BioPlat: a software for human cancer biomarker discovery

Autores
Butti, Matias B.; Chanfreau, Hernán; Martinez, Diego; García, Diego; Lacunza, Ezequiel; Abba, Martín Carlos
Año de publicación
2014
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Development of effective tools such as oligo-microarrays and next-generation sequencing methods for monitoring gene expression on a large scale has resulted in the discovery of gene signatures with prognostic/predictive value in various malignant neoplastic diseases. However, with the exponential growth of gene expression databases, biologists are faced with the challenge of extracting useful information from these repositories. Here, we present a software package, BioPlat (Biomarkers Platform), which allows biologists to identify novel prognostic and predictive cancer biomarkers based on the data mining of gene expression signatures and gene expression profiling databases. BioPlat has been designed as an easy-to-use and flexible desktop software application, which provides a set of analytical tools related to data extraction, preprocessing, filtering, gene expression signature calculation, in silico validation, feature selection and annotation that leverage the integration and reuse of gene expression signatures in the context of follow-up data.
Fil: Butti, Matias B.. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Chanfreau, Hernán. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Martinez, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: García, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Lacunza, Ezequiel. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Abba, Martín Carlos. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Materia
Gene
Expression
Biomarker
Discovery
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:11336/31415
Acceder
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network_name_str CONICET Digital (CONICET)
spelling BioPlat: a software for human cancer biomarker discoveryButti, Matias B.Chanfreau, HernánMartinez, DiegoGarcía, DiegoLacunza, EzequielAbba, Martín CarlosGeneExpressionBiomarkerDiscoveryhttps://purl.org/becyt/ford/1.2https://purl.org/becyt/ford/1Development of effective tools such as oligo-microarrays and next-generation sequencing methods for monitoring gene expression on a large scale has resulted in the discovery of gene signatures with prognostic/predictive value in various malignant neoplastic diseases. However, with the exponential growth of gene expression databases, biologists are faced with the challenge of extracting useful information from these repositories. Here, we present a software package, BioPlat (Biomarkers Platform), which allows biologists to identify novel prognostic and predictive cancer biomarkers based on the data mining of gene expression signatures and gene expression profiling databases. BioPlat has been designed as an easy-to-use and flexible desktop software application, which provides a set of analytical tools related to data extraction, preprocessing, filtering, gene expression signature calculation, in silico validation, feature selection and annotation that leverage the integration and reuse of gene expression signatures in the context of follow-up data.Fil: Butti, Matias B.. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; ArgentinaFil: Chanfreau, Hernán. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; ArgentinaFil: Martinez, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; ArgentinaFil: García, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; ArgentinaFil: Lacunza, Ezequiel. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Abba, Martín Carlos. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaOxford University Press2014-02info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/31415Butti, Matias B.; Chanfreau, Hernán; Martinez, Diego; García, Diego; Lacunza, Ezequiel; et al.; BioPlat: a software for human cancer biomarker discovery; Oxford University Press; Bioinformatics (Oxford, England); 30; 12; 2-2014; 1782-17841367-4803CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1093/bioinformatics/btu111info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/bioinformatics/article/30/12/1782/382483info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-17T10:47:06Zoai:ri.conicet.gov.ar:11336/31415instacron: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:34982025-09-17 10:47:06.586CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv BioPlat: a software for human cancer biomarker discovery
title BioPlat: a software for human cancer biomarker discovery
spellingShingle BioPlat: a software for human cancer biomarker discovery
Butti, Matias B.
Gene
Expression
Biomarker
Discovery
title_short BioPlat: a software for human cancer biomarker discovery
title_full BioPlat: a software for human cancer biomarker discovery
title_fullStr BioPlat: a software for human cancer biomarker discovery
title_full_unstemmed BioPlat: a software for human cancer biomarker discovery
title_sort BioPlat: a software for human cancer biomarker discovery
dc.creator.none.fl_str_mv Butti, Matias B.
Chanfreau, Hernán
Martinez, Diego
García, Diego
Lacunza, Ezequiel
Abba, Martín Carlos
author Butti, Matias B.
author_facet Butti, Matias B.
Chanfreau, Hernán
Martinez, Diego
García, Diego
Lacunza, Ezequiel
Abba, Martín Carlos
author_role author
author2 Chanfreau, Hernán
Martinez, Diego
García, Diego
Lacunza, Ezequiel
Abba, Martín Carlos
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Gene
Expression
Biomarker
Discovery
topic Gene
Expression
Biomarker
Discovery
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.2
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Development of effective tools such as oligo-microarrays and next-generation sequencing methods for monitoring gene expression on a large scale has resulted in the discovery of gene signatures with prognostic/predictive value in various malignant neoplastic diseases. However, with the exponential growth of gene expression databases, biologists are faced with the challenge of extracting useful information from these repositories. Here, we present a software package, BioPlat (Biomarkers Platform), which allows biologists to identify novel prognostic and predictive cancer biomarkers based on the data mining of gene expression signatures and gene expression profiling databases. BioPlat has been designed as an easy-to-use and flexible desktop software application, which provides a set of analytical tools related to data extraction, preprocessing, filtering, gene expression signature calculation, in silico validation, feature selection and annotation that leverage the integration and reuse of gene expression signatures in the context of follow-up data.
Fil: Butti, Matias B.. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Chanfreau, Hernán. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Martinez, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: García, Diego. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina
Fil: Lacunza, Ezequiel. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Abba, Martín Carlos. Universidad Nacional de la Plata. Facultad de Ciencias Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
description Development of effective tools such as oligo-microarrays and next-generation sequencing methods for monitoring gene expression on a large scale has resulted in the discovery of gene signatures with prognostic/predictive value in various malignant neoplastic diseases. However, with the exponential growth of gene expression databases, biologists are faced with the challenge of extracting useful information from these repositories. Here, we present a software package, BioPlat (Biomarkers Platform), which allows biologists to identify novel prognostic and predictive cancer biomarkers based on the data mining of gene expression signatures and gene expression profiling databases. BioPlat has been designed as an easy-to-use and flexible desktop software application, which provides a set of analytical tools related to data extraction, preprocessing, filtering, gene expression signature calculation, in silico validation, feature selection and annotation that leverage the integration and reuse of gene expression signatures in the context of follow-up data.
publishDate 2014
dc.date.none.fl_str_mv 2014-02
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/11336/31415
Butti, Matias B.; Chanfreau, Hernán; Martinez, Diego; García, Diego; Lacunza, Ezequiel; et al.; BioPlat: a software for human cancer biomarker discovery; Oxford University Press; Bioinformatics (Oxford, England); 30; 12; 2-2014; 1782-1784
1367-4803
CONICET Digital
CONICET
url http://hdl.handle.net/11336/31415
identifier_str_mv Butti, Matias B.; Chanfreau, Hernán; Martinez, Diego; García, Diego; Lacunza, Ezequiel; et al.; BioPlat: a software for human cancer biomarker discovery; Oxford University Press; Bioinformatics (Oxford, England); 30; 12; 2-2014; 1782-1784
1367-4803
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1093/bioinformatics/btu111
info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/bioinformatics/article/30/12/1782/382483
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
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
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score 13.001348

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