Protein-protein interaction network : management of databases and its applications on the computational study of protein-protein interactions
The use of protein-protein interaction networks has become crucial due to the emergence of systems biology. The completeness and quality of networks, crucial to understand the biochemical mechanisms underlying a system such as a cell, are still challenging the scientific community. This thesis focus...
| Autor: | |
|---|---|
| Formato: | tesis doctoral |
| Estado: | Versión publicada |
| Fecha de publicación: | 2015 |
| País: | España |
| Recursos: | CBUC, CESCA |
| Repositorio: | TDR. Tesis Doctorales en Red |
| OAI Identifier: | oai:www.tdx.cat:10803/286512 |
| Acesso em linha: | http://hdl.handle.net/10803/286512 |
| Access Level: | acceso abierto |
| Palavra-chave: | Protein Interactions Database Integration Interactome Binding interface Proteïna Base de dades Integració Interactoma Prediccions Lloc d'unió 577 |
| Resumo: | The use of protein-protein interaction networks has become crucial due to the emergence of systems biology. The completeness and quality of networks, crucial to understand the biochemical mechanisms underlying a system such as a cell, are still challenging the scientific community. This thesis focuses on the data completeness challenge by the development of flexible tools for biological data management. It presents a database framework, BIANA, in which the integrated access to several information sources tackles this problem by unraveling hidden biological associations. BIANA is used to develop protein-protein interaction inference tools based on sequence similarity and protein-protein interactions. I have applied the approach on Salmonella-host infection, a case study where experimental data is scarce. Finally, I have focused on the integration problem of protein sequence annotation, also addressing the prediction of protein-protein interaction interfaces. I have developed a new evaluation measure to compare the predictive power of interface inference approaches. |
|---|