MPolSys Modeler, a tool for computational modeling of linear polymer systems

Detalhes bibliográficos
Autor(a) principal: Faria, Filipe Morais Frade de
Data de Publicação: 2021
Outros Autores: Leão Junior, Reginaldo Gonçalves
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Research, Society and Development
Texto Completo: https://rsdjournal.org/index.php/rsd/article/view/24007
Resumo: The computational study of intermolecular relationships of a given material can be used as a route for predicting quantities impossible or difficult to be determined experimentally. Furthermore properties of new materials can also be predicted by techniques of this type, when they are still in the modeling phase. This technique reproduces the classical dynamic relationships between the constituent elements of the material, atoms or unicorpuscular approximations of molecules, from interaction potential models called force fields. This work aims to develop a tool that performs the composition of linear polymeric chain systems through a self-avoided walk. For this, the concept of self-experimentation of long walks (SAWLC) was used, together with the Python language to develop MpolSys Modeler. This tool is a non-overlapping polymer chain generator, which in turn generates outputs that can be used as input to Moltemplate. To validate the tool's results, experiments were carried out in which the numbers and polymerization chains of the simulated polymer were varied, observing the overlap or not of the molecules that make up the simulation. At the end of the simulations, there were positive results that indicate a promising usage of the tool for the creation of polymers with a high number of chains and degrees of polymerization.
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spelling MPolSys Modeler, a tool for computational modeling of linear polymer systemsMpolSys Modeler, una herramienta para el modelado computacional de sistemas de polímeros linealesMPolSys Modeler, uma ferramenta para modelagem computacional de sistemas poliméricos linearesMPolSysMoltemplateSAWLCPolímero.MPolsysMoltemplateSAWLCPolymer.MPolSysMoltemplateSAWLCPolímero.The computational study of intermolecular relationships of a given material can be used as a route for predicting quantities impossible or difficult to be determined experimentally. Furthermore properties of new materials can also be predicted by techniques of this type, when they are still in the modeling phase. This technique reproduces the classical dynamic relationships between the constituent elements of the material, atoms or unicorpuscular approximations of molecules, from interaction potential models called force fields. This work aims to develop a tool that performs the composition of linear polymeric chain systems through a self-avoided walk. For this, the concept of self-experimentation of long walks (SAWLC) was used, together with the Python language to develop MpolSys Modeler. This tool is a non-overlapping polymer chain generator, which in turn generates outputs that can be used as input to Moltemplate. To validate the tool's results, experiments were carried out in which the numbers and polymerization chains of the simulated polymer were varied, observing the overlap or not of the molecules that make up the simulation. At the end of the simulations, there were positive results that indicate a promising usage of the tool for the creation of polymers with a high number of chains and degrees of polymerization.El estudio computacional de las relaciones intermoleculares de un material dado puede usarse como una ruta para predecir cantidades que son imposibles o difíciles de determinar experimentalmente. Las propiedades de los nuevos materiales también pueden predecirse mediante técnicas de este tipo, cuando aún se encuentran en la fase de modelado. Esta técnica reproduce las relaciones dinámicas clásicas entre los elementos constituyentes del material, átomos o aproximaciones de interacciones unicorpusculares de moléculas, a partir de modelos potenciales denominados campos de fuerza. Este trabajo tiene como objetivo desarrollar una herramienta que realice la composición de sistemas de cadenas poliméricas lineales a través de un paseo autoevitado. Para ello, se utilizó el concepto de SAWLC (caminata autoevitante de largas distancias), junto con el lenguaje Python 3 para desarrollar MpolSys Modeler. Esta herramienta es un generador de cadenas de polímeros que no se superponen, que a su vez genera salidas que se pueden utilizar como entrada para Moltemplate. Para validar los resultados de la herramienta, se realizaron experimentos en los que se variaron los números y las cadenas de polimerización del polímero simulado, observando el solapamiento o no de las moléculas que componen la simulación. Al final de las simulaciones, se obtuvieron resultados positivos que indican una posibilidad prometedora de utilizar la herramienta para la creación de polímeros con alto número de cadenas y grados de polimerización.O estudo computacional das relações intermoleculares de um determinado material pode ser usado como uma rota para prever quantidades que são impossíveis ou difíceis de determinar experimentalmente. Propriedades de novos materiais também podem ser previstas por técnicas desse tipo, quando ainda estão em fase de modelagem. Esta técnica reproduz as relações dinâmicas clássicas entre os elementos constituintes do material, átomos ou aproximações de interações unicorpusculares de moléculas, a partir de modelos potenciais denominados campos de força. Este trabalho tem como objetivo desenvolver uma ferramenta que realiza a composição de sistemas de cadeias poliméricas lineares por meio de uma caminhada auto evitada. Para isso, foi utilizado o conceito de SAWLC (caminhadas auto-evitantes de longas distâncias), em conjunto com a linguagem Python 3 para desenvolver MPolSys Modeler. Esta ferramenta é um gerador de cadeia de polímero não sobreposto, que por sua vez gera saídas que podem ser usadas como entrada para Moltemplate. Para validar os resultados da ferramenta, foram realizados experimentos nos quais foram variados os números e as cadeias de polimerização do polímero simulado, observando-se a sobreposição ou não das moléculas que compõem a simulação. Ao final das simulações, houve resultados positivos que indicam uma possibilidade promissora de utilização da ferramenta para a criação de polímeros com elevado número de cadeias e graus de polimerização.Research, Society and Development2021-12-14info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://rsdjournal.org/index.php/rsd/article/view/2400710.33448/rsd-v10i16.24007Research, Society and Development; Vol. 10 No. 16; e359101624007Research, Society and Development; Vol. 10 Núm. 16; e359101624007Research, Society and Development; v. 10 n. 16; e3591016240072525-3409reponame:Research, Society and Developmentinstname:Universidade Federal de Itajubá (UNIFEI)instacron:UNIFEIenghttps://rsdjournal.org/index.php/rsd/article/view/24007/21007Copyright (c) 2021 Filipe Morais Frade de Faria; Reginaldo Gonçalves Leão Juniorhttps://creativecommons.org/licenses/by/4.0info:eu-repo/semantics/openAccessFaria, Filipe Morais Frade de Leão Junior, Reginaldo Gonçalves 2021-12-20T11:03:07Zoai:ojs.pkp.sfu.ca:article/24007Revistahttps://rsdjournal.org/index.php/rsd/indexPUBhttps://rsdjournal.org/index.php/rsd/oairsd.articles@gmail.com2525-34092525-3409opendoar:2024-01-17T09:42:41.944767Research, Society and Development - Universidade Federal de Itajubá (UNIFEI)false
dc.title.none.fl_str_mv MPolSys Modeler, a tool for computational modeling of linear polymer systems
MpolSys Modeler, una herramienta para el modelado computacional de sistemas de polímeros lineales
MPolSys Modeler, uma ferramenta para modelagem computacional de sistemas poliméricos lineares
title MPolSys Modeler, a tool for computational modeling of linear polymer systems
spellingShingle MPolSys Modeler, a tool for computational modeling of linear polymer systems
Faria, Filipe Morais Frade de
MPolSys
Moltemplate
SAWLC
Polímero.
MPolsys
Moltemplate
SAWLC
Polymer.
MPolSys
Moltemplate
SAWLC
Polímero.
title_short MPolSys Modeler, a tool for computational modeling of linear polymer systems
title_full MPolSys Modeler, a tool for computational modeling of linear polymer systems
title_fullStr MPolSys Modeler, a tool for computational modeling of linear polymer systems
title_full_unstemmed MPolSys Modeler, a tool for computational modeling of linear polymer systems
title_sort MPolSys Modeler, a tool for computational modeling of linear polymer systems
author Faria, Filipe Morais Frade de
author_facet Faria, Filipe Morais Frade de
Leão Junior, Reginaldo Gonçalves
author_role author
author2 Leão Junior, Reginaldo Gonçalves
author2_role author
dc.contributor.author.fl_str_mv Faria, Filipe Morais Frade de
Leão Junior, Reginaldo Gonçalves
dc.subject.por.fl_str_mv MPolSys
Moltemplate
SAWLC
Polímero.
MPolsys
Moltemplate
SAWLC
Polymer.
MPolSys
Moltemplate
SAWLC
Polímero.
topic MPolSys
Moltemplate
SAWLC
Polímero.
MPolsys
Moltemplate
SAWLC
Polymer.
MPolSys
Moltemplate
SAWLC
Polímero.
description The computational study of intermolecular relationships of a given material can be used as a route for predicting quantities impossible or difficult to be determined experimentally. Furthermore properties of new materials can also be predicted by techniques of this type, when they are still in the modeling phase. This technique reproduces the classical dynamic relationships between the constituent elements of the material, atoms or unicorpuscular approximations of molecules, from interaction potential models called force fields. This work aims to develop a tool that performs the composition of linear polymeric chain systems through a self-avoided walk. For this, the concept of self-experimentation of long walks (SAWLC) was used, together with the Python language to develop MpolSys Modeler. This tool is a non-overlapping polymer chain generator, which in turn generates outputs that can be used as input to Moltemplate. To validate the tool's results, experiments were carried out in which the numbers and polymerization chains of the simulated polymer were varied, observing the overlap or not of the molecules that make up the simulation. At the end of the simulations, there were positive results that indicate a promising usage of the tool for the creation of polymers with a high number of chains and degrees of polymerization.
publishDate 2021
dc.date.none.fl_str_mv 2021-12-14
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv https://rsdjournal.org/index.php/rsd/article/view/24007
10.33448/rsd-v10i16.24007
url https://rsdjournal.org/index.php/rsd/article/view/24007
identifier_str_mv 10.33448/rsd-v10i16.24007
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv https://rsdjournal.org/index.php/rsd/article/view/24007/21007
dc.rights.driver.fl_str_mv Copyright (c) 2021 Filipe Morais Frade de Faria; Reginaldo Gonçalves Leão Junior
https://creativecommons.org/licenses/by/4.0
info:eu-repo/semantics/openAccess
rights_invalid_str_mv Copyright (c) 2021 Filipe Morais Frade de Faria; Reginaldo Gonçalves Leão Junior
https://creativecommons.org/licenses/by/4.0
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Research, Society and Development
publisher.none.fl_str_mv Research, Society and Development
dc.source.none.fl_str_mv Research, Society and Development; Vol. 10 No. 16; e359101624007
Research, Society and Development; Vol. 10 Núm. 16; e359101624007
Research, Society and Development; v. 10 n. 16; e359101624007
2525-3409
reponame:Research, Society and Development
instname:Universidade Federal de Itajubá (UNIFEI)
instacron:UNIFEI
instname_str Universidade Federal de Itajubá (UNIFEI)
instacron_str UNIFEI
institution UNIFEI
reponame_str Research, Society and Development
collection Research, Society and Development
repository.name.fl_str_mv Research, Society and Development - Universidade Federal de Itajubá (UNIFEI)
repository.mail.fl_str_mv rsd.articles@gmail.com
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