VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells
Zitieren Sie bitte immer diese URN: urn:nbn:de:bvb:20-opus-358042
- Variability of gene expression due to stochasticity of transcription or variation of extrinsic signals, termed biological noise, is a potential driving force of cellular differentiation. Utilizing single-cell RNA-sequencing, we develop VarID2 for the quantification of biological noise at single-cell resolution. VarID2 reveals enhanced nuclear versus cytoplasmic noise, and distinct regulatory modes stratified by correlation between noise, expression, and chromatin accessibility. Noise levels are minimal in murine hematopoietic stem cells (HSCs)Variability of gene expression due to stochasticity of transcription or variation of extrinsic signals, termed biological noise, is a potential driving force of cellular differentiation. Utilizing single-cell RNA-sequencing, we develop VarID2 for the quantification of biological noise at single-cell resolution. VarID2 reveals enhanced nuclear versus cytoplasmic noise, and distinct regulatory modes stratified by correlation between noise, expression, and chromatin accessibility. Noise levels are minimal in murine hematopoietic stem cells (HSCs) and increase during differentiation and ageing. Differential noise identifies myeloid-biased Dlk1+ long-term HSCs in aged mice with enhanced quiescence and self-renewal capacity. VarID2 reveals noise dynamics invisible to conventional single-cell transcriptome analysis.…
Autor(en): | Reyna Edith Rosales-Alvarez, Jasmin Rettkowski, Josip Stefan Herman, Gabrijela Dumbović, Nina Cabezas-Wallscheid, Dominic Grün |
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URN: | urn:nbn:de:bvb:20-opus-358042 |
Dokumentart: | Artikel / Aufsatz in einer Zeitschrift |
Institute der Universität: | Medizinische Fakultät / Institut für Systemimmunologie |
Sprache der Veröffentlichung: | Englisch |
Titel des übergeordneten Werkes / der Zeitschrift (Englisch): | Genome Biology |
Erscheinungsjahr: | 2023 |
Band / Jahrgang: | 24 |
Aufsatznummer: | 148 |
Originalveröffentlichung / Quelle: | Genome Biology (2023) 24:148. https://doi.org/10.1186/s13059-023-02974-1 |
DOI: | https://doi.org/10.1186/s13059-023-02974-1 |
Allgemeine fachliche Zuordnung (DDC-Klassifikation): | 6 Technik, Medizin, angewandte Wissenschaften / 61 Medizin und Gesundheit / 610 Medizin und Gesundheit |
Freie Schlagwort(e): | ageing; cell sate variability; gene expression noise; hematopoietic stem cells; machine learning; mathematical modeling; single-cell RNA sequencing; stem cell differentiation |
Datum der Freischaltung: | 28.05.2024 |
EU-Projektnummer / Contract (GA) number: | 818846 |
EU-Projektnummer / Contract (GA) number: | 759206 |
OpenAIRE: | OpenAIRE |
Lizenz (Deutsch): | CC BY: Creative-Commons-Lizenz: Namensnennung 4.0 International |