ArticleScience (New York, N.Y.)2016
Synthetic recombinase-based state machines in living cells.
Article in Science (New York, N.Y.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 107 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
107 citing papers in PubMed, 257 citations in OpenAlex.
- Characterization of recombinase-based genetic parts and circuits using nanopore sequencing.Nature communications · 2026Article
- Large serine recombinase-mediated gene insertion for high-throughput screens: advantages, design principles, and applications.Nucleic acids research · 2026Review
- Multichannel genomic recording of biological information with ENGRAM.Nature protocols · 2026Review
- Engineering commensal microbes for host health.Cell host & microbe · 2026Review
- Cascading recombinase memory switch for programmable and stable gene expression in Pseudomonas putida.Nucleic acids research · 2026Article
- Synthetic circuits for cell ratio control.Nature · 2026Article
- Protecting cells at the genetic level and simulating unauthorized access via a biohackathon.Science advances · 2026Article
- Gene-sized editing for the therapy of genetic diseases.Functional & integrative genomics · 2026Review
- Genetic recording and in situ readout of single-cell signaling memory.Nature chemical biology · 2026Article
- From Negative Feedback to Integrated Control: Recombinase-Based Strategies for Mitigating Resource Competition.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Cell-free recombinase-integrated Boolean output system.Cell systems · 2025Article
- A digital DNA system favours the superiority of unidirectional inheritance over 'Lamarckian' inheritance.PLoS computational biology · 2025Article
- Integrating recombinase-based feedback and feedforward control for optimal resource decoupling.Nucleic acids research · 2025Article
- MitoScribe single-cell molecular recorder logs graded signaling dynamics into mitochondrial DNA.bioRxiv : the preprint server for biology · 2025Article
- Advancing synthesis-free and enzyme-free rewritable DNA memory through frameshift encoding and nanopore duplex interruption decoding.PNAS nexus · 2025Article
- Article
- Identification of cognate recombination directionality factors for large serine recombinases by virtual pulldown.Nucleic acids research · 2025Article
- DNA storage: The future direction for medical cold data storage.Synthetic and systems biotechnology · 2025Review
- Preventing Multimer Formation in Commonly Used Synthetic Biology Plasmids.ACS synthetic biology · 2025Article
- The lives of cells, recorded.Nature reviews. Genetics · 2025Review
47 more citing papers are in PubMed but not listed here.
Corrections and comments
- Commented on by
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
State machines underlie the sophisticated functionality behind human-made and natural computing systems that perform order-dependent information processing. We developed a recombinase-based framework for building state machines in living cells by leveraging chemically controlled DNA excision and inversion operations to encode states in DNA sequences. This strategy enables convenient readout of states (by sequencing and/or polymerase chain reaction) as well as complex regulation of gene expression. We validated our framework by engineering state machines in Escherichia coli that used one, two, or three chemical inputs to control up to 16 DNA states. These state machines were capable of recording the temporal order of all inputs and performing multi-input, multi-output control of gene expression. We also developed a computational tool for the automated design of gene regulation programs using recombinase-based state machines. Our scalable framework should enable new strategies for recording and studying how combinational and temporal events regulate complex cell functions and for programming sophisticated cell behaviors.
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.