Automatic Integration of Clinical and Genetic Data Using cBioPortal

Autores
Brunner, Mauricio; Mullen, Lucas; Jauk, Federico; Oliver, Javier; Cayol, Federico; Minata, José; Herrera, Victor; Pavicic, Walter Hernan; Luna, Daniel Roberto; Risk, Marcelo; Garcia Rivello, Hernan Jorge; Benítez, Sonia
Año de publicación
2022
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Precision medicine seeks to improve the prevention, diagnosis and treatment of patients based on genetic characteristics unique to each person. In oncology, therapeutic decisions have been established based on the genomic characteristics of each patient's tumor. Data integration is key for the successful implementation of precision medicine since it is necessary for both studying a large volume of data from different sources and working with an interdisciplinary and translational vision. In this work, a bioinformatic process was successfully implemented that allows the integration of patients' genomic data, from two molecular biology laboratories, with their clinical data provided by their electronic medical records. For this, the REDCap data capture software, the cBioPortal visualization and analysis software, and a computer tool developed to automate the processing and annotation of the information in REDCap were used to be included in cBioPortal, for the 'Map of Tumor Genomic Actionability of Argentina' project.
Fil: Brunner, Mauricio. Hospital Italiano; Argentina
Fil: Mullen, Lucas. Hospital Italiano; Argentina
Fil: Jauk, Federico. Hospital Italiano; Argentina
Fil: Oliver, Javier. Hospital Italiano; Argentina
Fil: Cayol, Federico. Hospital Italiano; Argentina
Fil: Minata, José. Hospital Italiano; Argentina
Fil: Herrera, Victor. Hospital Italiano; Argentina
Fil: Pavicic, Walter Hernan. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto Multidisciplinario de Biología Celular. Provincia de Buenos Aires. Gobernación. Comisión de Investigaciones Científicas. Instituto Multidisciplinario de Biología Celular. Universidad Nacional de La Plata. Instituto Multidisciplinario de Biología Celular; Argentina
Fil: Luna, Daniel Roberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; Argentina
Fil: Risk, Marcelo. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; Argentina
Fil: Garcia Rivello, Hernan Jorge. Hospital Italiano; Argentina
Fil: Benítez, Sonia. Hospital Italiano; Argentina
Materia
GENOMICS
MEDICAL INFORMATICS
PRECISION MEDICINE
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/216960
Acceder
id CONICETDig_fac0d61c82dc444248f686b1f2e810d8
oai_identifier_str oai:ri.conicet.gov.ar:11336/216960
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Automatic Integration of Clinical and Genetic Data Using cBioPortalBrunner, MauricioMullen, LucasJauk, FedericoOliver, JavierCayol, FedericoMinata, JoséHerrera, VictorPavicic, Walter HernanLuna, Daniel RobertoRisk, MarceloGarcia Rivello, Hernan JorgeBenítez, SoniaGENOMICSMEDICAL INFORMATICSPRECISION MEDICINEhttps://purl.org/becyt/ford/3.2https://purl.org/becyt/ford/3Precision medicine seeks to improve the prevention, diagnosis and treatment of patients based on genetic characteristics unique to each person. In oncology, therapeutic decisions have been established based on the genomic characteristics of each patient's tumor. Data integration is key for the successful implementation of precision medicine since it is necessary for both studying a large volume of data from different sources and working with an interdisciplinary and translational vision. In this work, a bioinformatic process was successfully implemented that allows the integration of patients' genomic data, from two molecular biology laboratories, with their clinical data provided by their electronic medical records. For this, the REDCap data capture software, the cBioPortal visualization and analysis software, and a computer tool developed to automate the processing and annotation of the information in REDCap were used to be included in cBioPortal, for the 'Map of Tumor Genomic Actionability of Argentina' project.Fil: Brunner, Mauricio. Hospital Italiano; ArgentinaFil: Mullen, Lucas. Hospital Italiano; ArgentinaFil: Jauk, Federico. Hospital Italiano; ArgentinaFil: Oliver, Javier. Hospital Italiano; ArgentinaFil: Cayol, Federico. Hospital Italiano; ArgentinaFil: Minata, José. Hospital Italiano; ArgentinaFil: Herrera, Victor. Hospital Italiano; ArgentinaFil: Pavicic, Walter Hernan. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto Multidisciplinario de Biología Celular. Provincia de Buenos Aires. Gobernación. Comisión de Investigaciones Científicas. Instituto Multidisciplinario de Biología Celular. Universidad Nacional de La Plata. Instituto Multidisciplinario de Biología Celular; ArgentinaFil: Luna, Daniel Roberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; ArgentinaFil: Risk, Marcelo. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; ArgentinaFil: Garcia Rivello, Hernan Jorge. Hospital Italiano; ArgentinaFil: Benítez, Sonia. Hospital Italiano; ArgentinaIOS Press2022-06info: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/11336/216960Brunner, Mauricio; Mullen, Lucas; Jauk, Federico; Oliver, Javier; Cayol, Federico; et al.; Automatic Integration of Clinical and Genetic Data Using cBioPortal; IOS Press; Studies in Health Technology and Informatics; 290; 6-2022; 799-8030926-96301879-8365CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.3233/SHTI220189info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:47:23Zoai:ri.conicet.gov.ar:11336/216960instacron: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:34982025-09-29 10:47:23.559CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Automatic Integration of Clinical and Genetic Data Using cBioPortal
title Automatic Integration of Clinical and Genetic Data Using cBioPortal
spellingShingle Automatic Integration of Clinical and Genetic Data Using cBioPortal
Brunner, Mauricio
GENOMICS
MEDICAL INFORMATICS
PRECISION MEDICINE
title_short Automatic Integration of Clinical and Genetic Data Using cBioPortal
title_full Automatic Integration of Clinical and Genetic Data Using cBioPortal
title_fullStr Automatic Integration of Clinical and Genetic Data Using cBioPortal
title_full_unstemmed Automatic Integration of Clinical and Genetic Data Using cBioPortal
title_sort Automatic Integration of Clinical and Genetic Data Using cBioPortal
dc.creator.none.fl_str_mv Brunner, Mauricio
Mullen, Lucas
Jauk, Federico
Oliver, Javier
Cayol, Federico
Minata, José
Herrera, Victor
Pavicic, Walter Hernan
Luna, Daniel Roberto
Risk, Marcelo
Garcia Rivello, Hernan Jorge
Benítez, Sonia
author Brunner, Mauricio
author_facet Brunner, Mauricio
Mullen, Lucas
Jauk, Federico
Oliver, Javier
Cayol, Federico
Minata, José
Herrera, Victor
Pavicic, Walter Hernan
Luna, Daniel Roberto
Risk, Marcelo
Garcia Rivello, Hernan Jorge
Benítez, Sonia
author_role author
author2 Mullen, Lucas
Jauk, Federico
Oliver, Javier
Cayol, Federico
Minata, José
Herrera, Victor
Pavicic, Walter Hernan
Luna, Daniel Roberto
Risk, Marcelo
Garcia Rivello, Hernan Jorge
Benítez, Sonia
author2_role author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv GENOMICS
MEDICAL INFORMATICS
PRECISION MEDICINE
topic GENOMICS
MEDICAL INFORMATICS
PRECISION MEDICINE
purl_subject.fl_str_mv https://purl.org/becyt/ford/3.2
https://purl.org/becyt/ford/3
dc.description.none.fl_txt_mv Precision medicine seeks to improve the prevention, diagnosis and treatment of patients based on genetic characteristics unique to each person. In oncology, therapeutic decisions have been established based on the genomic characteristics of each patient's tumor. Data integration is key for the successful implementation of precision medicine since it is necessary for both studying a large volume of data from different sources and working with an interdisciplinary and translational vision. In this work, a bioinformatic process was successfully implemented that allows the integration of patients' genomic data, from two molecular biology laboratories, with their clinical data provided by their electronic medical records. For this, the REDCap data capture software, the cBioPortal visualization and analysis software, and a computer tool developed to automate the processing and annotation of the information in REDCap were used to be included in cBioPortal, for the 'Map of Tumor Genomic Actionability of Argentina' project.
Fil: Brunner, Mauricio. Hospital Italiano; Argentina
Fil: Mullen, Lucas. Hospital Italiano; Argentina
Fil: Jauk, Federico. Hospital Italiano; Argentina
Fil: Oliver, Javier. Hospital Italiano; Argentina
Fil: Cayol, Federico. Hospital Italiano; Argentina
Fil: Minata, José. Hospital Italiano; Argentina
Fil: Herrera, Victor. Hospital Italiano; Argentina
Fil: Pavicic, Walter Hernan. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto Multidisciplinario de Biología Celular. Provincia de Buenos Aires. Gobernación. Comisión de Investigaciones Científicas. Instituto Multidisciplinario de Biología Celular. Universidad Nacional de La Plata. Instituto Multidisciplinario de Biología Celular; Argentina
Fil: Luna, Daniel Roberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; Argentina
Fil: Risk, Marcelo. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Medicina Traslacional e Ingeniería Biomédica - Hospital Italiano. Instituto de Medicina Traslacional e Ingeniería Biomédica.- Instituto Universitario Hospital Italiano de Buenos Aires. Instituto de Medicina Traslacional e Ingeniería Biomédica; Argentina
Fil: Garcia Rivello, Hernan Jorge. Hospital Italiano; Argentina
Fil: Benítez, Sonia. Hospital Italiano; Argentina
description Precision medicine seeks to improve the prevention, diagnosis and treatment of patients based on genetic characteristics unique to each person. In oncology, therapeutic decisions have been established based on the genomic characteristics of each patient's tumor. Data integration is key for the successful implementation of precision medicine since it is necessary for both studying a large volume of data from different sources and working with an interdisciplinary and translational vision. In this work, a bioinformatic process was successfully implemented that allows the integration of patients' genomic data, from two molecular biology laboratories, with their clinical data provided by their electronic medical records. For this, the REDCap data capture software, the cBioPortal visualization and analysis software, and a computer tool developed to automate the processing and annotation of the information in REDCap were used to be included in cBioPortal, for the 'Map of Tumor Genomic Actionability of Argentina' project.
publishDate 2022
dc.date.none.fl_str_mv 2022-06
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/11336/216960
Brunner, Mauricio; Mullen, Lucas; Jauk, Federico; Oliver, Javier; Cayol, Federico; et al.; Automatic Integration of Clinical and Genetic Data Using cBioPortal; IOS Press; Studies in Health Technology and Informatics; 290; 6-2022; 799-803
0926-9630
1879-8365
CONICET Digital
CONICET
url http://hdl.handle.net/11336/216960
identifier_str_mv Brunner, Mauricio; Mullen, Lucas; Jauk, Federico; Oliver, Javier; Cayol, Federico; et al.; Automatic Integration of Clinical and Genetic Data Using cBioPortal; IOS Press; Studies in Health Technology and Informatics; 290; 6-2022; 799-803
0926-9630
1879-8365
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.3233/SHTI220189
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv IOS Press
publisher.none.fl_str_mv IOS 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_ 1844614517724545024
score 13.070432

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