Stemformatics: Visualisation and sharing of stem cell gene expression

Autores
Wells, Christine A.; Mosbergen, Rowland; Korn, Othmar; Choi, Jarny; Seidenman, Nick; Matigian, Nicholas A.; Vitale, Alejandra Mariel; Shepherd, Jill
Año de publicación
2013
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Genome-scale technologies are increasingly adopted by the stem cell research community, because of the potential to uncover the molecular events most informative about a stem cell state. These technologies also present enormous challenges around the sharing and visualisation of data derived from different laboratories or under different experimental conditions. Stemformatics is an easy to use, publicly accessible portal that hosts a large collection of exemplar stem cell data. It provides fast visualisation of gene expression across a range of mouse and human datasets, with transparent links back to the original studies. One difficulty in the analysis of stem cell signatures is the paucity of public pathways/gene lists relevant to stem cell or developmental biology. Stemformatics provides a simple mechanism to create, share and analyse gene sets, providing a repository of community-annotated stem cell gene lists that are informative about pathways, lineage commitment, and common technical artefacts. Stemformatics can be accessed at stemformatics.org.
Fil: Wells, Christine A.. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Mosbergen, Rowland. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Korn, Othmar. Griffith University; Australia
Fil: Choi, Jarny. The Walter and Eliza Hall Institute of Medical Research; Australia
Fil: Seidenman, Nick. The Walter and Eliza Hall Institute of Medical Research; Canadá
Fil: Matigian, Nicholas A.. Griffith University; Australia
Fil: Vitale, Alejandra Mariel. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Biología y Medicina Experimental. Fundación de Instituto de Biología y Medicina Experimental. Instituto de Biología y Medicina Experimental; Argentina. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Shepherd, Jill. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Materia
Bioinformatics
Stem Cells
Gene Expression
Transcriptome
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-nd/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/25075
Acceder
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network_name_str CONICET Digital (CONICET)
spelling Stemformatics: Visualisation and sharing of stem cell gene expressionWells, Christine A.Mosbergen, RowlandKorn, OthmarChoi, JarnySeidenman, NickMatigian, Nicholas A.Vitale, Alejandra MarielShepherd, JillBioinformaticsStem CellsGene ExpressionTranscriptomehttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Genome-scale technologies are increasingly adopted by the stem cell research community, because of the potential to uncover the molecular events most informative about a stem cell state. These technologies also present enormous challenges around the sharing and visualisation of data derived from different laboratories or under different experimental conditions. Stemformatics is an easy to use, publicly accessible portal that hosts a large collection of exemplar stem cell data. It provides fast visualisation of gene expression across a range of mouse and human datasets, with transparent links back to the original studies. One difficulty in the analysis of stem cell signatures is the paucity of public pathways/gene lists relevant to stem cell or developmental biology. Stemformatics provides a simple mechanism to create, share and analyse gene sets, providing a repository of community-annotated stem cell gene lists that are informative about pathways, lineage commitment, and common technical artefacts. Stemformatics can be accessed at stemformatics.org.Fil: Wells, Christine A.. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; AustraliaFil: Mosbergen, Rowland. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; AustraliaFil: Korn, Othmar. Griffith University; AustraliaFil: Choi, Jarny. The Walter and Eliza Hall Institute of Medical Research; AustraliaFil: Seidenman, Nick. The Walter and Eliza Hall Institute of Medical Research; CanadáFil: Matigian, Nicholas A.. Griffith University; AustraliaFil: Vitale, Alejandra Mariel. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Biología y Medicina Experimental. Fundación de Instituto de Biología y Medicina Experimental. Instituto de Biología y Medicina Experimental; Argentina. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; AustraliaFil: Shepherd, Jill. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; AustraliaElsevier Science2013-05info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/25075Wells, Christine A.; Mosbergen, Rowland; Korn, Othmar; Choi, Jarny; Seidenman, Nick; et al.; Stemformatics: Visualisation and sharing of stem cell gene expression; Elsevier Science; Stem Cell Research; 10; 3; 5-2013; 387-3951873-50611876-7753CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/http://www.sciencedirect.com/science/article/pii/S1873506112001262info:eu-repo/semantics/altIdentifier/doi/10.1016/j.scr.2012.12.003info:eu-repo/semantics/altIdentifier/url/23466562info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-nd/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-15T15:19:06Zoai:ri.conicet.gov.ar:11336/25075instacron: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:34982025-10-15 15:19:06.828CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Stemformatics: Visualisation and sharing of stem cell gene expression
title Stemformatics: Visualisation and sharing of stem cell gene expression
spellingShingle Stemformatics: Visualisation and sharing of stem cell gene expression
Wells, Christine A.
Bioinformatics
Stem Cells
Gene Expression
Transcriptome
title_short Stemformatics: Visualisation and sharing of stem cell gene expression
title_full Stemformatics: Visualisation and sharing of stem cell gene expression
title_fullStr Stemformatics: Visualisation and sharing of stem cell gene expression
title_full_unstemmed Stemformatics: Visualisation and sharing of stem cell gene expression
title_sort Stemformatics: Visualisation and sharing of stem cell gene expression
dc.creator.none.fl_str_mv Wells, Christine A.
Mosbergen, Rowland
Korn, Othmar
Choi, Jarny
Seidenman, Nick
Matigian, Nicholas A.
Vitale, Alejandra Mariel
Shepherd, Jill
author Wells, Christine A.
author_facet Wells, Christine A.
Mosbergen, Rowland
Korn, Othmar
Choi, Jarny
Seidenman, Nick
Matigian, Nicholas A.
Vitale, Alejandra Mariel
Shepherd, Jill
author_role author
author2 Mosbergen, Rowland
Korn, Othmar
Choi, Jarny
Seidenman, Nick
Matigian, Nicholas A.
Vitale, Alejandra Mariel
Shepherd, Jill
author2_role author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Bioinformatics
Stem Cells
Gene Expression
Transcriptome
topic Bioinformatics
Stem Cells
Gene Expression
Transcriptome
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Genome-scale technologies are increasingly adopted by the stem cell research community, because of the potential to uncover the molecular events most informative about a stem cell state. These technologies also present enormous challenges around the sharing and visualisation of data derived from different laboratories or under different experimental conditions. Stemformatics is an easy to use, publicly accessible portal that hosts a large collection of exemplar stem cell data. It provides fast visualisation of gene expression across a range of mouse and human datasets, with transparent links back to the original studies. One difficulty in the analysis of stem cell signatures is the paucity of public pathways/gene lists relevant to stem cell or developmental biology. Stemformatics provides a simple mechanism to create, share and analyse gene sets, providing a repository of community-annotated stem cell gene lists that are informative about pathways, lineage commitment, and common technical artefacts. Stemformatics can be accessed at stemformatics.org.
Fil: Wells, Christine A.. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Mosbergen, Rowland. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Korn, Othmar. Griffith University; Australia
Fil: Choi, Jarny. The Walter and Eliza Hall Institute of Medical Research; Australia
Fil: Seidenman, Nick. The Walter and Eliza Hall Institute of Medical Research; Canadá
Fil: Matigian, Nicholas A.. Griffith University; Australia
Fil: Vitale, Alejandra Mariel. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Biología y Medicina Experimental. Fundación de Instituto de Biología y Medicina Experimental. Instituto de Biología y Medicina Experimental; Argentina. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
Fil: Shepherd, Jill. The University Of Queensland. Australian Institute For Bioengineering And Nanotecnology; Australia
description Genome-scale technologies are increasingly adopted by the stem cell research community, because of the potential to uncover the molecular events most informative about a stem cell state. These technologies also present enormous challenges around the sharing and visualisation of data derived from different laboratories or under different experimental conditions. Stemformatics is an easy to use, publicly accessible portal that hosts a large collection of exemplar stem cell data. It provides fast visualisation of gene expression across a range of mouse and human datasets, with transparent links back to the original studies. One difficulty in the analysis of stem cell signatures is the paucity of public pathways/gene lists relevant to stem cell or developmental biology. Stemformatics provides a simple mechanism to create, share and analyse gene sets, providing a repository of community-annotated stem cell gene lists that are informative about pathways, lineage commitment, and common technical artefacts. Stemformatics can be accessed at stemformatics.org.
publishDate 2013
dc.date.none.fl_str_mv 2013-05
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/11336/25075
Wells, Christine A.; Mosbergen, Rowland; Korn, Othmar; Choi, Jarny; Seidenman, Nick; et al.; Stemformatics: Visualisation and sharing of stem cell gene expression; Elsevier Science; Stem Cell Research; 10; 3; 5-2013; 387-395
1873-5061
1876-7753
CONICET Digital
CONICET
url http://hdl.handle.net/11336/25075
identifier_str_mv Wells, Christine A.; Mosbergen, Rowland; Korn, Othmar; Choi, Jarny; Seidenman, Nick; et al.; Stemformatics: Visualisation and sharing of stem cell gene expression; Elsevier Science; Stem Cell Research; 10; 3; 5-2013; 387-395
1873-5061
1876-7753
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/http://www.sciencedirect.com/science/article/pii/S1873506112001262
info:eu-repo/semantics/altIdentifier/doi/10.1016/j.scr.2012.12.003
info:eu-repo/semantics/altIdentifier/url/23466562
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-nd/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-nd/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv Elsevier Science
publisher.none.fl_str_mv Elsevier Science
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
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score 13.22299

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