ArticleeLife2019
Dissecting the sharp response of a canonical developmental enhancer reveals multiple sources of cooperativity.
Article in eLife, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed, 78 citations in OpenAlex.
- Stable epigenetic states set single-cell activation thresholds in mammalian expression systems.bioRxiv : the preprint server for biology · 2026Article
- Fundamental limits on symmetry breaking by Turing-like activator-inhibitor mechanisms.Development (Cambridge, England) · 2026Article
- Evolution of dominance in a Mendelian trait is linked to the evolution of environmental plasticity.Evolution; international journal of organic evolution · 2026Article
- Quantitative modulation of a spatial enhancer through the biophysical properties of a transcription factor binding site.Science advances · 2026Article
- Algebraic formulas for first-passage times of Markov processes in the linear framework.Bulletin of mathematical biology · 2025Article
- Emergence of activation or repression in transcriptional control under a fixed molecular context.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Bicoid-nucleosome competition sets a concentration threshold for transcription constrained by genome replication.Cell reports · 2025Article
- Cell fate ratios are encoded by transcriptional dynamics in the Drosophila retina.Current biology : CB · 2025Article
- Evolution of dominance in a Mendelian trait is linked to the evolution of environmental plasticity.bioRxiv : the preprint server for biology · 2025Article
- Collective unstructured interactions drive chromatin binding of transcription factors.bioRxiv : the preprint server for biology · 2025Article
- Transcription factor clusters as information transfer agents.Science advances · 2025Article
- From genes to patterns: a framework for modeling the emergence of embryonic development from transcriptional regulation.Frontiers in cell and developmental biology · 2025Article
- Deciphering regulatory architectures of bacterial promoters from synthetic expression patterns.PLoS computational biology · 2024Article
- Article
- Optogenetic dissection of transcriptional repression in a multicellular organism.Nature communications · 2024Article
- Energy Aware Technology Mapping of Genetic Logic Circuits.ACS synthetic biology · 2024Article
- The method in the madness: Transcriptional control from stochastic action at the single-molecule scale.Current opinion in structural biology · 2024Review
- InterpretingNature machine intelligence · 2024Article
- The Hill function is the universal Hopfield barrier for sharpness of input-output responses.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- The Hill function is the universal Hopfield barrier for sharpness of input-output responses.bioRxiv : the preprint server for biology · 2024Article
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Authors and funding
11 authors at 1 institution in 1 country.
Funding
Abstract
Developmental enhancers integrate graded concentrations of transcription factors (TFs) to create sharp gene expression boundaries. Here we examine the hunchback P2 (HbP2) enhancer which drives a sharp expression pattern in the Drosophila blastoderm embryo in response to the transcriptional activator Bicoid (Bcd). We systematically interrogate cis and trans factors that influence the shape and position of expression driven by HbP2, and find that the prevailing model, based on pairwise cooperative binding of Bcd to HbP2 is not adequate. We demonstrate that other proteins, such as pioneer factors, Mediator and histone modifiers influence the shape and position of the HbP2 expression pattern. Comparing our results to theory reveals how higher-order cooperativity and energy expenditure impact boundary location and sharpness. Our results emphasize that the bacterial view of transcription regulation, where pairwise interactions between regulatory proteins dominate, must be reexamined in animals, where multiple molecular mechanisms collaborate to shape the gene regulatory function.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.