ReviewNature reviews. Microbiology2012
Computational tools for the synthetic design of biochemical pathways.
Review in Nature reviews. Microbiology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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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.
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Who cites it
57 citing papers in PubMed.
- Computational tools for nonnatural pathway design: Algorithms, applications, and challenges.Biodesign research · 2025Review
- Microbe-Plant Interactions Targeting Metal Stress: New Dimensions for Bioremediation Applications.Journal of xenobiotics · 2023Review
- Deduction of signaling mechanisms from cellular responses to multiple cues.NPJ systems biology and applications · 2022Article
- Genome-based engineering of ligninolytic enzymes in fungi.Microbial cell factories · 2021Review
- Methanol Dehydrogenases as a Key Biocatalysts for Synthetic Methylotrophy.Frontiers in bioengineering and biotechnology · 2021Review
- Opportunities and Challenges for Microbial Synthesis of Fatty Acid-Derived Chemicals (FACs).Frontiers in bioengineering and biotechnology · 2021Review
- The Model SystemLife (Basel, Switzerland) · 2020Review
- Nanowired Bioelectric Interfaces.Chemical reviews · 2019Review
- Optimization of a reduced enzymatic reaction cascade for the production of L-alanine.Scientific reports · 2019Article
- Engineering a Seven Enzyme Biotransformation using Mathematical Modelling and Characterized Enzyme Parts.ChemCatChem · 2019Article
- Plug-and-play metabolic transducers expand the chemical detection space of cell-free biosensors.Nature communications · 2019Article
- A review of computational tools for design and reconstruction of metabolic pathways.Synthetic and systems biotechnology · 2017Review
- Engineering biological systems using automated biofoundries.Metabolic engineering · 2017Review
- Development of fungal cell factories for the production of secondary metabolites: Linking genomics and metabolism.Synthetic and systems biotechnology · 2017Review
- Coalition of Biology and Chemistry for Ameliorating Antimicrobial Drug Discovery.Frontiers in microbiology · 2017Article
- Recent Advances in the Recombinant Biosynthesis of Polyphenols.Frontiers in microbiology · 2017Review
- Natural Products and the Gene Cluster Revolution.Trends in microbiology · 2016Review
- Synthetic Biology of Natural Products.Cold Spring Harbor perspectives in biology · 2016Review
- Engineering cell-based therapies to interface robustly with host physiology.Advanced drug delivery reviews · 2016Review
- The application of microfluidic-based technologies in the cycle of metabolic engineering.Synthetic and systems biotechnology · 2016Review
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
As the field of synthetic biology is developing, the prospects for de novo design of biosynthetic pathways are becoming more and more realistic. Hence, there is an increasing need for computational tools that can support these efforts. A range of algorithms has been developed that can be used to identify all possible metabolic pathways and their corresponding enzymatic parts. These can then be ranked according to various properties and modelled in an organism-specific context. Finally, design software can aid the biologist in the integration of a selected pathway into smartly regulated transcriptional units. Here, we review key existing tools and offer suggestions for how informatics can help to shape the future of synthetic microbiology.
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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.