ArticleScientific reports2020
Dynamical gene regulatory networks are tuned by transcriptional autoregulation with microRNA feedback.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 31 citations in OpenAlex.
- HES1 oscillations are required for cell cycle reentry in oestrogen receptor-positive breast cancer cells.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Strongly regulated transcription factors exert an outsized influence in microRNA-regulated networks.Cell communication and signaling : CCS · 2025Article
- Ectopic sodium channel expression decreases excitability of Drosophila Kenyon cells.The Journal of physiology · 2025Article
- FLYWCH transcription factors act in a LIN-42/Period autoregulatory loop during gonad migration inbioRxiv : the preprint server for biology · 2025Article
- The proximal enhancer of the snail gene mediates negative autoregulatory feedback in Drosophila melanogaster.Genetics · 2025Article
- Efficient approximations of transcriptional bursting effects on the dynamics of a gene regulatory network.Journal of the Royal Society, Interface · 2025Article
- Genetically Encoded Trensor Circuits Report HeLa Cell Treatment with Polyplexed Plasmid DNA and Small-Molecule Transfection Modulators.ACS synthetic biology · 2024Article
- Identification of genes with oscillatory expression in glioblastoma: the paradigm of SOX2.Scientific reports · 2024Article
- Cooperative RNA degradation stabilizes intermediate epithelial-mesenchymal states and supports a phenotypic continuum.iScience · 2022Article
- Sequential and additive expression of miR-9 precursors control timing of neurogenesis.Development (Cambridge, England) · 2022Article
- Evolution of miRNA-Binding Sites and Regulatory Networks in Cichlids.Molecular biology and evolution · 2022Article
- XRE family transcriptional regulator XtrSs modulates Streptococcus suis fitness under hydrogen peroxide stress.Archives of microbiology · 2022Article
- Are spliced ncRNA host genes distinct classes of lncRNAs?Theory in biosciences = Theorie in den Biowissenschaften · 2020Article
- Dynamic properties of noise and Her6 levels are optimized by miR-9, allowing the decoding of the Her6 oscillator.The EMBO journal · 2020Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Concepts from dynamical systems theory, including multi-stability, oscillations, robustness and stochasticity, are critical for understanding gene regulation during cell fate decisions, inflammation and stem cell heterogeneity. However, the prevalence of the structures within gene networks that drive these dynamical behaviours, such as autoregulation or feedback by microRNAs, is unknown. We integrate transcription factor binding site (TFBS) and microRNA target data to generate a gene interaction network across 28 human tissues. This network was analysed for motifs capable of driving dynamical gene expression, including oscillations. Identified autoregulatory motifs involve 56% of transcription factors (TFs) studied. TFs that autoregulate have more interactions with microRNAs than non-autoregulatory genes and 89% of autoregulatory TFs were found in dual feedback motifs with a microRNA. Both autoregulatory and dual feedback motifs were enriched in the network. TFs that autoregulate were highly conserved between tissues. Dual feedback motifs with microRNAs were also conserved between tissues, but less so, and TFs regulate different combinations of microRNAs in a tissue-dependent manner. The study of these motifs highlights ever more genes that have complex regulatory dynamics. These data provide a resource for the identification of TFs which regulate the dynamical properties of human gene expression.
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