ReviewComputational and mathematical methods in medicine2014
Advances and computational tools towards predictable design in biological engineering.
Review in Computational and mathematical methods in medicine, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers, 1 of them a synthesis that pooled it.
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
11 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Advances in engineering the production of the natural red pigment lycopene: A systematic review from a biotechnology perspective.Journal of advanced research · 2023Pooled it
- Protective Immunity of a Novel Multi-Epitope Vaccine Encoding OMP31, TF, BLS, SOD, BP26, and L9 Against Brucella spp. InfectionIranian biomedical journal · 2025Article
- Fermentation of lactose to ethanol in cheese whey permeate and concentrated permeate by engineered Escherichia coli.BMC biotechnology · 2017Article
- Re-using biological devices: a model-aided analysis of interconnected transcriptional cascades designed from the bottom-up.Journal of biological engineering · 2017Article
- Heterogeneity in Pure Microbial Systems: Experimental Measurements and Modeling.Frontiers in microbiology · 2017Review
- SYNBIOCHEM Synthetic Biology Research Centre, Manchester - A UK foundry for fine and speciality chemicals production.Synthetic and systems biotechnology · 2016Article
- A BioBrick™-Compatible Vector for Allelic Replacement Using the XylE Gene as Selection Marker.Biological procedures online · 2016Article
- Quantification of the gene silencing performances of rationally-designed synthetic small RNAs.Systems and synthetic biology · 2015Article
- Modelling the effects of cell-to-cell variability on the output of interconnected gene networks in bacterial populations.BMC systems biology · 2015Article
- Multi-Faceted Characterization of a Novel LuxR-Repressible Promoter Library for Escherichia coli.PloS one · 2015Article
- A novel approach for metabolic pathway optimization: Oligo-linker mediated assembly (OLMA) method.Journal of biological engineering · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The design process of complex systems in all the fields of engineering requires a set of quantitatively characterized components and a method to predict the output of systems composed by such elements. This strategy relies on the modularity of the used components or the prediction of their context-dependent behaviour, when parts functioning depends on the specific context. Mathematical models usually support the whole process by guiding the selection of parts and by predicting the output of interconnected systems. Such bottom-up design process cannot be trivially adopted for biological systems engineering, since parts function is hard to predict when components are reused in different contexts. This issue and the intrinsic complexity of living systems limit the capability of synthetic biologists to predict the quantitative behaviour of biological systems. The high potential of synthetic biology strongly depends on the capability of mastering this issue. This review discusses the predictability issues of basic biological parts (promoters, ribosome binding sites, coding sequences, transcriptional terminators, and plasmids) when used to engineer simple and complex gene expression systems in Escherichia coli. A comparison between bottom-up and trial-and-error approaches is performed for all the discussed elements and mathematical models supporting the prediction of parts behaviour are illustrated.
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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.