Publicação
GEMification: gamification of genome-scale metabolic models
| Resumo: | Genome-scale metabolic models (GEMs) constitute a widely employed technique in systems biology. These models serve as mathematical representations of an organism’s metabolic pathways, providing a means to better comprehend the phenotype behaviour of various organisms under diverse environmental and genetic conditions. However, due to their inherent complexity, these mathematical models, which en compass numerous metabolic reactions and pathways, can pose challenges in terms of comprehension and interpretation. Recognising the effectiveness of games in education compared to traditional teaching methods, there is a growing trend to utilize ’serious games’ for educational purposes. This thesis set out to facilitate the utilisation of GEMs, by creating and integrating a user-friendly, game-like Graphical User Interface (GUI). This interface is designed to facilitate the execution of both fundamental and ad vanced operations, encompassing tasks such as basic Flux Balance Analysis (FBA), reactions/genes knockouts, and optimisations, among other functionalities. In this context, Gemification, a serious game, integrates the exploration of GEMs with the incorporation of Escher maps and features powered by the MEWpy framework. Escher maps serve as visual aids, enhancing the user’s ability to navigate and in terpret the intricate metabolic networks presented within the game, while MEWpy provides additional analytical features to facilitate a deeper understanding of the underlying biological processes. |
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| Autores principais: | Sá, Tomás Carreiró Carvalho Silva e |
| Assunto: | Genome-scale metabolic models Serious games Systems biology Gemification Modelos metabólicos à escala do genoma Jogos sérios Biologia de sistemas |
| Ano: | 2024 |
| País: | Portugal |
| Tipo de documento: | dissertação de mestrado |
| Tipo de acesso: | acesso aberto |
| Instituição associada: | Universidade do Minho |
| Idioma: | inglês |
| Origem: | RepositóriUM - Universidade do Minho |
| Resumo: | Genome-scale metabolic models (GEMs) constitute a widely employed technique in systems biology. These models serve as mathematical representations of an organism’s metabolic pathways, providing a means to better comprehend the phenotype behaviour of various organisms under diverse environmental and genetic conditions. However, due to their inherent complexity, these mathematical models, which en compass numerous metabolic reactions and pathways, can pose challenges in terms of comprehension and interpretation. Recognising the effectiveness of games in education compared to traditional teaching methods, there is a growing trend to utilize ’serious games’ for educational purposes. This thesis set out to facilitate the utilisation of GEMs, by creating and integrating a user-friendly, game-like Graphical User Interface (GUI). This interface is designed to facilitate the execution of both fundamental and ad vanced operations, encompassing tasks such as basic Flux Balance Analysis (FBA), reactions/genes knockouts, and optimisations, among other functionalities. In this context, Gemification, a serious game, integrates the exploration of GEMs with the incorporation of Escher maps and features powered by the MEWpy framework. Escher maps serve as visual aids, enhancing the user’s ability to navigate and in terpret the intricate metabolic networks presented within the game, while MEWpy provides additional analytical features to facilitate a deeper understanding of the underlying biological processes. |
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