Publications from the Systems Engineering group, Department of Engineering Science, University of Oxford
Systems Engineering
Selected Publications
Most Recent Publications
Proteome constrained metabolic modeling of Sus scrofa muscle stem cells for cultured meat production
Qiu S, Kratochvilova E, Huang WE, Cui Z, Agnew T et al. (2026), Metabolic Engineering
BibTeX
@article{proteomeconstra-2026/1,
title={Proteome constrained metabolic modeling of Sus scrofa muscle stem cells for cultured meat production},
author={Qiu S, Kratochvilova E, Huang WE, Cui Z, Agnew T et al.},
journal={Metabolic Engineering},
publisher={Elsevier BV},
year = "2026"
}
Unraveling risk dynamics in the urban food-energy-water system for sustainable management: A coupled model considering trivariate complexity
Li X, Zhang L, Yang A, Hao Y, Zhang P et al. (2025), Technological Forecasting and Social Change, 221, 124332-124332
BibTeX
@article{unravelingriskd-2025/12,
title={Unraveling risk dynamics in the urban food-energy-water system for sustainable management: A coupled model considering trivariate complexity},
author={Li X, Zhang L, Yang A, Hao Y, Zhang P et al.},
journal={Technological Forecasting and Social Change},
volume={221},
pages={124332-124332},
publisher={Elsevier},
year = "2025"
}
Process modelling and analysis of ikaite production for atmospheric CO2 removal through ocean alkalinity enhancement
Lu X, Millar R, Toutam P, Yang A, Foteinis S et al. (2025), Chemical Engineering Research and Design
BibTeX
@article{processmodellin-2025/12,
title={Process modelling and analysis of ikaite production for atmospheric CO2 removal through ocean alkalinity enhancement},
author={Lu X, Millar R, Toutam P, Yang A, Foteinis S et al.},
journal={Chemical Engineering Research and Design},
publisher={Elsevier},
year = "2025"
}
Proteome constrained metabolic modeling of <i>Sus scrofa</i> muscle stem cells for cultured meat production
Qiu S, Kratochvilova E, Huang WE, Cui Z, Agnew T et al. (2025)
BibTeX
@misc{proteomeconstra-2025/10,
title={Proteome constrained metabolic modeling of <i>Sus scrofa</i> muscle stem cells for cultured meat production},
author={Qiu S, Kratochvilova E, Huang WE, Cui Z, Agnew T et al.},
year = "2025"
}
Proteome trade-off between primary and secondary metabolism shapes acid stress induced bacterial exopolysaccharide production.
Qiu S, Yang A, Yang X, Ni H, Li W et al. (2025), Metabolic engineering, 91, 254-266
BibTeX
@article{proteometradeof-2025/5,
title={Proteome trade-off between primary and secondary metabolism shapes acid stress induced bacterial exopolysaccharide production.},
author={Qiu S, Yang A, Yang X, Ni H, Li W et al.},
journal={Metabolic engineering},
volume={91},
pages={254-266},
year = "2025"
}
Modeling and Feasibility Assessment of Mineral Carbonation Based on Biological pH Swing for Atmospheric CO 2 Removal
Zhang Y, Long S, Duret MT, Bullock LA, Lam P et al. (2025), ACS Sustainable Chemistry and Engineering, 13(19), 6972-6981
BibTeX
@article{modelingandfeas-2025/5,
title={Modeling and Feasibility Assessment of Mineral Carbonation Based on Biological pH Swing for Atmospheric CO 2 Removal},
author={Zhang Y, Long S, Duret MT, Bullock LA, Lam P et al.},
journal={ACS Sustainable Chemistry and Engineering},
volume={13},
pages={6972-6981},
publisher={American Chemical Society},
year = "2025"
}
Optimal phasing of tidal stream power around the British Isles and within the English Channel for green ammonia production
Driscoll H, Salmon N & Bañares-Alcántara R (2025), Renewable Energy, 241, 122335-122335
BibTeX
@article{optimalphasingo-2025/3,
title={Optimal phasing of tidal stream power around the British Isles and within the English Channel for green ammonia production},
author={Driscoll H, Salmon N & Bañares-Alcántara R},
journal={Renewable Energy},
volume={241},
pages={122335-122335},
publisher={Elsevier},
year = "2025"
}
Facilitating India’s deep decarbonisation through sector coupling of electricity with green hydrogen and ammonia
Cesaro Z, Bramstoft R, Bañares-Alcántara R & Ives MC (2025), Energy Storage and Applications, 2(2)
BibTeX
@article{facilitatingind-2025/3,
title={Facilitating India’s deep decarbonisation through sector coupling of electricity with green hydrogen and ammonia},
author={Cesaro Z, Bramstoft R, Bañares-Alcántara R & Ives MC},
journal={Energy Storage and Applications},
volume={2},
number={4},
publisher={MDPI},
year = "2025"
}
Towards decarbonizing the supply chain of dairy industry: current practice and emerging strategies
Ni H, Zeng H, Liu Z, Li W, Miao S et al. (2025), Carbon Neutrality, 4(1)
BibTeX
@article{towardsdecarbon-2025/3,
title={Towards decarbonizing the supply chain of dairy industry: current practice and emerging strategies},
author={Ni H, Zeng H, Liu Z, Li W, Miao S et al.},
journal={Carbon Neutrality},
volume={4},
number={8},
publisher={Springer Nature Singapore},
year = "2025"
}
Seq2Topt: a sequence-based deep learning predictor of enzyme optimal temperature.
Qiu S, Hu B, Zhao J, Xu W & Yang A (2025), Briefings in bioinformatics, 26(2), bbaf114
BibTeX
@article{seqtoptasequenc-2025/3,
title={Seq2Topt: a sequence-based deep learning predictor of enzyme optimal temperature.},
author={Qiu S, Hu B, Zhao J, Xu W & Yang A},
journal={Briefings in bioinformatics},
volume={26},
pages={bbaf114},
publisher={Oxford University Press (OUP)},
year = "2025"
}
Quorum sensing regulating the productivity and stability of cross-feeding cocultivation
Chen D, Qu Z, Yang S, Li Y, Yu S et al. (2024), Chemical Engineering Journal, 502, 158167
BibTeX
@article{quorumsensingre-2024/12,
title={Quorum sensing regulating the productivity and stability of cross-feeding cocultivation},
author={Chen D, Qu Z, Yang S, Li Y, Yu S et al.},
journal={Chemical Engineering Journal},
volume={502},
pages={158167},
publisher={Elsevier},
year = "2024"
}
Assembly of functional microbial ecosystems: from molecular circuits to communities.
Wu S, Zhou Y, Dai L, Yang A & Qiao J (2024), FEMS microbiology reviews, fuae026
BibTeX
@article{assemblyoffunct-2024/11,
title={Assembly of functional microbial ecosystems: from molecular circuits to communities.},
author={Wu S, Zhou Y, Dai L, Yang A & Qiao J},
journal={FEMS microbiology reviews},
pages={fuae026},
publisher={Oxford University Press (OUP)},
year = "2024"
}
Assessing the net carbon removal potential by a combination of direct air capture and recycled concrete aggregates carbonation
Chen L & Yang A (2024), Resources, Conservation and Recycling, 212
BibTeX
@article{assessingthenet-2024/10,
title={Assessing the net carbon removal potential by a combination of direct air capture and recycled concrete aggregates carbonation},
author={Chen L & Yang A},
journal={Resources, Conservation and Recycling},
volume={212},
number={107940},
publisher={Elsevier},
year = "2024"
}
Green ammonia imports could supplement long-duration energy storage in the UK
Palazzi C, Nayak-Luke R, Verschuur J, Salmon N, Hall J et al. (2024), Environmental Research Energy, 1(4), 043001-043001
BibTeX
@article{greenammoniaimp-2024/9,
title={Green ammonia imports could supplement long-duration energy storage in the UK},
author={Palazzi C, Nayak-Luke R, Verschuur J, Salmon N, Hall J et al.},
journal={Environmental Research Energy},
volume={1},
pages={043001-043001},
publisher={IOP Publishing},
year = "2024"
}
Design and analysis of quorum sensing language “Interpreter” ecosystem for microbial community
Wu S, Zhang H, Zhou Y, Xu C, Yuan B et al. (2024), Chemical Engineering Journal, 496, 153148
BibTeX
@article{designandanalys-2024/9,
title={Design and analysis of quorum sensing language “Interpreter” ecosystem for microbial community},
author={Wu S, Zhang H, Zhou Y, Xu C, Yuan B et al.},
journal={Chemical Engineering Journal},
volume={496},
pages={153148},
publisher={Elsevier},
year = "2024"
}
Potential of reducing CO2 emissions in cement production through altering clinker compositions
Williams F & Yang A (2024), Industrial & Engineering Chemistry Research, 63(40), 17158-17167
BibTeX
@article{potentialofredu-2024/9,
title={Potential of reducing CO2 emissions in cement production through altering clinker compositions},
author={Williams F & Yang A},
journal={Industrial & Engineering Chemistry Research},
volume={63},
pages={17158-17167},
publisher={American Chemical Society},
year = "2024"
}
Exploiting the temporal characteristics of tidal stream power for green ammonia production
Driscoll H, Salmon N & Bañares-Alcántara R (2024), Renewable Energy, 120377-120377
BibTeX
@article{exploitingthete-2024/3,
title={Exploiting the temporal characteristics of tidal stream power for green ammonia production},
author={Driscoll H, Salmon N & Bañares-Alcántara R},
journal={Renewable Energy},
pages={120377-120377},
publisher={Elsevier},
year = "2024"
}
Optimal fuel supply of green ammonia to decarbonise global shipping
Verschuur J, Salmon N, Hall J & Bañares-Alcántara R (2024), Environmental Research Infrastructure and Sustainability, 4(1), 015001-015001
BibTeX
@article{optimalfuelsupp-2024/3,
title={Optimal fuel supply of green ammonia to decarbonise global shipping},
author={Verschuur J, Salmon N, Hall J & Bañares-Alcántara R},
journal={Environmental Research Infrastructure and Sustainability},
volume={4},
pages={015001-015001},
publisher={IOP Publishing},
year = "2024"
}
2023 roadmap on ammonia as a carbon-free fuel
David WIF, Agnew GD, Bañares-Alcántara R, Barth J, Hansen JB et al. (2024), Journal of Physics Energy, 6(2)
BibTeX
@article{roadmaponammoni-2024/2,
title={2023 roadmap on ammonia as a carbon-free fuel},
author={David WIF, Agnew GD, Bañares-Alcántara R, Barth J, Hansen JB et al.},
journal={Journal of Physics Energy},
volume={6},
number={021501},
publisher={IOP Publishing},
year = "2024"
}
Systematic elucidation of independently modulated genes in Lactiplantibacillus plantarum reveals a trade-off between secondary and primary metabolism
Qiu S, Huang Y, Liang S, Zeng H & Yang A (2024), Microbial Biotechnology, 17(2)
BibTeX
@article{systematiceluci-2024/2,
title={Systematic elucidation of independently modulated genes in Lactiplantibacillus plantarum reveals a trade-off between secondary and primary metabolism},
author={Qiu S, Huang Y, Liang S, Zeng H & Yang A},
journal={Microbial Biotechnology},
volume={17},
number={e14425},
publisher={Wiley},
year = "2024"
}