Softepigen : Primers design web-based tool for MS-HRM technique

Polymerase Chain Reaction (PCR) based techniques for DNA methylation techniques includes MS-HRM technique. Methylation Sensitive High-Resolution Melting (MS-HRM) primer-design requires a set of necessary recommendations for such DNA methylation assessment. However, there were not any available softw...

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Autores:
Pinzón, Efraín
Rondón Villarreal, Paola
Álvarez, William A.
Hernández, Hernan Guillermo
Tipo de recurso:
Article of journal
Fecha de publicación:
2018
Institución:
Universidad de Santander
Repositorio:
Repositorio Universidad de Santander
Idioma:
eng
OAI Identifier:
oai:repositorio.udes.edu.co:001/3307
Acceso en línea:
https://repositorio.udes.edu.co/handle/001/3307
Palabra clave:
Primer design
DNA methylation
MS-HRM
Software
Web-based software
Rights
closedAccess
License
Derechos Reservados - Universidad de Santander, 2018
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dc.title.eng.fl_str_mv Softepigen : Primers design web-based tool for MS-HRM technique
title Softepigen : Primers design web-based tool for MS-HRM technique
spellingShingle Softepigen : Primers design web-based tool for MS-HRM technique
Primer design
DNA methylation
MS-HRM
Software
Web-based software
title_short Softepigen : Primers design web-based tool for MS-HRM technique
title_full Softepigen : Primers design web-based tool for MS-HRM technique
title_fullStr Softepigen : Primers design web-based tool for MS-HRM technique
title_full_unstemmed Softepigen : Primers design web-based tool for MS-HRM technique
title_sort Softepigen : Primers design web-based tool for MS-HRM technique
dc.creator.fl_str_mv Pinzón, Efraín
Rondón Villarreal, Paola
Álvarez, William A.
Hernández, Hernan Guillermo
dc.contributor.author.spa.fl_str_mv Pinzón, Efraín
Rondón Villarreal, Paola
Álvarez, William A.
Hernández, Hernan Guillermo
dc.subject.proposal.eng.fl_str_mv Primer design
DNA methylation
MS-HRM
Software
Web-based software
topic Primer design
DNA methylation
MS-HRM
Software
Web-based software
description Polymerase Chain Reaction (PCR) based techniques for DNA methylation techniques includes MS-HRM technique. Methylation Sensitive High-Resolution Melting (MS-HRM) primer-design requires a set of necessary recommendations for such DNA methylation assessment. However, there were not any available software that allows an automatic design of this kind primers. We present Softepigen, the first complete MS-HRM primer design software. Softepigen allows to search for primers in a genomic region following Wojdacz's recommendations and targets primer binding regions with high linguistic complexity sequences that increase the specificity of the converted sequence of the human genome. We performed in-silico PCR analysis through BiSearch ePCR tool to validate the specificity of the of the primers designed using Softepigen. Softepigen for MS-HRM performance in our genomic regions of interest show satisfactory specificity measurements, and we implemented it for freely available use in web-based interface in www.soft-epigen.com.
publishDate 2018
dc.date.issued.spa.fl_str_mv 2018-08-29
dc.date.accessioned.spa.fl_str_mv 2019-07-08T22:08:56Z
dc.date.available.spa.fl_str_mv 2019-07-08T22:08:56Z
dc.type.spa.fl_str_mv Artículo de revista
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dc.identifier.doi.spa.fl_str_mv 10.1109/TCBB.2018.2867600
dc.identifier.isbn.spa.fl_str_mv 1557-9964
1545-5963
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dc.language.iso.spa.fl_str_mv eng
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dc.relation.ispartof.eng.fl_str_mv IEEE/ACM Transactions on Computational Biology and Bioinformatics
dc.rights.spa.fl_str_mv Derechos Reservados - Universidad de Santander, 2018
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