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Time series single-cell RNA sequencing of murine hematopoetic stem and progenitors (HSPCs) following in vivo IFNα treatment

ABSTRACT: The molecular and cellular dynamics of hematopoietic stem and progenitor cells (HSPCs) during the course of inflammation remain poorly studied. It has been challenging to characterize inflammation in HSPCs due to changes in cell type-specific surface markers. To address this challenge, we performed single-cell RNA sequencing of HSPCs at multiple time points (3, 24, and 72 hours) after treatment with the pro-inflammatory cytokine IFNα and developed a computational pipeline suitable for processing and analyzing single-cell time series dataset. Using a semi-supervised response-pseudotime inference approach, we discover a variety of different gene responses of the HSPCs to the treatment. Interestingly, we were able to associate the myeloid abundance changes with downregulated myeloid differentiation programs in HSCs and progenitors following IFNα treatment. Using single-cell time series we have been able to unbiasedly study the heterogeneous and dynamic impact of IFNα on the HSPCs

ORGANISM(S): Mus musculus

PROVIDER: GSE226824 | GEO | 2023/04/05

REPOSITORIES: GEO

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Time series single-cell RNA sequencing of murine hematopoetic stem and progenitors (HSPCs) following in vivo IFNα treatment

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