Methylation-based reclassification and risk stratification of skull-base chordomas.

ABSTRACT:

Background

Skull-base chordomas are rare malignant bone cancers originating from the remnant of the notochord. Survival is variable, and clinical or molecular factors cannot reliably predict their outcomes. This study therefore identified epigenetic subtypes that defined new chordoma epigenetic profiles and their corresponding characteristics.

Methods

Methylation profiles of 46 chordoma-resected neoplasms between 2008 and 2014, along with clinical information, were collected. K-means consensus clustering and principal component analysis were used to identify and validate the clusters. Single-sample gene set enrichment analysis, methylCIBERSORT algorithm, and copy number analysis were used to identify the characteristics of the clusters.

Results

Unsupervised clustering

SUBMITTER: Huo X 

PROVIDER: S-EPMC9691996 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature