In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans
Autor(a) principal: | |
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Data de Publicação: | 2022 |
Outros Autores: | , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Research, Society and Development |
Texto Completo: | https://rsdjournal.org/index.php/rsd/article/view/32838 |
Resumo: | Damage-associated molecular patterns (DAMPs) are intracellular molecules released into the extracellular environment after injury. These are recognized by pattern recognition receptors (PRRs) and activate the innate immune system, triggering an inflammatory response. The most commonly studied DAMPs are S100 proteins, Thermal Shock Proteins (HSPs) and High Mobility Box Group 1 (HMGB1). Among the PRRs are the Toll-like Receptor (TLRs), the Receptor for Advanced Glycation End Products (RAGEs), Nod-like Receptor (NLRs) and the Absent Receptor in Melanoma 2 (AIM-2). DAMPs are intimately involved in the etiopathogenesis of chronic diseases such as cancer, diabetes, liver disease, heart disease and neurodegenerative diseases. It is very important to select molecular markers that enable the assembly of biological assays, with a view to elucidating the evaluation of the immune response. The present study evaluated different human DAMPs and their receptors in order to find molecular markers associated with diseases using bioinformatics tools. The screening of messenger RNA (mRNA) amino acid sequences was performed on the NCBI database using the nucleotide tool. Secondary mRNA prediction using RNAStructure and RNA foldWebServer software, epitope antigenicity prediction using the Immune Epitope Database Analysis Resource software and primer design using the Primer-BLAST Platform were evaluated. Considering the best predictions of secondary mRNA from receptors and DAMPs, 104 epitopes and 83 molecular marker candidates were predicted. The results presented are promising and could be used as immunomodulators or as diagnostic and prognostic platforms in various diseases. |
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In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humansIn silico Selección de patrones moleculares asociados al daño (DAMPS) y sus receptores en humanosSeleção in silico de padrões moleculares associados a danos (DAMPS) e seus receptores em humanosBioinformaticsImmune systemInnate ImmunitymRNAMolecular Biology.Sistema imunológicoImunidade InatamRNABiologia Molecular.BioinformáticaSistema inmunológicoInmunidad innataARNmBiología Molecular.Damage-associated molecular patterns (DAMPs) are intracellular molecules released into the extracellular environment after injury. These are recognized by pattern recognition receptors (PRRs) and activate the innate immune system, triggering an inflammatory response. The most commonly studied DAMPs are S100 proteins, Thermal Shock Proteins (HSPs) and High Mobility Box Group 1 (HMGB1). Among the PRRs are the Toll-like Receptor (TLRs), the Receptor for Advanced Glycation End Products (RAGEs), Nod-like Receptor (NLRs) and the Absent Receptor in Melanoma 2 (AIM-2). DAMPs are intimately involved in the etiopathogenesis of chronic diseases such as cancer, diabetes, liver disease, heart disease and neurodegenerative diseases. It is very important to select molecular markers that enable the assembly of biological assays, with a view to elucidating the evaluation of the immune response. The present study evaluated different human DAMPs and their receptors in order to find molecular markers associated with diseases using bioinformatics tools. The screening of messenger RNA (mRNA) amino acid sequences was performed on the NCBI database using the nucleotide tool. Secondary mRNA prediction using RNAStructure and RNA foldWebServer software, epitope antigenicity prediction using the Immune Epitope Database Analysis Resource software and primer design using the Primer-BLAST Platform were evaluated. Considering the best predictions of secondary mRNA from receptors and DAMPs, 104 epitopes and 83 molecular marker candidates were predicted. The results presented are promising and could be used as immunomodulators or as diagnostic and prognostic platforms in various diseases.Los patrones moleculares asociados al daño (DAMP) son moléculas intracelulares liberadas en el entorno extracelular después de una lesión. Estos son reconocidos por los receptores de reconocimiento de patrones (PRR) y activan el sistema inmunitario innato, desencadenando una respuesta inflamatoria. Los DAMP más estudiados son las proteínas S100, las proteínas de choque térmico (HSP) y el grupo 1 de caja de alta movilidad (HMGB1). Entre los PRR se encuentran el Receptor tipo Toll (TLR), el Receptor para productos finales de glicación avanzada (RAGE), el Receptor tipo Nod (NLR) y el Receptor ausente en melanoma 2 (AIM-2). Los DAMP están íntimamente involucrados en la etiopatogenia de enfermedades crónicas como el cáncer, la diabetes, las enfermedades hepáticas, cardíacas y las enfermedades neurodegenerativas. Es muy importante seleccionar marcadores moleculares que permitan el montaje de ensayos biológicos, con miras a dilucidar la evaluación de la respuesta inmune. El presente estudio evaluó diferentes DAMP humanos y sus receptores para encontrar marcadores moleculares asociados con enfermedades utilizando herramientas bioinformáticas. La selección de secuencias de aminoácidos de ARN mensajero (ARNm) se realizó en la base NCBI utilizando la herramienta de nucleótidos. Se evaluó la predicción del ARNm secundario con el software RNAStructure y RNA foldWebServer, la predicción de la antigenicidad del epítopo con el software Immune Epitope Database Analysis Resource y el diseño de cebadores con la plataforma Primer-BLAST. Teniendo en cuenta las mejores predicciones de ARNm secundario de receptores y DAMP, se predijeron 104 epítopos y 83 candidatos a marcadores moleculares. Los resultados presentados son prometedores y podrían utilizarse como inmunomoduladores o como plataformas de diagnóstico y pronóstico en diversas enfermedades.Os padrões moleculares associados ao dano (DAMPs) são moléculas intracelulares lançadas para o meio extracelular após lesão. Estes são reconhecidos por receptores de reconhecimento de padrão (PRRs) e ativam o sistema imune inato, desencadeando uma resposta inflamatória. Os DAMPs mais comumente estudados são as proteínas S100, as Proteínas de Choque Térmico (HSPs) e o Grupo Box de Alta Mobilidade 1 (HMGB1). Dentre os PRRs, estão o Receptor Toll-like (TLRs), o Receptor para Produtos Finais de Glicação Avançada (RAGEs), Receptor Nod-like (NLRs) e o Receptor Ausente no Melanoma 2 (AIM-2). Os DAMPs encontram-se intimamente envolvidos na etiopatogenia de doenças crônicas como câncer, diabetes, hepatopatias, cardiopatias e doenças neurodegenerativas. É de grande relevância a seleção de marcadores moleculares que viabilizem a montagem de ensaios biológicos, com vistas à elucidação da avaliação da resposta imunológica. O presente estudo avaliou diferentes DAMPs humanos e seus receptores no intuito de encontrar marcadores moleculares associados a enfermidades utilizando ferramentas de bioinformática. A triagem de sequências de aminoácidos de RNA mensageiro (mRNA) foi realizada na base NCBI por meio da ferramenta nucleotide. Foram avaliados a predição de mRNA secundário através dos softwares RNAStructure e RNA foldWebServer, predição de antigenicidade de epítopos pelo software do Immune Epitope Database Analysis Resource e o desenho de primers foi feito na Plataforma Primer- BLAST. Considerando as melhores predições de mRNA secundário de receptores e DAMPs, foram preditos 104 epítopos e 83 candidatos a marcadores moleculares. Os resultados apresentados são promissores e poderão ser utilizados como imunomoduladores ou como plataformas de diagnóstico e prognóstico em várias enfermidades.Research, Society and Development2022-08-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://rsdjournal.org/index.php/rsd/article/view/3283810.33448/rsd-v11i10.32838Research, Society and Development; Vol. 11 No. 10; e452111032838Research, Society and Development; Vol. 11 Núm. 10; e452111032838Research, Society and Development; v. 11 n. 10; e4521110328382525-3409reponame:Research, Society and Developmentinstname:Universidade Federal de Itajubá (UNIFEI)instacron:UNIFEIenghttps://rsdjournal.org/index.php/rsd/article/view/32838/27968Copyright (c) 2022 Erika Aparecida Oliveira; Rebeca Louise de Araujo Brabosa; Wanderley José Mantovani Bittencourt; Laura Cristina Jardim Porto Pimenta; Luciano José Pereira; Elaine Maria Seles Dorneles; Ana Paula Peconickhttps://creativecommons.org/licenses/by/4.0info:eu-repo/semantics/openAccessOliveira, Erika Aparecida Brabosa, Rebeca Louise de AraujoBittencourt, Wanderley José MantovaniPimenta, Laura Cristina Jardim PortoPereira, Luciano JoséDorneles, Elaine Maria SelesPeconick, Ana Paula2022-08-12T22:23:03Zoai:ojs.pkp.sfu.ca:article/32838Revistahttps://rsdjournal.org/index.php/rsd/indexPUBhttps://rsdjournal.org/index.php/rsd/oairsd.articles@gmail.com2525-34092525-3409opendoar:2024-01-17T09:48:41.627020Research, Society and Development - Universidade Federal de Itajubá (UNIFEI)false |
dc.title.none.fl_str_mv |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans In silico Selección de patrones moleculares asociados al daño (DAMPS) y sus receptores en humanos Seleção in silico de padrões moleculares associados a danos (DAMPS) e seus receptores em humanos |
title |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
spellingShingle |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans Oliveira, Erika Aparecida Bioinformatics Immune system Innate Immunity mRNA Molecular Biology. Sistema imunológico Imunidade Inata mRNA Biologia Molecular. Bioinformática Sistema inmunológico Inmunidad innata ARNm Biología Molecular. |
title_short |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
title_full |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
title_fullStr |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
title_full_unstemmed |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
title_sort |
In silico selection of damage-associated molecular patterns (DAMPS) and their receptors in humans |
author |
Oliveira, Erika Aparecida |
author_facet |
Oliveira, Erika Aparecida Brabosa, Rebeca Louise de Araujo Bittencourt, Wanderley José Mantovani Pimenta, Laura Cristina Jardim Porto Pereira, Luciano José Dorneles, Elaine Maria Seles Peconick, Ana Paula |
author_role |
author |
author2 |
Brabosa, Rebeca Louise de Araujo Bittencourt, Wanderley José Mantovani Pimenta, Laura Cristina Jardim Porto Pereira, Luciano José Dorneles, Elaine Maria Seles Peconick, Ana Paula |
author2_role |
author author author author author author |
dc.contributor.author.fl_str_mv |
Oliveira, Erika Aparecida Brabosa, Rebeca Louise de Araujo Bittencourt, Wanderley José Mantovani Pimenta, Laura Cristina Jardim Porto Pereira, Luciano José Dorneles, Elaine Maria Seles Peconick, Ana Paula |
dc.subject.por.fl_str_mv |
Bioinformatics Immune system Innate Immunity mRNA Molecular Biology. Sistema imunológico Imunidade Inata mRNA Biologia Molecular. Bioinformática Sistema inmunológico Inmunidad innata ARNm Biología Molecular. |
topic |
Bioinformatics Immune system Innate Immunity mRNA Molecular Biology. Sistema imunológico Imunidade Inata mRNA Biologia Molecular. Bioinformática Sistema inmunológico Inmunidad innata ARNm Biología Molecular. |
description |
Damage-associated molecular patterns (DAMPs) are intracellular molecules released into the extracellular environment after injury. These are recognized by pattern recognition receptors (PRRs) and activate the innate immune system, triggering an inflammatory response. The most commonly studied DAMPs are S100 proteins, Thermal Shock Proteins (HSPs) and High Mobility Box Group 1 (HMGB1). Among the PRRs are the Toll-like Receptor (TLRs), the Receptor for Advanced Glycation End Products (RAGEs), Nod-like Receptor (NLRs) and the Absent Receptor in Melanoma 2 (AIM-2). DAMPs are intimately involved in the etiopathogenesis of chronic diseases such as cancer, diabetes, liver disease, heart disease and neurodegenerative diseases. It is very important to select molecular markers that enable the assembly of biological assays, with a view to elucidating the evaluation of the immune response. The present study evaluated different human DAMPs and their receptors in order to find molecular markers associated with diseases using bioinformatics tools. The screening of messenger RNA (mRNA) amino acid sequences was performed on the NCBI database using the nucleotide tool. Secondary mRNA prediction using RNAStructure and RNA foldWebServer software, epitope antigenicity prediction using the Immune Epitope Database Analysis Resource software and primer design using the Primer-BLAST Platform were evaluated. Considering the best predictions of secondary mRNA from receptors and DAMPs, 104 epitopes and 83 molecular marker candidates were predicted. The results presented are promising and could be used as immunomodulators or as diagnostic and prognostic platforms in various diseases. |
publishDate |
2022 |
dc.date.none.fl_str_mv |
2022-08-07 |
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/32838 10.33448/rsd-v11i10.32838 |
url |
https://rsdjournal.org/index.php/rsd/article/view/32838 |
identifier_str_mv |
10.33448/rsd-v11i10.32838 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
https://rsdjournal.org/index.php/rsd/article/view/32838/27968 |
dc.rights.driver.fl_str_mv |
https://creativecommons.org/licenses/by/4.0 info:eu-repo/semantics/openAccess |
rights_invalid_str_mv |
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. 11 No. 10; e452111032838 Research, Society and Development; Vol. 11 Núm. 10; e452111032838 Research, Society and Development; v. 11 n. 10; e452111032838 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 |
_version_ |
1797052719156953088 |