ArticleNature communications2022
Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria.
Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 115 papers.
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Who cites it
115 citing papers in PubMed.
- N-terminal fusion length: The key to reliable and context-preserving regulatory sequence characterization.Synthetic and systems biotechnology · 2027Article
- Prophage-encoding engineered bacteria enable prophylactic lytic phage therapy for enteric infection in mice.Nature microbiology · 2026Article
- An inducer-independent, single-plasmid CRISPR-Cas9 system for genome editing in Bacillus species.Applied microbiology and biotechnology · 2026Article
- Modular synthetic cross-kingdom promoters enable coordinated expression in Escherichia coli and Saccharomyces cerevisiae.Nucleic acids research · 2026Article
- An expanded realm of anti-CRISPR-associated proteins and regulatory mechanisms.Nucleic acids research · 2026Article
- A Single-Nucleotide Substitution Generates a de Novo Promoter That Activates a Latent Metabolic Bypass in Escherichia coli.Molecular microbiology · 2026Article
- Engineered E. coli swarming for binary and analog input recording.Molecular systems biology · 2026Article
- Opportunities for artificial intelligence and synthetic biology in designing living drug delivery systems.Advanced drug delivery reviews · 2026Review
- Core elements play distinct roles in promoter birth and transcriptional regulation.Nature communications · 2026Article
- Engineering commensal microbes for host health.Cell host & microbe · 2026Review
- Probing the limits of genetic recoding using multi-omics-guided evolution.Nature communications · 2026Article
- De novo promoters emerge more readily from random DNA than from genomic DNA.Science advances · 2026Article
- PromoterAtlas: decoding regulatory sequences across Gammaproteobacteria using a transformer model.Nature communications · 2026Article
- Seven inducible promoters for Zymomonas mobilis.Microbial cell factories · 2026Article
- Rhodo-Box: A Synthetic Biology Toolbox to Facilitate Metabolic Engineering ofACS synthetic biology · 2026Article
- Leaky recombinant expression reveals design constraints of bicistronic synthetic operons in Escherichia coli.Scientific reports · 2026Article
- Logic-Gated HSV-TK/GCV Suicide Gene Circuit for Triple-Negative Breast Cancer.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- A Modified Methyl Transferase Cofactor to Selectively Silence Gene Expression in Escherichia coli.Chembiochem : a European journal of chemical biology · 2026Article
- Hybrid metabolic engineering enables xylose-driven co-production of polyhydroxybutyrate and violacein in Escherichia coli.Journal of biological engineering · 2026Article
- Design prokaryotic cis-regulatory elements using language model.Nucleic acids research · 2026Article
55 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Transcription rates are regulated by the interactions between RNA polymerase, sigma factor, and promoter DNA sequences in bacteria. However, it remains unclear how non-canonical sequence motifs collectively control transcription rates. Here, we combine massively parallel assays, biophysics, and machine learning to develop a 346-parameter model that predicts site-specific transcription initiation rates for any σ
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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.