OsteoBLAST: Computational Routine of Global Molecular Analysis Applied to Biomaterials Development
Autor(a) principal: | |
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Data de Publicação: | 2020 |
Outros Autores: | , , , |
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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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 |
|
_version_ |
1808129186484715520 |