The second wave of synthetic biology: from modules to systems
Purnick, Priscilla E. M., Weiss, Ron·2009·Nature Reviews Molecular Cell Biology
DOI 10.1038/nrm2698
Cited by (999)
Items 801–900 of 999
- Unstructured kinetic models to simulate an arabinose switch that decouples cell growth from metabolite productionHarley Edwards, Peng Xu · 2020 · Synthetic and Systems Biotechnology
- Advances in Crop Synthetic Biology: A Platform that Bridges the Expertise of Crop Molecular Biologists, Engineers, Software Developers and Mathematical ModelersMariam B. Sticklen · 2015 · Advances in Crop Science and Technology
- Grand Challenges in Synthetic Biology to be AccomplishedPengcheng Fu · 2013 · Frontiers in Bioengineering and Biotechnology
- An algorithm for detecting fixed points of boolean networkYi Ming Zou · 2013 · ICME International Conference on Complex Medical Engineering (CME)
- A protein switch with tunable steepness reconstructed in Escherichia coli cells with eukaryotic signaling proteinsMasahiro O. Takahashi, Tatsuo Shibata, Toshio Yanagida, Yasushi Sako · 2012 · Biochemical and Biophysical Research Communications
- Study on Heartbeat Information Acquired from Pressure Cushion Based on Body Sensor NetworkJunrong Bao, Xiaoyun Shou, Hua Wang, Haiyan Yang · 2013 · IEEE International Conference on Internet of Things (iThings) and IEEE Green Computing and Communications (GreenCom) and IEEE Cyber, Physical and Social Computing (CPSCom) and IEEE Smart Data (SmartData)
- Construction of a genetic conditional learning system in Escherichia coliMei Chen, Jin Xu · 2015 · Science China Information Sciences
- Robust Optimal Design of Synthetic Biological NetworksDirk Lebiedz, Marcel Rehberg, Dominik Skanda · 2011 · Methods in molecular biology
- Engineered protein switches for exogenous control of gene expressionShaun Spisak, Marc Ostermeier · 2020 · Biochemical Society Transactions
- How Molecular Forces and Rotating Planets Create LifeJan J. Spitzer · 2021 · The MIT Press eBooks
- An In Vivo Proposal of Cell Computing Inspired by Membrane ComputingAlberto Arteta, Ernesto Díaz-Flores, Luis Fernando de Mingo López, Nuria Gómez Blas · 2021 · Processes
- Evolving cheating DNA networks: a Case Study with the Rock–Paper–Scissors GameNathanaël Aubert-Kato, Quang Huy Đinh, Masami Hagiya, Teruo Fujii, Hitoshi Iba, Nicolas Bredèche, Yannick Rondelez · 2013 · European Conference on Artificial Life
- Formal Methods Applied to Gene Network ModelingGilles Bernot, Jean‐Paul Comet, El Houssine Snoussi · 2014
- Uncertainty and robustness analysis of biochemical reaction networks via convex optimisation and robust control theorySteffen Waldherr · 2009 · OPUS Publication Server of the University of Stuttgart (University of Stuttgart)
- A Hybrid Dynamical Systems Theory for Legged LocomotionSamuel A. Burden · 2014 · eScholarship (California Digital Library)
- Integrative systems and synthetic biology of cell-matrix adhesion sitesEli Zamir · 2016 · Cell Adhesion & Migration
- Biodesign for bioenergetics –the design and engineering of electron transfer cofactors, proteins and protein networks2016 · Biochimica et Biophysica Acta (BBA) - Bioenergetics
- Synthetic Biology: An Emerging Approach for Strain EngineeringJie Sun, Hal S. Alper · 2016 · Industrial Biotechnology
- Probabilistic recovery of cryptic haplotypes from metagenomic dataSamuel M. Nicholls, Wayne Aubrey, Kurt De Grave, Leander Schietgat, Christopher J. Creevey, Amanda J. Clare · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
- Context Dependence of Biological CircuitsThomas Catanach, Reed D. McCardell, Ania-Ariadna Baetica, Richard M. Murray · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
- Design of a Synthetic sRNA-based Feedback Filter ModuleNicolas J. Delalez, Aivar Sootla, George H. Wadhams, Antonis Papachristodoulou · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
- Foundation technologies in synthetic biology: tools for use in understanding plant immunityJohn W. Moore · 2012 · ERA
- Engineered implementations of spatial computation in biological systemsSoutrick Das, Jurgen Riedel, K. Zhang, Alice Cook, Chris P. Barnes · 2025 · Seminars in Cell and Developmental Biology
- Systematic Biological Filter Design with a Desired I/O Filtering Response Based on Promoter-RBS LibrariesChih‐Yuan Hsu, Zhen-Ming Pan, Rei-Hsing Hu, Chih-Chun Chang, Hsiao-Chun Cheng, Che Lin, Bor‐Sen Chen · 2014 · IEEE Transactions on Computational Biology and Bioinformatics
- Evaluating Performance of Different RNA Secondary Structure Prediction Programs Using Self-cleaving RibozymesFei Qi, Junjie Chen, Yue Chen, Jianfeng Sun, Yiting Lin, Zipeng Chen, Philipp Kapranov · 2024 · Genomics Proteomics & Bioinformatics
- From Sea to Super Crops: The Expanding Horizons of Seaweed in Technology and IndustryPrabhu Kolandhasamy, Karthick Rajan Durairaj, Rajendran Rajaram, Sunil Kumar Sahu · 2025 · Springer eBooks
- Breaking down complexityYannick Rondelez · 2011 · Physics
- On the use of mathematical programs with complementarity constraints in combined topological and parametric design of biochemical enzyme networksTinghao Guo, James T. Allison · 2016 · Engineering Optimization
- Design Methodologies and the Limits of the Engineering-Dominated Conception of Synthetic BiologyTero Ijäs · 2018 · Acta Biotheoretica
- Enzyme-metal nanobiohybrids in chemobiocatalytic cascade processesMarzia Marciello, Yurena Luengo Morato, Karina Ovejero Paredes, Laura Lozano Chamizo, Marco Filice · 2022 · Elsevier eBooks
- Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulatorsChaoxin Chen, Qi Wu, Qingying Ke, Ting Wang, Yifan Zhang, Feiwen Wei, Xiaolong Wang, Guang-Lei Liu · 2022 · Bioengineered
- Wet-laboratory Experiments and Computer Simulation of Growing Cell ClustersKarin Matsushita, Tadashi Nakano · 2022 · Globecom
- A Microimage-Processing-Based Technique for Detecting Qualitative and Quantitative Characteristics of Plant CellsJun Feng, Zhenting Li, Shizhen Zhang, Chun Bao, Jingxian Fang, Yun Yin, Bolei Chen, Lei Pan, Bing Wang, Yu Zheng · 2023 · Agriculture
- Measuring differential fitness costs and interactions between genetic cassettes using fluorescent spectrophotometryDan Kehila, Nobuhiko Tokuriki · 2024 · Applied and Environmental Microbiology
- Living bacterial reservoir computers for information processing and sensingPaul Ahavi, Thi-Ngoc-An Hoang, Philippe Meyer, Sylvie Berthier, Federica Fiorini, Florence Castelli, Olivier Épaulard, Audrey Le Gouëllec, Jean‐Loup Faulon · 2026 · Cell Systems
- From Biological Parts to Circuit DesignJoao C. Guimaraes, Chang C. Liu, Adam P. Arkin · 2013 · Elsevier eBooks
- Trade-offs in Robustness to Perturbations of Bacterial Population ControllersCameron D. McBride, Domitilla Del Vecchio · 2020 · Proceedings of the ... American Control Conference/Proceedings of the American Control Conference
- A Practical Step-by-Step Guide for Quantifying Retroactivity in Gene NetworksAndrás György · 2021 · Methods in molecular biology
- Shared antithetic integral control for dynamic cell populationsLorenzo Duso, Tommaso Bianucci, Christoph Zechner · 2021 · IEEE Conference on Decision and Control (CDC)
- Design of genetic regulatory networksTinghao Guo · 2014 · Illinois Digital Environment for Access to Learning and Scholarship (University of Illinois at Urbana-Champaign)
- Synthetic Biology for the Development of Biodrugs and Designer Crops and the Emerging Governance IssuesArchana Chugh, Pooja Bhatia, Aastha Jain · 2014 · Springer eBooks
- Bioengineering the biosphere?Ricard V. Solé · 2015 · Ecological Complexity
- Images Come to LifeTamar Ratner, Ehud Keinan · 2010 · ChemBioChem
- Technologies for Biosystems EngineeringSonja Billerbeck, Sven Dietz, Gaspar Morgado, Sven Panke · 2012 · Springer eBooks
- How slaves affect a master module in gene transcription networksAndrás György, Domitilla Del Vecchio · 2013 · IEEE Conference on Decision and Control (CDC)
- Experimentally Driven Verification of Synthetic Biological CircuitsBoyan Yordanov, Rishi Ganguly, Ebru Aydın Göl, Swati Banerjee Carr, Swapnil P. Bhatia · 2015
- Natural or synthetic nucleic acids encapsulated in a closed cavity of amphiphilesMauro Giustini, Anna Maria Giuliani, Giuseppe Gennaro · 2013 · RSC Advances
- The behaviour of basic autocatalytic signalling modules in isolation and embedded in networksJ. Krishnan, Kristina Mois, Thapanar Suwanmajo · 2014 · The Journal of Chemical Physics
- Conceptual Design of RNA-RNA Interaction Based DevicesJittrawan Thaiprasit, Supapon Cheevadhanarak, Dujduan Waraho‐Zhmayev, Asawin Meechai · 2012 · Procedia Computer Science
- Stability of genetic networks with hybrid regulatory mechanismManfeng Hu, Jinde Cao, Yongqing Yang · 2012 · Arabian Journal of Mathematics
- An N-stage cascade of phosphorylation cycles as an insulation device for synthetic biological circuitsRushina Shah, Domitilla Del Vecchio · 2016 · European Control Conference (ECC)
- Abdominal vibration alters sleep state in fetal sheep.Aemil J.M. Peters, R.M. Abrams, Kenneth J. Gerhardt · 1993 · PubMed
- The “Power Network” of Genetic CircuitsYili Qian, Domitilla Del Vecchio · 2018 · Lecture notes in control and information sciences - proceedings
- Evolving cheating DNA networks: a Case Study with the Rock–Paper–Scissors GameNathanaël Aubert-Kato, Quang Huy Đinh, Masami Hagiya, Teruo Fujii, Hitoshi Iba, Nicolas Bredèche, Yannick Rondelez · 2013 · European Conference on Artificial Life
- Boolean dynamics revisited through feedback interconnectionsMadalena Chaves, Daniel Figueiredo, Manuel A. Martins · 2018 · Natural Computing
- Inferring Gene Regulatory Networks from Multiple DatasetsChristopher A. Penfold, Iulia Gherman, Anastasiya Sybirna, David L. Wild · 2018 · Methods in molecular biology
- Combining evolution and self-organization to find natural Boolean representations in unconventional computational mediaMatthew D. Egbert, Gerd Gruenert, Bashar Ibrahim, Peter Dittrich · 2019 · Biosystems
- Microbial Production of Nutraceuticals: Challenges and ProspectsNingzi Guan, Jianghua Li, Guocheng Du, Jian Chen, Long Liu · 2019 · Springer eBooks
- Experimentally driven verification of synthetic biological circuitsBoyan Yordanov, Evan Appleton, Rishi Ganguly, Ebru Aydın Göl, Swati Banerjee Carr, Swapnil P. Bhatia, Traci L. Haddock, Calin A. Belta, Douglas Michael Densmore · 2012 · Design, Automation, and Test in Europe
- Structure and Evolution of Transcriptional Regulatory NetworksGuilhem Chalancon, M. Madan Babu · 2014 · ASM Press eBooks
- Quorum Sensing from Two Engineers’ PerspectivesKristina Stephens, William E. Bentley · 2023 · Israel Journal of Chemistry
- Design and Application of Synthetic Biology Devices for TherapyBoon Chin Heng, Martin Fussenegger · 2013 · Elsevier eBooks
- Sciences et technologies émergentes : pourquoi tant de promesses ?Bernadette Bensaude‐Vincent · 2015 · Hermann eBooks
- Adaptation Mechanisms in Phosphorylation Cycles By Allosteric Binding and Gene AutoregulationZhou Fang, Bayu Jayawardhana, Arjan J. van der Schaft, Chuanhou Gao · 2019 · IEEE Transactions on Automatic Control
- Quantification and Minimization of Crosstalk Sensitivity in NetworksDionysios Barmpoutis, Richard M. Murray · 2010 · arXiv (Cornell University)
- Toward Programmable BiologyHarold M. Fellermann, Omer Markovitch, Owen Gilfellon, Curtis K. Madsen, Andrew Phillips · 2016 · ACS Synthetic Biology
- Nanotechnology for Synthetic Biology: Crossroads Throughout Spatial ConfinementDenis Pompon, Luis Fernando Garcia-Alles, Gilles Truan · 2017
- Design Guidelines For Sequestration Feedback NetworksAnia-Ariadna Baetica, Yoke Peng Leong, Noah Olsman, Richard M. Murray · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
- Synthetic Turing patterns in engineered microbial consortiaSalva Duran‐Nebreda, Jordi Pla, Blai Vidiella, Jordi Piñero, Núria Conde Pueyo, Ricard V. Solé · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- Flourishing and Discordance: On Two Modes of Human Science Engagement with Synthetic BiologyAnthony Stavrianakis · 2012 · eScholarship (California Digital Library)
- Integrating synthetic biology to understand and engineer the heart, lung, blood, and sleep systemsElliot L. Chaikof, Jichao Chen, Martha Ulbrick Gillette, Laurie A. Boyer, Tara L. Deans, Pulin Li, Isaac B. Hilton, Kyle G. Daniels, Yogesh Goyal, Ying Mei et al. · 2025 · Cell Systems
- Toward Sustainable Testosterone Manufacturing: Green Chemistry and Microbial Biotransformation ApproachesJosé Manuel Fernández-Cañón, Alejandro Chamizo‐Ampudia · 2026 · International Journal of Molecular Sciences
- Engineering synthetic biology sensors with artificial intelligence: From programmable circuits to next-generation biosensingKuan Chang, Jiadi Sun, Qi Bao, Xuran Fu, Jianfeng F Ping, Bingqian Yu, Xiaojun Wu, Xiaoning Song, Jingwen Zhou, Jia-sheng Wang et al. · 2026 · Biotechnology Advances
- Pharmaco-microdynamics (PMD): Redefining dose, exposure, and control for living drug carriersMishel Abdullah, K. Jayadevan, Amalkrishnan Therayil, Nivetha Kumaraguruparan, P.K.V. Kavyasree, P Dilna, Alhan Faiza · 2026 · Annales Pharmaceutiques Françaises
- Performance metrics for a biomolecular step responseShaunak Sen, Richard M. Murray · 2012 · IEEE Conference on Decision and Control (CDC)
- A Framework for Complex Design: Lessons from Synthetic BiologyChih‐Chun Chen, Nathan Crilly · 2018 · Translational systems sciences
- Introduction to Synthetic BiologyVijai Singh · 2020 · Springer eBooks
- Conceptual Delimitations related to the Philosophical Approaches on Synthetic BiologyOlivia Macovei · 2020 · Logos Universality Mentality Education Novelty Philosophy and Humanistic Sciences
- Simplified Computational Design of Digital Synthetic Gene CircuitsMario Andrea Marchisio, Jörg Stelling · 2014 · Springer eBooks
- Design of artificial cells: artificial biochemical systems, their thermodynamics and kinetics propertiesAdamu Yunusa Ugya, Lin Pohan, Qifeng Wang, Kamel Meguellati · 2022 · Egyptian Journal of Basic and Applied Sciences
- Adaptive and Dissipative Hierarchical Population Crowding of Synthetic Protocells through Click-PISA under Gradient Energy InputsSamuel Pearce, Chenyu Lin, Juan Pérez‐Mercader · 2024 · Nano Letters
- Alpha-ketoacid decarboxylases: Diversity, structures, reaction mechanisms, and applications for biomanufacturing of platform chemicals and fuelsKhanh Ha, Seunghyun Ryu, Cong T. Trinh · 2025 · Biotechnology Advances
- Reconstituting alternative life using the test-bed of cell-free systemsMaud Hofmann, Farouk Abdo, Olivier Borkowski, Manish Kushwaha · 2025 · Philosophical Transactions of the Royal Society B Biological Sciences
- Current Progress in Synthetic Genetic NetworksAmir Pandi, Heykel Trabelsi · 2020 · Springer eBooks
- Synthetic gene circuits for higher-order information processingKathakali Sarkar, Sangram Bagh · 2022 · Elsevier eBooks
- H2 Production Using Cyanobacteria/Cyanobacterial Hydrogenases: From Classical to Synthetic Biology ApproachesCatarina C. Pacheco, Paulo Oliveira, Paula Tamagnini · 2014 · Advances in photosynthesis and respiration
- Model-driven design based on sensitivity analysis for a synthetic biology applicationNikolaos Anesiadis, W.R. Cluett, Radhakrishnan Mahadevan · 2011 · Computer-aided chemical engineering/Computer aided chemical engineering
- Tradeoffs in simple biomolecular signaling systemsShaunak Sen · 2012 · Systems & Control Letters
- Describing function-based approximations of biomolecular signalling systemsAbhishek Dey, Shaunak Sen · 2015 · European Control Conference (ECC)
- Engineered DNA Sequence Syntax InspectorTimothy H.-C. Hsiau, J. Christopher Anderson · 2013 · ACS Synthetic Biology
- Modelling Synthetic Biology SystemsGeoff S. Baldwin, Travis S. Bayer, Robert J. Dickinson, Tom Ellis, Paul S. Freemont, Richard Ian Kitney, Karen Marie Polizzi, Guy-Bart V. Stan · 2015 · IMPERIAL COLLEGE PRESS eBooks
- Stochastic Complexity Analysis in Synthetic BiologyNatalja Strelkowa · 2013 · Emergence, complexity and computation
- A modular design tool for visualizing complex multiscale systemsPaul Egan, Jonathan Cagan, Christian Dieter Schunn, Philip R. LeDuc · 2013
- Recursively constructing analytic expressions for equilibrium distributions of stochastic biochemical reaction networksXiang Meng, Ania-Ariadna Baetica, Vipul Singhal, Richard M. Murray · 2017 · Journal of The Royal Society Interface
- Synthetic microbiome: When “synthetic biology” meets “microbiomics”Tong Zhu, Bian Wu · 2019 · Chinese Science Bulletin (Chinese Version)
- Synthetic Biology in Studying the Origin of Life, Evolution, and Structure-Function RelationChenli Liu, Minfeng Xiao, BingZhao ZHANG · 2015 · Scientia Sinica Vitae
- 110th Anniversary: Engineered Ribonucleic Acid Control Elements as Biosensors for in Vitro DiagnosticsAlan Fernando Rodriguez Serrano, I‐Ming Hsing · 2019 · Industrial & Engineering Chemistry Research
- Could We Really Be Made of Swiss Cheese? Xenobiology as an Engineering Epistemology for Biological RealizationRami Koskinen · 2020 · ChemBioChem
- Recent Advances, Challenges, and Opportunities in Synthetic GenomesVijai Singh · 2020 · Springer eBooks
- General Analyses of Gene Expression Dependencies on Genetic BurdenMarc González-Colell, Javier Macía · 2020 · Frontiers in Bioengineering and Biotechnology