ArticleCell2011
Building enhancers from the ground up: a synthetic biology approach.
Article in Cell, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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
30 citing papers in PubMed, 65 citations in OpenAlex.
- Enhancer-based gene therapy: a new path for precision medicine.Hereditas · 2026Review
- A systematic survey of TF function in E. coli suggests RNAP stabilization is a prevalent strategy for both repressors and activators.Nucleic acids research · 2025Article
- Article
- Concentration-dependent transcriptional switching through a collective action of cis-elements.Science advances · 2022Article
- Tunable transcription factor library for robust quantification of regulatory properties in Escherichia coli.Molecular systems biology · 2022Article
- AAV Deployment of Enhancer-Based Expression Constructs In Vivo in Mouse Brain.Journal of visualized experiments : JoVE · 2022Article
- Quantifying the regulatory role of individual transcription factors in Escherichia coli.Cell reports · 2021Article
- Designed architectural proteins that tune DNA looping in bacteria.Nucleic acids research · 2021Article
- Rational design of minimal synthetic promoters for plants.Nucleic acids research · 2020Article
- A sensitive mNeonGreen reporter system to measure transcriptional dynamics in Drosophila development.Communications biology · 2020Article
- Cell-free gene-regulatory network engineering with synthetic transcription factors.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Locus specific engineering of tandem DNA repeats in the genome of Saccharomyces cerevisiae using CRISPR/Cas9 and overlapping oligonucleotides.Scientific reports · 2018Article
- Insulated transcriptional elements enable precise design of genetic circuits.Nature communications · 2017Article
- A Looping-Based Model for Quenching Repression.PLoS computational biology · 2017Article
- Supercoiling biases the formation of loops involved in gene regulation.Biophysical reviews · 2016Review
- Synthetic Biology Platform for Sensing and Integrating Endogenous Transcriptional Inputs in Mammalian Cells.Cell reports · 2016Article
- Using synthetic bacterial enhancers to reveal a looping-based mechanism for quenching-like repression.Nature communications · 2016Article
- Temperature Sensitivity Conferred by ligA Alleles from Psychrophilic Bacteria upon Substitution in Mesophilic Bacteria and a Yeast Species.Applied and environmental microbiology · 2016Article
- An innovative platform for quick and flexible joining of assorted DNA fragments.Scientific reports · 2016Article
- Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
A challenge of the synthetic biology approach is to use our understanding of a system to recreate a biological function with specific properties. We have applied this framework to bacterial enhancers, combining a driver, transcription factor binding sites, and a poised polymerase to create synthetic modular enhancers. Our findings suggest that enhancer-based transcriptional control depends critically and quantitatively on DNA looping, leading to complex regulatory effects when the enhancer cassettes contain additional transcription factor binding sites for TetR, a bacterial transcription factor. We show through a systematic interplay of experiment and thermodynamic modeling that the level of gene expression can be modulated to convert a variable inducer concentration input into discrete or step-like output expression levels. Finally, using a different DNA-binding protein (TraR), we show that the regulatory output is not a particular feature of the specific DNA-binding protein used for the enhancer but a general property of synthetic bacterial enhancers.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.