a sophisticated multi-scale simulation framework, developed from mesoscale, macroscale and executable biology techniques. 2011-07-13 Thesis (University of Nottingham only) NonPeerReviewed application/pdf en arr https://eprints.nottingham.ac.uk/12141/1/thesis.pdf Smaldon, James (2011) Modelling tools and methodologies for rapid protocell prototyping. PhD thesis, University of Nottingham. vesicle computing unconventional computing simulation and modelling dissipative particle dynamics cellular computing synthetic biology |
| spellingShingle | vesicle computing unconventional computing simulation and modelling dissipative particle dynamics cellular computing synthetic biology Smaldon, James Modelling tools and methodologies for rapid protocell prototyping |
| title | Modelling tools and methodologies for rapid protocell prototyping |
| title_full | Modelling tools and methodologies for rapid protocell prototyping |
| title_fullStr | Modelling tools and methodologies for rapid protocell prototyping |
| title_full_unstemmed | Modelling tools and methodologies for rapid protocell prototyping |
| title_short | Modelling tools and methodologies for rapid protocell prototyping |
| title_sort | modelling tools and methodologies for rapid protocell prototyping |
| topic | vesicle computing unconventional computing simulation and modelling dissipative particle dynamics cellular computing synthetic biology |
| url | https://eprints.nottingham.ac.uk/12141/ |