Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology

Detalhes bibliográficos
Autor(a) principal: Vidal, Ricardo dos Santos
Data de Publicação: 2009
Tipo de documento: Dissertação
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10400.1/674
Resumo: Dissertação mest., Engenharia Biológica, Universidade do Algarve, 2009
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spelling Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biologyTesesBiologia sintéticaEngenharia biológicaBioinformáticaPythonDissertação mest., Engenharia Biológica, Universidade do Algarve, 2009The large number of bioinformatics tools currently available for the analysis of genetic sequences and the technical features that each tool presents make the biological engineer's job simultaneously easier and more complex. The emerging field of synthetic biology is seen as a new approach to engineering biology, where foundational technologies and concepts generally applied to established fields of engineering, such as electrical or software engineering, are implemented in biology to enable the development of methodologies and standards to make engineering biology a predictable, reproducible and efficient task. Focusing on this new field of synthetic biology, the objective of this thesis was to develop a compound bioinformatics web application to assist in the conception and preparation of standardized biological parts, essential to the progress of this novel field. Different assembly standards for biological parts, developed and implemented by the community of biological engineers and researchers working in the field of synthetic biology, were analyzed and incorporated into the web application. The main programming language used for the development of this project was Python, with special usage of the biological computation code library provided by the BioPython project. Within the objective of producing a simple and unique web application, a selection of tools were integrated programmatically so as to generate a comprehensive analysis report of features based on a single input - a DNA or RNA sequence. This automated procedure made for a streamlined user interface with minimal learning requirements or user interaction. The provided results of the analysis performed by the web application are presented in the form of a report with information regarding the input sequence. These results include information such as for example, the identification of specific restriction sites, thermodynamic stability and secondary structure. These easily generated results provide biological engineers with information that may allow decisions to be made regarding the eligibility of the initial input sequence to be refined into a standard biological part, which in turn are elementary components in the development of synthetic biological devices or systems.Costa, Maria Emília LimaShetty, ReshmaSapientiaVidal, Ricardo dos Santos2011-09-07T16:05:17Z20092009-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/masterThesisapplication/pdfapplication/pdfhttp://hdl.handle.net/10400.1/674eng577 VID*Aut Caveinfo: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:RCAAP2023-07-24T10:11:28Zoai:sapientia.ualg.pt:10400.1/674Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T19:54:59.920974Repositório 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 Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
title Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
spellingShingle Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
Vidal, Ricardo dos Santos
Teses
Biologia sintética
Engenharia biológica
Bioinformática
Python
title_short Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
title_full Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
title_fullStr Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
title_full_unstemmed Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
title_sort Automated bioinformatic discovery: tools that tell you what you should knowa case-study in synthetic biology
author Vidal, Ricardo dos Santos
author_facet Vidal, Ricardo dos Santos
author_role author
dc.contributor.none.fl_str_mv Costa, Maria Emília Lima
Shetty, Reshma
Sapientia
dc.contributor.author.fl_str_mv Vidal, Ricardo dos Santos
dc.subject.por.fl_str_mv Teses
Biologia sintética
Engenharia biológica
Bioinformática
Python
topic Teses
Biologia sintética
Engenharia biológica
Bioinformática
Python
description Dissertação mest., Engenharia Biológica, Universidade do Algarve, 2009
publishDate 2009
dc.date.none.fl_str_mv 2009
2009-01-01T00:00:00Z
2011-09-07T16:05:17Z
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/10400.1/674
url http://hdl.handle.net/10400.1/674
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 577 VID*Aut Cave
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
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
repository.mail.fl_str_mv
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