title: MethPed: an R package for the identification of pediatric brain tumor subtypes.
abstract: BACKGROUND
  DNA methylation profiling of pediatric brain tumors offers a new way of diagnosing and subgrouping these tumors which improves current clinical diagnostics based on histopathology. We have therefore developed the MethPed classifier, which is a multiclass random forest algorithm, based on DNA methylation profiles from many subgroups of pediatric brain tumors.
  
  
  RESULTS
  We developed an R package that implements the MethPed classifier, making it easily available and accessible. The package can be used for estimating the probability that an unknown sample belongs to each of nine pediatric brain tumor diagnoses/subgroups.
  
  
  CONCLUSIONS
  The MethPed R package efficiently classifies pediatric brain tumors using the developed MethPed classifier. MethPed is available via Bioconductor: http://bioconductor.org/packages/MethPed/.
authors.affiliation: Sahlgrenska Cancer Center, Department of Pathology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, PO Box 425, SE-405 30, Gothenburg, Sweden.
authors.forename: Mohammad Tanvir
authors.initials: MT
authors.lastname: Ahamed
authors.affiliation: Sahlgrenska Cancer Center, Department of Oncology, Institute of Clinical Sciences, Sahlgrenska Academy, University of Gothenburg, PO Box 425, SE-405 30, Gothenburg, Sweden.
authors.forename: Anna
authors.initials: A
authors.lastname: Danielsson
authors.affiliation: Swedish Hip Arthroplasty Register, Centre of Registers Västra Götaland, Gothenburg, PO Box 425, SE-405 30, Gothenburg, Sweden.
authors.forename: Szilárd
authors.initials: S
authors.lastname: Nemes
authors.affiliation: Sahlgrenska Cancer Center, Department of Pathology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, PO Box 425, SE-405 30, Gothenburg, Sweden. helena.caren@gu.se.
authors.forename: Helena
authors.initials: H
authors.lastname: Carén
mesh_terms: D000465:Algorithms; D001932:Brain Neoplasms / Q000235:genetics*; D002648:Child; D019175:DNA Methylation; D003627:Data Interpretation, Statistical; D006801:Humans
keywords: 450K; Astrocytoma; Classifier (classification tool); DNA methylation; Ependymoma; Glioblastoma; Medulloblastoma; MethPed; R package; Random forest