Single-Cell RNA Sequencing Unravels Upregulation of Immune Cell Crosstalk in Relapsed Pediatric Ependymoma

Wu，Haoda1,2; Fu，Ruiqing3; Zhang，Yu Hong1,2; Liu，Zhiming4; Chen，Zhen Hua1,2; Xu，Jingkai5; Tian，Yongji4; Jin，Wenfei3; Wong，Samuel Zheng Hao6; Wu，Qing Feng1,2,7,8,9

2022-06-30

10.3389/fimmu.2022.903246

Frontiers in Immunology   Impact Factor & Quartile

1664-3224

Ependymoma (EPN) is a malignant glial tumor occurring throughout central nervous system, which commonly presents in children. Although recent studies have characterized EPN samples at both the bulk and single-cell level, intratumoral heterogeneity across subclones remains a confounding factor that impedes understanding of EPN biology. In this study, we generated a high-resolution single-cell dataset of pediatric ependymoma with a particular focus on the comparison of subclone differences within tumors and showed upregulation of cilium-associated genes in more highly differentiated subclone populations. As a proxy to traditional pseudotime analysis, we applied a novel trajectory scoring method to reveal cellular compositions associated with poor survival outcomes across primary and relapsed patients. Furthermore, we identified putative cell-cell communication features between relapsed and primary samples and showed upregulation of pathways associated with immune cell crosstalk. Our results revealed both inter- and intratumoral heterogeneity in EPN and provided a framework for studying transcriptomic signatures of individual subclones at single-cell resolution.

ependymoma relapse subclone single-cell trajectory score microenvironment microglia

SCI

English

Corresponding

Immunology

Immunology

WOS:000827375400001

FRONTIERS MEDIA SA

2-s2.0-85134227707

Web of Science

1.State Key Laboratory of Molecular Development Biology,Institute of Genetics and Developmental Biology,Chinese Academy of Sciences,Beijing,China
2.University of Chinese Academy of Sciences,Beijing,China
3.Department of Biology,School of Life Sciences,Southern University of Science and Technology,Shenzhen,China
4.Department of Neurosurgery,Beijing Tiantan Hospital,Capital Medical University,Beijing,China
5.Department of Dermatology,China–Japan Friendship Hospital,Beijing,China
6.Department of Neurosurgery,Stanford University School of Medicine,Stanford,United States
7.Center for Excellence in Brain Science and Intelligence Technology,Chinese Academy of Sciences,Beijing,China
8.Chinese Institute for Brain Research,Beijing,China
9.Beijing Children Hospital,Capital Medical University,Beijing,China

Wu，Haoda,Fu，Ruiqing,Zhang，Yu Hong,et al. Single-Cell RNA Sequencing Unravels Upregulation of Immune Cell Crosstalk in Relapsed Pediatric Ependymoma[J]. Frontiers in Immunology,2022,13.

Wu，Haoda.,Fu，Ruiqing.,Zhang，Yu Hong.,Liu，Zhiming.,Chen，Zhen Hua.,...&Wu，Qing Feng.(2022).Single-Cell RNA Sequencing Unravels Upregulation of Immune Cell Crosstalk in Relapsed Pediatric Ependymoma.Frontiers in Immunology,13.

Wu，Haoda,et al."Single-Cell RNA Sequencing Unravels Upregulation of Immune Cell Crosstalk in Relapsed Pediatric Ependymoma".Frontiers in Immunology 13(2022).