ArticleGenome biology2023
VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells.
Article in Genome biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 23 citations in OpenAlex.
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- Compound models and Pearson residuals for single-cell RNA-seq data without UMIs.Genome biology · 2026Article
- Transcriptional heterogeneity predicts and enables clonal selection in ageing haematopoiesis.Research square · 2026Article
- Transcription clusters and developmental pathways - nature, nurture, noise.Journal of cell science · 2026Review
- Architectural fragility of gene regulatory networks underlies hematopoietic stem cell aging.bioRxiv : the preprint server for biology · 2026Article
- An immunobiliary single-cell atlas resolves crosstalk between type 2 conventional dendritic cells and γδ T cells in cholangitis.Nature communications · 2026Article
- Preterm birth skews the developmental trajectory of myeloid-derived suppressor cells in the first 48 hours of life: single-cell transcriptomics and inferred intercellular communication.Molecular medicine (Cambridge, Mass.) · 2026Article
- Succinate receptor 1 restricts hematopoiesis and prevents acute myeloid leukemia progression.Nature communications · 2026Article
- Coordinated single-nucleus responses for quantitative disease resistance involve a calcium-associated switch in transcriptional noise.Genome biology · 2025Article
- Spatiotemporal dynamics of the cardioimmune niche during lesion repair.Nature cardiovascular research · 2025Article
- Immunosenescence and cancer: molecular hallmarks, tumor microenvironment remodeling, and age-specific immunotherapy challenges.Journal of hematology & oncology · 2025Review
- Uncovering candidate Nanog-Helper genes in early mouse embryo differentiation using differential entropy and network inference.Scientific reports · 2025Article
- GATA2 mutated allele specific expression is associated with a hyporesponsive state of HSC in GATA2 deficiency syndrome.Blood cancer journal · 2025Article
- Unsupervised multiscale clustering of single-cell transcriptomes to identify hierarchical structures of cell subtypes.GigaScience · 2025Article
- NiCo identifies extrinsic drivers of cell state modulation by niche covariation analysis.Nature communications · 2024Article
- Scalable identification of lineage-specific gene regulatory networks from metacells with NetID.Genome biology · 2024Article
- A logic-incorporated gene regulatory network deciphers principles in cell fate decisions.eLife · 2024Article
- VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells.Genome biology · 2023Article
- Strategies of neutrophil diversification.Nature immunology · 2023Review
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
Abstract
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.
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Registered trials
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