ArticleCell systems2017
Environment Tunes Propagation of Cell-to-Cell Variation in the Human Macrophage Gene Network.
Article in Cell systems, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Meta-Analysis ofFrontiers in immunology · 2019Pooled it
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- Functional Hallmarks of Healthy Macrophage Responses: Their Regulatory Basis and Disease Relevance.Annual review of immunology · 2022Review
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- A data-driven computational model enables integrative and mechanistic characterization of dynamic macrophage polarization.iScience · 2021Article
- The Putative Association of TOB1-AS1 Long Non-coding RNA with Immune Tolerance: A Study on Multiple Sclerosis Patients.Neuromolecular medicine · 2020Article
- Order by chance: origins and benefits of stochasticity in immune cell fate control.Current opinion in systems biology · 2019Article
- Comparative transcriptome analysis of trout skin pigment cells.BMC genomics · 2019Article
- In situ 10-cell RNA sequencing in tissue and tumor biopsy samples.Scientific reports · 2019Article
- An integrative approach for building personalized gene regulatory networks for precision medicine.Genome medicine · 2018Review
- Autoinhibition in Ras effectors Raf, PI3Kα, and RASSF5: a comprehensive review underscoring the challenges in pharmacological intervention.Biophysical reviews · 2018Review
- Advancing systems immunology through data-driven statistical analysis.Current opinion in biotechnology · 2018Review
- Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR.Nature immunology · 2018Article
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11 authors.
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Abstract
Cell-to-cell variation in gene expression and the propagation of such variation (PoV or "noise propagation") from one gene to another in the gene network, as reflected by gene-gene correlation across single cells, are commonly observed in single-cell transcriptomic studies and can shape the phenotypic diversity of cell populations. While gene network "rewiring" is known to accompany cellular adaptation to different environments, how PoV changes between environments and its underlying regulatory mechanisms are less understood. Here, we systematically explored context-dependent PoV among genes in human macrophages, utilizing different cytokines as natural perturbations of multiple molecular parameters that may influence PoV. Our single-cell, epigenomic, computational, and stochastic simulation analyses reveal that environmental adaptation can tune PoV to potentially shape cellular heterogeneity by changing parameters such as the degree of phosphorylation and transcription factor-chromatin interactions. This quantitative tuning of PoV may be a widespread, yet underexplored, property of cellular adaptation to distinct environments.
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