The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics

Autores
Fernandez-Pozo, Noe; Rosli, Hernan Guillermo; Martin, Gregory B.; Mueller, Lukas A.
Año de publicación
2015
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Virus-induced gene silencing (VIGS) is a powerful method to study gene function in plants. It is based on plant defense mechanisms against viral gene replication and allows high-throughput silencing of genes of interest. However, it can also elicit suppression of off-target genes with sequence similarity, confounding the observed phenotype. Although VIGS is widely used in plant research, no tool is currently available for the design of constructs specifically for this technique. Therefore, at the Sol Genomics Network (SGN) we have developed the SGN VIGS tool to assist researchers with the selection of appropriate regions for silencing experiments (http://solgenomics.net/tools/vigs). This web tool was developed using Perl, JavaScript, AJAX and HTML5 canvas to allow a fast and interactive graphical representation of the results, based on target and off-target positions and integrating the results with gene expression data.
Fil: Fernandez-Pozo, Noe. Boyce Thompson Institute for Plant Research; Estados Unidos
Fil: Rosli, Hernan Guillermo. Boyce Thompson Institute for Plant Research; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); Argentina
Fil: Martin, Gregory B.. Boyce Thompson Institute for Plant Research; Estados Unidos. Cornell University; Estados Unidos
Fil: Mueller, Lukas A.. Boyce Thompson Institute for Plant Research; Estados Unidos
Materia
Virus-Induced Gene Silencing
Bioinformatics
Nicotiana Benthamiana
Web-Tool
Solanaceous
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/48562
Acceder
id CONICETDig_1a8815bca07d4d6779a22cb4fe2f3298
oai_identifier_str oai:ri.conicet.gov.ar:11336/48562
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional GenomicsFernandez-Pozo, NoeRosli, Hernan GuillermoMartin, Gregory B.Mueller, Lukas A.Virus-Induced Gene SilencingBioinformaticsNicotiana BenthamianaWeb-ToolSolanaceoushttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1https://purl.org/becyt/ford/1.2https://purl.org/becyt/ford/1Virus-induced gene silencing (VIGS) is a powerful method to study gene function in plants. It is based on plant defense mechanisms against viral gene replication and allows high-throughput silencing of genes of interest. However, it can also elicit suppression of off-target genes with sequence similarity, confounding the observed phenotype. Although VIGS is widely used in plant research, no tool is currently available for the design of constructs specifically for this technique. Therefore, at the Sol Genomics Network (SGN) we have developed the SGN VIGS tool to assist researchers with the selection of appropriate regions for silencing experiments (http://solgenomics.net/tools/vigs). This web tool was developed using Perl, JavaScript, AJAX and HTML5 canvas to allow a fast and interactive graphical representation of the results, based on target and off-target positions and integrating the results with gene expression data.Fil: Fernandez-Pozo, Noe. Boyce Thompson Institute for Plant Research; Estados UnidosFil: Rosli, Hernan Guillermo. Boyce Thompson Institute for Plant Research; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); ArgentinaFil: Martin, Gregory B.. Boyce Thompson Institute for Plant Research; Estados Unidos. Cornell University; Estados UnidosFil: Mueller, Lukas A.. Boyce Thompson Institute for Plant Research; Estados UnidosOxford University Press2015-03info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/48562Fernandez-Pozo, Noe; Rosli, Hernan Guillermo; Martin, Gregory B.; Mueller, Lukas A.; The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics; Oxford University Press; Molecular Plant; 8; 3; 3-2015; 486-4881674-2052CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1016/j.molp.2014.11.024info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-22T11:13:57Zoai:ri.conicet.gov.ar:11336/48562instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-22 11:13:57.991CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
title The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
spellingShingle The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
Fernandez-Pozo, Noe
Virus-Induced Gene Silencing
Bioinformatics
Nicotiana Benthamiana
Web-Tool
Solanaceous
title_short The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
title_full The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
title_fullStr The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
title_full_unstemmed The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
title_sort The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics
dc.creator.none.fl_str_mv Fernandez-Pozo, Noe
Rosli, Hernan Guillermo
Martin, Gregory B.
Mueller, Lukas A.
author Fernandez-Pozo, Noe
author_facet Fernandez-Pozo, Noe
Rosli, Hernan Guillermo
Martin, Gregory B.
Mueller, Lukas A.
author_role author
author2 Rosli, Hernan Guillermo
Martin, Gregory B.
Mueller, Lukas A.
author2_role author
author
author
dc.subject.none.fl_str_mv Virus-Induced Gene Silencing
Bioinformatics
Nicotiana Benthamiana
Web-Tool
Solanaceous
topic Virus-Induced Gene Silencing
Bioinformatics
Nicotiana Benthamiana
Web-Tool
Solanaceous
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
https://purl.org/becyt/ford/1.2
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Virus-induced gene silencing (VIGS) is a powerful method to study gene function in plants. It is based on plant defense mechanisms against viral gene replication and allows high-throughput silencing of genes of interest. However, it can also elicit suppression of off-target genes with sequence similarity, confounding the observed phenotype. Although VIGS is widely used in plant research, no tool is currently available for the design of constructs specifically for this technique. Therefore, at the Sol Genomics Network (SGN) we have developed the SGN VIGS tool to assist researchers with the selection of appropriate regions for silencing experiments (http://solgenomics.net/tools/vigs). This web tool was developed using Perl, JavaScript, AJAX and HTML5 canvas to allow a fast and interactive graphical representation of the results, based on target and off-target positions and integrating the results with gene expression data.
Fil: Fernandez-Pozo, Noe. Boyce Thompson Institute for Plant Research; Estados Unidos
Fil: Rosli, Hernan Guillermo. Boyce Thompson Institute for Plant Research; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); Argentina
Fil: Martin, Gregory B.. Boyce Thompson Institute for Plant Research; Estados Unidos. Cornell University; Estados Unidos
Fil: Mueller, Lukas A.. Boyce Thompson Institute for Plant Research; Estados Unidos
description Virus-induced gene silencing (VIGS) is a powerful method to study gene function in plants. It is based on plant defense mechanisms against viral gene replication and allows high-throughput silencing of genes of interest. However, it can also elicit suppression of off-target genes with sequence similarity, confounding the observed phenotype. Although VIGS is widely used in plant research, no tool is currently available for the design of constructs specifically for this technique. Therefore, at the Sol Genomics Network (SGN) we have developed the SGN VIGS tool to assist researchers with the selection of appropriate regions for silencing experiments (http://solgenomics.net/tools/vigs). This web tool was developed using Perl, JavaScript, AJAX and HTML5 canvas to allow a fast and interactive graphical representation of the results, based on target and off-target positions and integrating the results with gene expression data.
publishDate 2015
dc.date.none.fl_str_mv 2015-03
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/48562
Fernandez-Pozo, Noe; Rosli, Hernan Guillermo; Martin, Gregory B.; Mueller, Lukas A.; The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics; Oxford University Press; Molecular Plant; 8; 3; 3-2015; 486-488
1674-2052
CONICET Digital
CONICET
url http://hdl.handle.net/11336/48562
identifier_str_mv Fernandez-Pozo, Noe; Rosli, Hernan Guillermo; Martin, Gregory B.; Mueller, Lukas A.; The SGN VIGS Tool: User-Friendly Software to Design Virus-Induced Gene Silencing (VIGS) Constructs for Functional Genomics; Oxford University Press; Molecular Plant; 8; 3; 3-2015; 486-488
1674-2052
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1016/j.molp.2014.11.024
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
_version_ 1846781554231083008
score 12.982451

Publicaciones similares