guy poncing

Synthetic Biology underpins advances in the bioeconomy

Biological systems - including the simplest cells - exhibit a broad range of functions to thrive in their environment. Research in the Imperial College Centre for Synthetic Biology is focused on the possibility of engineering the underlying biochemical processes to solve many of the challenges facing society, from healthcare to sustainable energy. In particular, we model, analyse, design and build biological and biochemical systems in living cells and/or in cell extracts, both exploring and enhancing the engineering potential of biology. 

As part of our research we develop novel methods to accelerate the celebrated Design-Build-Test-Learn synthetic biology cycle. As such research in the Centre for Synthetic Biology highly multi- and interdisciplinary covering computational modelling and machine learning approaches; automated platform development and genetic circuit engineering ; multi-cellular and multi-organismal interactions, including gene drive and genome engineering; metabolic engineering; in vitro/cell-free synthetic biology; engineered phages and directed evolution; and biomimetics, biomaterials and biological engineering.


Search or filter publications

Filter by type:

Filter by publication type

Filter by year:



  • Showing results for:
  • Reset all filters

Search results

  • Journal article
    Wright O, Stan G-B, Ellis T, 2013,

    Building-in biosafety for synthetic biology

    , MICROBIOLOGY-SGM, Vol: 159, Pages: 1221-1235, ISSN: 1350-0872
  • Journal article
    Yuan Y, Stan G-B, Shi L, Barahona M, Goncalves Jet al., 2013,

    Decentralised minimum-time consensus

    , AUTOMATICA, Vol: 49, Pages: 1227-1235, ISSN: 0005-1098
  • Journal article
    Papadimitriou KI, Stan G-B, Drakakis EM, 2013,

    Systematic computation of non-linear cellular and molecular dynamics with low-power cytomimetic circuits: A simulation study

    , PLoS ONE, Vol: 8, ISSN: 1932-6203

    This paper presents a novel method for the systematic implementation of low-power microelectronic circuits aimed at computing nonlinear cellular and molecular dynamics. The method proposed is based on the Nonlinear Bernoulli Cell Formalism (NBCF), an advanced mathematical framework stemming from the Bernoulli Cell Formalism (BCF) originally exploited for the modular synthesis and analysis of linear, time-invariant, high dynamic range, logarithmic filters. Our approach identifies and exploits the striking similarities existing between the NBCF and coupled nonlinear ordinary differential equations (ODEs) typically appearing in models of naturally encountered biochemical systems. The resulting continuous-time, continuous-value, low-power CytoMimetic electronic circuits succeed in simulating fast and with good accuracy cellular and molecular dynamics. The application of the method is illustrated by synthesising for the first time microelectronic CytoMimetic topologies which simulate successfully: 1) a nonlinear intracellular calcium oscillations model for several Hill coefficient values and 2) a gene-protein regulatory system model. The dynamic behaviours generated by the proposed CytoMimetic circuits are compared and found to be in very good agreement with their biological counterparts. The circuits exploit the exponential law codifying the low-power subthreshold operation regime and have been simulated with realistic parameters from a commercially available CMOS process. They occupy an area of a fraction of a square-millimetre, while consuming between 1 and 12 microwatts of power. Simulations of fabrication-related variability results are also presented.

  • Journal article
    Stan G-B, 2013,

    A century of revolution in bioengineering

    , BIOFUTUR, Pages: 38-39, ISSN: 0294-3506
  • Journal article
    Anderson J, Strelkowa N, Stan G-B, Douglas T, Savulescu J, Barahona M, Papachristodoulou Aet al., 2012,

    Engineering and ethical perspectives in synthetic biology

    , EMBO Reports, Vol: 13, Pages: 584-590, ISSN: 1469-221X

    Synthetic biology has emerged as an exciting and promising new research field, garnering significant attention from both the scientific community and the general public. This interest results from a variety of striking features: synthetic biology is a truly interdisciplinary field that engages biologists, mathematicians, physicists and engineers; its research focus is applied; and it has enormous potential to harness the power of biology to provide scientific and engineering solutions to a wide range of problems and challenges that plague humanity. However, the power of synthetic biology to engineer organisms with custom‐made functionality requires that researchers and society use this power safely and responsibly, in particular when it comes to releasing organisms into the environment. This creates new challenges for both the design of such organisms and the regulatory process governing their creation and use.

  • Journal article
    Parker KH, Alastruey J, Stan G-B, 2012,

    Arterial reservoir-excess pressure and ventricular work

    , MEDICAL & BIOLOGICAL ENGINEERING & COMPUTING, Vol: 50, Pages: 419-424, ISSN: 0140-0118
  • Journal article
    Yuan Y, Stan G-B, Warnick S, Goncalves Jet al., 2012,

    Minimal realization of the dynamical structure function and its application to network reconstruction

    Network reconstruction, i.e., obtaining network structure from data, is acentral theme in systems biology, economics and engineering. In some previouswork, we introduced dynamical structure functions as a tool for posing andsolving the problem of network reconstruction between measured states. Whilerecovering the network structure between hidden states is not possible sincethey are not measured, in many situations it is important to estimate theminimal number of hidden states in order to understand the complexity of thenetwork under investigation and help identify potential targets formeasurements. Estimating the minimal number of hidden states is also crucial toobtain the simplest state-space model that captures the network structure andis coherent with the measured data. This paper characterizes minimal orderstate-space realizations that are consistent with a given dynamical structurefunction by exploring properties of dynamical structure functions anddeveloping an algorithm to explicitly obtain such a minimal realization.

  • Journal article
    Pan W, Yuan Y, Goncalves J, Stan G-Bet al., 2012,

    Reconstruction of Arbitrary Biochemical Reaction Networks: A Compressive Sensing Approach

    , 2012 IEEE 51ST ANNUAL CONFERENCE ON DECISION AND CONTROL (CDC), Pages: 2334-2339, ISSN: 0743-1546
  • Journal article
    OyarzĂșn DA, Stan GB, 2012,

    Synthetic gene circuits for metabolic control: design tradeoffs and constraints

    , Journal of the Royal Society Interface, Vol: 10
  • Journal article
    Zhang H-T, Chen MZQ, Stan G-B, 2011,

    Fast Consensus Via Predictive Pinning Control

  • Journal article
    Dalchau N, Baek SJ, Briggs HM, Robertson FC, Dodd AN, Gardner MJ, Stancombe MA, Haydon MJ, Stan G-B, Goncalves JM, Webb AARet al., 2011,

    The circadian oscillator gene GIGANTEA mediates a long-term response of the Arabidopsis thaliana circadian clock to sucrose

  • Journal article
    Peccoud J, Anderson JC, Chandran D, Densmore D, Galdzicki M, Lux MW, Rodriguez CA, Stan G-B, Sauro HMet al., 2011,

    Essential information for synthetic DNA sequences

    , NATURE BIOTECHNOLOGY, Vol: 29, Pages: 22-22, ISSN: 1087-0156
  • Journal article
    MacDonald JT, Barnes C, Kitney RI, Freemont PS, Stan G-BVet al., 2011,

    Computational design approaches and tools for synthetic biology

    , INTEGRATIVE BIOLOGY, Vol: 3, Pages: 97-108, ISSN: 1757-9694
  • Journal article
    Yuan Y, Stan G-B, Warnick S, Goncalves JMet al., 2011,

    Robust dynamical network structure reconstruction.

    , Automatica, Vol: 47, Pages: 1230-1235
  • Journal article
    Dalchau N, Hubbard KE, Robertson FC, Hotta CT, Briggs HM, Stan G-B, Goncalves JM, Webb AARet al., 2010,

    Correct biological timing in Arabidopsis requires multiple light-signaling pathways

  • Journal article
    Mhawej M-J, Brunet-Francois C, Fonteneau R, Ernst D, Ferre V, Stan G-B, Raffi F, Moog CHet al., 2009,

    Apoptosis characterizes immunological failure of HIV infected patients

    , CONTROL ENGINEERING PRACTICE, Vol: 17, Pages: 798-804, ISSN: 0967-0661
  • Journal article
    Stan G-B, Belmudes F, Fonteneau R, Zeggwagh F, Lefebvre M-A, Michelet C, Ernst Det al., 2008,

    Modelling the influence of activation-induced apoptosis of CD4(+) and CD8(+) T-cells on the immune system response of a HIV-infected patient

    , IET SYSTEMS BIOLOGY, Vol: 2, Pages: 94-102, ISSN: 1751-8849
  • Journal article
    Zhang H-T, Chen MZ, Stan G-B, Zhou T, Maciejowski JMet al., 2008,

    Collective Behavior Coordination with Predictive Mechanisms

    , IEEE CIRCUITS AND SYSTEMS MAGAZINE, Vol: 8, Pages: 67-85, ISSN: 1531-636X
  • Journal article
    Zhang H-T, Chen MZ, Zhou T, Stan G-Bet al., 2008,

    Ultrafast consensus via predictive mechanisms

    , EPL, Vol: 83, ISSN: 0295-5075
  • Journal article
    Stan G-B, Sepulchre R, 2007,

    Analysis of interconnected oscillators by dissipativity theory

    , IEEE TRANSACTIONS ON AUTOMATIC CONTROL, Vol: 52, Pages: 256-270, ISSN: 0018-9286

This data is extracted from the Web of Science and reproduced under a licence from Thomson Reuters. You may not copy or re-distribute this data in whole or in part without the written consent of the Science business of Thomson Reuters.

Request URL: Request URI: /respub/WEB-INF/jsp/search-t4-html.jsp Query String: id=991&limit=20&page=10&respub-action=search.html Current Millis: 1596756476584 Current Time: Fri Aug 07 00:27:56 BST 2020