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Single-Cell RNA Sequencing of Pediatric Ependymoma uncovers Subclonal Heterogeneity associated with Patient Survival

ABSTRACT: Ependymoma is a malignant glial tumor occurring throughout central nervous system, with one third of relapse rate. The increasing accessibility of single-cell transcriptome has accelerated our understanding of ependymoma. In this study, we generated a high-resolution single-cell dataset with a particular focus on the comparison of subclonal differences within tumor populations. As a proxy to traditional pseudotime analysis, we developed a novel trajectory scoring method to predict survival outcomes and specific molecular characteristics. Moreover, we identified putative cell-cell communication features between relapsed and primary samples and show upregulation of pathways associated with immune cell crosstalk. Our results reveal both inter- and intratumoral gene expression profiles and tumor differentiation and provide a framework for future studies on transcriptomic signatures of individual subclones in brain tumors at single-cell resolution, by which could complement existing published datasets and provide valuable insights into cell-type-specific properties and lay the foundation for therapeutic treatments of diseases.

ORGANISM(S): Homo sapiens

PROVIDER: GSE189939 | GEO | 2022/06/15

REPOSITORIES: GEO

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