Mostrar el registro sencillo del ítem
dc.contributor.author
Cedoz, Pierre Louis
dc.contributor.author
Prunello, Marcos Miguel
dc.contributor.author
Brennan, Kevin
dc.contributor.author
Gevaert, Olivier
dc.date.available
2020-01-17T21:25:04Z
dc.date.issued
2018-09
dc.identifier.citation
Cedoz, Pierre Louis; Prunello, Marcos Miguel; Brennan, Kevin; Gevaert, Olivier; MethylMix 2.0: An R package for identifying DNA methylation genes; Oxford University Press; Bioinformatics (Oxford, England); 34; 17; 9-2018; 3044-3046
dc.identifier.issn
1367-4803
dc.identifier.uri
http://hdl.handle.net/11336/95135
dc.description.abstract
Summary: DNA methylation is an important mechanism regulating gene transcription, and its role in carcinogenesis has been extensively studied. Hyper and hypomethylation of genes is a major mechanism of gene expression deregulation in a wide range of diseases. At the same time, highthroughput DNA methylation assays have been developed generating vast amounts of genome wide DNA methylation measurements. We developed MethylMix, an algorithm implemented in R to identify disease specific hyper and hypomethylated genes. Here we present a new version of MethylMix that automates the construction of DNA-methylation and gene expression datasets from The Cancer Genome Atlas (TCGA). More precisely, MethylMix 2.0 incorporates two major updates: The automated downloading of DNA methylation and gene expression datasets from TCGA and the automated preprocessing of such datasets: Value imputation, batch correction and CpG sites clustering within each gene. The resulting datasets can subsequently be analyzed with MethylMix to identify transcriptionally predictive methylation states.
dc.format
application/pdf
dc.language.iso
eng
dc.publisher
Oxford University Press
dc.rights
info:eu-repo/semantics/openAccess
dc.rights.uri
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.subject
R PACKAGE
dc.subject
BIOCONDUCTOR
dc.subject
DNA METHYLATION
dc.subject
CANCER SUBTYPING
dc.subject.classification
Ciencias de la Información y Bioinformática
dc.subject.classification
Ciencias de la Computación e Información
dc.subject.classification
CIENCIAS NATURALES Y EXACTAS
dc.title
MethylMix 2.0: An R package for identifying DNA methylation genes
dc.type
info:eu-repo/semantics/article
dc.type
info:ar-repo/semantics/artículo
dc.type
info:eu-repo/semantics/publishedVersion
dc.date.updated
2019-12-10T16:48:13Z
dc.journal.volume
34
dc.journal.number
17
dc.journal.pagination
3044-3046
dc.journal.pais
Reino Unido
dc.journal.ciudad
Oxford
dc.description.fil
Fil: Cedoz, Pierre Louis. University of Stanford; Estados Unidos
dc.description.fil
Fil: Prunello, Marcos Miguel. Universidad Nacional de Rosario; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario; Argentina
dc.description.fil
Fil: Brennan, Kevin. University of Stanford; Estados Unidos
dc.description.fil
Fil: Gevaert, Olivier. University of Stanford; Estados Unidos
dc.journal.title
Bioinformatics (Oxford, England)
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/bioinformatics/article/34/17/3044/4970512
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/doi/http://dx.doi.org/10.1093/bioinformatics/bty156
Archivos asociados