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• Journal article
  Stan G-B, 2013,

  A century of revolution in bioengineering

  , BIOFUTUR, Pages: 38-39, ISSN: 0294-3506
  • Author Web Link
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• Journal article
  Kelay T, Kesavan S, Collins RE, Kyaw-Tun J, Cox B, Bello F, Kneebone RL, Sevdalis Net al., 2013,

  Techniques to aid the implementation of novel clinical information systems: A systematic review

  , INTERNATIONAL JOURNAL OF SURGERY, Vol: 11, Pages: 783-791, ISSN: 1743-9191
  • Author Web Link
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  • Citations: 1
• Journal article
  Chappell J, Freemont P, 2013,

  In Vivo and In Vitro Characterization of σ<SUP>70</SUP> Constitutive Promoters by Real-Time PCR and Fluorescent Measurements

  , SYNTHETI C BIOLOGY, Vol: 1073, Pages: 61-74, ISSN: 1064-3745
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  • Citations: 3
• Journal article
  Weenink T, Ellis T, 2013,

  Creation and Characterization of Component Libraries for Synthetic Biology

  , SYNTHETI C BIOLOGY, Vol: 1073, Pages: 51-60, ISSN: 1064-3745
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  • Citations: 1
• Conference paper
  Tay D, Poh CL, Goh C, Kitney RIet al., 2013,

  An Evolutionary Data-Conscious Artificial Immune Recognition System

  , 15th Genetic and Evolutionary Computation Conference (GECCO), Pages: 1101-1108
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• Book chapter
  Goers L, Kylilis N, Tomazou M, Wen KY, Freemont P, Polizzi Ket al., 2013,

  Engineering Microbial Biosensors

  , MICROBIAL SYNTHETIC BIOLOGY, Editors: Harwood, Wipat, Publisher: ELSEVIER ACADEMIC PRESS INC, Pages: 119-156, ISBN: 978-0-12-417029-2
  • Author Web Link
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  • Citations: 11
• Journal article
  Boehm CR, Freemont PS, Ces O, 2013,

  Design of a prototype flow microreactor for synthetic biology <i>in vitro</i>

  , LAB ON A CHIP, Vol: 13, Pages: 3426-3432, ISSN: 1473-0197
  • Author Web Link
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  • Citations: 25
• Journal article
  Odendall C, Rolhion N, Foerster A, Poh J, Lamont DJ, Liu M, Freemont PS, Catling AD, Holden DWet al., 2012,

  The <i>Salmonella</i> Kinase SteC Targets the MAP Kinase MEK to Regulate the Host Actin Cytoskeleton

  , CELL HOST & MICROBE, Vol: 12, Pages: 657-668, ISSN: 1931-3128
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  • Citations: 60
• Journal article
  Lu D, Silhan J, MacDonald JT, Carpenter EP, Jensen K, Tang CM, Baldwin GS, Freemont PSet al., 2012,

  Structural basis for the recognition and cleavage of abasic DNA in <i>Neisseria meningitidis</i>

  , PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 109, Pages: 16852-16857, ISSN: 0027-8424
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  • Citations: 16
• Journal article
  Lossi NS, Manoli E, Simpson P, Jones C, Hui K, Dajani R, Coulthurst SJ, Freemont P, Filloux Aet al., 2012,

  The archetype Pseudomonas aeruginosa proteins TssB and TagJ form a novel subcomplex in the bacterial type VI secretion system

  , MOLECULAR MICROBIOLOGY, Vol: 86, Pages: 437-456, ISSN: 0950-382X
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  • Citations: 20
• 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.

  • Abstract
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• Journal article
  Yang X, Han R, Guo Y, Bradley J, Cox B, Dickinson R, Kitney Ret al., 2012,

  Modelling and performance analysis of clinical pathways using the stochastic process algebra PEPA

  , Bmc Bioinformatics, Vol: 13, ISSN: 1471-2105
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  • Open Access Link
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• Journal article
  Blount BA, Weenink T, Ellis T, 2012,

  Construction of synthetic regulatory networks in yeast

  , FEBS LETTERS, Vol: 586, Pages: 2112-2121, ISSN: 0014-5793
  • Author Web Link
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  • Citations: 50
• Journal article
  Kitney R, Freemont P, 2012,

  Synthetic biology - the state of play

  , FEBS LETTERS, Vol: 586, Pages: 2029-2036, ISSN: 0014-5793
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  • Citations: 51
• 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.

  • Abstract
  • Author Web Link
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• Book
  Kitney RI, 2012,

  Synthetic Biology - A Primer

  , Publisher: Imperial College Press London
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• Journal article
  Weston DJ, Adams NM, Russell RA, Stephens DA, Freemont PSet al., 2012,

  Analysis of spatial point patterns in nuclear biology

  , PLoS ONE, Vol: 7, ISSN: 1932-6203

  There is considerable interest in cell biology in determining whether, and to what extent, the spatial arrangement of nuclear objects affects nuclear function. A common approach to address this issue involves analyzing a collection of images produced using some form of fluorescence microscopy. We assume that these images have been successfully pre-processed and a spatial point pattern representation of the objects of interest within the nuclear boundary is available. Typically in these scenarios, the number of objects per nucleus is low, which has consequences on the ability of standard analysis procedures to demonstrate the existence of spatial preference in the pattern. There are broadly two common approaches to look for structure in these spatial point patterns. First a spatial point pattern for each image is analyzed individually, or second a simple normalization is performed and the patterns are aggregated. In this paper we demonstrate using synthetic spatial point patterns drawn from predefined point processes how difficult it is to distinguish a pattern from complete spatial randomness using these techniques and hence how easy it is to miss interesting spatial preferences in the arrangement of nuclear objects. The impact of this problem is also illustrated on data related to the configuration of PML nuclear bodies in mammalian fibroblast cells.

  • Abstract
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• 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
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  • Citations: 49
• Journal article
  Blount BA, Weenink T, Vasylechko S, Ellis Tet al., 2012,

  Rational Diversification of a Promoter Providing Fine-Tuned Expression and Orthogonal Regulation for Synthetic Biology

  , PLOS ONE, Vol: 7, ISSN: 1932-6203
  • Author Web Link
  • Open Access Link
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  • Citations: 116
• Journal article
  Niwa H, Ewens CA, Tsang C, Yeung HO, Zhang X, Freemont PSet al., 2012,

  The Role of the N-Domain in the ATPase Activity of the Mammalian AAA ATPase p97/VCP

  , JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 287, Pages: 8561-8570
  • Author Web Link
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  • Citations: 90

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