PPRINT: Prediction of Protein-Protein Interactions

Detalhes bibliográficos
Autor(a) principal: Cruz, Igor Nelson Garrido da
Data de Publicação: 2014
Tipo de documento: Dissertação
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10316/35674
Resumo: Dissertação de Mestrado em Engenharia Informática apresentada à Faculdade de Ciências e Tecnologia da Universidade de Coimbra
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spelling PPRINT: Prediction of Protein-Protein InteractionsBioinformaticsProtein Interaction PredictionProtein FeaturesMachine LearningDissertação de Mestrado em Engenharia Informática apresentada à Faculdade de Ciências e Tecnologia da Universidade de CoimbraUnderstanding life at a molecular level, while complex, encloses a myriad of opportunities for humanity's future. As important as being able to identify the molecular components of the cell it is of major relevance to understand their relationships and interactions. This way, the study of Protein-Protein Interactions (PPIs) has been used as a cornerstone to de- termine how most of the biological processes take place. Due to the large scale of the problem it is critical to use the appropriate computational tools and methods. Despite the existence of previous works in the eld, the available methods are divided in two groups of approaches: experi- mental and computational. Experimental techniques have good prediction accuracy but are slow and expensive, therefore urges the need of develop- ing computational approaches. These have low prediction accuracy but only require computational power and consequently are inexpensive since no laboratory machinery is required. A great amount of these algorithms are based on protein annotations, such as protein homology or protein do- mains. That makes such algorithms inapplicable to sparse multi-organism datasets usually composed only by the proteins sequences. In this work we start by analysing the existent state of the art methods for compu- tational prediction of PPIs. It is our goal to explore their limitations and make improvements that can lead to more accurate results. After that we propose a new approach using the discrete cosine transform as a method of construction of features from the protein chain and a new method that calculates the three dimensional structure of the protein from its sequence. These new improved approaches will bequeath more accurate protein interactomes that can be used by Genomic Engineers in order to understand the intracellular structures relationship and biological processes. From these biological processes it is possible to extract seman- tic knowledge that can lead to new drug discoveries. Finally as a method of validation, our work is currently being experimentally validated by the Faculty of Dental Medicine from the Catholic University of Portugal from the biological perspective using real sets of proteins extracted from hu- mans saliva and from microorganisms presents in the oral cavity. It is also publicly available online for everyone to complement or use in other researches.2014-09-15info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/masterThesishttp://hdl.handle.net/10316/35674http://hdl.handle.net/10316/35674TID:201538660engCruz, Igor Nelson Garrido dainfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2022-05-25T04:31:05Zoai:estudogeral.uc.pt:10316/35674Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T20:54:27.779479Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv PPRINT: Prediction of Protein-Protein Interactions
title PPRINT: Prediction of Protein-Protein Interactions
spellingShingle PPRINT: Prediction of Protein-Protein Interactions
Cruz, Igor Nelson Garrido da
Bioinformatics
Protein Interaction Prediction
Protein Features
Machine Learning
title_short PPRINT: Prediction of Protein-Protein Interactions
title_full PPRINT: Prediction of Protein-Protein Interactions
title_fullStr PPRINT: Prediction of Protein-Protein Interactions
title_full_unstemmed PPRINT: Prediction of Protein-Protein Interactions
title_sort PPRINT: Prediction of Protein-Protein Interactions
author Cruz, Igor Nelson Garrido da
author_facet Cruz, Igor Nelson Garrido da
author_role author
dc.contributor.author.fl_str_mv Cruz, Igor Nelson Garrido da
dc.subject.por.fl_str_mv Bioinformatics
Protein Interaction Prediction
Protein Features
Machine Learning
topic Bioinformatics
Protein Interaction Prediction
Protein Features
Machine Learning
description Dissertação de Mestrado em Engenharia Informática apresentada à Faculdade de Ciências e Tecnologia da Universidade de Coimbra
publishDate 2014
dc.date.none.fl_str_mv 2014-09-15
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/masterThesis
format masterThesis
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10316/35674
http://hdl.handle.net/10316/35674
TID:201538660
url http://hdl.handle.net/10316/35674
identifier_str_mv TID:201538660
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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