3D genome mapping identifies subgroup-specific chromosome conformations and tumor-dependency genes in ependymoma.

ABSTRACT: Ependymoma is a tumor of the brain or spinal cord. The two most common and aggressive molecular groups of ependymoma are the supratentorial ZFTA-fusion associated and the posterior fossa ependymoma group A. In both groups, tumors occur mainly in young children and frequently recur after treatment. Although molecular mechanisms underlying these diseases have recently been uncovered, they remain difficult to target and innovative therapeutic approaches are urgently needed. Here, we use genome-wide chromosome conformation capture (Hi-C), complemented with CTCF and H3K27ac ChIP-seq, as well as gene expression and DNA methylation analysis in primary and relapsed ependymoma tumors, to identify chromosomal conformations and regulatory mechanisms associated with aberrant gene expression. In partic

SUBMITTER: Okonechnikov K 

PROVIDER: S-EPMC10121654 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature