MethPed: a DNA methylation classifier tool for the identification of pediatric brain tumor subtypes.

ABSTRACT:

Background

Classification of pediatric tumors into biologically defined subtypes is challenging, and multifaceted approaches are needed. For this aim, we developed a diagnostic classifier based on DNA methylation profiles.

Results

Methylation data generated by the Illumina Infinium HumanMethylation 450 BeadChip arrays were downloaded from the Gene Expression Omnibus (n = 472). Using the data, we built MethPed, which is a multiclass random forest algorithm, based on DNA methylation profiles from nine subgroups of pediatric brain tumors. DNA from 18 regional samples was used to validate MethPed. MethPed was additionally applied to a set of 28 publically available tumors with the heterogeneous diagnosis PNET. MethPed could successfully separate individual histology tumor types

SUBMITTER: Danielsson A 

PROVIDER: S-EPMC4495799 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature