Deep characterization of paired chromatin and transcriptomes in four immune cell types from multiple sclerosis patients

Sunjay Jude Fernandes, Matilda Ericsson, Mohsen Khademi, Maja Jagodic, Tomas Olsson, David Gomez-Cabrero, Ingrid Kockum, Jesper Tegner

Research output: Contribution to journalArticlepeer-review

3 Scopus citations

Abstract

Background: The putative involvement of chromatin states in multiple sclerosis (MS) is thus far unclear. Here we determined the association of chromatin-accessibility with concurrent genetic, epigenetic and transcriptional events. Material & methods: We generated paired assay for transposase-accessible chromatin sequencing and RNA-seq profiles from sorted blood immune CD4$^{+}$ and CD8$^{+}$ T cells, CD14$^{+}$ monocytes and CD19$^{+}$ B cells from healthy controls (HCs) and MS patients. Results: We identified differentially accessible regions between MS and HCs, primarily in CD4$^{+}$ and CD19$^{+}$. CD4$^{+}$ regions were enriched for MS-associated single nucleotide polymorphisms and differentially methylated loci. In the vicinity of differentially accessible regions of CD4$^{+}$ cells, 42 differentially expressed genes were identified. The top two dysregulated genes identified in this multilayer analysis were CCDC114 and SERTAD1. Conclusion: These findings provide new insight into the primary role of CD4$^{+}$ and CD19$^{+}$ cells in MS.
Original languageEnglish (US)
JournalEpigenomics
DOIs
StatePublished - Oct 22 2021

Bibliographical note

KAUST Repository Item: Exported on 2021-10-25
Acknowledgements: The authors thank all the multiple sclerosis patients who have been willing to take part in this study. The authors also thank the healthy donors for contributing their blood to this study. The authors acknowledge P Noori for the extraction of RNA from sorted cells.

ASJC Scopus subject areas

  • Genetics
  • Cancer Research

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