OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development

Detalhes bibliográficos
Autor(a) principal: Ferreira, Marcel Rodrigues [UNESP]
Data de Publicação: 2020
Outros Autores: Milani, Renato, Rangel, Elidiane C. [UNESP], Peppelenbosch, Maikel, Zambuzzi, Willian [UNESP]
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.3389/fbioe.2020.565901
http://hdl.handle.net/11449/206730
Resumo: For bone purposes, surface modifications are a common trend in biomaterials research aiming to reduce the time necessary for osteointegration, culminating in faster recovery of patients. In this scenario, analysis of intracellular signaling pathways have emerged as an important and reliable strategy to predict biological responses from in vitro approaches. We have combined global analysis of intracellular protein phosphorylation, systems biology and bioinformatics into an early biomaterial analysis routine called OsteoBLAST. We employed the routine as follows: the PamChip tyrosine kinase assay was applied to mesenchymal stem cells grown on three distinct titanium surfaces: machined, dual acid-etched and nanoHA. Then, OsteoBLAST was able to identify the most reliable spots to further obtain the differential kinome profile and finally to allow a comparison among the different surfaces. Thereafter, NetworKIN, STRING, and Cytoscape were used to build and analyze a supramolecular protein-protein interaction network, and DAVID tools identified biological signatures in the differential kinome for each surface.
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spelling OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Developmentalternative methodsanalysisbioinformaticsbiomaterialsbone healingFor bone purposes, surface modifications are a common trend in biomaterials research aiming to reduce the time necessary for osteointegration, culminating in faster recovery of patients. In this scenario, analysis of intracellular signaling pathways have emerged as an important and reliable strategy to predict biological responses from in vitro approaches. We have combined global analysis of intracellular protein phosphorylation, systems biology and bioinformatics into an early biomaterial analysis routine called OsteoBLAST. We employed the routine as follows: the PamChip tyrosine kinase assay was applied to mesenchymal stem cells grown on three distinct titanium surfaces: machined, dual acid-etched and nanoHA. Then, OsteoBLAST was able to identify the most reliable spots to further obtain the differential kinome profile and finally to allow a comparison among the different surfaces. Thereafter, NetworKIN, STRING, and Cytoscape were used to build and analyze a supramolecular protein-protein interaction network, and DAVID tools identified biological signatures in the differential kinome for each surface.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Department of Chemistry and Biochemistry Institute of Biosciences São Paulo State University (UNESP)Bioquímica e Biologia Tecidual Biology Institute Universidade de Campinas (UNICAMP)Institute of Science and Technology São Paulo State University (UNESP)Department of Gastroenterology and Hepatology Erasmus MC University Medical Center RotterdamDepartment of Chemistry and Biochemistry Institute of Biosciences São Paulo State University (UNESP)Institute of Science and Technology São Paulo State University (UNESP)FAPESP: 2014/22689-3FAPESP: 2015/03639-8FAPESP: 2018/05731-7Universidade Estadual Paulista (Unesp)Universidade Estadual de Campinas (UNICAMP)University Medical Center RotterdamFerreira, Marcel Rodrigues [UNESP]Milani, RenatoRangel, Elidiane C. [UNESP]Peppelenbosch, MaikelZambuzzi, Willian [UNESP]2021-06-25T10:37:13Z2021-06-25T10:37:13Z2020-10-08info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlehttp://dx.doi.org/10.3389/fbioe.2020.565901Frontiers in Bioengineering and Biotechnology, v. 8.2296-4185http://hdl.handle.net/11449/20673010.3389/fbioe.2020.5659012-s2.0-85093932711Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengFrontiers in Bioengineering and Biotechnologyinfo:eu-repo/semantics/openAccess2021-10-23T12:39:36Zoai:repositorio.unesp.br:11449/206730Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T20:18:27.187836Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
title OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
spellingShingle OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
Ferreira, Marcel Rodrigues [UNESP]
alternative methods
analysis
bioinformatics
biomaterials
bone healing
title_short OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
title_full OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
title_fullStr OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
title_full_unstemmed OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
title_sort OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
author Ferreira, Marcel Rodrigues [UNESP]
author_facet Ferreira, Marcel Rodrigues [UNESP]
Milani, Renato
Rangel, Elidiane C. [UNESP]
Peppelenbosch, Maikel
Zambuzzi, Willian [UNESP]
author_role author
author2 Milani, Renato
Rangel, Elidiane C. [UNESP]
Peppelenbosch, Maikel
Zambuzzi, Willian [UNESP]
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (Unesp)
Universidade Estadual de Campinas (UNICAMP)
University Medical Center Rotterdam
dc.contributor.author.fl_str_mv Ferreira, Marcel Rodrigues [UNESP]
Milani, Renato
Rangel, Elidiane C. [UNESP]
Peppelenbosch, Maikel
Zambuzzi, Willian [UNESP]
dc.subject.por.fl_str_mv alternative methods
analysis
bioinformatics
biomaterials
bone healing
topic alternative methods
analysis
bioinformatics
biomaterials
bone healing
description For bone purposes, surface modifications are a common trend in biomaterials research aiming to reduce the time necessary for osteointegration, culminating in faster recovery of patients. In this scenario, analysis of intracellular signaling pathways have emerged as an important and reliable strategy to predict biological responses from in vitro approaches. We have combined global analysis of intracellular protein phosphorylation, systems biology and bioinformatics into an early biomaterial analysis routine called OsteoBLAST. We employed the routine as follows: the PamChip tyrosine kinase assay was applied to mesenchymal stem cells grown on three distinct titanium surfaces: machined, dual acid-etched and nanoHA. Then, OsteoBLAST was able to identify the most reliable spots to further obtain the differential kinome profile and finally to allow a comparison among the different surfaces. Thereafter, NetworKIN, STRING, and Cytoscape were used to build and analyze a supramolecular protein-protein interaction network, and DAVID tools identified biological signatures in the differential kinome for each surface.
publishDate 2020
dc.date.none.fl_str_mv 2020-10-08
2021-06-25T10:37:13Z
2021-06-25T10:37:13Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.3389/fbioe.2020.565901
Frontiers in Bioengineering and Biotechnology, v. 8.
2296-4185
http://hdl.handle.net/11449/206730
10.3389/fbioe.2020.565901
2-s2.0-85093932711
url http://dx.doi.org/10.3389/fbioe.2020.565901
http://hdl.handle.net/11449/206730
identifier_str_mv Frontiers in Bioengineering and Biotechnology, v. 8.
2296-4185
10.3389/fbioe.2020.565901
2-s2.0-85093932711
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Frontiers in Bioengineering and Biotechnology
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.source.none.fl_str_mv Scopus
reponame:Repositório Institucional da UNESP
instname:Universidade Estadual Paulista (UNESP)
instacron:UNESP
instname_str Universidade Estadual Paulista (UNESP)
instacron_str UNESP
institution UNESP
reponame_str Repositório Institucional da UNESP
collection Repositório Institucional da UNESP
repository.name.fl_str_mv Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)
repository.mail.fl_str_mv
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